O57861 (DP2L_PYRHO) Reviewed, UniProtKB/Swiss-Prot
Last modified
November 16, 2011.
Version 78.
History...
Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: DNA polymerase II large subunit Short name=Pol II EC=2.7.7.7 Cleaved into the following chain:
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| Gene names |
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| Organism | Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) [Complete proteome] [HAMAP] | ||||
| Taxonomic identifier | 70601 [NCBI] | ||||
| Taxonomic lineage | Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus |
Protein attributes
| Sequence length | 1431 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is further processed into a mature form. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | Possesses two activities: a DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction. Has a template-primer preference which is characteristic of a replicative DNA polymerase By similarity. HAMAP MF_00324 |
| Catalytic activity | Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). HAMAP MF_00324 Degradation of single-stranded DNA. It acts progressively in a 3'- to 5'-direction, releasing nucleoside 5'-phosphates. HAMAP MF_00324 |
| Subunit structure | Heterodimer of a large subunit and a small subunit By similarity. |
| Post-translational modification | This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation Potential. HAMAP MF_00324 |
| Sequence similarities | Belongs to the archaeal DNA polymerase II family. |
| Sequence caution | The sequence BAA29190.1 differs from that shown. Reason: Erroneous initiation. |
Ontologies
| Keywords | |
|---|---|
| Biological process | DNA replication |
| Ligand | DNA-binding |
| Molecular function | DNA-directed DNA polymerase Exonuclease Hydrolase Nuclease Nucleotidyltransferase Transferase |
| PTM | Autocatalytic cleavage Protein splicing |
| Technical term | 3D-structure Complete proteome Multifunctional enzyme |
| Gene Ontology (GO) | |
| Biological process | DNA catabolic process Inferred from electronic annotation. Source: InterPro DNA replicationInferred from electronic annotation. Source: UniProtKB-KW intein-mediated protein splicingInferred from electronic annotation. Source: InterPro |
| Molecular function | DNA binding Inferred from electronic annotation. Source: UniProtKB-KW DNA-directed DNA polymerase activityInferred from electronic annotation. Source: UniProtKB-KW exonuclease activityInferred from electronic annotation. Source: UniProtKB-KW |
| Complete GO annotation... | |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||||||||||||||||||||||||||||||||||
Molecule processing | |||||||||||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 951 | 951 | DNA polymerase II large subunit, 1st part Potential | PRO_0000007307 | |||||||||||||||||||||||||||||||||||||||
| Chain | 952 – 1117 | 166 | Pho polC intein Potential | PRO_0000007308 | |||||||||||||||||||||||||||||||||||||||
| Chain | 1118 – 1431 | 314 | DNA polymerase II large subunit, 2nd part Potential | PRO_0000007309 | |||||||||||||||||||||||||||||||||||||||
Secondary structure | |||||||||||||||||||||||||||||||||||||||||||
Helix Strand Turn | |||||||||||||||||||||||||||||||||||||||||||
| Helix | 51 – 54 | 4 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 61 – 70 | 10 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 74 – 85 | 12 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 95 – 110 | 16 | |||||||||||||||||||||||||||||||||||||||||
| Beta strand | 124 – 129 | 6 | |||||||||||||||||||||||||||||||||||||||||
| Turn | 131 – 134 | 4 | |||||||||||||||||||||||||||||||||||||||||
| Beta strand | 137 – 142 | 6 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 147 – 149 | 3 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 154 – 160 | 7 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 164 – 168 | 5 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 178 – 194 | 17 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 204 – 213 | 10 | |||||||||||||||||||||||||||||||||||||||||
| Beta strand | 215 – 219 | 5 | |||||||||||||||||||||||||||||||||||||||||
| Beta strand | 239 – 241 | 3 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 246 – 250 | 5 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 257 – 266 | 10 | |||||||||||||||||||||||||||||||||||||||||
| Helix | 273 – 283 | 11 | |||||||||||||||||||||||||||||||||||||||||
Sequences
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References
| [1] | "Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3." Kawarabayasi Y., Sawada M., Horikawa H., Haikawa Y., Hino Y., Yamamoto S., Sekine M., Baba S., Kosugi H., Hosoyama A., Nagai Y., Sakai M., Ogura K., Otsuka R., Nakazawa H., Takamiya M., Ohfuku Y., Funahashi T. Kikuchi H.DNA Res. 5:55-76(1998) [PubMed: 9679194] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| EMBL GenBank DDBJ | BA000001 Genomic DNA. Translation: BAA29190.1. Different initiation. | ||||||||||||
| PIR | G71232. | ||||||||||||
| RefSeq | NP_142130.1. NC_000961.1. | ||||||||||||
3D structure databases | |||||||||||||
| PDBe RCSB PDB PDBj |
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| ProteinModelPortal | O57861. | ||||||||||||
| ModBase | Search... | ||||||||||||
Protein family/group databases | |||||||||||||
| MEROPS | N10.005. | ||||||||||||
Protocols and materials databases | |||||||||||||
| StructuralBiologyKnowledgebase | Search... | ||||||||||||
Genome annotation databases | |||||||||||||
| EnsemblBacteria | EBPYRT00000001181; EBPYRP00000001181; EBPYRG00000001181. | ||||||||||||
| GeneID | 1444018. | ||||||||||||
| GenomeReviews | Gene locus PH0121 in contig BA000001_GR. | ||||||||||||
| KEGG | pho:PH0121. | ||||||||||||
| NMPDR | fig|70601.1.peg.118. | ||||||||||||
Organism-specific databases | |||||||||||||
| CMR | Search... | ||||||||||||
Phylogenomic databases | |||||||||||||
| GeneTree | EBGT00050000022161. | ||||||||||||
| HOGENOM | HBG497074. | ||||||||||||
| OMA | NCDGDED. | ||||||||||||
| ProtClustDB | PRK14714. | ||||||||||||
Enzyme and pathway databases | |||||||||||||
| BioCyc | PHOR70601:PH0121-MONOMER. | ||||||||||||
Family and domain databases | |||||||||||||
| HAMAP | MF_00324. DNApol_II_L_arch. [Tree] | ||||||||||||
| InterPro | IPR003586. Hedgehog_hint_C. IPR003587. Hedgehog_hint_N. IPR006141. Intein_splice_site. IPR004475. PolC_DP2. IPR016033. PolC_DP2_N. [Graphical view] | ||||||||||||
| KO | K02322. | ||||||||||||
| Pfam | PF03833. PolC_DP2. 1 hit. [Graphical view] | ||||||||||||
| SMART | SM00305. HintC. 1 hit. SM00306. HintN. 1 hit. [Graphical view] | ||||||||||||
| TIGRFAMs | TIGR01445. Intein_Nterm. 1 hit. TIGR00354. PolC. 1 hit. | ||||||||||||
| PROSITE | PS50818. INTEIN_C_TER. 1 hit. PS50817. INTEIN_N_TER. 1 hit. [Graphical view] | ||||||||||||
| ProtoNet | Search... | ||||||||||||
Entry information
| Entry name | DP2L_PYRHO | ||||||||
| Accession | Primary (citable) accession number: O57861 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Prokaryotic Protein Annotation Program | ||||||||
Relevant documents
| Intein-containing proteins List of intein-containing protein entries |
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| SIMILARITY comments Index of protein domains and families |

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