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(-) Description

Title :  COMPLEX OF MATRIX METALLOPROTEINASE-10 CATALYTIC DOMAIN (MMP-10CD) WITH TISSUE INHIBITOR OF METALLOPROTEINASES-2 (TIMP-2)
 
Authors :  J. Batra, A. S. Soares, E. S. Radisky
Date :  01 Jan 13  (Deposition) - 13 Nov 13  (Release) - 13 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,D,F
Biol. Unit 1:  A,D  (1x)
Biol. Unit 2:  B,F  (1x)
Keywords :  Metzincin, Ob-Fold, Metalloproteinase, Protease Inhibitor, Hydrolase- Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Batra, A. S. Soares, C. Mehner, E. S. Radisky
Matrix Metalloproteinase-10/Timp-2 Structure And Analyses Define Conserved Core Interactions And Diverse Exosite Interactions In Mmp/Timp Complexes.
Plos One V. 8 75836 2013
PubMed-ID: 24073280  |  Reference-DOI: 10.1371/JOURNAL.PONE.0075836

(-) Compounds

Molecule 1 - METALLOPROTEINASE INHIBITOR 2
    Chains: A, B
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK 293E
    Expression System Plasmid: PTT/TIMP2
    Expression System Taxid: 9606
    Fragment: TISSUE INHIBITOR OF METALLOPROTEINASES-2
    Gene: TIMP2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CSC-21K, TISSUE INHIBITOR OF METALLOPROTEINASES 2, TIMP-2
 
Molecule 2 - STROMELYSIN-2
    Chains: D, F
    EC Number: 3.4.24.22
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: MMP-10CD CDNA
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: MATRIX METALLOPROTEINASE-10 CATALYTIC DOMAIN
    Gene: MMP-10, MMP10, STMY2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: SL-2, MATRIX METALLOPROTEINASE-10, MMP-10, TRANSIN-2

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABDF
Biological Unit 1 (1x): A D 
Biological Unit 2 (1x):  B F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 10)

Asymmetric Unit (2, 10)
No.NameCountTypeFull Name
1CA6Ligand/IonCALCIUM ION
2ZN4Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2ZN-1Ligand/IonZINC ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:1 , HIS D:217 , HIS D:221 , HIS D:227BINDING SITE FOR RESIDUE ZN D 301
02AC2SOFTWAREHIS D:167 , ASP D:169 , HIS D:182 , HIS D:195BINDING SITE FOR RESIDUE ZN D 302
03AC3SOFTWAREASP D:174 , GLY D:175 , GLY D:177 , SER D:179 , ASP D:197 , GLU D:200BINDING SITE FOR RESIDUE CA D 303
04AC4SOFTWAREASP D:157 , GLY D:189 , TYR D:191 , ASP D:193 , HOH D:410BINDING SITE FOR RESIDUE CA D 304
05AC5SOFTWAREASP D:123 , ASP D:198 , GLU D:200 , HOH D:425BINDING SITE FOR RESIDUE CA D 305
06AC6SOFTWARECYS B:1 , HIS F:217 , HIS F:221 , HIS F:227BINDING SITE FOR RESIDUE ZN F 301
07AC7SOFTWAREHIS F:167 , ASP F:169 , HIS F:182 , HIS F:195BINDING SITE FOR RESIDUE ZN F 302
08AC8SOFTWAREASP F:174 , GLY F:175 , GLY F:177 , SER F:179 , ASP F:197 , GLU F:200BINDING SITE FOR RESIDUE CA F 303
09AC9SOFTWAREASP F:157 , GLY F:189 , TYR F:191 , ASP F:193BINDING SITE FOR RESIDUE CA F 304
10BC1SOFTWAREASP F:123 , ASP F:198 , GLU F:200BINDING SITE FOR RESIDUE CA F 305

(-) SS Bonds  (12, 12)

Asymmetric Unit
No.Residues
1A:1 -A:72
2A:3 -A:101
3A:13 -A:126
4A:128 -A:175
5A:133 -A:138
6A:146 -A:167
7B:1 -B:72
8B:3 -B:101
9B:13 -B:126
10B:128 -B:175
11B:133 -B:138
12B:146 -B:167

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Ile A:136 -Pro A:137
2Gly B:32 -Asn B:33
3Ile B:136 -Pro B:137

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ILW)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4ILW)

(-) Exons   (0, 0)

(no "Exon" information available for 4ILW)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:182
                                                                                                                                                                                                                      
               SCOP domains d4ilwa_ A: TIMP-2                                                                                                                                                                      SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...hhhhhhhhh.eeeeeeeeeeeeeeee.......eeeeeeeeeeeeeee.......eeee..hhhhh..........eeeeeeee....eee......eee.hhhhhhhhhhh.hhhhhh...eeee............eeeehhhhhhh...hhhhhhheeee.....eeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ilw A   1 CSCSPVHPQQAFCNADVVIRAKAVSEKEVDSGNDIYGNPIKRIQYEIKQIKMFKGPEKDIEFIYTAPSSAVCGVSLDVGGKKEYLIAGKAEGDGKMHITLCDFIVPWDTLSTTQKKSLNHRYQMGCECKITRCPMIPCYISSPDECLWMDWVTEKNINGHQAKFFACIKRSDGSCAWYRGAA 182
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180  


Chain B from PDB  Type:PROTEIN  Length:182
                                                                                                                                                                                                                      
               SCOP domains d4ilwb_ B: TIMP-2                                                                                                                                                                      SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...hhhhhhhhh.eeeeeeeeeeeeee..........eeeeeeeeeeeeee.......eeee..hhhhh..........eeeeeeee....eee......eee.hhhhhhhhhhh.hhhhhh...eeee............eeeehhhhhhh...hhhhhheeeee.....eeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ilw B   1 CSCSPVHPQQAFCNADVVIRAKAVSEKEVDSGNDIYGNPIKRIQYEIKQIKMFKGPEKDIEFIYTAPSSAVCGVSLDVGGKKEYLIAGKAEGDGKMHITLCDFIVPWDTLSTTQKKSLNHRYQMGCECKITRCPMIPCYISSPDECLWMDWVTEKNINGHQAKFFACIKRSDGSCAWYRGAA 182
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180  


Chain D from PDB  Type:PROTEIN  Length:159
                                                                                                                                                                                               
               SCOP domains d4ilwd_ D: automated matches                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee...............eeeee..........eeee....ee.....eehhhhhhhhhhhhh...........................hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ilw D 105 MPKWRKTHLTYRIVNYTPDLPRDAVDSAIEKALKVWEEVTPLTFSRLYEGEADIMISFAVKEHGDFYSFDGPGHSLAHAYPPGPGLYGDIHFDDDEKWTEDASGTNLFLVAAHELGHSLGLFHSANTEALMYPLYNSFTELAQFRLSQDDVNGIQSLYG 263
                                   114       124       134       144       154       164       174       184       194       204       214       224       234       244       254         


Chain F from PDB  Type:PROTEIN  Length:159
                                                                                                                                                                                               
               SCOP domains d4ilwf_ F: automated matches                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee...............eeeee..........eeee....ee.....eehhhhhhhhhhhhh...........................hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ilw F 105 MPKWRKTHLTYRIVNYTPDLPRDAVDSAIEKALKVWEEVTPLTFSRLYEGEADIMISFAVKEHGDFYSFDGPGHSLAHAYPPGPGLYGDIHFDDDEKWTEDASGTNLFLVAAHELGHSLGLFHSANTEALMYPLYNSFTELAQFRLSQDDVNGIQSLYG 263
                                   114       124       134       144       154       164       174       184       194       204       214       224       234       244       254
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 4)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4ILW)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4ILW)

(-) Gene Ontology  (43, 48)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        MMP10_HUMAN | P09238: 1q3a 3v96
        TIMP2_HUMAN | P16035: 1br9 1gxd 2tmp

(-) Related Entries Specified in the PDB File

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