Q5KWC1 (Q5KWC1_GEOKA) Unreviewed, UniProtKB/TrEMBL

Names and origin

Protein names

Recommended name:
DNA polymerase RuleBase RU004460
EC=2.7.7.7 RuleBase RU004460

Gene names

Name:	polA EMBL BAD77015.1
Ordered Locus Names:	GK2730

Organism

Geobacillus kaustophilus (strain HTA426) [Complete proteome] [HAMAP]

Taxonomic identifier

235909 [NCBI]

Taxonomic lineage

Bacteria › Firmicutes › Bacillales › Bacillaceae › Geobacillus

Protein attributes

Sequence length	878 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Catalytic activity	Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). RuleBase RU004460
Sequence similarities	Belongs to the DNA polymerase type-A family. RuleBase RU004459 Contains 1 5'-3' exonuclease domain. SAAS SAAS002421

Ontologies

Keywords
Biological process	DNA replication RuleBase RU004460
Ligand	DNA-binding RuleBase RU004460 Magnesium PDB 1NJW PDB 2HHQ PDB 2HHS PDB 2HHT PDB 2HHU PDB 2HHV PDB 2HVI PDB 2HW3 Metal-binding PDB 1NJW PDB 2HHQ PDB 2HHS PDB 2HHT PDB 2HHU PDB 2HHV PDB 2HVI PDB 2HW3
Molecular function	DNA-directed DNA polymerase EMBL BAD77015.1 Nucleotidyltransferase Transferase
Technical term	3D-structure PDB 1NJW PDB 1UA0 PDB 2HHQ PDB 2HHS PDB 2HHT PDB 2HHU PDB 2HHV PDB 2HHW PDB 2HVH PDB 2HVI PDB 2HW3 Complete proteome
Gene Ontology (GO)
Biological process	DNA replication Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	intracellular Inferred from electronic annotation. Source: InterPro
Molecular function	3'-5' exonuclease activity Inferred from electronic annotation. Source: InterPro 5'-3' exonuclease activity Inferred from electronic annotation. Source: InterPro DNA binding Inferred from electronic annotation. Source: UniProtKB-KW DNA-directed DNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Regions
	Region	374 – 377	4	Sucrose binding PDB 1NJW PDB 1UA0 PDB 2HHQ PDB 2HHT PDB 2HHU PDB 2HHV PDB 2HHW PDB 2HVI PDB 2HW3
	Region	471 – 474	4	Sucrose binding PDB 2HVH
	Region	528 – 531	4	Sucrose binding PDB 1NJW PDB 2HHQ PDB 2HW3
	Region	609 – 611	3	Sucrose binding PDB 1NJW PDB 1UA0 PDB 2HHQ PDB 2HHS PDB 2HHT PDB 2HHU PDB 2HHV PDB 2HHW PDB 2HVH PDB 2HVI PDB 2HW3
	Region	757 – 760	4	Sucrose binding PDB 2HHQ PDB 2HHS PDB 2HHT PDB 2HHU PDB 2HHV
Sites
	Metal binding	655	1	Magnesium PDB 2HVI
	Metal binding	656	1	Magnesium; via carbonyl oxygen PDB 2HVI
	Metal binding	832	1	Magnesium PDB 2HVI
	Binding site	327	1	Sucrose PDB 1NJW PDB 1UA0 PDB 2HHQ PDB 2HHS PDB 2HHT PDB 2HHU PDB 2HHV PDB 2HHW PDB 2HVH PDB 2HVI PDB 2HW3
	Binding site	410	1	Sucrose; via carbonyl oxygen{EI10,EI11, EI12,EI13,EI14,EI15,EI16,EI17,EI18,EI19,EI9}
	Binding site	521	1	Sucrose PDB 1NJW PDB 2HHQ PDB 2HW3
	Binding site	579	1	Sucrose PDB 1NJW PDB 2HHQ PDB 2HW3
	Binding site	770	1	Sucrose PDB 2HVH
	Binding site	786	1	Sucrose PDB 2HHQ PDB 2HHT PDB 2HHU PDB 2HHV
	Binding site	790	1	Sucrose PDB 2HHQ PDB 2HHT PDB 2HHU PDB 2HHV

Sequences

	Sequence		Length	Mass (Da)
	Q5KWC1 [UniParc]. Last modified February 1, 2005. Version 1. Checksum: D50E58940CE21B01	FASTA	878	99,646
	10 20 30 40 50 60 MRLKKKLVLI DGSSVAYRAF FALPLLHNDK GIHTNAVYGF TMMLNKILAE EEPTHMLVAF 70 80 90 100 110 120 DAGKTTFRHE AFQEYKGGRQ QTPPELSEQF PLLRELLRAY RIPAYELENY EADDIIGTLA 130 140 150 160 170 180 ARAEQEGFEV KVISGDRDLT QLASPHVTVD ITKKGITDIE PYTPETVREK YGLTPEQIVD 190 200 210 220 230 240 LKGLMGDKSD NIPGVPGIGE KTAVKLLRQF GTVENVLASI DEIKGEKLKE TLRQHREMAL 250 260 270 280 290 300 LSKKLAAIRR DAPVELSLDD IVYQGEDREK VVALFKELGF QSFLEKMESP SSEEEKPLAK 310 320 330 340 350 360 MAFTLADRVT EEMLADKAAL VVEVVEENYH DAPIVGIAVV NEHGRFFLRP ETALADPQFV 370 380 390 400 410 420 AWLGDETKKK SMFDSKRAAV ALKWKGIELC GVSFDLLLAA YLLDPAQGVD DVAAAAKMKQ 430 440 450 460 470 480 YEAVRPDEAV YGKGAKRAVP DEPVLAEHLV RKAAAIWELE RPFLDELRRN EQDRLLVELE 490 500 510 520 530 540 QPLSSILAEM EFAGVKVDTK RLEQMGKELA EQLGTVEQRI YELAGQEFNI NSPKQLGVIL 550 560 570 580 590 600 FEKLQLPVLK KTKTGYSTSA DVLEKLAPYH EIVENILHYR QLGKLQSTYI EGLLKVVRPD 610 620 630 640 650 660 TKKVHTIFNQ ALTQTGRLSS TEPNLQNIPI RLEEGRKIRQ AFVPSESDWL IFAADYSQIE 670 680 690 700 710 720 LRVLAHIAED DNLMEAFRRD LDIHTKTAMD IFQVSEDEVT PNMRRQAKAV NFGIVYGISD 730 740 750 760 770 780 YGLAQNLNIS RKEAAEFIER YFESFPGVKR YMENIVQEAK QKGYVTTLLH RRRYLPDITS 790 800 810 820 830 840 RNFNVRSFAE RMAMNTPIQG SAADIIKKAM IDLNARLKEE RLQARLLLQV HDELILEAPK 850 860 870 EEMERLCRLV PEVMEQAVTL RVPLKVDYHY GSTWYDAK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Thermoadaptation trait revealed by the genome sequence of thermophilic Geobacillus kaustophilus." Takami H., Takaki Y., Chee G.-J., Nishi S., Shimamura S., Suzuki H., Matsui S., Uchiyama I. Nucleic Acids Res. 32:6292-6303(2004) [PubMed: 15576355] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: HTA426.
[2]	"Observing translesion synthesis of an aromatic amine DNA adduct by a high-fidelity DNA polymerase." Hsu G.W., Kiefer J.R., Burnouf D., Becherel O.J., Fuchs R.P., Beese L.S. J. Biol. Chem. 279:50280-50285(2004) [PubMed: 15385534] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.10 ANGSTROMS) OF 301-878 IN COMPLEX WITH SUCROSE.
[3]	"The structural basis for the mutagenicity of O(6)-methyl-guanine lesions." Warren J.J., Forsberg L.J., Beese L.S. Proc. Natl. Acad. Sci. U.S.A. 103:19701-19706(2006) [PubMed: 17179038] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.55 ANGSTROMS) OF 300-878 IN COMPLEX WITH MAGNESIUM AND SUCROSE.
[4]	"Structures of mismatch replication errors observed in a DNA polymerase." Johnson S.J., Beese L.S. Cell 116:803-816(2004) [PubMed: 15035983] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.90 ANGSTROMS) OF 299-878 IN COMPLEX WITH SUCROSE.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

BA000043 Genomic DNA. Translation: BAD77015.1.

RefSeq

YP_148583.1. NC_006510.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1NJW	X-ray	1.90	A	299-878	[»]
1UA0	X-ray	2.10	A	301-878	[»]
2HHQ	X-ray	1.80	A	300-878	[»]
2HHS	X-ray	1.80	A	300-878	[»]
2HHT	X-ray	2.05	A	300-878	[»]
2HHU	X-ray	1.80	A	300-878	[»]
2HHV	X-ray	1.55	A	300-878	[»]
2HHW	X-ray	1.88	A/D	299-878	[»]
2HVH	X-ray	2.49	A/D	300-878	[»]
2HVI	X-ray	1.98	A/D	300-878	[»]
2HW3	X-ray	1.98	A	300-878	[»]
3PV8	X-ray	1.52	A/D	287-878	[»]
3PX0	X-ray	1.73	A/D	287-878	[»]
3PX4	X-ray	1.58	A/D	287-878	[»]
3PX6	X-ray	1.59	A/D	287-878	[»]

ProteinModelPortal

Q5KWC1.

SMR

Q5KWC1. Positions 299-878.

ModBase

Search...

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

GeneID

3184068.

GenomeReviews

Gene locus GK2730 in contig BA000043_GR.

KEGG

gka:GK2730.

NMPDR

fig|235909.3.peg.2885.

PATRIC

21966931. VBIGeoKau81518_2914.

Organism-specific databases

CMR

Search...

Phylogenomic databases

HOGENOM

HBG284758.

OMA

PKGAPST.

ProtClustDB

PRK05755.

Family and domain databases

InterPro

IPR002562. 3'-5'_exonuclease_dom.
IPR020046. 5-3_exonucl_a-hlix_arch_N.
IPR020045. 5-3_exonuclease_C.
IPR002421. 5-3_exonuclease_N.
IPR019760. DNA-dir_DNA_pol_A_CS.
IPR001098. DNA-dir_DNA_pol_A_palm_dom.
IPR018320. DNA_polymerase_1.
IPR002298. DNA_polymerase_A.
IPR008918. HhH2.
IPR012337. RNaseH-like_dom.
[Graphical view]

KO

K02335.

Pfam

PF01367. 5_3_exonuc. 1 hit.
PF02739. 5_3_exonuc_N. 1 hit.
PF00476. DNA_pol_A. 1 hit.
[Graphical view]

PRINTS

PR00868. DNAPOLI.

SMART

SM00474. 35EXOc. 1 hit.
SM00475. 53EXOc. 1 hit.
SM00279. HhH2. 1 hit.
SM00482. POLAc. 1 hit.
[Graphical view]

SUPFAM

SSF47807. 5_3_exo_C. 1 hit.
SSF53098. RNaseH_fold. 1 hit.

TIGRFAMs

TIGR00593. Pola. 1 hit.

PROSITE

PS00447. DNA_POLYMERASE_A. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

Q5KWC1_GEOKA

Accession

Primary (citable) accession number: Q5KWC1

Entry history

Integrated into UniProtKB/TrEMBL:	February 1, 2005
Last sequence update:	February 1, 2005
Last modified:	December 14, 2011
This is version 65 of the entry and version 1 of the sequence. [Complete history]

Entry status

Unreviewed (UniProtKB/TrEMBL)