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(-) Description

Title :  STRUCTURE OF T4PNKP 3' PHOSPHATASE COVALENTLY BOUND TO BEF3
 
Authors :  S. Shuman, D. Chatterjee
Date :  16 Jan 17  (Deposition) - 08 Feb 17  (Release) - 08 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Phosphatase, Bef3-Bound, Beryllium, Pnkp, Transferase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Shuman, D. Chatterjee
Truncated T4Pnk Covalently Bound To Bef3
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - POLYNUCLEOTIDE KINASE
    Chains: A, B
    EC Number: 2.7.1.78, 3.1.3.34
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: P28(SMT)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 157-301
    Gene: PSET
    Organism Scientific: ENTEROBACTERIA PHAGE T4
    Organism Taxid: 10665
    Synonym: PNK,DEOXYNUCLEOTIDE 3'-PHOSPHATASE,POLYNUCLEOTIDE 5'- HYDROXYL-KINASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1BFD2Mod. Amino AcidASPARTATE BERYLLIUM TRIFLUORIDE
2GOL1Ligand/IonGLYCEROL
3MG2Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREBFD A:165 , ASP A:167 , ASP A:278 , HOH A:515 , HOH A:520binding site for residue MG A 401
2AC2SOFTWAREBFD B:165 , ASP B:167 , ASP B:278 , HOH B:514 , HOH B:523binding site for residue MG B 401
3AC3SOFTWARELYS B:158 , ILE B:289 , HOH B:529binding site for residue GOL B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5UJ0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5UJ0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5UJ0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5UJ0)

(-) Exons   (0, 0)

(no "Exon" information available for 5UJ0)

(-) 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    
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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:143
                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..............hhhhhhhh..hhhhhhhhhhhhhh..eeeeeeeee.......hhhhhhhhhhhhhh......eeeee......hhhhhhhhhhhhhh....eeeeeee.hhhhhhhhhhh...eee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5uj0 A 157 SKPKAVIFdVDGTLAKMGRGPYDLEKCDTDVINPMVVELSKMYALMGYQIVVVSGRESGTKEDPTKYYRMTRKWVEDIAGVPLVMQCQREQGDTRKDDVVKEEIFWKHIAPHFDVKLAIDDRTQVVEMWRRIGVECWQVASGD 300
                                   166      |177       187       197       207       217       227       237       247       257       267       277       287       297   
                                  165-BFD 173|                                                                                                                             
                                           175                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:142
                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.................hhhhh..hhhhhhhhhhhhhh..eeeeeeeee.......hhhhhhhhhhhhhh......eeeee......hhhhhhhhhhhhhh....eeeeeee.hhhhhhhhhhh...eee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5uj0 B 157 SKPKAVIFdVDGTLAKMGRGPYDLEKCDTDVINPMVVELSKMYALMGYQIVVVSGRESGTKEDPTKYYRMTRKWVEDIAGVPLVMQCQREQGDTRKDDVVKEEIFWKHIAPHFDVKLAIDDRTQVVEMWRRIGVECWQVASG 299
                                   166      |177       187       197       207       217       227       237       247       257       267       277       287       297  
                                  165-BFD 173|                                                                                                                            
                                           175
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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  (0, 0)

(no "SCOP Domain" information available for 5UJ0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5UJ0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5UJ0)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        KIPN_BPT4 | P06855: 1ltq 1ly1 1rc8 1rpz 1rrc 2ia5

(-) Related Entries Specified in the PDB File

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