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(-) Description

Title :  CRYSTAL STRUCTURE OF PTPN3 (PTPH1) D811E MUTANT IN COMPLEX WITH METAVANADATE
 
Authors :  K. -E. Chen, T. C. Meng, A. H. -J. Wang
Date :  05 Oct 14  (Deposition) - 11 Mar 15  (Release) - 11 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.26
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Alpha Beta, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. E. Chen, M. Y. Li, C. C. Chou, M. R. Ho, G. C. Chen, T. C. Meng, A. H. Wang
Substrate Specificity And Plasticity Of Ferm-Containing Protein Tyrosine Phosphatases.
Structure 2015
PubMed-ID: 25728925  |  Reference-DOI: 10.1016/J.STR.2015.01.017

(-) Compounds

Molecule 1 - TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE 3
    Chains: A, B
    EC Number: 3.1.3.48
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: CATALYTIC DOMAIN (UNP RESIDUES 628-909)
    Gene: PTPH1, PTPN3
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2VN42Ligand/IonOXIDO(DIOXO)VANADIUM
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2VN41Ligand/IonOXIDO(DIOXO)VANADIUM
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2VN41Ligand/IonOXIDO(DIOXO)VANADIUM

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:812 , GLN A:886 , HOH A:1176 , HOH A:1260 , HOH A:1311 , HOH A:1374BINDING SITE FOR RESIDUE GOL A 1001
2AC2SOFTWARECYS A:842 , SER A:843 , ALA A:844 , GLY A:845 , ILE A:846 , GLY A:847 , ARG A:848 , GLN A:886 , HOH A:1176 , HOH A:1384BINDING SITE FOR RESIDUE VN4 A 1002
3AC3SOFTWARETYR B:676 , HIS B:812 , GLN B:886 , HOH B:1247 , HOH B:1255 , HOH B:1415BINDING SITE FOR RESIDUE GOL B 1001
4AC4SOFTWARECYS B:842 , SER B:843 , ALA B:844 , GLY B:845 , ILE B:846 , GLY B:847 , ARG B:848 , GLN B:886 , HOH B:1122 , HOH B:1415BINDING SITE FOR RESIDUE VN4 B 1002

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4RI5)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Pro A:761 -Pro A:762
2Pro B:761 -Pro B:762

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4RI5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4RI5)

(-) Exons   (0, 0)

(no "Exon" information available for 4RI5)

(-) 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:284
                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhh...........eee......eeeeeeeeeee....eeeeeeee...hhhhhhhhhhhhhhh...eeee....ee..ee...........eeee..eeeeeeeeee...eeeeeeeeee.....eeeeeeeee..........hhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ri5 A  -2 SNADTLEGSMAQLKKGLESGTVLIQFEQLYRKKPGLAITFAKLPQNLDKNRYKDVLPYDTTRVLLQGNEDYINASYVNMEIPAANLVNKYIATQGPLPHTCAQFWQVVWDQKLSLIVMLTTLTERGRTKCHQYWPDPPDVMNHGGFHIQCQSEDCTIAYVSREMLVTNTQTGEEHTVTHLQYVAWPEHGVPDDSSDFLEFVNYVRSLRVDSEPVLVHCSAGIGRTGVLVTMETAMCLTERNLPIYPLDIVRKMRDQRAMMVQTSSQYKFVCEAILRVYEEGLVQ 908
                              ||   634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864       874       884       894       904    
                              0|                                                                                                                                                                                                                                                                                        
                             628                                                                                                                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:284
                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhh...........eee......eeeeeeeeeeehhhheeeeeeee...hhhhhhhhhhhhhhh...eeee....ee..ee...........eeee..eeeeeeeeee...eeeeeeeeee.....eeeeeeeee..........hhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ri5 B  -2 SNADTLEGSMAQLKKGLESGTVLIQFEQLYRKKPGLAITFAKLPQNLDKNRYKDVLPYDTTRVLLQGNEDYINASYVNMEIPAANLVNKYIATQGPLPHTCAQFWQVVWDQKLSLIVMLTTLTERGRTKCHQYWPDPPDVMNHGGFHIQCQSEDCTIAYVSREMLVTNTQTGEEHTVTHLQYVAWPEHGVPDDSSDFLEFVNYVRSLRVDSEPVLVHCSAGIGRTGVLVTMETAMCLTERNLPIYPLDIVRKMRDQRAMMVQTSSQYKFVCEAILRVYEEGLVQ 908
                              ||   634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864       874       884       894       904    
                              0|                                                                                                                                                                                                                                                                                        
                             628
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → 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  (0, 0)

(no "SCOP Domain" information available for 4RI5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4RI5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4RI5)

(-) Gene Ontology  (22, 22)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Pro A:761 - Pro A:762   [ RasMol ]  
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 Related Entries

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

UniProtKB/Swiss-Prot
        PTN3_HUMAN | P26045: 2b49 4qum 4qun 4rh5 4rh9 4rhg 4ri4 4s0g

(-) Related Entries Specified in the PDB File

4rh5
4rh9
4rhg CRYSTAL STRUCTURE OF PTPN3 (PTPH1) D811E, C842S MUTANT IN COMPLEX WITH EPS15 PTYR849 PEPTIDE
4ri4 CRYSTAL STRUCTURE OF PTPN3 (PTPH1) Y676I MUTANT IN COMPLEX WITH VANADATE