Q5JHP2 (RFCS_PYRKO) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Replication factor C small subunit
Short name=RFC small subunit

Alternative name(s):
Clamp loader small subunit

Cleaved into the following chain:

1. Pko RFC intein

Gene names

Name:	rfcS
Ordered Locus Names:	TK2218

Organism

Pyrococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Thermococcus kodakaraensis (strain KOD1)) [Reference proteome] [HAMAP]

Taxonomic identifier

69014 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Thermococcus › Thermococcus kodakarensis

Protein attributes

Sequence length	866 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA Probable. Ref.2
Subunit structure	Heteromultimer composed of small subunits (RfcS) and large subunits (RfcL) By similarity.
Post-translational modification	This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation Potential. HAMAP-Rule MF_01509
Miscellaneous	The intein interrupts the potential ATP-binding site. HAMAP-Rule MF_01509
Sequence similarities	Belongs to the activator 1 small subunits family. RfcS subfamily. Contains 1 DOD-type homing endonuclease domain.

Ontologies

Keywords
Biological process	DNA replication
Ligand	ATP-binding Nucleotide-binding
PTM	Autocatalytic cleavage Protein splicing
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	DNA recombination Inferred from electronic annotation. Source: InterPro DNA repair Inferred from electronic annotation. Source: InterPro DNA replication Inferred from electronic annotation. Source: UniProtKB-KW intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW endonuclease activity Inferred from electronic annotation. Source: InterPro four-way junction helicase activity Inferred from electronic annotation. Source: InterPro sequence-specific DNA binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 59	59	Replication factor C small subunit, 1st part Potential		PRO_0000030382
	Chain	60 – 599	540	Pko RFC intein Potential		PRO_0000030383
	Chain	600 – 866	267	Replication factor C small subunit, 2nd part Potential		PRO_0000030384
Regions
	Domain	183 – 313	131	DOD-type homing endonuclease

Sequences

	Sequence		Length	Mass (Da)
	Q5JHP2 [UniParc]. Last modified February 15, 2005. Version 1. Checksum: 0E9386BB07638F0D	FASTA	866	99,691
	10 20 30 40 50 60 MSEEVKEVKI LEKPWVEKYR PQRLEDIVGQ DHIVKRLKHY VKTGSMPHLL FAGPPGVGKC 70 80 90 100 110 120 LTGDAKVIAN GRLFELGELV EKVSKGRFGP TPVEGLKVLG IDEDGKLREF EVQYVYKDRA 130 140 150 160 170 180 ERLIKVRTRL GRELKVTPYH PLLVNRKNGE IMWVKAEELR PGDRLAVPRF LPAIAEEDPL 190 200 210 220 230 240 AEWLGYFIGD GHADSKNKVI TFTNTDPSLR QRFMELTERL FPDAKIRERI HKNRAPDVYV 250 260 270 280 290 300 NSRRAWELVS SLGLAGRKAD KVYIPEKGWE GIRSFLRAYF DCDAGVDKNA VVLATASREM 310 320 330 340 350 360 AEQVTYALAG FGITSKIREK KVRGKTYYHV TISGSENLER FLSEIGFSHR EKLERTLKLV 370 380 390 400 410 420 KKPNPNLDSL NVNYELISYV RDRLKLNFSD DKRSWSHRKA RKISWELMKE IYYRLDELER 430 440 450 460 470 480 LKESLSRSIL IDWNEMAERR KEIAEKTGIR ADRLLEYIKG KRKPSLRNYI KIAKALGIDL 490 500 510 520 530 540 EPTINAMRVF ARKYSSYAEI GRKLGTWNSS VRIILESNTE KIKELEEIRK IELELIGEIL 550 560 570 580 590 600 SDEKLKEGVA YLIFLSQNEL YWDEITEVKE LKGDFVIYDL HVPGYHNFIA GNMPTVVHNT 610 620 630 640 650 660 TAALALAREL FGENWRHNFL ELNASDERGI NVIREKVKEF ARTKPIGGAS FKIIFLDEAD 670 680 690 700 710 720 ALTQDAQQAL RRTMEMFSNN VRFILSCNYS SKIIEPIQSR CAIFRFRPLR DEDIAKRIRY 730 740 750 760 770 780 IAENEGLELT EEGLQAILYV AEGDLRRAIN VLQAAAALDT KITDENVFLV ASRARPEDVR 790 800 810 820 830 840 EMMTLALEGN FLKAREKLRD ILLRQGLSGE DVLIQMHKEV FNLPIPEDKK VALADKIGEY 850 860 NFRLVEGANE MIQLEALLAQ FTIMGK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AP006878 Genomic DNA. Translation: BAD86407.1.
RefSeq	YP_184631.1. NC_006624.1.
3D structure databases
ProteinModelPortal	Q5JHP2.
SMR	Q5JHP2. Positions 2-59, 586-866.
ModBase	Search...
Protein-protein interaction databases
STRING	69014.TK2218.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	BAD86407; BAD86407; TK2218.
GeneID	3234370.
KEGG	tko:TK2218.
Phylogenomic databases
eggNOG	COG1372.
HOGENOM	HOG000154101.
KO	K04801.
OMA	RFMELTE.
ProtClustDB	PRK04132.
Enzyme and pathway databases
BioCyc	TKOD69014:GH72-2264-MONOMER.
Family and domain databases
Gene3D	1.10.260.40. 1 hit. 3.10.28.10. 1 hit.
HAMAP	MF_01509. RfcS. Divergent sequence.
InterPro	IPR008824. DNA_helicase_Holl-junc_RuvB_N. IPR008921. DNA_pol3_clamp-load_cplx_C. IPR003586. Hint_dom_C. IPR003587. Hint_dom_N. IPR027434. Homing_endonucl. IPR001387. HTH. IPR006142. INTEIN. IPR004042. Intein_endonuc. IPR006141. Intein_splice_site. IPR010982. Lambda_DNA-bd_dom. IPR027417. P-loop_NTPase. IPR013748. Rep_factorC_C_dom. [Graphical view]
Pfam	PF01381. HTH_3. 1 hit. PF08542. Rep_fac_C. 1 hit. PF05496. RuvB_N. 1 hit. [Graphical view]
PRINTS	PR00379. INTEIN.
SMART	SM00305. HintC. 1 hit. SM00306. HintN. 1 hit. SM00530. HTH_XRE. 1 hit. [Graphical view]
SUPFAM	SSF47413. Lambda_like_DNA. 1 hit. SSF48019. Pol_clamp_load_C. 1 hit. SSF52540. SSF52540. 2 hits. SSF55608. SSF55608. 1 hit.
TIGRFAMs	TIGR01443. intein_Cterm. 1 hit. TIGR01445. intein_Nterm. 1 hit.
PROSITE	PS50818. INTEIN_C_TER. 1 hit. PS50819. INTEIN_ENDONUCLEASE. 1 hit. PS50817. INTEIN_N_TER. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RFCS_PYRKO

Accession

Primary (citable) accession number: Q5JHP2

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 29, 2005
Last sequence update:	February 15, 2005
Last modified:	May 29, 2013
This is version 64 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program