Q8TUS2 (RTCB_METKA) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
tRNA-splicing ligase RtcB
EC=6.5.1.-

Cleaved into the following chain:

1. Mka hyp2 intein
   EC=3.1.-.-

Gene names

Name:	rtcB
Ordered Locus Names:	MK1682

Organism

Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938) [Reference proteome] [HAMAP]

Taxonomic identifier

190192 [NCBI]

Taxonomic lineage

cellular organisms › Archaea › Euryarchaeota › Methanopyri › Methanopyrales › Methanopyraceae › Methanopyrus › Methanopyrus kandleri

Protein attributes

Sequence length	988 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	tRNA-splicing ligase that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs Probable. Ref.2
Subunit structure	Monomer. Ref.2
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.
Sequence similarities	Belongs to the RtcB family. Contains 1 DOD-type homing endonuclease domain.

Ontologies

Keywords
Biological process	Intron homing tRNA processing
Ligand	DNA-binding Metal-binding Zinc
Molecular function	Endonuclease Hydrolase Ligase Nuclease
PTM	Autocatalytic cleavage Protein splicing
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro intron homing Inferred from electronic annotation. Source: UniProtKB-KW nucleic acid phosphodiester bond hydrolysis Inferred from electronic annotation. Source: GOC tRNA splicing, via endonucleolytic cleavage and ligation Traceable author statement Ref.2. Source: UniProtKB
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW RNA ligase activity Traceable author statement Ref.2. Source: UniProtKB endonuclease activity Inferred from electronic annotation. Source: UniProtKB-KW metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 100	100	tRNA-splicing ligase RtcB, 1st part Potential		PRO_0000232526
	Chain	101 – 582	482	Mka hyp2 intein Potential		PRO_0000232527
	Chain	583 – 988	406	tRNA-splicing ligase RtcB, 2nd part Potential		PRO_0000232528
Regions
	Domain	251 – 415	165	DOD-type homing endonuclease
Sites
	Metal binding	583	1	Zinc Potential
	Metal binding	700	1	Zinc Potential
	Metal binding	732	1	Zinc Potential

Sequences

	Sequence		Length	Mass (Da)
	Q8TUS2 [UniParc]. Last modified June 1, 2002. Version 1. Checksum: C24DAC047EAC3132	FASTA	988	110,989
	10 20 30 40 50 60 MAPKSMLKHI RNNVVWELPE DYKGCMKVPG RIYATEKLID GMEKGVFDQV ANVACLPGIY 70 80 90 100 110 120 GYSIALPDAH YGYGFPIGGV AAFDVEEGVV SPGGVGYDIN CLAPGTKILT EHGCWVKVED 130 140 150 160 170 180 LPKMLTDQKL KVYDVDEGRE DDSEIKFVME RGIEEDERAV VLVTESGLTI EGSEDHPVLT 190 200 210 220 230 240 PEGYVELGEI EEGDLVVVYP FEGVEYEEKE GTILDESDFE DVDPQVLRYL EERDLIPLRW 250 260 270 280 290 300 SDPKVGTLAR ILGFAMGDGH LGEQAGRLTL SFYGDERTLR ELKRDLESLG VKANLHVRKR 310 320 330 340 350 360 RYEIETASGR YEGEATSVEL RVASRSFALL MEKLGMPRGR KVETPYKVPD WIKEAPLWVK 370 380 390 400 410 420 RNFLAGLFAA DGSVVKFKRY TPLPINLTQA KVEELEENLR EFMNDVAKLL REFGIETTLY 430 440 450 460 470 480 EVKSKKNVVY KLAIVGEENI KRFLGKVGYE YDPEKKVEGL AAYAYLKLKE RVKKDRKEAA 490 500 510 520 530 540 ETAAEVYEET GSITKAHEAV ADVVNRRFVE RVVYDGGISS VRVPEDFPTF ERFKEERVLA 550 560 570 580 590 600 GGFVIEEVVE VKGVEPEYDR FYDIGVCHGA HNFIADGVVV HNCGVRVMKT DLTEDDVRPK 610 620 630 640 650 660 LRELLETIFR NVPAGLGSRH RRVRLSTQEL RQVMLYGAEW AVEEGFGFDE DLDHIESRGN 670 680 690 700 710 720 MTHAYETIGW EEYGPRDDVA SKRAIERGRP QLGTLGSGNH FLEVQVVDEI YDKEAAEKMG 730 740 750 760 770 780 IREEGQVTIM VHTGSRGFGH QVCSDHLRIM ERSMRDVERR FGVRIPDRQL ACAAMGTDEA 790 800 810 820 830 840 KRYFNAMNAA ANYAFANRQM ISHWTRESFV EVFGDEYGDA DDMGIEVIYD IAHNMAKIEK 850 860 870 880 890 900 HPVDGEERWL VVHRKGATRA FSEEALKKHG EPVPFEGLPQ PVLIPGDMGT GSYILIGTEK 910 920 930 940 950 960 AMEETWGSTC HGAGRTMSRA AAKRKFWGED VARELERQGI LVKAASMPVV AEEAPPAYKD 970 980 VDEVVRAVAE AGISDPVVRL RPIGVVKG

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The complete genome of hyperthermophile Methanopyrus kandleri AV19 and monophyly of archaeal methanogens." Slesarev A.I., Mezhevaya K.V., Makarova K.S., Polushin N.N., Shcherbinina O.V., Shakhova V.V., Belova G.I., Aravind L., Natale D.A., Rogozin I.B., Tatusov R.L., Wolf Y.I., Stetter K.O., Malykh A.G., Koonin E.V., Kozyavkin S.A. Proc. Natl. Acad. Sci. U.S.A. 99:4644-4649(2002) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: AV19 / DSM 6324 / JCM 9639 / NBRC 100938.
[2]	"Archaeal 3'-phosphate RNA splicing ligase characterization identifies the missing component in tRNA maturation." Englert M., Sheppard K., Aslanian A., Yates J.R. III, Soll D. Proc. Natl. Acad. Sci. U.S.A. 108:1290-1295(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY, FUNCTION, SUBUNIT. Strain: AV19 / DSM 6324 / JCM 9639 / NBRC 100938.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE009439 Genomic DNA. Translation: AAM02895.1.
RefSeq	NP_614965.1. NC_003551.1.
3D structure databases
ProteinModelPortal	Q8TUS2.
SMR	Q8TUS2. Positions 7-101, 582-988.
ModBase	Search...
Protein-protein interaction databases
STRING	190192.MK1682.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAM02895; AAM02895; MK1682.
GeneID	1478277.
KEGG	mka:MK1682.
Phylogenomic databases
eggNOG	COG1372.
HOGENOM	HOG000296282.
KO	K14415.
OMA	VHNCGVR.
Family and domain databases
Gene3D	3.10.28.10. 2 hits.
InterPro	IPR003586. Hint_dom_C. IPR003587. Hint_dom_N. IPR027434. Homing_endonucl. IPR006142. INTEIN. IPR004042. Intein_endonuc. IPR006141. Intein_splice_site. IPR001233. RtcB_family. [Graphical view]
PANTHER	PTHR11118. PTHR11118. 1 hit.
Pfam	PF01139. UPF0027. 2 hits. [Graphical view]
PRINTS	PR00379. INTEIN.
SMART	SM00305. HintC. 1 hit. SM00306. HintN. 1 hit. [Graphical view]
SUPFAM	SSF55608. SSF55608. 1 hit. SSF103365. UPF0027. 2 hits.
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. PS01288. UPF0027. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RTCB_METKA

Accession

Primary (citable) accession number: Q8TUS2

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 18, 2006
Last sequence update:	June 1, 2002
Last modified:	May 29, 2013
This is version 67 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program