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(-) Description

Title :  STRUCTURE OF THE TRIPLE (LYS(BETA)D3ALA, ASP(BETA)C8ALA, ASPCD2ALA) MUTANT OF THE SRC SH2 DOMAIN BOUND TO THE PQPYEEIPI PEPTIDE
 
Authors :  O. Y. Lubman, G. Waksman
Date :  07 Nov 01  (Deposition) - 17 Apr 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Sh2 Domain, Phosphotyrosine, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  O. Y. Lubman, G. Waksman
Dissection Of The Energetic Coupling Across The Src Sh2 Domain-Tyrosyl Phosphopeptide Interface.
J. Mol. Biol. V. 316 291 2002
PubMed-ID: 11851339  |  Reference-DOI: 10.1006/JMBI.2001.5362
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SRC TYROSINE KINASE
    ChainsA
    EC Number2.7.1.112
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentSH2 DOMAIN
    MutationYES
    Organism ScientificROUS SARCOMA VIRUS
    Organism Taxid11886
    SynonymTYROSINE-PROTEIN KINASE TRANSFORMING PROTEIN SRC
 
Molecule 2 - PQPYEEIPI PEPTIDE
    ChainsB
    EngineeredYES
    Other DetailsTHE PEPTIDE WAS CHEMICALLY SYNTHESIZED.
    SyntheticYES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1CO1Ligand/IonCOBALT (II) ION
2PTR1Mod. Amino AcidO-PHOSPHOTYROSINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:235BINDING SITE FOR RESIDUE CO A 2000

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1KC2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1KC2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KC2)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SH2PS50001 Src homology 2 (SH2) domain profile.SRC_RSVSA148-245  1A:150-247

(-) Exons   (0, 0)

(no "Exon" information available for 1KC2)

(-) Sequences/Alignments

Asymmetric/Biological 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:96
 aligned with SRC_RSVSA | P00524 from UniProtKB/Swiss-Prot  Length:526

    Alignment length:103
                                   154       164       174       184       194       204       214       224       234       244   
            SRC_RSVSA   145 AEEWYFGKITRRESERLLLNPENPRGTFLVRESETTKGAYCLSVSDFDNAKGLNVKHYKIRKLDSGGFYITSRTQFSSLQQLVAYYSKHADGLCHRLTNVCPT 247
               SCOP domains d1kc2a_ A: c-src tyrosine kinase                                                                        SCOP domains
               CATH domains 1kc2A00 A:147-249 SHC Adaptor Protein                                                                   CATH domains
               Pfam domains ---SH2-1kc2A01 A:150-232                                                              ----------------- Pfam domains
         Sec.struct. author ....eee..hhhhhhhhhh.......eeeeee.......eeeee.-------...eeeeeee.....eeee..eee.hhhhhhhhhh...........ee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---SH2  PDB: A:150-247 UniProt: 148-245                                                              -- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 1kc2 A 147 AEEWYFGKITRRESERLLLNPENPRGTFLVRESETTKGAYCLSVS-------LNVAHYKIRKLDSGGFYITSRTQFSSLQQLVAYYSKHADGLCHRLTNVCPT 249
                                   156       166       176       186    |    -  |    206       216       226       236       246   
                                                                      191     199                                                  

Chain B from PDB  Type:PROTEIN  Length:8
                                        
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ........ Sec.struct. author
                 SAPs(SNPs) -------- SAPs(SNPs)
                    PROSITE -------- PROSITE
                 Transcript -------- Transcript
                 1kc2 B 302 PQyEEIPI 309
                              |     
                            304-PTR 

   Legend:   → Mismatch (orange background)
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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (SRC_RSVSA | P00524)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0004715    non-membrane spanning protein tyrosine kinase activity    Catalysis of the reaction: ATP + protein L-tyrosine = ADP + protein L-tyrosine phosphate by a non-membrane spanning protein.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0004672    protein kinase activity    Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
    GO:0004713    protein tyrosine kinase activity    Catalysis of the reaction: ATP + a protein tyrosine = ADP + protein tyrosine phosphate.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0018108    peptidyl-tyrosine phosphorylation    The phosphorylation of peptidyl-tyrosine to form peptidyl-O4'-phospho-L-tyrosine.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SRC_RSVSA | P005241bkl 1bkm 1is0 1nzl 1nzv 1sha 1shb 1skj 1spr 1sps

(-) Related Entries Specified in the PDB File

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