O26066 (MFD_HELPY) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Transcription-repair-coupling factor
Short name=TRCF
EC=3.6.4.-

Alternative name(s):
ATP-dependent helicase mfd

Gene names

Name:	mfd
Ordered Locus Names:	HP_1541

Organism

Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori) [Reference proteome] [HAMAP]

Taxonomic identifier

85962 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › delta/epsilon subdivisions › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter › Helicobacter pylori

Protein attributes

Sequence length	999 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Necessary for strand-specific repair. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognized by TRCF which releases RNAP and the truncated transcript; the TCRF may replace RNAP at the lesion site and then recruit the UvrA/B/C repair system By similarity.
Sequence similarities	In the N-terminal section; belongs to the UvrB family. In the C-terminal section; belongs to the helicase family. RecG subfamily. Contains 1 helicase ATP-binding domain. Contains 1 helicase C-terminal domain.

Ontologies

Keywords
Biological process	DNA damage DNA repair
Ligand	ATP-binding DNA-binding Nucleotide-binding
Molecular function	Helicase Hydrolase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA repair Inferred from electronic annotation. Source: UniProtKB-KW
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW ATP-dependent helicase activity Inferred from electronic annotation. Source: InterPro damaged 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 – 999	999	Transcription-repair-coupling factor		PRO_0000102168
Regions
	Domain	499 – 656	158	Helicase ATP-binding
	Domain	677 – 833	157	Helicase C-terminal
	Nucleotide binding	512 – 519	8	ATP Potential
	Motif	609 – 612	4	DEEH box

Sequences

	Sequence		Length	Mass (Da)
	O26066 [UniParc]. Last modified January 1, 1998. Version 1. Checksum: EE550EFB2A2946E5	FASTA	999	113,090
	10 20 30 40 50 60 MIQSSLYRAL NKGFDYQILA CKDFKESELA KEVISYFKPN TKAILFPEFR AKKNDDLRSF 70 80 90 100 110 120 FEEFLQLLGG LREFYQALEN KQETIIIAPI SALLHPLPKK ELLESFKITL LEKYNLKDLK 130 140 150 160 170 180 DKLFYYGYEI LDLVEVEGEA SFRGDIVDIY APNSKAYRLS FFDTECESIK EFDPITQMSL 190 200 210 220 230 240 KEDLLEIEIP PTLFSLDESS YKDLKTKVEQ SPLNSFSKDL TSFGLWFLGE KAQDLLIVYK 250 260 270 280 290 300 SIISPRALEE IQELASLNEL DCERFKFLKV LENAQGYEDL EIHAHALEGF IALHSNHKIT 310 320 330 340 350 360 LLAPNKTILD NAISALDAGN MECVIAPFVL NFKTPDGIFI SLNSFERKKK RQKSKLALNE 370 380 390 400 410 420 LNPGEWVVHD DYGVGVFSQL VQHSVLGSKR DFLEIAYLGE DKLLLPVENL HLIARYVAQS 430 440 450 460 470 480 DSVPAKDRLG KGSFLKLKAK VRTKLLEIAS KIIELAAERN LILGKKMDVH LAELEVFKSH 490 500 510 520 530 540 AGFEYTSDQE KAIAEISKDL SSHRVMDRLL SGDVGFGKTE VAMHAIFCAF LNGFQSALVV 550 560 570 580 590 600 PTTLLAHQHF ETLRARFENF GVKVARLDRY ASEKNKLLKA VELGQVDALI GTHAILGAKF 610 620 630 640 650 660 KNLGLVVVDE EHKFGVKQKE ALKELSKSVH FLSMSATPIP RTLNMALSQI KGISSLKTPP 670 680 690 700 710 720 TDRKPSRTFL KEKNDELLKE IIYRELRRNG QIFYIHNHIA SILKVKTKLE DLIPKLKIAI 730 740 750 760 770 780 LHSQINANES EEIMLEFAKG NYQVLLCTSI VESGIHLPNA NTIIIDNAQN FGLADLHQLR 790 800 810 820 830 840 GRVGRGKKEG FCYFLIEDQK SLNEQALKRL LALEKNSYLG SGESVAYHDL EIRGGGNLLG 850 860 870 880 890 900 QDQSGHIKNI GYALYTRMLE DAIYELSGGK KRLEKSVEIQ LGVSAFLNPE LIASDSLRLD 910 920 930 940 950 960 LYRRLSLCEN TDEVGQIHEE IEDRFGKIDD LSAQFLQIIT LKILANQLGI IKLSNFNQNI 970 980 990 TITYSDEKKE SLKAPSKDDN DILETLLKHL RAQISLKRR

References

[1]

"The complete genome sequence of the gastric pathogen Helicobacter pylori." Tomb J.-F., White O., Kerlavage A.R., Clayton R.A., Sutton G.G., Fleischmann R.D., Ketchum K.A., Klenk H.-P., Gill S.R., Dougherty B.A., Nelson K.E., Quackenbush J., Zhou L., Kirkness E.F., Peterson S.N., Loftus B.J., Richardson D.L., Dodson R.J. , Khalak H.G., Glodek A., McKenney K., FitzGerald L.M., Lee N., Adams M.D., Hickey E.K., Berg D.E., Gocayne J.D., Utterback T.R., Peterson J.D., Kelley J.M., Cotton M.D., Weidman J.F., Fujii C., Bowman C., Watthey L., Wallin E., Hayes W.S., Borodovsky M., Karp P.D., Smith H.O., Fraser C.M., Venter J.C. Nature 388:539-547(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700392 / 26695.

+

Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE000511 Genomic DNA. Translation: AAD08581.1.
PIR	E64712.
RefSeq	NP_208332.1. NC_000915.1. YP_006935467.1. NC_018939.1.
3D structure databases
ProteinModelPortal	O26066.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-3189N.
MINT	MINT-166853.
STRING	85962.HP1541.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAD08581; AAD08581; HP_1541.
GeneID	13870760. 899750.
KEGG	heo:C694_07985. hpy:HP1541.
PATRIC	20594505. VBIHelPyl33062_1620.
Phylogenomic databases
eggNOG	COG1197.
KO	K03723.
OMA	VDEEHKF.
ProtClustDB	CLSK872584.
Family and domain databases
InterPro	IPR003711. CarD-like/TRCF_domain. IPR011545. DNA/RNA_helicase_DEAD/DEAH_N. IPR014001. Helicase_ATP-bd. IPR001650. Helicase_C. IPR004576. Mfd. IPR005118. Tscpt_repair-coupling_fac_dom. [Graphical view]
Pfam	PF02559. CarD_CdnL_TRCF. 1 hit. PF00270. DEAD. 1 hit. PF00271. Helicase_C. 1 hit. PF03461. TRCF. 1 hit. [Graphical view]
SMART	SM01058. CarD_TRCF. 1 hit. SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. SM00982. TRCF. 1 hit. [Graphical view]
SUPFAM	SSF141259. SSF141259. 1 hit.
TIGRFAMs	TIGR00580. mfd. 1 hit.
PROSITE	PS51192. HELICASE_ATP_BIND_1. 1 hit. PS51194. HELICASE_CTER. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

MFD_HELPY

Accession

Primary (citable) accession number: O26066

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 1998
Last sequence update:	January 1, 1998
Last modified:	May 1, 2013
This is version 89 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program