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(-) Description

Title :  HUMAN MMP12 IN COMPLEX WITH L-GLUTAMATE MOTIF INHIBITOR
 
Authors :  E. A. Stura, V. Dive, L. Devel, B. Czarny, F. Beau, L. Vera
Date :  30 Mar 12  (Deposition) - 20 Jun 12  (Release) - 17 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.63
Chains :  Asym./Biol. Unit :  A
Keywords :  Pseudo Peptides, Potent Inhibitors, Metzincin, Zinc Protease, L- Glutamate Motif Inhibitors, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Devel, F. Beau, M. Amoura, L. Vera, E. Cassar-Lajeunesse, S. Garcia B. Czarny, E. A. Stura, V. Dive
Simple Pseudo-Dipeptides With A P2' Glutamate: A Novel Inhibitor Family Of Matrix Metalloproteases And Other Metzincins.
J. Biol. Chem. V. 287 26647 2012
PubMed-ID: 22689580  |  Reference-DOI: 10.1074/JBC.M112.380782

(-) Compounds

Molecule 1 - MACROPHAGE METALLOELASTASE
    Chains: A
    EC Number: 3.4.24.65
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET24A
    Expression System Strain: BL21
    Expression System Taxid: 562
    Fragment: MMP-12 CATALITIC SUBUNIT (UNP RESIDUES 106-263)
    Gene: HME, MMP12
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: MME, MACROPHAGE ELASTASE, ME, HME, MATRIX METALLOPROTEINASE- 12, MMP-12

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (8, 14)

Asymmetric/Biological Unit (8, 14)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION
2E371Ligand/IonN~2~-[4-(4-PHENYLTHIOPHEN-2-YL)BENZOYL]-L-ALPHA-GLUTAMINE
3EDO2Ligand/Ion1,2-ETHANEDIOL
4GOL1Ligand/IonGLYCEROL
5IMD1Ligand/IonIMIDAZOLE
6PGO3Ligand/IonS-1,2-PROPANEDIOL
7PGR1Ligand/IonR-1,2-PROPANEDIOL
8ZN2Ligand/IonZINC ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:218 , HIS A:222 , HIS A:228 , E37 A:306BINDING SITE FOR RESIDUE ZN A 301
02AC2SOFTWAREHIS A:168 , ASP A:170 , HIS A:183 , HIS A:196BINDING SITE FOR RESIDUE ZN A 302
03AC3SOFTWAREASP A:158 , GLY A:190 , GLY A:192 , ASP A:194 , HOH A:431 , HOH A:435BINDING SITE FOR RESIDUE CA A 303
04AC4SOFTWAREASP A:124 , GLU A:199 , GLU A:201 , HOH A:455 , HOH A:456BINDING SITE FOR RESIDUE CA A 304
05AC5SOFTWAREASP A:175 , GLY A:176 , GLY A:178 , ILE A:180 , ASP A:198 , GLU A:201BINDING SITE FOR RESIDUE CA A 305
06AC6SOFTWARETHR A:154 , GLY A:155 , ILE A:180 , LEU A:181 , ALA A:182 , LEU A:214 , HIS A:218 , GLU A:219 , HIS A:222 , HIS A:228 , PRO A:232 , ALA A:234 , VAL A:235 , PRO A:238 , THR A:239 , TYR A:240 , LYS A:241 , ZN A:301 , PGR A:309 , PGO A:310 , HOH A:416 , HOH A:438BINDING SITE FOR RESIDUE E37 A 306
07AC7SOFTWARETYR A:132 , THR A:205 , ASN A:211 , PHE A:213 , ILE A:245 , HOH A:411BINDING SITE FOR RESIDUE GOL A 307
08AC8SOFTWAREHIS A:222 , GLY A:227 , HIS A:228 , HOH A:517BINDING SITE FOR RESIDUE EDO A 308
09AC9SOFTWARETHR A:154 , HIS A:228 , PRO A:238 , E37 A:306 , HOH A:443BINDING SITE FOR RESIDUE PGR A 309
10BC1SOFTWAREGLY A:179 , PRO A:238 , THR A:239 , TYR A:240 , E37 A:306BINDING SITE FOR RESIDUE PGO A 310
11BC2SOFTWAREHIS A:168 , GLY A:169 , HIS A:196 , ILE A:255 , HOH A:437 , HOH A:494BINDING SITE FOR RESIDUE PGO A 311
12BC3SOFTWAREHIS A:172 , HIS A:183 , ALA A:184 , PHE A:185BINDING SITE FOR RESIDUE IMD A 312
13BC4SOFTWAREASN A:119 , ARG A:127BINDING SITE FOR RESIDUE EDO A 313
14BC5SOFTWAREVAL A:108 , TRP A:109 , ARG A:110 , HOH A:433 , HOH A:519BINDING SITE FOR RESIDUE PGO A 314

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4EFS)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4EFS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4EFS)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
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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:159
                                                                                                                                                                                               
               SCOP domains d4efsa_ A: automated matches                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee.................eee..........eeee....ee.....eehhhhhhhhhhhhh...................hhhhh..hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4efs A 105 MGPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDDHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYG 263
                                   114       124       134       144       154       164       174       184       194       204       214       224       234       244       254
   Legend:   → Mismatch (orange background)
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  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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (21, 21)

Asymmetric/Biological Unit(hide GO term definitions)

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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 2n8r 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 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

3lik HUMAN MMP12 IN COMPLEX WITH NON-ZINC CHELATING INHIBITOR
3lil HUMAN MMP12 IN COMPLEX WITH NON-ZINC CHELATING INHIBITOR
3lir HUMAN MMP12 IN COMPLEX WITH NON-ZINC CHELATING INHIBITOR
3ljg HUMAN MMP12 IN COMPLEX WITH NON-ZINC CHELATING INHIBITOR
3ts4 HUMAN MMP12 IN COMPLEX WITH L-GLUTAMATE MOTIF INHIBITOR