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Protein

Beta sliding clamp

Gene

dnaN

Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-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

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, DNA-directed DNA polymerase, Nucleotidyltransferase, Transferase
Biological processDNA replication

Enzyme and pathway databases

BioCyciHPY: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
OrganismiHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Taxonomic identifieri85962 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
Proteomesi
  • UP000000429 Componenti: Chromosome

Subcellular locationi

O25242:
  • Cytoplasm By similarity

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001054381 – 374Beta sliding clampAdd BLAST374

Proteomic databases

PaxDbiO25242.

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

WithEntry#Exp.IntActNotes
HP_0418O251723EBI-7532786,EBI-9262675

Protein-protein interaction databases

DIPiDIP-3288N.
IntActiO25242. 2 interactors.
MINTiMINT-176339.
STRINGi85962.HP0500.

Structurei

Secondary structure

1374
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 5Combined sources4
Helixi7 – 17Combined sources11
Helixi18 – 20Combined sources3
Helixi29 – 31Combined sources3
Beta strandi32 – 38Combined sources7
Beta strandi41 – 47Combined sources7
Beta strandi49 – 58Combined sources10
Beta strandi60 – 64Combined sources5
Beta strandi66 – 71Combined sources6
Helixi72 – 80Combined sources9
Beta strandi87 – 92Combined sources6
Beta strandi95 – 100Combined sources6
Beta strandi103 – 108Combined sources6
Helixi112 – 114Combined sources3
Beta strandi124 – 129Combined sources6
Helixi133 – 141Combined sources9
Helixi142 – 144Combined sources3
Helixi153 – 155Combined sources3
Beta strandi156 – 162Combined sources7
Turni163 – 166Combined sources4
Beta strandi167 – 173Combined sources7
Beta strandi175 – 183Combined sources9
Beta strandi188 – 200Combined sources13
Helixi201 – 210Combined sources10
Beta strandi212 – 219Combined sources8
Beta strandi221 – 227Combined sources7
Beta strandi229 – 236Combined sources8
Helixi245 – 247Combined sources3
Beta strandi254 – 260Combined sources7
Helixi261 – 271Combined sources11
Turni272 – 274Combined sources3
Beta strandi276 – 282Combined sources7
Beta strandi284 – 293Combined sources10
Beta strandi301 – 305Combined sources5
Beta strandi316 – 321Combined sources6
Helixi322 – 330Combined sources9
Beta strandi334 – 343Combined sources10
Beta strandi348 – 352Combined sources5
Turni353 – 356Combined sources4
Beta strandi360 – 362Combined sources3
Beta strandi366 – 369Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4RKIX-ray2.05A1-374[»]
4S3IX-ray1.95A/B1-374[»]
5FRQX-ray2.90A/B/C/D1-374[»]
5FVEX-ray2.07A1-374[»]
5FXTX-ray1.97A1-374[»]
5G48X-ray2.28A/B1-374[»]
5G4QX-ray2.30A/B1-374[»]
ProteinModelPortaliO25242.
SMRiO25242.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the beta sliding clamp family.Curated

Phylogenomic databases

eggNOGiENOG4105CZ8. Bacteria.
COG0592. LUCA.
KOiK02338.
OMAiNYEAVIP.

Family and domain databases

CDDicd00140. beta_clamp. 1 hit.
InterProiView protein in InterPro
IPR001001. DNA_polIII_beta.
IPR022635. DNA_polIII_beta_C.
IPR022637. DNA_polIII_beta_cen.
IPR022634. DNA_polIII_beta_N.
PANTHERiPTHR30478. PTHR30478. 1 hit.
PfamiView protein in Pfam
PF00712. DNA_pol3_beta. 1 hit.
PF02767. DNA_pol3_beta_2. 1 hit.
PF02768. DNA_pol3_beta_3. 1 hit.
SMARTiView protein in SMART
SM00480. POL3Bc. 1 hit.
TIGRFAMsiTIGR00663. dnan. 1 hit.

Sequencei

Sequence statusi: Complete.

O25242-1 [UniParc]FASTAAdd 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
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000511 Genomic DNA. Translation: AAD07565.1.
PIRiD64582.
RefSeqiNP_207297.1. NC_000915.1.
WP_000704186.1. NC_018939.1.

Genome annotation databases

EnsemblBacteriaiAAD07565; AAD07565; HP_0500.
GeneIDi899259.
KEGGiheo:C694_02570.
hpy:HP0500.
PATRICifig|85962.47.peg.538.

Similar proteinsi

Entry informationi

Entry nameiDPO3B_HELPY
AccessioniPrimary (citable) accession number: O25242
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: January 1, 1998
Last modified: October 25, 2017
This is version 109 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Helicobacter pylori
    Helicobacter pylori (strain 26695): entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families