10 20 30 40 50 60 70 80 1FLS - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 15-AUG-00 1FLS
TITLE SOLUTION STRUCTURE OF THE CATALYTIC FRAGMENT OF HUMAN TITLE 2 COLLAGENASE-3 (MMP-13) COMPLEXED WITH A HYDROXAMIC ACID TITLE 3 INHIBITOR
COMPND MOL_ID: 1; COMPND 2 MOLECULE: COLLAGENASE-3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC FRAGMENT; COMPND 5 SYNONYM: MMP-13; COMPND 6 EC: 3.4.24.-; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: HYDROXAMIC ACID INHIBITOR COMPLEX
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PPROMMP-13
KEYWDS MATRIX METALLOPROTEINASE, HYDROXAMIC ACID, HUMAN KEYWDS 2 COLLAGENASE-3, MMP-13, HYDROLASE
EXPDTA SOLUTION NMR
MDLTYP MINIMIZED AVERAGE
AUTHOR F.J.MOY,P.K.CHANDA,J.M.CHEN,S.COSMI,W.EDRIS,J.I.LEVIN, AUTHOR 2 R.POWERS
REVDAT 2 24-FEB-09 1FLS 1 VERSN REVDAT 1 15-AUG-01 1FLS 0
JRNL AUTH F.J.MOY,P.K.CHANDA,J.M.CHEN,S.COSMI,W.EDRIS, JRNL AUTH 2 J.I.LEVIN,R.POWERS JRNL TITL HIGH-RESOLUTION SOLUTION STRUCTURE OF THE JRNL TITL 2 CATALYTIC FRAGMENT OF HUMAN COLLAGENASE-3 (MMP-13) JRNL TITL 3 COMPLEXED WITH A HYDROXAMIC ACID INHIBITOR. JRNL REF J.MOL.BIOL. V. 302 671 2000 JRNL REFN ISSN 0022-2836 JRNL PMID 10986126 JRNL DOI 10.1006/JMBI.2000.4082
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH F.J MOY,P.K.CHANDA,S.COSMI,W.EDRIS,J.I.LEVIN, REMARK 1 AUTH 2 R.POWERS REMARK 1 TITL 1H, 15N, 13C, AND 13CO ASSIGNMENTS AND SECONDARY REMARK 1 TITL 2 STRUCTURE DETERMINATION OF COLLAGENASE-3 (MMP-13) REMARK 1 TITL 3 COMPLEXED WITH A HYDROXAMIC ACID INHIBITOR REMARK 1 REF J.BIOMOL.NMR V. 17 269 2000 REMARK 1 REFN ISSN 0925-2738 REMARK 1 DOI 10.1023/A:1008305025043
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.840 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE WAS BASED ON 3280 REMARK 3 EXPERIMENTAL NMR RESTRAINTS, CONSISTING OF 2415 APPROXIMATE REMARK 3 INTERPROTON DISTANCE RESTRAINTS, 47 DISTANCE RESTRAINTS REMARK 3 BETWEEN MMP-13 AND WAY-151693, 5 INTRAMOLECULAR DISTANCE REMARK 3 RESTRAINTS FOR WAY-151693, 88 DISTANCE RESTRAINTS FOR 44 REMARK 3 BACKBONE HYDROGEN BONDS, 391 TORSION ANGLE RESTRAINTS, 103 REMARK 3 3JNHA RESTRAINTS 123 CA RESTRAINTS AND 108 CB RESTRAINTS.THE REMARK 3 STRUCTURE WAS ALSO REFINED WITH A CONFORMATIONAL DATABASE.
REMARK 4 REMARK 4 1FLS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-AUG-00. REMARK 100 THE RCSB ID CODE IS RCSB011695.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 10 MM DEUTERATED TRIS-BASE, REMARK 210 100 MM NACL, 5 MM CACL2, 0.1 REMARK 210 MM ZNCL2, 2 MM NAN3, 10 MM REMARK 210 DEUTERATED DTT REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM U-15N,13C-LABELED MMP-13 REMARK 210 WITH WAY-151693 IN A 1:1 REMARK 210 RATIO,10MM DEUTERATED TRIS- REMARK 210 BASE, 100MM NACL, 5MM CACL2, REMARK 210 0.1MM ZNCL2, 2MM NAN3, 10MM REMARK 210 DEUTERATED DTT IN 100% D2O AT REMARK 210 PH 6.5 AND 35C.; 1MM U-15N,13C REMARK 210 -LABELED MMP-13 WITH WAY- REMARK 210 151693 IN A 1:1 RATIO,10MM REMARK 210 DEUTERATED TRIS-BASE, 100MM REMARK 210 NACL, 5MM CACL2, 0.1MM ZNCL2, REMARK 210 2MM NAN3, 10MM DEUTERATED DTT REMARK 210 IN 90% H2O, 10% D2O AT PH 6.5 REMARK 210 AND 35C.; 1MM U-15N-LABELED REMARK 210 MMP-13 WITH WAY-151693 IN A 1: REMARK 210 1 RATIO,10MM DEUTERATED TRIS- REMARK 210 BASE, 100MM NACL, 5MM CACL2, REMARK 210 0.1MM ZNCL2, 2MM NAN3, 10MM REMARK 210 DEUTERATED DTT IN 90% H2O, 10% REMARK 210 D2O AT PH 6.5 AND 35C. REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY, 3D_ REMARK 210 15N-SEPARATED_NOESY, HNHA, 3D_ REMARK 210 C13-EDITED/FILTERED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX-2 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.0, NMRPIPE 1.7, X- REMARK 210 PLOR 3.840, PIPP 4.2.8 REMARK 210 METHOD USED : DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE AND REMARK 210 ISOTOPE EDITED/FILTERED NMR SPECTROSCOPY.
REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS.
REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 RES C SSSEQI REMARK 465 TYR A 1 REMARK 465 ASN A 2 REMARK 465 VAL A 3 REMARK 465 PHE A 4 REMARK 465 PRO A 5 REMARK 465 ARG A 6 REMARK 465 PRO A 165
REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 THR A 23 136.81 50.39 REMARK 500 PRO A 47 17.68 -67.08 REMARK 500 LYS A 67 -84.23 -11.13 REMARK 500 HIS A 69 37.22 -141.78 REMARK 500 PRO A 88 85.39 -59.06 REMARK 500 PRO A 90 -129.16 -65.28 REMARK 500 REMARK 500 REMARK: NULL
REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 166 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 123 NE2 REMARK 620 2 HIS A 129 NE2 98.9 REMARK 620 3 WAY A 169 O11 148.7 71.3 REMARK 620 4 WAY A 169 O13 100.3 134.3 70.9 REMARK 620 5 HIS A 119 NE2 74.2 130.9 135.0 94.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 167 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 84 NE2 REMARK 620 2 HIS A 97 ND1 103.7 REMARK 620 3 HIS A 69 NE2 117.0 90.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 168 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 81 O REMARK 620 2 ASP A 76 OD1 123.7 REMARK 620 3 ASP A 99 OD2 47.2 134.1 REMARK 620 4 SER A 79 O 142.7 47.4 169.9 REMARK 620 5 GLY A 77 O 136.8 79.3 90.0 80.5 REMARK 620 6 PRO A 78 O 120.5 113.4 101.9 71.3 66.0 REMARK 620 7 GLU A 102 OE2 73.1 161.9 61.2 115.6 92.5 48.6 REMARK 620 8 LEU A 81 N 58.8 76.2 104.5 85.6 155.2 128.2 112.1 REMARK 620 N 1 2 3 4 5 6 7
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 166 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 167 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 168 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE WAY A 169
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FM1 RELATED DB: PDB REMARK 900 ENSEMBLE OF 30 STRUCTURES
DBREF 1FLS A 1 165 UNP P45452 MMP13_HUMAN 104 268
SEQRES 1 A 165 TYR ASN VAL PHE PRO ARG THR LEU LYS TRP SER LYS MET SEQRES 2 A 165 ASN LEU THR TYR ARG ILE VAL ASN TYR THR PRO ASP MET SEQRES 3 A 165 THR HIS SER GLU VAL GLU LYS ALA PHE LYS LYS ALA PHE SEQRES 4 A 165 LYS VAL TRP SER ASP VAL THR PRO LEU ASN PHE THR ARG SEQRES 5 A 165 LEU HIS ASP GLY ILE ALA ASP ILE MET ILE SER PHE GLY SEQRES 6 A 165 ILE LYS GLU HIS GLY ASP PHE TYR PRO PHE ASP GLY PRO SEQRES 7 A 165 SER GLY LEU LEU ALA HIS ALA PHE PRO PRO GLY PRO ASN SEQRES 8 A 165 TYR GLY GLY ASP ALA HIS PHE ASP ASP ASP GLU THR TRP SEQRES 9 A 165 THR SER SER SER LYS GLY TYR ASN LEU PHE LEU VAL ALA SEQRES 10 A 165 ALA HIS GLU PHE GLY HIS SER LEU GLY LEU ASP HIS SER SEQRES 11 A 165 LYS ASP PRO GLY ALA LEU MET PHE PRO ILE TYR THR TYR SEQRES 12 A 165 THR GLY LYS SER HIS PHE MET LEU PRO ASP ASP ASP VAL SEQRES 13 A 165 GLN GLY ILE GLN SER LEU TYR GLY PRO
HET ZN A 166 1 HET ZN A 167 1 HET CA A 168 1 HET WAY A 169 51
HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM WAY N-HYDROXY-2-[(4-METHOXY-BENZENESULFONYL)-PYRIDIN-3- HETNAM 2 WAY YLMETHYL-AMINO]-3-METHYL-BENZAMIDE
HETSYN WAY WAY-151693
FORMUL 2 ZN 2(ZN 2+) FORMUL 4 CA CA 2+ FORMUL 5 WAY C21 H21 N3 O5 S
HELIX 1 1 THR A 27 VAL A 45 1 19 HELIX 2 2 LEU A 113 LEU A 125 1 13 HELIX 3 3 PRO A 152 GLY A 164 1 13
SHEET 1 A 5 ASN A 49 ARG A 52 0 SHEET 2 A 5 ASN A 14 ILE A 19 1 N LEU A 15 O ASN A 49 SHEET 3 A 5 ILE A 60 GLY A 65 1 N ILE A 60 O THR A 16 SHEET 4 A 5 ALA A 96 ASP A 99 1 N ALA A 96 O MET A 61 SHEET 5 A 5 ALA A 83 ALA A 85 -1 O HIS A 84 N HIS A 97 SHEET 1 B 2 TRP A 104 THR A 105 0 SHEET 2 B 2 TYR A 111 ASN A 112 1 O TYR A 111 N THR A 105
LINK ZN ZN A 166 NE2 HIS A 123 1555 1555 2.17 LINK ZN ZN A 166 NE2 HIS A 129 1555 1555 2.19 LINK ZN ZN A 166 O11 WAY A 169 1555 1555 2.28 LINK ZN ZN A 166 O13 WAY A 169 1555 1555 2.11 LINK ZN ZN A 166 NE2 HIS A 119 1555 1555 2.10 LINK ZN ZN A 167 NE2 HIS A 84 1555 1555 2.10 LINK ZN ZN A 167 ND1 HIS A 97 1555 1555 1.89 LINK ZN ZN A 167 NE2 HIS A 69 1555 1555 2.47 LINK CA CA A 168 O LEU A 81 1555 1555 2.88 LINK CA CA A 168 OD1 ASP A 76 1555 1555 2.97 LINK CA CA A 168 OD2 ASP A 99 1555 1555 2.98 LINK CA CA A 168 O SER A 79 1555 1555 2.91 LINK CA CA A 168 O GLY A 77 1555 1555 2.89 LINK CA CA A 168 O PRO A 78 1555 1555 2.98 LINK CA CA A 168 OE2 GLU A 102 1555 1555 2.97 LINK CA CA A 168 N LEU A 81 1555 1555 3.26
SITE 1 AC1 4 HIS A 119 HIS A 123 HIS A 129 WAY A 169 SITE 1 AC2 3 HIS A 69 HIS A 84 HIS A 97 SITE 1 AC3 8 ASP A 76 GLY A 77 PRO A 78 SER A 79 SITE 2 AC3 8 GLY A 80 LEU A 81 ASP A 99 GLU A 102 SITE 1 AC4 11 GLY A 80 LEU A 81 LEU A 82 LEU A 115 SITE 2 AC4 11 VAL A 116 HIS A 119 HIS A 123 HIS A 129 SITE 3 AC4 11 PRO A 139 TYR A 141 ZN A 166
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1
ORIGX1 1.000000 0.000000 0.000000 0.00000
ORIGX2 0.000000 1.000000 0.000000 0.00000
ORIGX3 0.000000 0.000000 1.000000 0.00000
SCALE1 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000