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(-) Description

Title :  CRYSTAL STRUCTURE OF PHOSPHORYLATED C.ELEGANS THYMIDYLATE SYNTHASE IN COMPLEX WITH DUMP
 
Authors :  P. Wilk, A. Dowiercial, K. Banaszak, A. Jarmula, W. Rypniewski, W. Rode
Date :  17 Jan 13  (Deposition) - 11 Dec 13  (Release) - 15 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.14
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Phosphoprotein, Protein Homodimer, Deoxynucleotide Biosynthesis, Phosphorylation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Wilk, A. Jarmua, T. Ruman, K. Banaszak, W. Rypniewski, J. Ciesla, A. Dowiercia, W. Rode
Crystal Structure Of Phosphoramide-Phosphorylated Thymidylate Synthase Reveals Pser127, Reflecting Probably Phis To Pser Phosphotransfer.
Bioorg. Chem. V. 52C 44 2013
PubMed-ID: 24321279  |  Reference-DOI: 10.1016/J.BIOORG.2013.11.003

(-) Compounds

Molecule 1 - THYMIDYLATE SYNTHASE
    Chains: A, B
    EC Number: 2.1.1.45
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPIGDM4+STOP
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Common: NEMATODE
    Organism Scientific: CAENORHABDITIS ELEGANS
    Organism Taxid: 6239

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1SEP2Mod. Amino AcidPHOSPHOSERINE
2UMP2Ligand/Ion2'-DEOXYURIDINE 5'-MONOPHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:197 , GLN A:216 , ARG A:217 , SER A:218 , GLY A:219 , ASP A:220 , GLY A:224 , ASN A:228 , HIS A:258 , TYR A:260 , ARG B:177 , ARG B:178BINDING SITE FOR RESIDUE UMP A 401
2AC2SOFTWAREARG A:177 , ARG A:178 , ARG B:51 , CYS B:197 , GLN B:216 , ARG B:217 , SER B:218 , GLY B:219 , ASP B:220 , GLY B:224 , ASN B:228 , HIS B:258 , TYR B:260BINDING SITE FOR RESIDUE UMP B 401

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ISW)

(-) 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:290
                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4iswa_ A: automated matches                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhheeee.....eeeeeeeeeeeee.hhhh.........hhhhhhhhhhhhhh....hhhhhh..........hhhhhhhh............hhhhhhhh.................hhhhhhhhhhhhh......eee.....hhhhh.....eeeeeeeee..eeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeeee..hhhhhhhhh........eeee.....hhhhhhhh.eeee........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4isw A  23 QQVHLNQDEYKYLKQVEQILREGTRRDDRTGTGTISIFGMQSKYCLRNGTIPLLTTKRVYWKGVLEELLWFISGSTDGKLLMEKNVKIWEKNGDRAFLDNLGFTsREEGDLGPVYGFQWRHFGAKYVDCHTDYSGQGVDQLAEVIRQIKEQPDSRRIIMSAWNPSDLGQMVLPPCHTMCQFYVDNGELSCQLYQRSGDMGLGVPFNLASYGLLTHMIAKVCGLKPGTLVHTLGDAHVYSNHVDALKIQLDREPYAFPKIRFTRDVASIDDFTSDMIALDDYKCHPKIPMD 312
                                    32        42        52        62        72        82        92       102       112       122    |  132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312
                                                                                                                                  127-SEP                                                                                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:290
                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4iswb_ B: automated matches                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhh..........eeeeeeeeeeee..............hhhhhhhhhhhhhh...hhhhhhhh....hhhhhhhhhhhhhh...........hhhhhhhh.................hhhhhhhhhhhhh......eee...............eeeeeeeee..eeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeeee..hhhhhhhhhh.......eeee.....hhhhhhhh.eeee........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4isw B  23 QQVHLNQDEYKYLKQVEQILREGTRRDDRTGTGTISIFGMQSKYCLRNGTIPLLTTKRVYWKGVLEELLWFISGSTDGKLLMEKNVKIWEKNGDRAFLDNLGFTsREEGDLGPVYGFQWRHFGAKYVDCHTDYSGQGVDQLAEVIRQIKEQPDSRRIIMSAWNPSDLGQMVLPPCHTMCQFYVDNGELSCQLYQRSGDMGLGVPFNLASYGLLTHMIAKVCGLKPGTLVHTLGDAHVYSNHVDALKIQLDREPYAFPKIRFTRDVASIDDFTSDMIALDDYKCHPKIPMD 312
                                    32        42        52        62        72        82        92       102       112       122    |  132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312
                                                                                                                                  127-SEP
   Legend:   → Mismatch (orange background)
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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/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

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
        Q9Y052_CAEEL | Q9Y052: 5noo
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        Q9Y052_CAEEL | Q9Y052: 4iqb 4iqq 4irr 4psg

(-) Related Entries Specified in the PDB File

3ihi CRYSTAL STRUCTURE OF MOUSE THYMIDYLATE SYNTHASE
4e5o CRYSTAL STRUCTURE OF MOUSE THYMIDYLATE SYNTHASE IN COMPLEX WITH DUMP
4g9u CRYSTAL STRUCTURE OF T.SPIRALIS THYMIDYLATE SYNTHASE IN COMPLEX WITH DUMP
4iqb HIGH RESOLUTION CRYSTAL STRUCTURE OF C.ELEGANS THYMIDYLATE SYNTHASE
4iqq CRYSTAL STRUCTURE OF C.ELEGANS THYMIDYLATE SYNTHASE IN COMPLEX WITH DUMP AND TOMUDEX
4irr CRYSTAL STRUCTURE OF C.ELEGANS THYMIDYLATE SYNTHASE IN COMPLEX WITH DUMP