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(-) Description

Title :  CRYSTAL STRUCTURE OF A DNA POLYMERASE III, GAMMA SUBUNIT-RELATED PROTEIN (TM0771) FROM THERMOTOGA MARITIMA MSB8 AT 2.00 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  10 Apr 06  (Deposition) - 18 Apr 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Replication (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Dna Polymerase Iii, Gamma Subunit-Related Protein (Tm0771) From Thermotoga Maritima A 2. 00 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DNA POLYMERASE III, GAMMA SUBUNIT-RELATED PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 9-312
    Gene: TM0771
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 243274
    Strain: MSB8

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric/Biological Unit (4, 7)
No.NameCountTypeFull Name
1ETX2Ligand/Ion2-ETHOXYETHANOL
2MSE3Mod. Amino AcidSELENOMETHIONINE
3NA1Ligand/IonSODIUM ION
4UNL1Ligand/IonUNKNOWN LIGAND

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:168 , ASP A:172 , GLY A:210 , TYR A:214 , ARG A:254BINDING SITE FOR RESIDUE UNL A 1
2AC2SOFTWAREGLU A:219 , ARG A:223 , VAL A:227BINDING SITE FOR RESIDUE ETX A 3
3AC3SOFTWARELEU A:43 , PRO A:54 , VAL A:59 , LYS A:230BINDING SITE FOR RESIDUE ETX A 4

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2GNO)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2GNO)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2GNO)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2GNO)

(-) Exons   (0, 0)

(no "Exon" information available for 2GNO)

(-) 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:296
 aligned with Q9WZM9_THEMA | Q9WZM9 from UniProtKB/TrEMBL  Length:312

    Alignment length:296
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300      
         Q9WZM9_THEMA    11 DQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALEAYKLGAEKLSGLMESLKVLETEKLLKKVLSKGLEGYLACRELLERFSKVESKEFFALFDQVTNTITGKDAFLLIQRLTRIILHENTWESVEDQKSVSFLDSILRVKIANLNNKLTLMNILAIHRERKR 306
               SCOP domains d2gnoa2 A:11-208 gamma subunit of DNA polymerase III, N-domain                                                                                                                                        d2gnoa1 A:209-306 gamma subunit                                                                    SCOP domains
               CATH domains 2gnoA01 A:11-146 P-loop containing nucleotide triphosphate hydrolases                                                                   2gnoA02 A:147-206                                           2gnoA03 A:207-306  [code=1.20.272.10, no name defined]                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhh.......eeee.......hhhhhhhhhhhhh........eeeee.hhhhhhhhhhhhhhhhhhh....eeeeeee.hhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gno A  11 DQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERmTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALEAYKLGAEKLSGLmESLKVLETEKLLKKVLSKGLEGYLACRELLERFSKVESKEFFALFDQVTNTITGKDAFLLIQRLTRIILHENTWESVEDQKSVSFLDSILRVKIANLNNKLTLmNILAIHRERKR 306
                                    20        30        40        50        60        70        80        90       100|      110       120       130       140       150       160       170       180       190|      200       210       220       230       240       250       260       270       280       290    |  300      
                                                                                                                    101-MSE                                                                                   191-MSE                                                                                                 295-MSE
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (3, 3)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2GNO)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9WZM9_THEMA | Q9WZM9)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003689    DNA clamp loader activity    Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive the opening of the ring structure of the PCNA complex, or any of the related sliding clamp complexes, and their closing around the DNA duplex.
biological process
    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:0006261    DNA-dependent DNA replication    A DNA replication process that uses parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands.
cellular component
    GO:0005663    DNA replication factor C complex    A complex that loads the DNA polymerase processivity factor proliferating cell nuclear antigen (PCNA) onto DNA, thereby permitting processive DNA synthesis catalyzed by DNA polymerase. In eukaryotes the complex consists of five polypeptides.

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