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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SECOND PDZ DOMAIN OF NUMB-BINDING PROTEIN 2
 
Authors :  A. K. Roos, K. Guo, N. Burgess-Brown, W. W. Yue, J. M. Elkins, A. C. W. Pike, P. Filippakopoulos, C. H. Arrowsmith, M. Wikstom, A. Edwards, F. Von Delft, C. Bountra, D. Doyle, U. Oppermann
Date :  26 Jun 08  (Deposition) - 16 Sep 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Protein-Binding, Metal-Binding, Ligand Of Numb Protein, Zinc, Lnx2_human, Zinc-Finger, Polymorphism, Ring Finger Protein 1, Casp8 Protein-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. K. Roos, K. Guo, N. Burgess-Brown, W. W. Yue, J. M. Elkins, A. C. W. Pike, P. Filippakopoulos, C. H. Arrowsmith, M. Wikstom, A. Edwards, F. Von Delft, C. Bountra, D. Doyle, U. Oppermann
Crystal Structure Of The Second Pdz Domain Of The Human Numb-Binding Protein 2
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - LIGAND OF NUMB PROTEIN X 2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PNIC28-BSA4
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: R3-PRARE2
    Fragment: PDZ DOMAIN, RESIDUES 336-424
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: NUMB-BINDING PROTEIN 2, PDZ DOMAIN-CONTAINING RING FINGER PROTEIN 1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2VWR)

(-) Sites  (0, 0)

(no "Site" information available for 2VWR)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PDZPS50106 PDZ domain profile.LNX2_HUMAN233-318
339-422
468-554
600-682		  2-
A:339-422
A:426-428
-

(-) Exons   (0, 0)

(no "Exon" information available for 2VWR)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  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:95
 aligned with LNX2_HUMAN | Q8N448 from UniProtKB/Swiss-Prot  Length:690

    Alignment length:194
                                   343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523    
           LNX2_HUMAN   334 REEIFQVALHKRDSGEQLGIKLVRRTDEPGVFILDLLEGGLAAQDGRLSSNDRVLAINGHDLKYGTPELAAQIIQASGERVNLTIARPGKPQPGNTIREAGNHSSSSQHHTPPPYYSRPSSHKDLTQCVTCQEKHITVKKEPHESLGMTVAGGRGSKSGELPIFVTSVPPHGCLARDGRIKRGDVLLNINGIDL 527
               SCOP domains d2vwra_ A: automated matches                                                                                                                                                                       SCOP domains
               CATH domains 2vwrA00 A:-1-428  [code=2.30.42.10, no name defined]                                                                                                                                               CATH domains
               Pfam domains -----PDZ-2vwrA01 A:339-419                                                            ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeee.........eeeee......eeeeee...hhhhhhh......eeeee..ee....hhhhhhhhhhhh..eeeeeeeee....---------------------------------------------------------------------------------------------------... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----PDZ  PDB: A:339-422 UniProt: 339-422                                                ---------------------------------------------PDZ  PDB: A:426-428 UniProt: 468-554                         PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vwr A  -1 SMEILQVALHKRDSGEQLGIKLVRRTDEPGVFILDLLEGGLAAQDGRLSSNDRVLAINGHDLKYGTPELAAQIIQASGERVNLTIARPGKPE---------------------------------------------------------------------------------------------------IEL 428
                             ||    343       353       363       373       383       393       403       413       423 |       -         -         -         -         -         -         -         -         -         - |  
                             0|                                                                                      425                                                                                                 426  
                            336
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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: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: PDZ-like (184)
(-)
Family: PDZ (172)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (LNX2_HUMAN | Q8N448)
molecular function
    GO:0030165    PDZ domain binding    Interacting selectively and non-covalently with a PDZ domain of a protein, a domain found in diverse signaling proteins.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0051260    protein homooligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.

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 Related Entries

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

UniProtKB/Swiss-Prot
        LNX2_HUMAN | Q8N448: 5din 5e11 5e1y 5e21 5e22

(-) Related Entries Specified in the PDB File

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