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Protein

DNA polymerase IV

Gene

dbh

Organism
Sulfolobus solfataricus
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis.

Catalytic activityi

Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).

Cofactori

Mg2+Note: Binds 2 magnesium ions per subunit.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi7 – 71Magnesium
Sitei12 – 121Substrate discrimination
Metal bindingi105 – 1051Magnesium
Active sitei106 – 1061

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

DNA-directed DNA polymerase, Mutator protein, Nucleotidyltransferase, Transferase

Keywords - Biological processi

DNA damage, DNA repair, DNA replication

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding

Enzyme and pathway databases

BRENDAi2.7.7.7. 6163.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA polymerase IV (EC:2.7.7.7)
Short name:
Pol IV
Gene namesi
Name:dbh
OrganismiSulfolobus solfataricus
Taxonomic identifieri2287 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSulfolobus

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 354354DNA polymerase IVPRO_0000173975Add
BLAST

Interactioni

Subunit structurei

Monomer.

Structurei

Secondary structure

1
354
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 86Combined sources
Helixi11 – 199Combined sources
Helixi21 – 233Combined sources
Beta strandi24 – 263Combined sources
Beta strandi28 – 336Combined sources
Beta strandi41 – 466Combined sources
Helixi48 – 514Combined sources
Turni52 – 543Combined sources
Beta strandi57 – 593Combined sources
Helixi61 – 677Combined sources
Beta strandi71 – 755Combined sources
Helixi78 – 9316Combined sources
Beta strandi97 – 1037Combined sources
Beta strandi106 – 1105Combined sources
Turni112 – 1176Combined sources
Helixi119 – 13719Combined sources
Beta strandi141 – 1488Combined sources
Helixi149 – 15810Combined sources
Beta strandi164 – 1663Combined sources
Helixi169 – 1713Combined sources
Helixi172 – 1776Combined sources
Helixi181 – 1833Combined sources
Helixi189 – 1979Combined sources
Helixi203 – 2086Combined sources
Helixi211 – 2155Combined sources
Helixi221 – 23111Combined sources
Beta strandi240 – 2423Combined sources
Beta strandi246 – 2505Combined sources
Turni260 – 2634Combined sources
Helixi264 – 27512Combined sources
Beta strandi277 – 2793Combined sources
Beta strandi281 – 29313Combined sources
Beta strandi295 – 3017Combined sources
Helixi308 – 32215Combined sources
Turni323 – 3253Combined sources
Beta strandi331 – 34212Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1IM4X-ray2.30A2-216[»]
1K1QX-ray2.80A/B1-354[»]
1K1SX-ray2.80A1-354[»]
ProteinModelPortaliP96022.
SMRiP96022. Positions 1-344.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP96022.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 188186UmuCAdd
BLAST

Domaini

The catalytic core consists of fingers, palm and thumb subdomains, but the fingers and thumb subdomains are much smaller than in high-fidelity polymerases; residues from five sequence motifs of the Y-family cluster around an active site cleft that can accommodate DNA and nucleotide substrates with relaxed geometric constraints, with consequently higher rates of misincorporation and low processivity. It lacks the O helices present in high-fidelity DNA polymerases in the fingers domain.

Sequence similaritiesi

Belongs to the DNA polymerase type-Y family.Curated
Contains 1 umuC domain.Curated

Family and domain databases

Gene3Di3.30.1490.100. 1 hit.
HAMAPiMF_01113. DNApol_IV. 1 hit.
InterProiIPR017961. DNA_pol_Y-fam_little_finger.
IPR022880. DNApol_IV.
IPR024728. PolY_HhH_motif.
IPR001126. UmuC.
[Graphical view]
PfamiPF00817. IMS. 1 hit.
PF11798. IMS_HHH. 1 hit.
[Graphical view]
SUPFAMiSSF100879. SSF100879. 1 hit.
PROSITEiPS50173. UMUC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P96022-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIVIFVDFDY FFAQVEEVLN PQYKGKPLVV CVYSGRTKTS GAVATANYEA
60 70 80 90 100
RKLGVKAGMP IIKAMQIAPS AIYVPMRKPI YEAFSNRIMN LLNKHADKIE
110 120 130 140 150
VASIDEAYLD VTNKVEGNFE NGIELARKIK QEILEKEKIT VTVGVAPNKI
160 170 180 190 200
LAKIIADKSK PNGLGVIRPT EVQDFLNELD IDEIPGIGSV LARRLNELGI
210 220 230 240 250
QKLRDILSKN YNELEKITGK AKALYLLKLA QNKYSEPVEN KSKIPHGRYL
260 270 280 290 300
TLPYNTRDVK VILPYLKKAI NEAYNKVNGI PMRITVIAIM EDLDILSKGK
310 320 330 340 350
KFKHGISIDN AYKVAEDLLR ELLVRDKRRN VRRIGVKLDN IIINKTNLSD

FFDI
Length:354
Mass (Da):39,986
Last modified:May 1, 1997 - v1
Checksum:i0EDDAEB0F30EAD35
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U52110 Genomic DNA. Translation: AAB38090.1.
PIRiT46875.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U52110 Genomic DNA. Translation: AAB38090.1.
PIRiT46875.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1IM4X-ray2.30A2-216[»]
1K1QX-ray2.80A/B1-354[»]
1K1SX-ray2.80A1-354[»]
ProteinModelPortaliP96022.
SMRiP96022. Positions 1-344.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Enzyme and pathway databases

BRENDAi2.7.7.7. 6163.

Miscellaneous databases

EvolutionaryTraceiP96022.

Family and domain databases

Gene3Di3.30.1490.100. 1 hit.
HAMAPiMF_01113. DNApol_IV. 1 hit.
InterProiIPR017961. DNA_pol_Y-fam_little_finger.
IPR022880. DNApol_IV.
IPR024728. PolY_HhH_motif.
IPR001126. UmuC.
[Graphical view]
PfamiPF00817. IMS. 1 hit.
PF11798. IMS_HHH. 1 hit.
[Graphical view]
SUPFAMiSSF100879. SSF100879. 1 hit.
PROSITEiPS50173. UMUC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDPO4_SULSF
AccessioniPrimary (citable) accession number: P96022
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 2, 2002
Last sequence update: May 1, 1997
Last modified: October 14, 2015
This is version 88 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.