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(-) Description

Title :  CRYSTAL STRUCTURE OF THE HELICASE DOMAIN OF THE GENE4 PROTEIN OF BACTERIOPHAGE T7
 
Authors :  M. R. Sawaya, S. Guo, S. Tabor, C. C. Richardson, T. Ellenberger
Date :  12 Aug 99  (Deposition) - 10 Nov 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (6x)
Keywords :  Reca-Type Protein Fold, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. R. Sawaya, S. Guo, S. Tabor, C. C. Richardson, T. Ellenberger
Crystal Structure Of The Helicase Domain From The Replicative Helicase-Primase Of Bacteriophage T7.
Cell(Cambridge, Mass. ) V. 99 167 1999
PubMed-ID: 10535735  |  Reference-DOI: 10.1016/S0092-8674(00)81648-7
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA PRIMASE/HELICASE
    ChainsA
    EC Number2.7.7.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET17B
    Expression System Taxid562
    FragmentHELICASE DOMAIN
    Organism ScientificENTEROBACTERIA PHAGE T7
    Organism Taxid10760

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (6x)A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION
Biological Unit 1 (1, 12)
No.NameCountTypeFull Name
1SO412Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:313 , GLY A:315 , MET A:316 , GLY A:317 , LYS A:318 , SER A:319 , HOH A:623BINDING SITE FOR RESIDUE SO4 A 600
2AC2SOFTWARETHR A:293 , GLY A:294 , ILE A:295 , ASN A:296 , ASP A:297 , ARG A:404 , LYS A:408BINDING SITE FOR RESIDUE SO4 A 601

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1CR0)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Asp A:424 -His A:425

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1CR0)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SF4_HELICASEPS51199 Superfamily 4 helicase domain profile.PRIM_BPT7281-548  1A:281-547
Biological Unit 1 (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SF4_HELICASEPS51199 Superfamily 4 helicase domain profile.PRIM_BPT7281-548  6A:281-547

(-) Exons   (0, 0)

(no "Exon" information available for 1CR0)

(-) 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:242
 aligned with PRIM_BPT7 | P03692 from UniProtKB/Swiss-Prot  Length:566

    Alignment length:277
                                   280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       
            PRIM_BPT7   271 LRERIREHLSSEESVGLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASGESDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQGDMPNLVLVRILKCRFTGDTGIAGYMEYNKETGWLEPSSY 547
               SCOP domains d1cr0a_ A: Gene 4 protein (g4p, DNA primase), helicase domain                                                                                                                                                                                                                         SCOP domains
               CATH domains 1cr0A00 A:271-547 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh...........hhhhhhh......eeeeee....hhhhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee......hhhhhhhhhhhhhhh....eeeeeeee.----------hhhhhhhhhhhhhhhhhhh.eeeeeee..-----------------...--.hhhhhh.eeeeeee..------.eeeeeeee......eeeeeeee......eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------SF4_HELICASE  PDB: A:281-547 UniProt: 281-548                                                                                                                                                                                                                               PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1cr0 A 271 MRERIREHLSSEESVGLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISI----------RKMIDNLMTKLKGFAKSTGVVLVVICHLK-----------------DLR--GALRQLSDTIIALERNQ------LVLVRILKCRFTGDTGIAGYMEYNKETGWLEPSSY 547
                                   280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       | -       440       450       460      |  -         -    | |490       500     |   -  |    520       530       540       
                                                                                                                                                                                       428        439                         467               485 |  |             506    513                                  
                                                                                                                                                                                                                                                  487  |                                                         
                                                                                                                                                                                                                                                     490                                                         

   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, 1)

Asymmetric Unit

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1CR0)

(-) Gene Ontology  (16, 16)

Asymmetric Unit(hide GO term definitions)
Chain A   (PRIM_BPT7 | P03692)
molecular function
    GO:0043139    5'-3' DNA helicase activity    Catalysis of the unwinding of the DNA helix in the direction 5' to 3'.
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003678    DNA helicase activity    Catalysis of the reaction: NTP + H2O = NDP + phosphate, to drive the unwinding of a DNA helix.
    GO:0003896    DNA primase activity    Catalysis of the synthesis of a short RNA primer on a DNA template, providing a free 3'-OH that can be extended by DNA-directed DNA polymerases.
    GO:0003899    DNA-directed 5'-3' RNA polymerase activity    Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template, i.e. the catalysis of DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
    GO:0004386    helicase activity    Catalysis of the reaction: NTP + H2O = NDP + phosphate, to drive the unwinding of a DNA or RNA helix.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0003697    single-stranded DNA binding    Interacting selectively and non-covalently with single-stranded DNA.
    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.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0032508    DNA duplex unwinding    The process in which interchain hydrogen bonds between two strands of DNA are broken or 'melted', generating a region of unpaired single strands.
    GO:0006260    DNA replication    The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
    GO:0006269    DNA replication, synthesis of RNA primer    The synthesis of a short RNA polymer, usually 4-15 nucleotides long, using one strand of unwound DNA as a template; the RNA then serves as a primer from which DNA polymerases extend synthesis.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PRIM_BPT7 | P036921cr1 1cr2 1cr4 1e0j 1e0k 1nui 1q57 5ikn

(-) Related Entries Specified in the PDB File

1cr1 T7 HELICASE DOMAIN: COMPLEX WITH DTTP
1cr2 T7 HELICASE DOMAIN: COMPLEX WITH DATP
1cr4 T7 HELICASE DOMAIN: COMPLEX WITH DTDP