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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PRIMASE-POLYMERASE FROM SULFOLOBUS ISLANDICUS
 
Authors :  A. Vannini, K. Beck, G. Lipps, P. Cramer
Date :  05 Mar 10  (Deposition) - 16 Jun 10  (Release) - 10 Nov 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A
Keywords :  Primase, Polymerase, Replication (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Beck, A. Vannini, P. Cramer, G. Lipps
The Archaeo-Eukaryotic Primase Of Plasmid Prn1 Requires A Helix Bundle Domain For Faithful Primer Synthesis
Nucleic Acids Res. V. 38 6707 2010
PubMed-ID: 20511586  |  Reference-DOI: 10.1093/NAR/GKQ447

(-) Compounds

Molecule 1 - ORF904
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21B
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: PRIMASE-POLYMERASE DOMAIN, RESIDUES 36-370
    Organism Scientific: SULFOLOBUS ISLANDICUS
    Organism Taxid: 43080
    Synonym: DNA PRIMASE POLYMERASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2SO41Ligand/IonSULFATE ION
3ZN1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:141 , HIS A:188 , CYS A:191 , CYS A:196BINDING SITE FOR RESIDUE ZN A 1
2AC2SOFTWAREGLY A:123 , GLU A:124 , HOH A:406BINDING SITE FOR RESIDUE GOL A 371
3AC3SOFTWAREHOH A:28 , THR A:139 , VAL A:140 , HIS A:141 , TYR A:207 , HOH A:428 , HOH A:429 , HOH A:436BINDING SITE FOR RESIDUE SO4 A 372

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:185 -A:206
2A:284 -A:297

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asn A:159 -Pro A:160
2Ser A:272 -Gly A:273

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3M1M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3M1M)

(-) Exons   (0, 0)

(no "Exon" information available for 3M1M)

(-) 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:320
 aligned with Q54324_SULIS | Q54324 from UniProtKB/TrEMBL  Length:904

    Alignment length:331
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369 
         Q54324_SULIS    40 SSERIRYAKWFLEHGFNIIPIDPESKKPVLKEWQKYSHEMPSDEEKQRFLKMIEEGYNYAIPGGQKGLVILDFESKEKLKAWIGESALEELCRKTLCTNTVHGGIHIYVLSNDIPPHKINPLFEENGKGIIDLQSYNSYVLGLGSCVNHLHCTTDKCPWKEQNYTTCYTLYNELKEISKVDLKSLLRFLAEKGKRLGITLSKTAKEWLEGKKEEEDTVVEFEELRKELVKRDSGKPVEKIKEEICTKSPPKLIKEIICENKTYADVNIDRSRGDWHVILYLMKHGVTDPDKILELLPRDSKAKENEKWNTQKYFVITLSKAWSVVKKYLEA 370
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------Prim-Pol-3m1mA01 A:47-225                                                                                                                                                          ----------------------pR           N1_helical-3m1mA02 A:248-370                                                                                   Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh....eee..........hhhhhhh...hhhhhhhhhhhhhh..eeeee.hhh.eeeeee.hhhhhhhhhhhhhhhhhhhhh.eee.....eeeeee........eeeeeee..eeeeeee....eee....eee.hhh............eee.ee..........hhhhhhhhhhhhhh...eeehhhhhhhhh.-----------hhhhhhhhhhh...hhhhhhhhhhh...hhhhhhhhh..........hhhhhhhhhhhhhhhh...hhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3m1m A  40 SSERIRYAKWFLEHGFNIIPIDPESKKPVLKEWQKYSHEMPSDEEKQRFLKMIEEGYNYAIPGGQKGLVILDFESKEKLKAWIGESALEELCRKTLCTNTVHGGIHIYVLSNDIPPHKINPLFEENGKGIIDLQSYNSYVLGLGSCVNHLHCTTDKCPWKEQNYTTCYTLYNELKEISKVDLKSLLRFLAEKGKRLGITLSKTAKEWLEG-----------EELRKELVKRDSGKPVEKIKEEICTKSPPKLIKEIICENKTYADVNIDRSRGDWHVILYLMKHGVTDPDKILELLPRDSKAKENEKWNTQKYFVITLSKAWSVVKKYLEA 370
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249         - |     269       279       289       299       309       319       329       339       349       359       369 
                                                                                                                                                                                                                                           249         261
   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  (0, 0)

(no "SCOP Domain" information available for 3M1M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3M1M)

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Prim-Pol] (4)
(-)
Clan: no clan defined [family: pRN1_helical] (1)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q54324_SULIS | Q54324)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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 Related Entries

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

UniProtKB/TrEMBL
        Q54324_SULIS | Q54324: 1rni 1ro0 1ro2

(-) Related Entries Specified in the PDB File

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