UniProtKB - O25242 (DPO3B_HELPY)

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History
Entry version 111 (28 Feb 2018)
Sequence version 1 (01 Jan 1998)
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Protein

Beta sliding clamp

Gene

dnaN

Organism

Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

Status

Reviewed-Annotation score: -Experimental evidence at protein levelⁱ

Functionⁱ

Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP-independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of replication as well as for processivity of DNA replication.By similarity

GO - Molecular functionⁱ

3'-5' exonuclease activity Source: InterPro
DNA binding Source: UniProtKB-KW
DNA-directed DNA polymerase activity Source: UniProtKB-KW

View the complete GO annotation on QuickGO ...

GO - Biological processⁱ

DNA replication Source: UniProtKB-KW

View the complete GO annotation on QuickGO ...

Keywordsⁱ

Molecular function	DNA-binding, DNA-directed DNA polymerase, Nucleotidyltransferase, Transferase
Biological process	DNA replication

Enzyme and pathway databases

BioCycⁱ	HPY:HP0500-MONOMER

BioCycⁱ

HPY:HP0500-MONOMER

Names & Taxonomyⁱ

Protein namesⁱ	Recommended name: Beta sliding clamp Short name: Beta clamp Short name: Sliding clamp Alternative name(s): Beta-clamp processivity factor DNA polymerase III beta sliding clamp subunit DNA polymerase III subunit beta
Gene namesⁱ	Name:dnaN Ordered Locus Names:HP_0500
Organismⁱ	Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Taxonomic identifierⁱ	85962 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Bacteria › Proteobacteria › delta/epsilon subdivisions › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter › Helicobacter pylori
Proteomesⁱ	UP000000429 Componentⁱ: Chromosome

Subcellular locationⁱ

Cytoplasm
By similarity
Manual assertion inferred from sequence similarity toⁱ
- UniProtKB:P0A988 (DPO3B_ECOLI)

GO - Cellular componentⁱ

cytoplasm Source: UniProtKB-SubCell
DNA polymerase III complex Source: InterPro

View the complete GO annotation on QuickGO ...

Keywords - Cellular componentⁱ

Cytoplasm

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Graphical view	Length
ChainⁱPRO_0000105438	1 – 374	Beta sliding clampAdd BLAST		374

Proteomic databases

PaxDbⁱ	O25242

PaxDbⁱ

O25242

Interactionⁱ

Subunit structureⁱ

Forms a ring-shaped head-to-tail homodimer around DNA which binds and tethers DNA polymerases and other proteins to the DNA. The DNA replisome complex has a single clamp-loading complex (3 tau and 1 each of delta, delta', psi and chi subunits) which binds 3 Pol III cores (1 core on the leading strand and 2 on the lagging strand) each with a beta sliding clamp dimer. Additional proteins in the replisome are other copies of gamma, psi and chi, Ssb, DNA helicase and RNA primase.By similarity

Binary interactionsⁱ

With	Entry	#Exp.	IntAct	Notes
HP_0418	O25172	3	EBI-7532786,EBI-9262675

With

Entry

#Exp.

IntAct

Notes

HP_0418

O25172

EBI-7532786,EBI-9262675

Protein-protein interaction databases

Database of interacting proteins More...DIPⁱ	DIP-3288N
IntActⁱ	O25242, 2 interactors
Molecular INTeraction database More...MINTⁱ	O25242
STRINGⁱ	85962.HP0500

Structureⁱ

Secondary structure

Legend: HelixTurnBeta strandPDB Structure known for this area

Show more details

Feature key	Position(s)	DescriptionActions	Length
Beta strandⁱ	2 – 5	Combined sources	4
Helixⁱ	7 – 17	Combined sources	11
Helixⁱ	18 – 20	Combined sources	3
Helixⁱ	29 – 31	Combined sources	3
Beta strandⁱ	32 – 38	Combined sources	7
Beta strandⁱ	41 – 47	Combined sources	7
Beta strandⁱ	49 – 58	Combined sources	10
Beta strandⁱ	60 – 64	Combined sources	5
Beta strandⁱ	66 – 71	Combined sources	6
Helixⁱ	72 – 80	Combined sources	9
Beta strandⁱ	87 – 92	Combined sources	6
Beta strandⁱ	95 – 100	Combined sources	6
Beta strandⁱ	103 – 108	Combined sources	6
Helixⁱ	112 – 114	Combined sources	3
Beta strandⁱ	124 – 129	Combined sources	6
Helixⁱ	133 – 141	Combined sources	9
Helixⁱ	142 – 144	Combined sources	3
Helixⁱ	153 – 155	Combined sources	3
Beta strandⁱ	156 – 162	Combined sources	7
Turnⁱ	163 – 166	Combined sources	4
Beta strandⁱ	167 – 173	Combined sources	7
Beta strandⁱ	175 – 183	Combined sources	9
Beta strandⁱ	188 – 200	Combined sources	13
Helixⁱ	201 – 210	Combined sources	10
Beta strandⁱ	212 – 219	Combined sources	8
Beta strandⁱ	221 – 227	Combined sources	7
Beta strandⁱ	229 – 236	Combined sources	8
Helixⁱ	245 – 247	Combined sources	3
Beta strandⁱ	254 – 260	Combined sources	7
Helixⁱ	261 – 271	Combined sources	11
Turnⁱ	272 – 274	Combined sources	3
Beta strandⁱ	276 – 282	Combined sources	7
Beta strandⁱ	284 – 293	Combined sources	10
Beta strandⁱ	301 – 305	Combined sources	5
Beta strandⁱ	316 – 321	Combined sources	6
Helixⁱ	322 – 330	Combined sources	9
Beta strandⁱ	334 – 343	Combined sources	10
Beta strandⁱ	348 – 352	Combined sources	5
Turnⁱ	353 – 356	Combined sources	4
Beta strandⁱ	360 – 362	Combined sources	3
Beta strandⁱ	366 – 369	Combined sources	4

3D structure databases

Select the link destinations: Protein Data Bank Europe More...PDBeⁱ Protein Data Bank RCSB More...RCSB PDBⁱ Protein Data Bank Japan More...PDBjⁱ Links Updated	PDB entry	Method	Resolution (Å)	Chain	Positions	PDBsum
	4RKI	X-ray	2.05	A	1-374	[»]
	4S3I	X-ray	1.95	A/B	1-374	[»]
	5FRQ	X-ray	2.90	A/B/C/D	1-374	[»]
	5FVE	X-ray	2.07	A	1-374	[»]
	5FXT	X-ray	1.97	A	1-374	[»]
	5G48	X-ray	2.28	A/B	1-374	[»]
	5G4Q	X-ray	2.30	A/B	1-374	[»]
ProteinModelPortalⁱ	O25242
SMRⁱ	O25242
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Family & Domainsⁱ

Sequence similaritiesⁱ

Belongs to the beta sliding clamp family.Curated

Phylogenomic databases

eggNOGⁱ	ENOG4105CZ8 Bacteria COG0592 LUCA
KEGG Orthology (KO) More...KOⁱ	K02338
OMAⁱ	NYEAVIP

Family and domain databases

Conserved Domains Database More...CDDⁱ	cd00140 beta_clamp, 1 hit
InterProⁱ	View protein in InterPro IPR001001 DNA_polIII_beta IPR022635 DNA_polIII_beta_C IPR022637 DNA_polIII_beta_cen IPR022634 DNA_polIII_beta_N
PANTHERⁱ	PTHR30478 PTHR30478, 1 hit
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF00712 DNA_pol3_beta, 1 hit PF02767 DNA_pol3_beta_2, 1 hit PF02768 DNA_pol3_beta_3, 1 hit
SMARTⁱ	View protein in SMART SM00480 POL3Bc, 1 hit
TIGRFAMsⁱ	TIGR00663 dnan, 1 hit

Sequenceⁱ

Sequence statusⁱ: Complete.

O25242-1 [UniParc]FASTA Add to basket

« Hide

        10         20         30         40         50
MKISVSKNDL ENALRYLQAF LDKKDASSIA SHIHLEVIKE KLFLKASDSD 
        60         70         80         90        100
IGLKSYIFTQ SSDKEGVGTI NGKKFLDIIS CLKDSNIILE TKDDSLAIKQ 
       110        120        130        140        150
NKSSFKLPMF DADEFPEFPV IDPKVSIEVN APFLVDAFKK IAPVIEQTSH 
       160        170        180        190        200
KRELAGILMQ FDQKHQTLSV VGTDTKRLSY TQLEKISIHS TEEDISCILP 
       210        220        230        240        250
KRALLEILKL FYENFSFKSD GMLAVIENEM HTFFTKLIDG NYPDYQKILP 
       260        270        280        290        300
KEYISSFTLG KEEFKESIKL CSSLSSTIKL TLEKNNALFE SLDSEHSETA 
       310        320        330        340        350
KTSVEIEKGL DIEKAFHLGV NAKFFLEALN ALGTTQFVLR CNEPSSPFLI 
       360        370 
QESLDEKQSH LNAKISTLMM PITL

Length:374

Mass (Da):42,185

Last modified:January 1, 1998 - v1

Checksum:ⁱ5C1FE1C6290FDE6C

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	AE000511 Genomic DNA Translation: AAD07565.1
PIRⁱ	D64582
NCBI Reference Sequences More...RefSeqⁱ	NP_207297.1, NC_000915.1 WP_000704186.1, NC_018939.1

Genome annotation databases

EnsemblBacteriaⁱ	AAD07565; AAD07565; HP_0500
GeneIDⁱ	899259
KEGGⁱ	heo:C694_02570 hpy:HP0500
PATRICⁱ	fig\|85962.47.peg.538

Protein	Similar proteins		Species	Score	Length
O25242	DNA polymerase III subunit beta		HELPX		374
DNA polymerase III subunit beta		Helicobacter pylori SS1		374
UPI00076354C6		HELPY		384
DNA polymerase III, beta subunit		Helicobacter pylori Hp A-14		375
Beta sliding clamp		HELPJ		374
+605

Protein	Similar proteins		Species	Score	Length
O25242	DNA polymerase III subunit beta		HELPX		374
DNA polymerase III subunit beta		Helicobacter pylori SS1		374
UPI00076354C6		HELPY		384
DNA polymerase III, beta subunit		Helicobacter pylori Hp A-14		375
DNA polymerase III, beta subunit		Helicobacter pylori Hp P-25d		374
+612

PaxDbⁱ	O25242

The DNASU plasmid repository More...DNASUⁱ	899259
Structural Biology Knowledgebase	Search...

BioCycⁱ	HPY:HP0500-MONOMER

Entry informationⁱ

Entry nameⁱ	DPO3B_HELPY
Accessionⁱ	O25242Primary (citable) accession number: O25242
Entry historyⁱ	Integrated into UniProtKB/Swiss-Prot:	December 15, 1998
	Last sequence update:	January 1, 1998
	Last modified:	February 28, 2018
	This is version 111 of the entry and version 1 of the sequence. See complete history.
Entry statusⁱ	Reviewed (UniProtKB/Swiss-Prot)
Annotation program	Prokaryotic Protein Annotation Program

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UniProtKB - O25242 (DPO3B_HELPY)

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Beta sliding clamp

dnaN

Select a section on the left to see content.

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Biological processi

Enzyme and pathway databases

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Cellular componenti

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Proteomic databases

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

Family and domain databases

Sequence databases

Genome annotation databases

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

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Functionⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

GO - Cellular componentⁱ

PTM / Processingⁱ

Interactionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ