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(-) Description

Title :  PRODUCTIVE COMPLEX BETWEEN MMP-12 AND SYNTHETIC TRIPLE-HELICAL COLLAGEN, REVEALED THROUGH PARAMAGNETIC NMR
 
Authors :  S. H. Prior, S. R. Van Doren
Date :  24 Oct 15  (Deposition) - 24 Feb 16  (Release) - 27 Apr 16  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B,C,D
NMR Structure *:  A,B,C,D  (1x)
Keywords :  Collagenolysis, Matrix Petalloproteinase, Hydrolase-Structural Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. H. Prior, T. S. Byrne, D. Tokmina-Roszyk, G. B. Fields, S. R. Van Doren
Path To Collagenolysis: Collagen V Triple-Helix Model Bound Productively And In Encounters By Matrix Metalloproteinase-12.
J. Biol. Chem. V. 291 7888 2016
PubMed-ID: 26887942  |  Reference-DOI: 10.1074/JBC.M115.703124
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MACROPHAGE METALLOELASTASE
    Chains: A
    EC Number: 3.4.24.65
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)RIL
    Expression System Taxid: 469008
    Expression System Vector: PET-22B
    Gene: MMP12, HME
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: MME, MACROPHAGE ELASTASE, ME, HME, MATRIX METALLOPROTEINASE- 12, MMP-12
 
Molecule 2 - COLLAGEN TRIPLE HELIX REPEAT FAMILY PROTEIN
    Chains: B, C, D
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
NMR Structure : ABCD
NMR Structure * (1x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 29)

NMR Structure (3, 29)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION
2HYP24Mod. Amino Acid4-HYDROXYPROLINE
3ZN2Ligand/IonZINC ION
NMR Structure * (1, 24)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2HYP24Mod. Amino Acid4-HYDROXYPROLINE
3ZN-1Ligand/IonZINC ION

(-) Sites  (5, 5)

NMR Structure (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:218 , HIS A:222 , HIS A:228 , HOH A:401 , PRO D:87 , GLY D:88BINDING SITE FOR RESIDUE ZN A 301
2AC2SOFTWAREHIS A:168 , ASP A:170 , HIS A:183 , HIS A:196BINDING SITE FOR RESIDUE ZN A 302
3AC3SOFTWAREASP A:175 , GLY A:176 , GLY A:178 , ILE A:180 , ASP A:198 , GLU A:201BINDING SITE FOR RESIDUE CA A 303
4AC4SOFTWAREASP A:158 , GLY A:190 , GLY A:192 , ASP A:194BINDING SITE FOR RESIDUE CA A 304
5AC5SOFTWAREASP A:124 , GLU A:199 , GLU A:201BINDING SITE FOR RESIDUE CA A 305

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2N8R)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2N8R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2N8R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2N8R)

(-) Exons   (0, 0)

(no "Exon" information available for 2N8R)

(-) Sequences/Alignments

NMR Structure
   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:164
                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee.................ee...........eeee....ee.....eehhhhhhhhhhhhh...................hhhhh..hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2n8r A 100 FREMPGGPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDFHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYG 263
                                   109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259    


Chain B from PDB  Type:PROTEIN  Length:36
                                                                    
               SCOP domains ------------------------------------ SCOP domains
               CATH domains ------------------------------------ CATH domains
               Pfam domains ------------------------------------ Pfam domains
         Sec.struct. author .................................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------ PROSITE
                 Transcript ------------------------------------ Transcript
                 2n8r B   1 GPpGPpGPpGPpGPPGVVGEQGEQGPpGPpGPpGPp  36
                              |  |  10 |      20      | 30  |  |
                              3-HYP |  |             27-HYP |  |
                                 6-HYP |                30-HYP |
                                    9-HYP                  33-HYP
                                      12-HYP                  36-HYP


Chain C from PDB  Type:PROTEIN  Length:36
                                                                    
               SCOP domains ------------------------------------ SCOP domains
               CATH domains ------------------------------------ CATH domains
               Pfam domains ------------------------------------ Pfam domains
         Sec.struct. author .................................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------ PROSITE
                 Transcript ------------------------------------ Transcript
                 2n8r C  37 GPpGPpGPpGPpGPPGVVGEQGEQGPpGPpGPpGPp  72
                              |  |  46 |      56      | 66  |  |
                              |  |  |  |             63-HYP |  |
                             39-HYP |  |                66-HYP |
                                42-HYP |                   69-HYP
                                   45-HYP                     72-HYP
                                      48-HYP                    


Chain D from PDB  Type:PROTEIN  Length:36
                                                                    
               SCOP domains ------------------------------------ SCOP domains
               CATH domains ------------------------------------ CATH domains
               Pfam domains ------------------------------------ Pfam domains
         Sec.struct. author .................................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------ PROSITE
                 Transcript ------------------------------------ Transcript
                 2n8r D  73 GPpGPpGPpGPpGPPGVVGEQGEQGPpGPpGPpGPp 108
                              |  |  82 |      92      |102  |  |
                              |  |  |  |             99-HYP |  |
                             75-HYP |  |               102-HYP |
                                78-HYP |                  105-HYP
                                   81-HYP                    108-HYP
                                      84-HYP
   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  (0, 0)

(no "SCOP Domain" information available for 2N8R)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2N8R)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2N8R)

(-) Gene Ontology  (21, 21)

NMR Structure(hide GO term definitions)

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  Cis Peptide Bonds
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  2n8r
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  MMP12_HUMAN | P39900
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  3.4.24.65
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 Related Entries

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

UniProtKB/Swiss-Prot
        MMP12_HUMAN | P39900: 1jiz 1jk3 1os2 1os9 1rmz 1ros 1utt 1utz 1y93 1ycm 1z3j 2hu6 2jxy 2k2g 2k9c 2krj 2mlr 2mls 2oxu 2oxw 2oxz 2poj 2w0d 2wo8 2wo9 2woa 2z2d 3ba0 3ehx 3ehy 3f15 3f16 3f17 3f18 3f19 3f1a 3lik 3lil 3lir 3ljg 3lk8 3lka 3n2u 3n2v 3nx7 3rts 3rtt 3ts4 3tsk 3uvc 4efs 4gql 4gr0 4gr3 4gr8 4guy 4h30 4h49 4h76 4h84 4i03 4ijo 5cxa 5czm 5d2b 5d3c 5i0l 5i2z 5i3m 5i43 5i4o 5l79 5l7f 5lab

(-) Related Entries Specified in the PDB File

7089 UNCOMPLEXED FORM
2poj UNCOMPLEXED FORM RELATED ID: 25859 RELATED DB: BMRB