Reviewed, UniProtKB/Swiss-Prot Q58817 (RFCS_METJA)

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 3 chains:
    1- Recommended name:
            Mja RFC-1 intein
    2- Recommended name:
            Mja RFC-2 intein
    3- Recommended name:
            Mja RFC-3 intein

Gene names

Name:	rfcS
Ordered Locus Names:	MJ1422

Organism

Methanocaldococcus jannaschii (Methanococcus jannaschii) [Complete proteome] [HAMAP]

Taxonomic identifier

2190 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Methanococci › Methanococcales › Methanocaldococcaceae › Methanocaldococcus

Protein attributes

Sequence length	1847 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology.

General annotation (Comments)

Function	Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA By similarity.
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.
Miscellaneous	The intein interrupts the potential ATP-binding site. HAMAP MF_01509
Sequence similarities	Belongs to the activator 1 small subunits family. RfcS subfamily. Contains 3 DOD-type homing endonuclease domains.

Ontologies

Keywords
Biological process	DNA replication
Domain	Repeat
Ligand	ATP-binding Nucleotide-binding
PTM	Autocatalytic cleavage Protein splicing
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	DNA replication Inferred from electronic annotation. Source: HAMAP intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro
Cellular component	DNA replication factor C complex Inferred from electronic annotation. Source: InterPro
Molecular function	ATP binding Inferred from electronic annotation. Source: HAMAP DNA clamp loader activity Inferred from electronic annotation. Source: HAMAP endonuclease 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 – 53	53	Replication factor C small subunit, 1st part Potential		PRO_0000030361
	Chain	54 – 601	548	Mja RFC-1 intein Potential		PRO_0000030362
	Chain	602 – 626	25	Replication factor C small subunit, 2nd part Potential		PRO_0000030363
	Chain	627 – 1062	436	Mja RFC-2 intein Potential		PRO_0000030364
	Chain	1063 – 1124	62	Replication factor C small subunit, 3rd part Potential		PRO_0000030365
	Chain	1125 – 1667	543	Mja RFC-3 intein Potential		PRO_0000030366
	Chain	1668 – 1847	180	Replication factor C small subunit, 4th part Potential		PRO_0000030367
Regions
	Domain	179 – 311	133	DOD-type homing endonuclease 1
	Domain	780 – 927	148	DOD-type homing endonuclease 2
	Domain	1348 – 1508	161	DOD-type homing endonuclease 3

Sequences

	Sequence		Length	Mass (Da)
	Q58817-1 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 44EADB5B4D6DE64A	FASTA	1,847	214,097
	10 20 30 40 50 60 MVIIMEKPWV EKYRPKTLDD IVGQDEIVKR LKKYVEKKSM PHLLFSGPPG VGKCLTGDTK 70 80 90 100 110 120 VIVNGEIREI GEVIEEISNG KFGVTLTNNL KVLGIDEDGK IREFDVQYVY KDKTNTLIKI 130 140 150 160 170 180 KTKMGRELKV TTYHPLLINH KNGEIKWEKA ENLKVGDKLA TPRYILFNES DYNEELAEWL 190 200 210 220 230 240 GYFIGDGHAD KESNKITFTN GDEKLRKRFA ELTEKLFKDA KIKERIHKDR TPDIYVNSKE 250 260 270 280 290 300 AVEFIDKLGL RGKKADKVRI PKEIMRSDAL RAFLRAYFDC DGGIEKHSIV LSTASKEMAE 310 320 330 340 350 360 DLVYALLRFG IIAKLREKVN KNNNKVYYHI VISNSSNLRT FLDNIGFSQE RKLKKLLEII 370 380 390 400 410 420 KDENPNLDVI TIDKEKIRYI RDRLKVKLTR DIEKDNWSYN KCRKITQELL KEIYYRLEEL 430 440 450 460 470 480 KEIEKALEEN ILIDWDEVAE RRKEIAEKTG IRSDRILEYI RGKRKPSLKN YIKIANTLGK 490 500 510 520 530 540 NIEKIIDAMR IFAKKYSSYA EIGKMLNMWN SSIKIYLESN TQEIEKLEEI RKTELKLVKE 550 560 570 580 590 600 ILNDEKLIDS IGYVLFLASN EIYWDEIVEI EQLNGEFTIY DLHVPRYHNF IGGNLPTILH 610 620 630 640 650 660 NTTAALCLAR DLFGENWRDN FLELNASVSK DTPILVKIDG KVKRTTFEEL DKIYFETNDE 670 680 690 700 710 720 NEMYKKVDNL EVLTVDENFR VRWRKVSTII RHKVDKILRI KFEGGYIELT GNHSIMMLDE 730 740 750 760 770 780 NGLVAKKASD IKVGDCFLSF VANIEGEKDR LDLKEFEPKD ITSRVKIIND FDIDEDTAWM 790 800 810 820 830 840 LGLYVAEGAV GFKGKTSGQV IYTLGSHEHD LINKLNDIVD KKGFSKYENF TGSGFDRKRL 850 860 870 880 890 900 SAKQIRILNT QLARFVEENF YDGNGRRARN KRIPDIIFEL KENLRVEFLK GLADGDSSGN 910 920 930 940 950 960 WREVVRISSK SDNLLIDTVW LARISGIESS IFENEARLIW KGGMKWKKSN LLPAEPIIKM 970 980 990 1000 1010 1020 IKKLENKING NWRYILRHQL YEGKKRVSKD KIKQILEMVN VEKLSDKEKE VYDLLKKLSK 1030 1040 1050 1060 1070 1080 TELYALVVKE IEIIDYNDFV YDVSVPNNEM FFAGNVPILL HNSDERGIDV IRTKVKDFAR 1090 1100 1110 1120 1130 1140 TKPIGDVPFK IIFLDESDAL TADAQNALRR TMEKYSDVCR FILSCLTGDA KITLPDEREI 1150 1160 1170 1180 1190 1200 KIEDFIKMFE ERKLKHVLNR NGEDLVLAGV KFNSKIVNHK VYRLVLESGR EIEATGDHKF 1210 1220 1230 1240 1250 1260 LTRDGWKEVY ELKEDDEVLV YPALEGVGFE VDERRIIGLN EFYEFLTNYE IKLGYKPLGK 1270 1280 1290 1300 1310 1320 AKSYKELITR DKEKILSRVL ELSDKYSKSE IRRKIEEEFG IKISLTTIKN LINGKIDGFA 1330 1340 1350 1360 1370 1380 LKYVRKIKEL GWDEITYDDE KAGIFARLLG FIIGDGHLSK SKEGRILITA TINELEGIKK 1390 1400 1410 1420 1430 1440 DLEKLGIKAS NIIEKDIEHK LDGREIKGKT SFIYINNKAF YLLLNFWGVE IGNKTINGYN 1450 1460 1470 1480 1490 1500 IPKWIKYGNK FVKREFLRGL FGADGTKPYI KKYNINGIKL GIRVENISKD KTLEFFEEVK 1510 1520 1530 1540 1550 1560 KMLEEFEVES YIKVSKIDNK NLTELIVKAN NKNYLKYLSR ISYAYEKDNF ARLVGEYLRI 1570 1580 1590 1600 1610 1620 KEAYKDIILK EIAENALKEA DGEKSLRELA RKYNVPVDFI INQLKGKDIG LPRNFMTFEE 1630 1640 1650 1660 1670 1680 FLKEKVVDGK YVSERIIKKE CIGYRDVYDI TCHKDPSFIA NGFVSHNCNY PSKIIPPIQS 1690 1700 1710 1720 1730 1740 RCAVFRFSPL KKEDIAKKLK EIAEKEGLNL TESGLEAIIY VSEGDMRKAI NVLQTAAALS 1750 1760 1770 1780 1790 1800 DVIDDEIVYK VSSRARPEEV KKMMELALDG KFMEARDLLY KLMVEWGMSG EDILNQMFRE 1810 1820 1830 1840 INSLDIDERK KVELADAIGE TDFRIVEGAN ERIQLSALLA KMALMGR

References

[1]

"Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii." Bult C.J., White O., Olsen G.J., Zhou L., Fleischmann R.D., Sutton G.G., Blake J.A., FitzGerald L.M., Clayton R.A., Gocayne J.D., Kerlavage A.R., Dougherty B.A., Tomb J.-F., Adams M.D., Reich C.I., Overbeek R., Kirkness E.F., Weinstock K.G. , Merrick J.M., Glodek A., Scott J.L., Geoghagen N.S.M., Weidman J.F., Fuhrmann J.L., Nguyen D., Utterback T.R., Kelley J.M., Peterson J.D., Sadow P.W., Hanna M.C., Cotton M.D., Roberts K.M., Hurst M.A., Kaine B.P., Borodovsky M., Klenk H.-P., Fraser C.M., Smith H.O., Woese C.R., Venter J.C. Science 273:1058-1073(1996) [PubMed: 8688087] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440.

Cross-references

Sequence databases
EMBLGenBankDDBJ	L77117 Genomic DNA. Translation: AAB99433.1.
PIR	E64477.
RefSeq	NP_248426.1.
3D structure databases
SMR	Q58817. Positions 4-53, 1058-1125.
ModBase	Search...
Genome annotation databases
GeneID	1452326.
GenomeReviews	Gene locus MJ1422 in contig L77117_GR.
KEGG	mja:MJ1422.
NMPDR	fig|243232.1.peg.1463.
TIGR	MJ1422.
Phylogenomic databases
HOGENOM	Q58817.
OMA	YDDEKAG
Family and domain databases
HAMAP	MF_01509. Divergent sequence. [Tree]
InterPro	IPR008921. DNA_pol3_clamp-load_cplx_C. IPR003586. Hedgehog_hint_C. IPR003587. Hedgehog_hint_N. IPR001387. HTH_3. IPR006142. INTEIN. IPR004042. Intein_endonuc. IPR006141. Intein_splicing_site. IPR010982. Lambda_DNA-bd. IPR013748. Replication_factor_C. [Graphical view]
Pfam	PF01381. HTH_3. 1 hit. PF08542. Rep_fac_C. 1 hit. [Graphical view]
PRINTS	PR00379. INTEIN.
SMART	SM00305. HintC. 3 hits. SM00306. HintN. 3 hits. SM00530. HTH_XRE. 1 hit. [Graphical view]
TIGRFAMs	TIGR01443. intein_Cterm. 3 hits. TIGR01445. intein_Nterm. 3 hits.
PROSITE	PS50818. INTEIN_C_TER. 3 hits. PS50819. INTEIN_ENDONUCLEASE. 3 hits. PS50817. INTEIN_N_TER. 3 hits. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RFCS_METJA

Accession

Primary (citable) accession number: Q58817

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 16, 2004
Last sequence update:	November 1, 1996
Last modified:	November 24, 2009
This is version 54 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)