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(-) Description

Title :  CRYSTAL STRUCTURE OF T-CELL LYMPHOMA INVASION AND METASTASIS-1 PDZ IN COMPLEX WITH PHOSPHORYLATED SYNDECAN1 PEPTIDE
 
Authors :  X. Liu, T. R. Shepherd, A. M. Murray, Z. Xu, E. J. Fuentes
Date :  30 Aug 12  (Deposition) - 13 Mar 13  (Release) - 27 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.54
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Phosphorylation, Peptide Conformational Change, New Binding Pocket, Scaffold Signaling Protein For Cell Adhesion And Cell Junction, Syndecan1 P1 Tyr Phosphorylation, Sydencan1 N-Terminal Thr Dansylation, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Liu, T. R. Shepherd, A. M. Murray, Z. Xu, E. J. Fuentes
The Structure Of The Tiam1 Pdz Domain/ Phospho-Syndecan1 Complex Reveals A Ligand Conformation That Modulates Protei Dynamics.
Structure V. 21 342 2013
PubMed-ID: 23395182  |  Reference-DOI: 10.1016/J.STR.2013.01.004

(-) Compounds

Molecule 1 - T-LYMPHOMA INVASION AND METASTASIS-INDUCING PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A-6HIS-RTEV
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: PDZ DOMAIN (UNP RESIDUES 841-930)
    Gene: TIAM1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Strain: HUMAN
    Synonym: TIAM-1
 
Molecule 2 - SYNDECAN-1
    Chains: B
    Engineered: YES
    Fragment: UNP RESIDUES 303-310
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: SYND1
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric/Biological Unit (4, 5)
No.NameCountTypeFull Name
1ANS1Ligand/Ion5-(DIMETHYLAMINO)-1-NAPHTHALENESULFONIC ACID(DANSYLACID)
2CL2Ligand/IonCHLORIDE ION
3NA1Ligand/IonSODIUM ION
4PTR1Mod. Amino AcidO-PHOSPHOTYROSINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:877BINDING SITE FOR RESIDUE CL A 1001
2AC2SOFTWAREVAL A:865 , ARG A:901 , ASN A:907 , SER A:909 , MET A:910 , THR B:1BINDING SITE FOR RESIDUE ANS B 101
3AC3SOFTWARELYS B:2 , NA B:103BINDING SITE FOR RESIDUE CL B 102
4AC4SOFTWAREHOH A:1189 , CL B:102BINDING SITE FOR RESIDUE NA B 103

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 4GVC)

(-) 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:94
                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeee..........eeeeeeee..eeeeeeeee...hhhhhh......eeeee..ee.hhhhhhhhhhhhh..eeeeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------- Transcript
                 4gvc A 837 GAMGKVTHSIHIEKSDTAADTYGFSLSSVEEDGIRRLYVNSVKETGLASKKGLKAGDEILEINNRAADALNSSMLKDFLSQPSLGLLVRTYPEL 930
                                   846       856       866       876       886       896       906       916       926    


Chain B from PDB  Type:PROTEIN  Length:8
                                        
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ...eeee. Sec.struct. author
                 SAPs(SNPs) -------- SAPs(SNPs)
                    PROSITE -------- PROSITE
                 Transcript -------- Transcript
                 4gvc B   1 TKQEEFyA   8
                                  | 
                                  7-PTR
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4GVC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (87, 92)

Asymmetric/Biological Unit(hide GO term definitions)

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  4gvc
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  SDC1_HUMAN | P18827
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  TIAM1_HUMAN | Q13009
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 Related Entries

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

UniProtKB/Swiss-Prot
        SDC1_HUMAN | P18827: 4gvd
        TIAM1_HUMAN | Q13009: 2d8i 3kzd 3kze 4gvd 4k2o 4k2p 4nxp 4nxq 4nxr

(-) Related Entries Specified in the PDB File

3kzd THE TIAM1 PDZ DOMAIN IN APO STATE
3kze THE TIAM1 PDZ DOMAIN COMPLEXED WITH MODEL PEPTIDE
4gvd THE TIAM1 PDZ DOMAIN COMPLEXED WITH SYNDECAN1 PEPTIDE