Write To Karl Loren About This Page
![]()
Source -- Google Cache Probably no longer available publicly
Protein Science (1999), 8:
1455-1462. Cambridge University Press. Printed in the
USA.
Copyright © 1999 The Protein Society
4Current address: Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai, People's Republic of China 200031.
Effective inhibitors of matrix metalloproteinases (MMPs), a family of connective tissue-degrading enzymes, could be useful for the treatment of diseases such as cancer, multiple sclerosis, and arthritis. Many of the known MMP inhibitors are derived from peptide substrates, with high potency in vitro but little selectivity among MMPs and poor bioavailability. We have discovered nonpeptidic MMP inhibitors with improved properties, and report here the crystal structures of human stromelysin-1 catalytic domain (SCD) complexed with four of these inhibitors. The structures were determined and refined at resolutions ranging from 1.64 to 2.0 Å. Each inhibitor binds in the active site of SCD such that a bulky diphenyl piperidine moiety penetrates a deep, predominantly hydrophobic S'1 pocket. The active site structure of the SCD is similar in all four inhibitor complexes, but differs substantially from the peptide hydroxamate complex, which has a smaller side chain bound in the S'1 pocket. The largest differences occur in the loop forming the "top" of this pocket. The occupation of these nonpeptidic inhibitors in the S'1 pocket provides a structural basis to explain their selectivity among MMPs. An analysis of the unique binding mode predicts structural modifications to design improved MMP inhibitors.
Keywords: drug design; matrix metalloproteinase; MMP-3; nonpeptide inhibitors; X-ray crystallography
Article Contents
(You can also go directly to the beginning of the text.)
Table 1. Inhibitors cocrystallized with SCD
Table 2. Data collection and refinement statistics
Fig. 1. Ribbon representation of the SCD/II inhibitor complex
Fig. 2. 2Fo - Fc electron density fragment showing inhibitor III bound in SCD active site
Table 3. Hydrogen bonds and catalytic zinc ligation in SCD/inhibitor complexes
Fig. 3. Superposition of inhibitors II and III in stereo as found in the complexes with SCD
Fig. 4. Schematic diagram of the SCD active site with TPH and II inhibitors bound
Fig. 5. Superposition of the SCD/TPH and SCD/III complexes, showing differences in the active site structures
Fig. 6. Differences in His224 and inhibitor positions observed in two independent molecules of SCD/IV complex in crystal form 4
Introduction
Matrix metalloproteinases (MMPs) are a family of zinc-dependent, matrix-degrading endopeptidases that include collagenases, gelatinases, and stromelysins (Woessner, 1991). Connective tissue remodeling is a continuous process required for normal physiological events such as angiogenesis, wound healing, and fetal development. However, uncontrolled matrix degradation may result in diseases such as cancer, multiple sclerosis, and arthritis (Nagase, 1996; Steinman, 1996; Stetler-Stevenson et al., 1996). Consequently, MMP activity is tightly regulated at several levels of expression and activation. Developing effective MMP inhibitors to modulate MMP activity is one approach to treat these degenerative diseases (White et al., 1997a).
Potent MMP inhibitors have been developed by modifying the natural substrates of these enzymes. These peptide-derived inhibitors usually contain a zinc chelating group such as carboxylate, hydroxamate, phosphonate, or phosphinate (Morphy et al., 1995). The binding modes for some of these inhibitors have been revealed in X-ray crystal and NMR solution structures of the enzyme/inhibitor complexes (Lovejoy et al., 1994b; Stams et al., 1994; Becker et al., 1995; Browner et al., 1995; Van Doren et al., 1995; Dhanaraj et al., 1996). In all of these structures, the chelating group interacts with the catalytic zinc as a monodentate or bidentate ligand, while the peptide moiety occupies the active site groove on either the prime or nonprime side. The zinc chelation and hydrogen-bond network, as well as other interactions, explain the high potency in vitro. However, in general, these inhibitors show little selectivity among MMP family members. A group of peptide hydroxamates with P'1 residues of varying sizes have shown selectivity for gelatinase A (Porter et al., 1994), indicating that variations in the size and hydrophobicity of the S'1 pocket may allow exploitation for selectivity (Stams et al., 1994). In a recent NMR study of stromelysin/nonpeptide hydroxamic acid inhibitor complexes (Olejniczak et al., 1997), it was shown that a large hydrophobic biphenyl side chain within the inhibitor could be accommodated in the S'1 pocket.
Through mass screening and subsequent synthetic modification of the hits, we have recently discovered nonpeptidic MMP inhibitors selective for human stromelysin-1 (I-IV, Table 1) (Ortwine et al., 1997; White et al., 1997b).
Table 1. Inhibitors cocrystallized with SCD
The X-ray crystal structures of the enzyme/inhibitor complexes show a unique inhibitor binding mode in the S'1 pocket that can be used to rationalize the observed selectivity. The detailed structural information can be used to support the observed in vitro activity profiles and to help guide the design of second generation MMP inhibitors with improved potency and selectivity.
Results and discussion
Overall structure
Four different crystal forms (hexagonal, monoclinic, and two tetragonal) were obtained while crystallizing SCD with nonpeptide inhibitors. Although the space groups in the case of the tetragonal crystals are identical and the unit cell dimensions are similar (Table 2), crystals of SCD with inhibitors I, II, and IV have different packing than those with inhibitor III.
Table 2. Data collection and refinement statistics
The protein folding of SCD observed in these inhibitor complexes is very similar to that found in the complex of SCD with a peptide hydroxamate (Dhanaraj et al., 1996) (Fig. 1).
Fig. 1 Ribbon (Carson, 1991)
representation of the SCD/II inhibitor complex.
Zinc
and calcium ions are shown as magenta and yellow
spheres.
It can be described as an open-face sandwich with alpha-beta topology, three alpha-helices, and a twisted five-stranded beta-sheet. It is very similar to the structures of other MMPs. The second helix, helix B, forms the bottom of the active site, and the two active site walls are formed by the fourth beta-strand on one side and the N-terminal fragment and the loop connecting helices B and C on the other side. The catalytic zinc (Zn1) is located in the center of the active site cleft. Two histidines donated by helix B (His201, His205) and a third one from the loop between the B and C helices (His211) chelate the catalytic zinc. In the sulfonamide structures, the fourth ligand comes from the carboxyl oxygen of the inhibitor bound in the active site. In the hydroxamide inhibitor complex, two of the inhibitor oxygen atoms (carbonyl and hydroxyl) provide the fourth and fifth ligands for Zn1.
An additional seven-amino acid fragment at the amino terminus of SCD (residues 83-89) was found in all four SCD complexes reported here. The main-chain groups and side chains of all seven residues are very well ordered except for the side chain of Arg84, which is disordered beyond the Cbeta atom. Residues 83 through 86 have a beta-strand conformation while residues 86 through 89 form a type II beta-turn. The conformation of the heptapeptide N-terminal fragment is stabilized by seven hydrogen bonds and the charge interaction between the N-terminal amino group and the Asp237 carboxylate. This is very similar to other reported SCD/inhibitor complexes (Becker et al., 1995; Finzel et al., 1998). Despite the fact that the same protein was used for cocrystallization with both the peptide hydroxamate and nonpeptide inhibitors, this heptapeptide fragment was not observed in the hydroxamate complex (Dhanaraj et al., 1996).
In every tetragonal crystal, a sulfate ion was found at a unique position on the diagonal crystallographic dyad. This sulfate spans the amino terminus of the first alpha-helix (residues 110-125) with the symmetry-related copy. In addition to the dipole interactions, the two sulfate oxygen atoms are engaged in three hydrogen bonds with Nepsilon of Lys110, its main-chain amino group, and a proximal water molecule. Apparently, the sulfate found in the tetragonal crystal forms is an artifact of crystallization. Sulfate is not present in the hexagonal or monoclinic crystals of the complex of SCD with the hydroxamide inhibitor IV, although they were grown under the same conditions as the tetragonal crystals (form 1 in Table 2).
The structural zinc (Zn2) and two of the bound calciums (Ca1-2) are included in the model as reported elsewhere (Becker et al., 1998). Ca3 forms an unusual trigonal bipyramidal coordination. The carboxyl oxygens of Asp182, Glu184, and a water molecule oxygen atom form the triangle with Ca3 in the center, and the Asp107 carboxyl and Asp182 carbonyl oxygen atoms are located at the top and bottom of the bipyramid. This coordination is quite rare for calcium; only one example with a Ca ion in a similar geometry was found in the literature (Ca2 in the structure of subtilisin Carlsberg complex with eglin (McPhalen et al., 1985) Protein Data Bank (PBD) code 2SEC). The thermal factor of Ca3 is about twice that of the other two calcium ions, which may indicate its lower occupancy.
Inhibitor binding
All four nonpeptide inhibitors are bound in the SCD active site close to the catalytic zinc. The binding mode is similar for each, with the diphenylpiperidine side chain occupying the S'1 pocket. Every inhibitor is tightly bound, as indicated by the low thermal atomic parameters (Table 2). Analyses of the high-resolution electron density (Fig. 2) are consistent with a pseudo-chair conformation of the inhibitor piperidine group containing a largely trigonal planar ring nitrogen. This is similar to what is observed in the Cambridge Structural database (Allen et al., 1983) for related small molecules.
Fig. 2 2Fo - Fc
electron density fragment showing inhibitor III bound
in SCD active site. Density is contoured at 1.2sigma
level.
Three types of interactions stabilize inhibitor binding in the active site of SCD: catalytic zinc ligation (Table 3), hydrogen bonds between inhibitor and protein, and hydrophobic interactions between the diphenyl piperidine side chain and S'1 pocket residues.
Table 3. Hydrogen bonds and catalytic zinc ligation in SCD/inhibitor complexes
With a sulfonamide inhibitor (I, II, and III) bound in the SCD active site, the carbonyl oxygen of the inhibitor interacts with Zn1, creating a near symmetrical tetrahedral configuration. All four ligating atoms belong to the first coordination sphere of Zn1, being 2.0-2.2 Å distant (Table 3). A different Zn1 coordination arrangement is found in the complex of SCD with the hydroxamide inhibitor (IV). This coordination can be described as a distorted trigonal bipyramid, with the five chelating atoms being almost equidistant from Zn1 (Table 3). Nepsilon atoms of His201 and His205, in addition to hydroxyl oxygen of the hydroxamate, form the triangular plane of the bipyramid, with Zn1 at the center. His211 Nepsilon and the carbonyl oxygen of the hydroxamate form the top and bottom. This coordination is very similar to that reported previously for the SCD/peptide hydroxamide inhibitor complex (Becker et al., 1996).
In addition to zinc ligation, sulfonamide inhibitors I and II form three hydrogen bonds to SCD. These occur between one of the sulfonyl oxygen atoms and Leu164, the sulfonamide nitrogen of the inhibitor and Ala165, and the inhibitor hydroxyl group and Glu202 Oepsilon (Table 3). When the sulfonamide inhibitor III binds to SCD, only two of these three hydrogen bonds are present. Because the tryptophan amino acid side chain is in the R-configuration, the sulfonamide nitrogen points away from the carbonyl oxygen of Ala165 (Fig. 2), and the third hydrogen bond between the inhibitor amine nitrogen and Ala165 O cannot be formed.
The hydroxamate inhibitor IV/SCD complex exhibits a different hydrogen bond pattern. Similar to the sulfonamide inhibitor complexes, there are hydrogen bonds between the inhibitor carbonyl oxygen atom alpha to the aryl group and the Leu164 amine, and between the hydroxamate NH group and backbone carbonyl oxygen of Ala165. An additional hydrogen bond connects the hydroxamate hydroxyl (this is the same hydroxyl that chelates Zn1) and Glu202 Oepsilon1. Interestingly, in the SCD/TPH complex, the hydroxyl oxygen of the inhibitor is likely to be hydrogen bonded to Glu202 Oepsilon2, while in SCD/nonpeptide inhibitor complexes, a bond with Oepsilon1 is more likely (Table 2).
One of the remarkable features of the present inhibitor complexes is the deep penetration of the long diphenyl piperidine side chain into the S'1 pocket. This pocket is, in fact, an open channel running from the center of the active site near the catalytic zinc to the molecular surface where it is exposed to water. The analogous S'1 pockets in MMPs such as matrilysin (Browner et al., 1995) and fibroblast collagenase (Borkakoti et al., 1994a) are much shallower and would not be expected to accommodate a lengthy side chain such as a diphenyl piperidine without significant conformational changes in the protein. The S'1 channel of SCD is predominantly composed of hydrophobic residues, including the main-chain atoms of Leu197, Val198, Leu218, Tyr220, Pro221 through Ser225, and the side-chain atoms of Leu197, Val198, His201, Leu218, Tyr223, His224, and Leu226. Within the pocket, the imidazole ring of His201 stacks almost perfectly with the proximal phenyl ring of the inhibitor. Another imidazole from His224 forms a loose stack with the distal phenyl ring of the inhibitor at an angle of ~30°. The positions of the diphenyl piperidine in all sulfonamide inhibitors are almost identical. A small difference is seen for the hydroxamide inhibitor IV complex, where the ring system inserts about 0.4 Å deeper into the S'1 pocket.
Inhibitors II and III are S and R stereoisomers, respectively, with the chiral center at the tetrahedral Calpha atom. Despite different chirality, the indole rings in both complexes are located in the same area of the active site of SCD, the S1 pocket (Fig. 3).
Fig. 3 Superposition of inhibitors II (blue) and III
(red) in stereo as found in the complexes with SCD.
Water molecules in the S1 pocket are shown
as blue and red spheres.
As part of the active site cleft, this pocket is composed of the side chains of Phe86 and Phe210, two of the Zn1-chelating histidines (His205 and His211), and the catalytic zinc as one wall. The other wall contains the side chain of Tyr155, and partially Tyr168. The main-chain atoms of residues 165-168 form the bottom of this pocket. The distance between the Tyr155 phenol and inhibitor indole ring is about 8 Å, resulting in a pocket that is two times wider than that needed to accommodate the inhibitor aromatic ring. The remaining space is filled with three water molecules wedged between the two rings. Because the indole ring of II is somewhat deeper in the S1 pocket than that for III (average 1.5 Å difference for indole ring atoms), there are corresponding differences in the locations of the space-filling water molecules (Fig. 3).
Filling a shallow S1 pocket with an indole ring does not seem to be advantageous for inhibitor binding (compare Ki's for I and II in Table 1) regardless of its depth. In contrast, loss of a direct inhibitor to protein hydrogen bond reduces potency somewhat. Thus, inhibitor II, which forms three direct hydrogen bonds with the protein, is almost twice as potent as its R enantiomer III, which forms two direct hydrogen bonds plus a weak water-mediated hydrogen bond to the carbonyl oxygen of Pro221 on the opposite side of the binding groove.
The previously described binding mode for TPH in the active site of SCD (Dhanaraj et al., 1996) differs significantly from that observed for the nonpeptide inhibitors. The tripeptide inhibitor fills the prime side of the active site cleft, forming an extended peptide strand antiparallel to the 162-165 residue fragment of SCD. An extensive hydrogen bonding network between main-chain atoms of protein and peptide, together with catalytic zinc chelation, provide a tight anchor for the inhibitor (Fig. 4A).
Fig. 4 Schematic diagram of the SCD active site with
(A) TPH and (B) II inhibitors bound.
Four of the five reported hydrogen bonds are with backbone groups (the fifth bond is with Glu202 Oepsilon2) (Dhanaraj et al., 1996). Out of three tripeptide inhibitor side chains, leucine in position P'1 is the only one buried deeply in a specificity pocket. The inhibitor isobutyl and phenyl groups at P'2 and P'3 are more solvent exposed and less spatially restricted then the isobutyl at P'1. Another reported tripeptide inhibitor (Becker et al., 1995) binds similarly, although the longer homophenyl group at the P'1 penetrates more deeply into the S'1 specificity pocket.
Unlike the peptide, these nonpeptide inhibitors fill a small portion of the active site cleft (Fig. 4B), forming fewer hydrogen bonds with the SCD active site atoms (Table 3). Hydrophobic interactions between the diphenyl piperidine and the protein in the S'1 pocket are more dominant in determining binding energy.
Protein conformational changes
The overall structure of SCD, including its active site, is similar in complexes with the four different nonpeptide inhibitors studied here. RMS differences for the common 160 Calpha atoms in the protein are less then 0.3 Å between any two complexes, SCD/I-IV. The SCD/sulfonamide complexes are more similar to each other than they are to SCD/TPH. This is reflected in an increase in RMS difference for the same 160 Calpha atoms in common to the SCD/sulfonamide and SCD/TPH complexes. For example, the RMS difference between the SCD/TPH and SCD/III inhibitor complexes is 0.6 Å. One area where protein conformational changes between SCD/peptide and nonpeptide complexes are seen is residues 157-164 in the C-terminal part of the loop connecting beta-strands three and four (Fig. 5).
Fig. 5 Superposition of the SCD/TPH (yellow) and
SCD/III (red) complexes, showing differences in the
active site structures.
Because the longer tripeptide inhibitor occupies the S'2 and S'3 subsites, hydrogen bonds are formed between its backbone and main-chain atoms of Asn162 and Leu164 within this loop (Fig. 4A). These hydrogen bonds have the effect of pulling the loop toward the active site relative to the SCD/nonpeptide complexes (Fig. 4B), where only one inhibitor/protein hydrogen bond is formed (to Leu164), and the subsites S'2 and S'3 are vacant.
The most significant conformational changes occur in the area of the S'1 binding pocket. Residues 212-234 are displaced the most in response to the diphenyl piperidine binding (the RMS deviation (RMSD) for 23 Calpha atoms is about 0.8 Å). The largest difference is found for His224. Its Calpha atom moves 1.4 Å, while its side chain moves more than 2 Å. In the SCD/TPH complex (Dhanaraj et al., 1996) where the S'1 pocket is filled with a relatively small isobutyl group, the His224 Nepsilon is hydrogen bonded directly to Ala217 O. In this conformation, the pocket is too small to accommodate a diphenyl piperidine. Thus, when the nonpeptide inhibitor binds, an opening of the pocket must occur, which results in a shift of His224 followed by a movement of the entire 212-234 loop. In its new position, the His224 imidazole ring is stabilized by hydrogen bonds with the carbonyl oxygen atoms of Thr215 and Ala217, bridged with a tightly bound water molecule (Fig. 5). This water molecule was found in all four SCD/nonpeptide inhibitor complexes.
The fact that the SCD/IV inhibitor complex was crystallized in three crystal forms, and one of them (form 4, Table 2) contained two molecules in the asymmetric unit, allowed us to examine the effect of crystal packing on the conformational stability of the protein. To do this, four crystallographically independent molecules were matched by superposition of their Calpha atoms. Although the overall differences were small (RMS did not exceed 0.4 Å), there were two local regions with differences larger than average. The loop connecting beta-strand four with alpha-helix B (residues 186-193) was found to be partially disordered, as was the loop containing residues 212-234. The latter loop is quite flexible and appears to be sensitive to the crystallographic environment. Similar flexibility has been reported for other SCD/nonpeptide complexes (Finzel et al., 1998). The largest conformational differences were observed in two independent molecules of the SCD/IV inhibitor complex in crystal form 3 (Table 2). Crystal packing in one molecule caused this loop to move toward the S'1 channel. As a result, the Calpha atom of His224 shifted 0.9 Å compared to its position in the second molecule, where this loop was not affected by crystal packing. The His224 imidazole, in turn, induces changes in the orientation of the distal phenyl and piperidine rings within the inhibitor (Fig. 6). These changes are smaller for the proximal phenyl ring, and almost undetectable for the rest of the inhibitor.
Fig. 6 Differences in His224 and inhibitor positions
observed in two independent molecules of SCD/IV complex
in crystal form 4.
Conclusions
Using high-resolution X-ray crystallography, a novel binding mode of four potent, nonpeptide inhibitors in the active site of stromelysin catalytic domain has been characterized. These inhibitors bind differently than peptide-based inhibitors. An extensive network of hydrogen bonds and chelation of the catalytic zinc stabilize the latter in the active site. Hydrophobic interactions in the specificity pockets play a relatively minor role in binding energy. In the presence of nonpeptide inhibitors, loss of binding energy due to a reduced number of hydrogen bonds is compensated by significant hydrophobic interactions between the tricyclic inhibitor side chain and atoms of S'1 recognition channel. These hydrophobic interactions are the defining characteristic for the SCD/inhibitor complexes described here.
These results elucidate fine details of complex formation between the stromelysin catalytic domain and diphenyl piperidine containing inhibitors, and have proven useful in the process of designing more potent and selective inhibitors for stromelysin, which will be discussed in future publications from our laboratories.
Materials and methods
Crystallization
Aqueous protein solution was mixed with a three- to fivefold excess of inhibitor, dissolved in DMSO prior to crystallization, and concentrated in a 10 kD centricon. Cocrystals of SCD/inhibitor complexes were grown using the vapor diffusion technique in 5-10 µL hanging/sitting drops containing 0.5-1 mM protein/inhibitor complex, 10-15% PEG 8K, 0.05 M ammonium sulfate, and 0.05 M Na cacodylate buffer (pH 6.5). Drops were equilibrated against 20-30% PEG 8K, 0.1 M ammonium sulfate, and 0.1 M of the same buffer. Often, crystals of CaSO4 appeared after several days, and small tetragonal crystals started to grow a week or two later. Complex crystals reached a maximum size of 0.5 * 0.3 * 0.2 mm3 within a month. The SCD/IV inhibitor complex crystallized in three different forms using the same crystallization conditions. Large hexagonal bipyramid crystals grew first. Two months later, small thin platelets grew in the same drop. Tetragonal crystals were forced to grow by macroseeding with small crystals of SCD/I inhibitor complex.
Data collection
Cocrystals of SCD with inhibitors I, II, and IV were mounted into a glass capillary for data collection at room temperature on a MAR Research 300 mm image plate, equipped with a Rigaku-200B rotating anode generator and a graphite monochromator. Diffraction data were processed using XDS (Kabsch, 1988). A crystal of the SCD/III complex was flash-frozen in a low temperature nitrogen stream (temperature ~190 °C), and data were collected on the same MAR image plate using an X-ray beam focused with a two mirrors system. Diffraction data were processed by DENZO (Otwinowski & Minor, 1997) and scaled by SCALEPACK. Data collection and refinement statistics are summarized in Table 2.
Structure determination and refinement
Initial structural solutions for SCD complexes with I and III and hexagonal and monoclinic crystal forms of IV were found by molecular replacement. Unambiguous solutions were obtained by AMoRe software (Navaza, 1994). The protein model, taken from the crystal structure of SCD with a hydroxamate inhibitor (Dhanaraj et al., 1996), was used as a probe. The model included all residues from 90-249, including side chains. Interestingly, although the SCD/III inhibitor complex crystallized in the tetragonal space group and had similar unit cell dimensions as the other tetragonal crystals, it formed a different crystal packing.
For each complex, conventional X-PLOR refinement (Brünger, 1992), alternated with manual adjustment of the model and water molecule locations, was done prior to incorporation of inhibitor.
The atomic coordinates for the three complexes SCD/I-III have been deposited in the PDB (Bernstein et al., 1977) as PDB-ID 1b8y, 1caq, and 1ciz, respectively.
References
Allen FH, Kennard O, Taylor R. 1983. Systematic analysis of structural data as a research technique in organic chemistry. Acc Chem Res 16:146-153.
Becker JW, Marcy AI, Rokosz LL, Axel MG, Burbaum JJ, Fitzgerald PMD, Cameron PM, Esser CK, Hagmann WK, Hermes JD, Springer JP. 1995. Stromelysin-1: Three-dimensional structure of the inhibited catalytic domain and of the C-truncated proenzyme. Protein Sci 4:1966-1976.
Bernstein FC, Koetzle TF, Williams GJB, Meyer EF Jr, Brice MD, Rodgers JR, Kennard O, Shimanouchi T, Tasumi M. 1977. The Protein Data Bank: A computer-based archival file for macromolecular structures. J Mol Biol 112:535-542.
Borkakoti N, Winkler FK, Williams DH, D'Arcy A, Broadhurst MJ, Brown PA, Johnson WH, Murray EJ. 1994. Structure of the catalytic domain of human fibroblast collagenase complexed with an inhibitor. Nat Struct Biol 1:106-110.
Browner MF, Smith WW, Castelhano AL. 1995. Matrilysin-inhibitor complexes: Common themes among metalloproteinases. Biochemistry 34:6602-6610.
Brünger AT. 1992. X-PLOR version 3.1, a system for X-ray crystallography and NMR. New Haven, Connecticut: Yale University Press.
Carson M. 1991. RIBBONS 2.0. J Appl Crystallogr 24:958-961.
Dhanaraj V, Ye Q-Z, Johnson LL, Hupe DJ, Ortwine DF, Dunbar JB, Rubin JR, Pavlovsky A, Humblet C, Blundell TL. 1996. X-ray structure of stromelysin catalytic domain and its comparison with members of the zinc metalloproteinase superfamily. Structure 4:375-386.
Finzel BC, Baldwin ET, Bryant GL Jr, Hess GF, Wilks JW, Trepod CM, Mott JE, Marshall VP, Petzold GL, Pooman RA, O'Silliwan TJ, Schostarez HJ, Mitchell MA. 1998. Structural characterizations of nonpeptidic thiadiazole inhibitors of matrix metalloproteinases reveal the basis for stromelysin selectivity. Protein Sci 7:2118-2126.
Kabsch WJ. 1988. Evaluation of single-crystal X-ray diffraction data from a position sensitive detector. J Appl Crystallogr 21:916-924.
Lovejoy B, Cleasby A, Hassell AM, Longley K, Luther MA, Weigl D, McGeehan G, McElroy AB, Drewry D, Lambert MH, Jordan SR. 1994a. Structure of the catalytic domain of fibroblast collagenase complexed with an inhibitor. Science 263:375-377.
Lovejoy B, Hassell AM, Luther MA, Weigl D, Jordan SR. 1994b. Structure of the catalytic domain of fibroblast collagenase complexed to itself. Biochemistry 33:8207-8217.
McPhalen CA, Schnebli HP, James MNG. 1985. Crystal and molecular structure of the inhibitor eglin from leeches in complex with subtilisin Carlsberg. FEBS Lett 188:55-58.
Morphy JR, Millican TA, Porter JR. 1995. Matrix metalloproteinase inhibitors: Current status. Curr Med Chem 2:743-762.
Nagase H. 1996. Matrix metalloproteinases. In: Hooper N, ed. Zinc metalloproteinases in health and disease. London: Taylor and Francis. pp 153-204.
Navaza J. 1994. AMoRe: An automated package for molecular replacement. Acta Crystallogr A50:157-163.
Olejniczak ET, Hajduk PJ, Marcotte PA, Nettesheim DG, Meadows RP, Edalji R, Holzman TF, Fesik ST. 1997. Stromelysin inhibitors designed from weakly bound fragments: Effect of linking and cooperativity. J Am Chem Soc 119:5828-5832.
Ortwine DF, Dhanaraj V, Dunbar JB Jr, Johnson LL, Pavlovsky A, Purchase CF II, White AD, Ye Q-Z. 1997. Structure based design of matrix metalloproteinase inhibitors: What have the structure taught us? Abstract of ACS National Meeting, Las Vegas, Nevada, September, COMP186.
Otwinowski Z, Minor W. 1997. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol 276:307-326.
Porter JR, Beeley NRA, Boyce B, Mason B, Millican A, Millar K, Leonard J, Morphy JR, O'Connell JP. 1994. Potent and selective inhibitors of gelatinase-A. 1. Hydroxamic acid derivatives. Bioorg Med Chem Lett 4:2741-2746.
Stams T, Spurlino JC, Smith DL, Wahl RC, Ho TF, Qoronfleh W, Banks TM, Rubin B. 1994. Structure of human neutrophil collagenase reveals large S'1 specificity pocket. Nat Struct Biol 1:119-123.
Steinman L. 1996. Multiple sclerosis: A coordinated immunological attack against myelin in the central nervous system. Cell 85:299-302.
Stetler-Stevenson WG, Hewitt R, Corcoran M. 1996. Matrix metalloproteinases and tumor invasion: From correlation and causality to the clinic. Cancer Biol 7:147-154.
Van Doren S, Kurochkin A, Hu W, Ye Q-Z, Johnson LL, Hupe D, Zuiderweg E. 1995. Solution structure of the catalytic domain of human stromelysin complexed with a hydrophobic inhibitor. Protein Sci 4:2487-2498.
White AD, Bocan TMA, Boxer PA, Peterson JT, Schrier D. 1997a. Emerging therapeutic advances for the development of second generation matrix metalloprotease inhibitors. Curr Pham Des 3:45-58.
White AD, Purchase CF II, Baragi V, Finkel M, Hallak H, Hupe D, Johnson LL, Kindt EK, Laemont K, Ortwine DF, Pavlovsky A, Renkiewicz RR, Roth BD, Schrier DJ, Ye Q-Z. 1997b. Selective non-peptide inhibitor of matrix metalloproteinases. Abstract of ACS National Meeting, Las Vegas, Nevada, September, MEDI 110.
Woessner JF. 1991. Matrix metalloproteinases and their inhibitors in connective tissue remodeling. FASEB J 5:2145-2154.
|
I promise to answer your message -- click here to send me a personal message
|
SUBSCRIBE: The Wednesday Letter is a free electronic monthly newsletter written and published by Karl Loren. You can view more than 50 back issues of this publication by clicking here. The Wednesday Letter subscription list is maintained on a secure server, no name is ever given or sold to anyone, and it is never used except for this Newsletter. It is automatically published on the Tuesday night just before the first Wednesday of every month. You can subscribe to this free monthly electronic letter by entering your eMail address and name below. You will then automatically receive a request for confirmation, sent to whatever address you have entered. If you do NOT receive this confirmation request, then you will not be subscribed. There may have been an error with your address and you should resubmit. The letter is never sent twice to the same address -- so you do not have to worry about a duplicate subscription. When you receive this confirmation request you must reply to it, or your subscription will not become active. No one can subscribe your name, and address, without you being notified, and if you get an unwanted notice of subscription you only need to DO NOTHING and the subscription will NOT be active.
REMOVAL: You can remove yourself from the subscription list in several different ways. Click here to read about this entire newsletter system. Every edition of The Wednesday Letter is delivered to your address with YOUR name and address in view on the letter, with a link that allows you to remove THAT name from the subscription list. If you try to send this removal message from an address different from the one you used to send in your original confirmation, then you will get a warning notice first, sent to the subscription address, asking you to confirm that you want to be removed from the list -- by replying to THAT request for confirmation, you will then be automatically removed. Thus, no one else can unsubscribe you, from some other computer, without your knowledge. But, if you send in the unsubscribe notice from the same machine used to receive the Letter, then the removal from the subscription list is automatic.
Personal Message: When you send a personal message to Karl Loren, you will receive a personal reply as per his instructions. Karl pledges that every personal message will get a personal answer. When you provide your mail address, we will send you free information including our free catalog and a cassette tape lecture by Karl Loren about heart disease, no charge, by mail, even if outside the US. You can select particular information you would like to receive, along with the free cassette tape and catalog.
You can reach Vibrant Life in many ways, including by mail to Vibrant Life, 2808 N. Naomi St., Burbank, CA 91504. Within the US and Canada, use the toll free number: (800) 523-4521, the local number: (818) 558-1799, the FAX: (818) 558-7299, eMail to kimberly@oralchelation.com or any one of the hundreds of message forms throughout the 50 web sites. Vibrant Life normally ships the same day we get an order. There are message forms on each of the 100,000+ pages on this and other sites where you can communicate with Vibrant Life. Check out our companion site, at: http://www.oralchelation.net where Karl's 2000 page book is published. Karl Loren is the author and webmaster for this BOOK, as well as for another web site about ORAL CHELATION. His personal philosophical articles are at PHILOSOPHY.
Copyright © May 20, 2008 6:24 AM by Karl Loren on behalf of Vibrant Life, ALL RIGHTS RESERVED. Permission is granted for non-commercial downloading, copying, distribution or redistribution on two conditions: One, that some form of copyright notice is included in every copy distributed or copied, showing the copyright belonging to Vibrant Life, Burbank, CA, at www.oralchelation.com . The second condition is that the material is not to be used for any purpose contrary to the purposes and objectives of this site. This permission does not extend to materials on this site which are copyrighted by others.