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Protein

DNA polymerase III subunit beta

Gene

dnaN

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. The beta chain is required for initiation of replication once it is clamped onto DNA, it slides freely (bidirectional and ATP-independent) along duplex DNA.

Catalytic activityi

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

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

DNA-directed DNA polymerase, Nucleotidyltransferase, Transferase

Keywords - Biological processi

DNA replication

Enzyme and pathway databases

BioCyciBSUB:BSU00020-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA polymerase III subunit beta (EC:2.7.7.7)
Gene namesi
Name:dnaN
Synonyms:dnaG
Ordered Locus Names:BSU00020
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
Proteomesi
  • UP000001570 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 378378DNA polymerase III subunit betaPRO_0000105424Add
BLAST

Proteomic databases

PaxDbiP05649.

Interactioni

Subunit structurei

Contains a core (composed of alpha, epsilon, and theta chains) that can repair short gaps created by nuclease in duplex DNA. For efficient replication of the long, single-stranded templates, pol III requires the auxiliary chains beta, gamma, and delta.

Protein-protein interaction databases

DIPiDIP-61105N.
IntActiP05649. 6 interactions.
MINTiMINT-8366930.
STRINGi224308.Bsubs1_010100000010.

Structurei

Secondary structure

1
378
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 65Combined sources
Helixi7 – 1812Combined sources
Helixi28 – 314Combined sources
Beta strandi32 – 376Combined sources
Beta strandi39 – 479Combined sources
Beta strandi49 – 6113Combined sources
Beta strandi67 – 715Combined sources
Beta strandi73 – 786Combined sources
Helixi79 – 879Combined sources
Beta strandi90 – 989Combined sources
Helixi100 – 1023Combined sources
Beta strandi103 – 1086Combined sources
Beta strandi111 – 1166Combined sources
Helixi120 – 1223Combined sources
Beta strandi135 – 1384Combined sources
Helixi139 – 1479Combined sources
Helixi150 – 1523Combined sources
Helixi160 – 1634Combined sources
Beta strandi164 – 1707Combined sources
Beta strandi173 – 1797Combined sources
Beta strandi181 – 19010Combined sources
Beta strandi199 – 2046Combined sources
Helixi205 – 21410Combined sources
Beta strandi221 – 2266Combined sources
Beta strandi228 – 2358Combined sources
Beta strandi238 – 2436Combined sources
Turni253 – 2553Combined sources
Beta strandi261 – 2677Combined sources
Helixi268 – 27811Combined sources
Turni279 – 2813Combined sources
Beta strandi290 – 2956Combined sources
Turni296 – 2983Combined sources
Beta strandi299 – 3068Combined sources
Turni307 – 3093Combined sources
Beta strandi310 – 3178Combined sources
Beta strandi319 – 3246Combined sources
Beta strandi326 – 3305Combined sources
Helixi332 – 34110Combined sources
Beta strandi344 – 3529Combined sources
Turni353 – 3553Combined sources
Beta strandi358 – 3614Combined sources
Beta strandi367 – 3726Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4TR6X-ray1.50A/B1-378[»]
ProteinModelPortaliP05649.
SMRiP05649. Positions 1-377.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Phylogenomic databases

eggNOGiENOG4105CZ8. Bacteria.
COG0592. LUCA.
HOGENOMiHOG000071792.
InParanoidiP05649.
KOiK02338.
OMAiTHQIRLK.
OrthoDBiEOG65J53F.
PhylomeDBiP05649.

Family and domain databases

InterProiIPR001001. DNA_polIII_beta.
IPR022635. DNA_polIII_beta_C.
IPR022637. DNA_polIII_beta_cen.
IPR022634. DNA_polIII_beta_N.
[Graphical view]
PfamiPF00712. DNA_pol3_beta. 1 hit.
PF02767. DNA_pol3_beta_2. 1 hit.
PF02768. DNA_pol3_beta_3. 1 hit.
[Graphical view]
PIRSFiPIRSF000804. DNA_pol_III_b. 1 hit.
SMARTiSM00480. POL3Bc. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00663. dnan. 1 hit.

Sequencei

Sequence statusi: Complete.

P05649-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKFTIQKDRL VESVQDVLKA VSSRTTIPIL TGIKIVASDD GVSFTGSDSD
60 70 80 90 100
ISIESFIPKE EGDKEIVTIE QPGSIVLQAR FFSEIVKKLP MATVEIEVQN
110 120 130 140 150
QYLTIIRSGK AEFNLNGLDA DEYPHLPQIE EHHAIQIPTD LLKNLIRQTV
160 170 180 190 200
FAVSTSETRP ILTGVNWKVE QSELLCTATD SHRLALRKAK LDIPEDRSYN
210 220 230 240 250
VVIPGKSLTE LSKILDDNQE LVDIVITETQ VLFKAKNVLF FSRLLDGNYP
260 270 280 290 300
DTTSLIPQDS KTEIIVNTKE FLQAIDRASL LAREGRNNVV KLSAKPAESI
310 320 330 340 350
EISSNSPEIG KVVEAIVADQ IEGEELNISF SPKYMLDALK VLEGAEIRVS
360 370
FTGAMRPFLI RTPNDETIVQ LILPVRTY
Length:378
Mass (Da):42,103
Last modified:November 1, 1988 - v1
Checksum:iC1F040B5D53026C8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X02369 Genomic DNA. Translation: CAA26218.1.
D26185 Genomic DNA. Translation: BAA05238.1.
AL009126 Genomic DNA. Translation: CAB11778.1.
X12779 Genomic DNA. Translation: CAA31271.1.
PIRiB22930.
RefSeqiNP_387883.1. NC_000964.3.
WP_003242509.1. NZ_JNCM01000034.1.

Genome annotation databases

EnsemblBacteriaiCAB11778; CAB11778; BSU00020.
GeneIDi939970.
KEGGibsu:BSU00020.
PATRICi18971451. VBIBacSub10457_0002.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X02369 Genomic DNA. Translation: CAA26218.1.
D26185 Genomic DNA. Translation: BAA05238.1.
AL009126 Genomic DNA. Translation: CAB11778.1.
X12779 Genomic DNA. Translation: CAA31271.1.
PIRiB22930.
RefSeqiNP_387883.1. NC_000964.3.
WP_003242509.1. NZ_JNCM01000034.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4TR6X-ray1.50A/B1-378[»]
ProteinModelPortaliP05649.
SMRiP05649. Positions 1-377.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-61105N.
IntActiP05649. 6 interactions.
MINTiMINT-8366930.
STRINGi224308.Bsubs1_010100000010.

Proteomic databases

PaxDbiP05649.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB11778; CAB11778; BSU00020.
GeneIDi939970.
KEGGibsu:BSU00020.
PATRICi18971451. VBIBacSub10457_0002.

Phylogenomic databases

eggNOGiENOG4105CZ8. Bacteria.
COG0592. LUCA.
HOGENOMiHOG000071792.
InParanoidiP05649.
KOiK02338.
OMAiTHQIRLK.
OrthoDBiEOG65J53F.
PhylomeDBiP05649.

Enzyme and pathway databases

BioCyciBSUB:BSU00020-MONOMER.

Family and domain databases

InterProiIPR001001. DNA_polIII_beta.
IPR022635. DNA_polIII_beta_C.
IPR022637. DNA_polIII_beta_cen.
IPR022634. DNA_polIII_beta_N.
[Graphical view]
PfamiPF00712. DNA_pol3_beta. 1 hit.
PF02767. DNA_pol3_beta_2. 1 hit.
PF02768. DNA_pol3_beta_3. 1 hit.
[Graphical view]
PIRSFiPIRSF000804. DNA_pol_III_b. 1 hit.
SMARTiSM00480. POL3Bc. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00663. dnan. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Structure and function of the region of the replication origin of the Bacillus subtilis chromosome. III. Nucleotide sequence of some 10,000 base pairs in the origin region."
    Moriya S., Ogasawara N., Yoshikawa H.
    Nucleic Acids Res. 13:2251-2265(1985) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Systematic sequencing of the 180 kilobase region of the Bacillus subtilis chromosome containing the replication origin."
    Ogasawara N., Nakai S., Yoshikawa H.
    DNA Res. 1:1-14(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 168.
  3. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
    Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
    , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
    Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 168.
  4. "Regulation of initiation of the chromosomal replication by DnaA-boxes in the origin region of the Bacillus subtilis chromosome."
    Moriya S., Fukuoka T., Ogasawara N., Yoshikawa H.
    EMBO J. 7:2911-2917(1988) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-29.
    Strain: 168 / PSL1.

Entry informationi

Entry nameiDPO3B_BACSU
AccessioniPrimary (citable) accession number: P05649
Secondary accession number(s): P11571
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: November 1, 1988
Last modified: February 17, 2016
This is version 117 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, Complete proteome, Reference proteome

Documents

  1. Bacillus subtilis
    Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references

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.