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Protein

Replication factor C small subunit

Gene

rfcS

Organism
Thermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA.1 Publication

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

DNA replication

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciTKOD69014:GH72-2264-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Replication factor C small subunit
Short name:
RFC small subunit
Alternative name(s):
Clamp loader small subunit
Cleaved into the following chain:
Gene namesi
Name:rfcS
Ordered Locus Names:TK2218
OrganismiThermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Taxonomic identifieri69014 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
ProteomesiUP000000536 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 5959Replication factor C small subunit, 1st partSequence AnalysisPRO_0000030382Add
BLAST
Chaini60 – 599540Pko RFC inteinSequence AnalysisPRO_0000030383Add
BLAST
Chaini600 – 866267Replication factor C small subunit, 2nd partSequence AnalysisPRO_0000030384Add
BLAST

Post-translational modificationi

This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation.Curated

Keywords - PTMi

Autocatalytic cleavage, Protein splicing

Interactioni

Subunit structurei

Heteromultimer composed of small subunits (RfcS) and large subunits (RfcL).By similarity

Protein-protein interaction databases

STRINGi69014.TK2218.

Structurei

3D structure databases

ProteinModelPortaliQ5JHP2.
SMRiQ5JHP2. Positions 2-59, 586-866.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini183 – 313131DOD-type homing endonucleasePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 DOD-type homing endonuclease domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG1372.
HOGENOMiHOG000154101.
InParanoidiQ5JHP2.
KOiK04801.
OMAiRFMELTE.

Family and domain databases

Gene3Di1.10.260.40. 1 hit.
2.170.16.10. 2 hits.
3.10.28.10. 1 hit.
3.40.50.300. 2 hits.
InterProiIPR001387. Cro/C1-type_HTH.
IPR008824. DNA_helicase_Holl-junc_RuvB_N.
IPR008921. DNA_pol3_clamp-load_cplx_C.
IPR028992. Hedgehog/Intein_dom.
IPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR027434. Homing_endonucl.
IPR006142. INTEIN.
IPR030934. Intein_C.
IPR004042. Intein_endonuc.
IPR006141. Intein_N.
IPR010982. Lambda_DNA-bd_dom.
IPR027417. P-loop_NTPase.
IPR013748. Rep_factorC_C_dom.
[Graphical view]
PfamiPF01381. HTH_3. 1 hit.
PF14528. LAGLIDADG_3. 1 hit.
PF08542. Rep_fac_C. 1 hit.
PF05496. RuvB_N. 1 hit.
[Graphical view]
PRINTSiPR00379. INTEIN.
SMARTiSM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
SM00530. HTH_XRE. 1 hit.
[Graphical view]
SUPFAMiSSF47413. SSF47413. 1 hit.
SSF48019. SSF48019. 1 hit.
SSF51294. SSF51294. 2 hits.
SSF52540. SSF52540. 2 hits.
SSF55608. SSF55608. 1 hit.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q5JHP2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSEEVKEVKI LEKPWVEKYR PQRLEDIVGQ DHIVKRLKHY VKTGSMPHLL
60 70 80 90 100
FAGPPGVGKC LTGDAKVIAN GRLFELGELV EKVSKGRFGP TPVEGLKVLG
110 120 130 140 150
IDEDGKLREF EVQYVYKDRA ERLIKVRTRL GRELKVTPYH PLLVNRKNGE
160 170 180 190 200
IMWVKAEELR PGDRLAVPRF LPAIAEEDPL AEWLGYFIGD GHADSKNKVI
210 220 230 240 250
TFTNTDPSLR QRFMELTERL FPDAKIRERI HKNRAPDVYV NSRRAWELVS
260 270 280 290 300
SLGLAGRKAD KVYIPEKGWE GIRSFLRAYF DCDAGVDKNA VVLATASREM
310 320 330 340 350
AEQVTYALAG FGITSKIREK KVRGKTYYHV TISGSENLER FLSEIGFSHR
360 370 380 390 400
EKLERTLKLV KKPNPNLDSL NVNYELISYV RDRLKLNFSD DKRSWSHRKA
410 420 430 440 450
RKISWELMKE IYYRLDELER LKESLSRSIL IDWNEMAERR KEIAEKTGIR
460 470 480 490 500
ADRLLEYIKG KRKPSLRNYI KIAKALGIDL EPTINAMRVF ARKYSSYAEI
510 520 530 540 550
GRKLGTWNSS VRIILESNTE KIKELEEIRK IELELIGEIL SDEKLKEGVA
560 570 580 590 600
YLIFLSQNEL YWDEITEVKE LKGDFVIYDL HVPGYHNFIA GNMPTVVHNT
610 620 630 640 650
TAALALAREL FGENWRHNFL ELNASDERGI NVIREKVKEF ARTKPIGGAS
660 670 680 690 700
FKIIFLDEAD ALTQDAQQAL RRTMEMFSNN VRFILSCNYS SKIIEPIQSR
710 720 730 740 750
CAIFRFRPLR DEDIAKRIRY IAENEGLELT EEGLQAILYV AEGDLRRAIN
760 770 780 790 800
VLQAAAALDT KITDENVFLV ASRARPEDVR EMMTLALEGN FLKAREKLRD
810 820 830 840 850
ILLRQGLSGE DVLIQMHKEV FNLPIPEDKK VALADKIGEY NFRLVEGANE
860
MIQLEALLAQ FTIMGK
Length:866
Mass (Da):99,691
Last modified:February 15, 2005 - v1
Checksum:i0E9386BB07638F0D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006878 Genomic DNA. Translation: BAD86407.1.
RefSeqiWP_011251168.1. NC_006624.1.
YP_184631.1. NC_006624.1.

Genome annotation databases

EnsemblBacteriaiBAD86407; BAD86407; TK2218.
GeneIDi3234370.
KEGGitko:TK2218.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006878 Genomic DNA. Translation: BAD86407.1.
RefSeqiWP_011251168.1. NC_006624.1.
YP_184631.1. NC_006624.1.

3D structure databases

ProteinModelPortaliQ5JHP2.
SMRiQ5JHP2. Positions 2-59, 586-866.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi69014.TK2218.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAD86407; BAD86407; TK2218.
GeneIDi3234370.
KEGGitko:TK2218.

Phylogenomic databases

eggNOGiCOG1372.
HOGENOMiHOG000154101.
InParanoidiQ5JHP2.
KOiK04801.
OMAiRFMELTE.

Enzyme and pathway databases

BioCyciTKOD69014:GH72-2264-MONOMER.

Family and domain databases

Gene3Di1.10.260.40. 1 hit.
2.170.16.10. 2 hits.
3.10.28.10. 1 hit.
3.40.50.300. 2 hits.
InterProiIPR001387. Cro/C1-type_HTH.
IPR008824. DNA_helicase_Holl-junc_RuvB_N.
IPR008921. DNA_pol3_clamp-load_cplx_C.
IPR028992. Hedgehog/Intein_dom.
IPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR027434. Homing_endonucl.
IPR006142. INTEIN.
IPR030934. Intein_C.
IPR004042. Intein_endonuc.
IPR006141. Intein_N.
IPR010982. Lambda_DNA-bd_dom.
IPR027417. P-loop_NTPase.
IPR013748. Rep_factorC_C_dom.
[Graphical view]
PfamiPF01381. HTH_3. 1 hit.
PF14528. LAGLIDADG_3. 1 hit.
PF08542. Rep_fac_C. 1 hit.
PF05496. RuvB_N. 1 hit.
[Graphical view]
PRINTSiPR00379. INTEIN.
SMARTiSM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
SM00530. HTH_XRE. 1 hit.
[Graphical view]
SUPFAMiSSF47413. SSF47413. 1 hit.
SSF48019. SSF48019. 1 hit.
SSF51294. SSF51294. 2 hits.
SSF52540. SSF52540. 2 hits.
SSF55608. SSF55608. 1 hit.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes."
    Fukui T., Atomi H., Kanai T., Matsumi R., Fujiwara S., Imanaka T.
    Genome Res. 15:352-363(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-918 / JCM 12380 / KOD1.
  2. "Gene cloning and function analysis of replication factor C from Thermococcus kodakaraensis KOD1."
    Kitabayashi M., Nishiya Y., Esaka M., Itakura M., Imanaka T.
    Biosci. Biotechnol. Biochem. 67:2373-2380(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 1-6, FUNCTION.
    Strain: ATCC BAA-918 / JCM 12380 / KOD1.

Entry informationi

Entry nameiRFCS_THEKO
AccessioniPrimary (citable) accession number: Q5JHP2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 29, 2005
Last sequence update: February 15, 2005
Last modified: May 27, 2015
This is version 76 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

The intein interrupts the potential ATP-binding site.

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Intein-containing proteins
    List of intein-containing protein entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.