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(-) Description

Title :  DCMP HYDROXYMETHYLASE FROM T4 (PHOSPHATE-BOUND)
 
Authors :  H. K. Song, S. H. Sohn, S. W. Suh
Date :  06 Jan 99  (Deposition) - 13 Jan 99  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,C
Keywords :  Hydroxymethylase, Dntp Synthesizing Complex, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. K. Song, S. H. Sohn, S. W. Suh
Crystal Structure Of Deoxycytidylate Hydroxymethylase From Bacteriophage T4, A Component Of The Deoxyribonucleoside Triphosphate-Synthesizing Complex.
Embo J. V. 18 1104 1999
PubMed-ID: 10064578  |  Reference-DOI: 10.1093/EMBOJ/18.5.1104

(-) Compounds

Molecule 1 - PROTEIN (DEOXYCYTIDYLATE HYDROXYMETHYLASE)
    Chains: A, C
    EC Number: 2.1.2.8
    Organism Scientific: ENTEROBACTERIA PHAGE T4
    Organism Taxid: 10665
    Synonym: T4 CH

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1PO42Ligand/IonPHOSPHATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:28 , ARG A:168 , SER A:169 , HOH A:314 , ARG C:123 , ARG C:124 , HOH C:302BINDING SITE FOR RESIDUE PO4 A 300
2AC2SOFTWAREARG A:123 , ARG A:124 , HOH A:321 , LYS C:28 , ARG C:168 , SER C:169 , HOH C:316BINDING SITE FOR RESIDUE PO4 C 301
3CATAUTHORCYS A:148 , CYS C:148NULL

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1B49)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1B49)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1B49)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1B49)

(-) Exons   (0, 0)

(no "Exon" information available for 1B49)

(-) 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:241
 aligned with DCHM_BPT4 | P08773 from UniProtKB/Swiss-Prot  Length:246

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
            DCHM_BPT4     1 MISDSMTVEEIRLHLGLALKEKDFVVDKTGVKTIEIIGASFVADEPFIFGALNDEYIQRELEWYKSKSLFVKDIPGETPKIWQQVASSKGEINSNYGWAIWSEDNYAQYDMCLAELGQNPDSRRGIMIYTRPSMQFDYNKDGMSDFMCTNTVQYLIRDKKINAVVNMRSNDVVFGFRNDYAWQKYVLDKLVSDLNAGDSTRQYKAGSIIWNVGSLHVYSRHFYLVDHWWKTGETHISKKDY 241
               SCOP domains d1b49a_ A: dCMP hydroxymethylase                                                                                                                                                                                                                  SCOP domains
               CATH domains 1b49A00 A:1-241 Thymidylate Synthase, chain A                                                                                                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhh............eeeee.eeee...........hhhhhhhhhhhhh....hhh......hhhhh...........hhhhhh.hhh..hhhhhhhhhhh.......eee...hhhhhhhhhhh......eeeeeeeee..eeeeeeee.eee...hhhhhhhhhhhhhhhhhhhhhhh..........eeeee.eeeeehhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1b49 A   1 MISDSMTVEEIRLHLGLALKEKDFVVDKTGVKTIEIIGASFVADEPFIFGALNDEYIQRELEWYKSKSLFVKDIPGETPKIWQQVASSKGEINSNYGWAIWSEDNYAQYDMCLAELGQNPDSRRGIMIYTRPSMQFDYNKDGMSDFMCTNTVQYLIRDKKINAVVNMRSNDVVFGFRNDYAWQKYVLDKLVSDLNAGDSTRQYKAGSIIWNVGSLHVYSRHFYLVDHWWKTGETHISKKDY 241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 


Chain C from PDB  Type:PROTEIN  Length:241
 aligned with DCHM_BPT4 | P08773 from UniProtKB/Swiss-Prot  Length:246

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
            DCHM_BPT4     1 MISDSMTVEEIRLHLGLALKEKDFVVDKTGVKTIEIIGASFVADEPFIFGALNDEYIQRELEWYKSKSLFVKDIPGETPKIWQQVASSKGEINSNYGWAIWSEDNYAQYDMCLAELGQNPDSRRGIMIYTRPSMQFDYNKDGMSDFMCTNTVQYLIRDKKINAVVNMRSNDVVFGFRNDYAWQKYVLDKLVSDLNAGDSTRQYKAGSIIWNVGSLHVYSRHFYLVDHWWKTGETHISKKDY 241
               SCOP domains d1b49c_ C: dCMP hydroxymethylase                                                                                                                                                                                                                  SCOP domains
               CATH domains 1b49C00 C:1-241 Thymidylate Synthase, chain A                                                                                                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhh............eeeee.eeee...........hhhhhhhhhhhhh....hhh......hhhhh...........hhhhhh.hhh..hhhhhhhhhhh.......eee...hhhhhhhhhhh......eeeeeeeee..eeeeeeee.eee...hhhhhhhhhhhhhhhhhhhhhhh..........eeeee.eeeeehhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1b49 C   1 MISDSMTVEEIRLHLGLALKEKDFVVDKTGVKTIEIIGASFVADEPFIFGALNDEYIQRELEWYKSKSLFVKDIPGETPKIWQQVASSKGEINSNYGWAIWSEDNYAQYDMCLAELGQNPDSRRGIMIYTRPSMQFDYNKDGMSDFMCTNTVQYLIRDKKINAVVNMRSNDVVFGFRNDYAWQKYVLDKLVSDLNAGDSTRQYKAGSIIWNVGSLHVYSRHFYLVDHWWKTGETHISKKDY 241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240
   Legend:   → Mismatch (orange background)
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  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, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1B49)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,C   (DCHM_BPT4 | P08773)
molecular function
    GO:0047153    deoxycytidylate 5-hydroxymethyltransferase activity    Catalysis of the reaction: 5,10-methylenetetrahydrofolate + dCMP + H(2)O = (6S)-5,6,7,8-tetrahydrofolate + 5-hydroxymethyldeoxycytidylate.
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        DCHM_BPT4 | P08773: 1b5d 1b5e

(-) Related Entries Specified in the PDB File

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