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(-) Description

Title :  CRYSTAL STRUCTURE OF A CYTOPLASMIC PROTEIN NCK2 (NCK2) FROM HOMO SAPIENS AT 2.20 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg), Partnership For Biology (Tcell)
Date :  15 Mar 12  (Deposition) - 04 Apr 12  (Release) - 21 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Sh3 Domain, Protein Binding, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi- Biology, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg), Partnership For T-Cell Biology (Tcell)
Crystal Structure Of A Cytoplasmic Protein Nck2 (Nck2) From Homo Sapiens At 2. 20 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CYTOPLASMIC PROTEIN NCK2
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: PB1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: SH3 2 DOMAIN RESIDUES 114-170
    Gene: BC007195, GRB4, NCK2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: GROWTH FACTOR RECEPTOR-BOUND PROTEIN 4, NCK ADAPTOR PROTEIN 2, NCK-2, SH2/SH3 ADAPTOR PROTEIN NCK-BETA

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 19)

Asymmetric Unit (6, 19)
No.NameCountTypeFull Name
1DMG2Mod. Amino AcidN,N-DIMETHYLGLYCINE
2IMD2Ligand/IonIMIDAZOLE
3MLY6Mod. Amino AcidN-DIMETHYL-LYSINE
4MSE2Mod. Amino AcidSELENOMETHIONINE
5UNL2Ligand/IonUNKNOWN LIGAND
6ZN5Ligand/IonZINC ION
Biological Unit 1 (5, 28)
No.NameCountTypeFull Name
1DMG4Mod. Amino AcidN,N-DIMETHYLGLYCINE
2IMD4Ligand/IonIMIDAZOLE
3MLY12Mod. Amino AcidN-DIMETHYL-LYSINE
4MSE4Mod. Amino AcidSELENOMETHIONINE
5UNL4Ligand/IonUNKNOWN LIGAND
6ZN-1Ligand/IonZINC ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:142 , IMD A:204 , GLU B:127 , ASP B:146BINDING SITE FOR RESIDUE ZN A 201
2AC2SOFTWAREGLU A:125 , HOH A:708 , HOH A:709 , HOH A:711BINDING SITE FOR RESIDUE ZN A 202
3AC3SOFTWAREGLU A:168 , ASP A:170 , MLY B:143BINDING SITE FOR RESIDUE ZN A 203
4AC4SOFTWAREGLU A:142 , ZN A:201 , GLU B:127 , CYS B:144 , ASP B:146 , TRP B:159BINDING SITE FOR RESIDUE IMD A 204
5AC5SOFTWAREGLU A:127 , CYS A:144 , ASP A:146 , IMD A:207 , GLU B:142BINDING SITE FOR RESIDUE ZN A 205
6AC6SOFTWAREGLU A:127 , CYS A:144 , ASP A:146 , TRP A:159 , ZN A:205 , GLU B:142BINDING SITE FOR RESIDUE IMD A 207
7AC7SOFTWAREGLU B:125 , HOH B:302 , HOH B:303 , HOH B:319 , HOH B:320BINDING SITE FOR RESIDUE ZN B 202

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:144 -B:144

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4E6R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4E6R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4E6R)

(-) Exons   (0, 0)

(no "Exon" information available for 4E6R)

(-) 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    
   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:58
                                                                                          
               SCOP domains d4e6ra_ A: automated matches                               SCOP domains
               CATH domains ---------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..................eeeeeee....eeeeee..eeeeee...eee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------- Transcript
                 4e6r A   0 xIPAFVkFAYVAEREDELSLVkGSRVTVmEkCSDGWWRGSYNGQIGWFPSNYVLEEVD 170
                            ||    |122       132 |     142|      152       162        
                            ||    |            134-MLY  | |                           
                            0-DMG |                   141-MSE                         
                           114    |                     143-MLY                       
                                119-MLY                                               


Chain B from PDB  Type:PROTEIN  Length:58
                                                                                          
               SCOP domains d4e6rb_ B: automated matches                               SCOP domains
               CATH domains ---------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..................eeeeeee....eeeeee..eeeeee...eee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------- Transcript
                 4e6r B   0 xIPAFVkFAYVAEREDELSLVkGSRVTVmEkCSDGWWRGSYNGQIGWFPSNYVLEEVD 170
                            ||    |122       132 |     142|      152       162        
                            0-DMG |            134-MLY  | |                           
                           114    |                   141-MSE                         
                                119-MLY                 143-MLY
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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, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4E6R)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4E6R)

(-) Gene Ontology  (38, 38)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        NCK2_HUMAN | O43639: 1u5s 1wx6 1z3k 2b86 2cia 2frw 2fry 2jxb

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