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(-) Description

Title :  ADAMALYSIN II WITH PEPTIDOMIMETIC INHIBITOR POL656
 
Authors :  F. X. Gomis-Rueth, E. F. Meyer, L. F. Kress, V. Politi
Date :  12 Oct 97  (Deposition) - 15 Apr 98  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Snake Venom Metalloendopetidase, Zinc Protease, Metalloprotease, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. X. Gomis-Ruth, E. F. Meyer, L. F. Kress, V. Politi
Structures Of Adamalysin Ii With Peptidic Inhibitors. Implications For The Design Of Tumor Necrosis Factor Alpha Convertase Inhibitors.
Protein Sci. V. 7 283 1998
PubMed-ID: 9521103
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ADAMALYSIN II
    Chains: A
    EC Number: 3.4.24.46
    Organism Common: EASTERN DIAMONDBACK RATTLESNAKE
    Organism Scientific: CROTALUS ADAMANTEUS
    Organism Taxid: 8729
    Secretion: VENOM

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric Unit (4, 4)
No.NameCountTypeFull Name
10ZC1Ligand/Ion(3R)-2-[N-(FURAN-2-YLCARBONYL)-L-LEUCYL]-2,3,4,9-TETRAHYDRO-1H-BETA-CARBOLINE-3-CARBOXYLIC ACID
2CA1Ligand/IonCALCIUM ION
3SO41Ligand/IonSULFATE ION
4ZN1Ligand/IonZINC ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
10ZC2Ligand/Ion(3R)-2-[N-(FURAN-2-YLCARBONYL)-L-LEUCYL]-2,3,4,9-TETRAHYDRO-1H-BETA-CARBOLINE-3-CARBOXYLIC ACID
2CA-1Ligand/IonCALCIUM ION
3SO42Ligand/IonSULFATE ION
4ZN-1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:142 , HIS A:146 , HIS A:152 , 0ZC A:1000BINDING SITE FOR RESIDUE ZN A 999
2AC2SOFTWAREGLU A:9 , ASP A:93 , GLN A:196 , CYS A:197 , ASN A:200 , HOH A:307BINDING SITE FOR RESIDUE CA A 250
3AC3SOFTWAREARG A:6 , HOH A:354 , HOH A:359BINDING SITE FOR RESIDUE SO4 A 260
4AC4SOFTWAREGLY A:105 , LYS A:106 , ILE A:107 , ILE A:108 , GLY A:109 , THR A:139 , HIS A:142 , GLU A:143 , HIS A:152 , ILE A:165 , ARG A:167 , PRO A:168 , GLY A:169 , LEU A:170 , ZN A:999BINDING SITE FOR RESIDUE 0ZC A 1000

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:117 -A:197
2A:157 -A:164

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3AIG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3AIG)

(-) PROSITE Motifs  (2, 2)

Asymmetric Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ADAM_MEPROPS50215 ADAM type metalloprotease domain profile.VM12_CROAD7-203  1A:6-202
2ZINC_PROTEASEPS00142 Neutral zinc metallopeptidases, zinc-binding region signature.VM12_CROAD140-149  1A:139-148
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ADAM_MEPROPS50215 ADAM type metalloprotease domain profile.VM12_CROAD7-203  2A:6-202
2ZINC_PROTEASEPS00142 Neutral zinc metallopeptidases, zinc-binding region signature.VM12_CROAD140-149  2A:139-148

(-) Exons   (0, 0)

(no "Exon" information available for 3AIG)

(-) 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    
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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:201
 aligned with VM12_CROAD | P34179 from UniProtKB/Swiss-Prot  Length:203

    Alignment length:201
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202 
           VM12_CROAD     3 NLPQRYIELVVVADRRVFMKYNSDLNIIRTRVHEIVNIINGFYRSLNIDVSLVNLEIWSGQDPLTIQSSSSNTLNSEGLWREKVLLNKKKKDNAQLLTAIEFKCETLGKAYLNSMCNPRSSVGIVKDHSPINLLVAVTMAHELGHNLGMEHDGKDCLRGASLCIMRPGLTPGRSYEFSDDSMGYYQKFLNQYKPQCILNKP 203
               SCOP domains d3aiga_ A: Snake venom metalloprotease                                                                                                                                                                    SCOP domains
               CATH domains 3aigA00 A:2-202 Collagenase (Catalytic Domain)                                                                                                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee.hhhhhh....hhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeee............hhhhhhhhhhhhhh.........eeeeee.........eee...........eeeee.....hhhhhhhhhhhhhhh................................hhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----ADAM_MEPRO  PDB: A:6-202 UniProt: 7-203                                                                                                                                                               PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------------------------------------ZINC_PROTE------------------------------------------------------ PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3aig A   2 NLPQRYIELVVVADRRVFMKYNSDLNIIRTRVHEIVNIINEFYRSLNIRVSLTDLEIWSGQDFITIQSSSSNTLNSFGEWRERVLLTRKRHDNAQLLTAINFEGKIIGKAYTSSMCNPRSSVGIVKDHSPINLLVAVTMAHELGHNLGMEHDGKDCLRGASLCIMRPGLTPGRSYEFSDDSMGYYQKFLNQYKPQCILNKP 202
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201
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  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 Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3AIG)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (VM12_CROAD | P34179)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004222    metalloendopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
    GO:0008237    metallopeptidase activity    Catalysis of the hydrolysis of peptide bonds by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  3aig
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  VM12_CROAD | P34179
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  3.4.24.46
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 Related Entries

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

UniProtKB/Swiss-Prot
        VM12_CROAD | P34179: 1iag 2aig 4aig

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3AIG)