UniProtKB - P30958 (MFD_ECOLI)
Protein
Transcription-repair-coupling factor
Gene
mfd
Organism
Escherichia coli (strain K12)
Status
Functioni
Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site. Can also dissociate RNAP that is blocked by low concentration of nucleoside triphosphates or by physical obstruction, such as bound proteins. In addition, can rescue arrested complexes by promoting forward translocation. Has ATPase activity, which is required for removal of stalled RNAP, but seems to lack helicase activity. May act through a translocase activity that rewinds upstream DNA, leading either to translocation or to release of RNAP when the enzyme active site cannot continue elongation.UniRule annotation5 Publications
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 628 – 635 | ATPUniRule annotation | 8 |
GO - Molecular functioni
- ATP binding Source: UniProtKB-UniRule
- damaged DNA binding Source: InterPro
- DNA binding Source: EcoCyc
- DNA translocase activity Source: EcoCyc
- RNA polymerase core enzyme binding Source: EcoCyc
GO - Biological processi
- cellular response to DNA damage stimulus Source: EcoliWiki
- DNA repair Source: EcoliWiki
- regulation of transcription, DNA-templated Source: EcoliWiki
- transcription-coupled nucleotide-excision repair Source: EcoCyc
- transcription-coupled nucleotide-excision repair, DNA damage recognition Source: EcoliWiki
Keywordsi
Molecular function | DNA-binding, Helicase, Hydrolase |
Biological process | DNA damage, DNA repair |
Ligand | ATP-binding, Nucleotide-binding |
Enzyme and pathway databases
BioCyci | EcoCyc:EG11619-MONOMER |
Names & Taxonomyi
Protein namesi | Recommended name: Transcription-repair-coupling factorUniRule annotation (EC:3.6.4.-UniRule annotation)Short name: TRCFUniRule annotation |
Gene namesi | Name:mfdUniRule annotation Ordered Locus Names:b1114, JW1100 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Subcellular locationi
Cytoplasm and Cytosol
- Cytoplasm UniRule annotation
Cytosol
- cytosol Source: EcoCyc
Keywords - Cellular componenti
CytoplasmPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000102166 | 1 – 1148 | Transcription-repair-coupling factorAdd BLAST | 1148 |
Proteomic databases
jPOSTi | P30958 |
PaxDbi | P30958 |
PRIDEi | P30958 |
Interactioni
Subunit structurei
Monomer.
Interacts with UvrA and RNAP.
4 PublicationsBinary interactionsi
P30958
With | #Exp. | IntAct |
---|---|---|
uvrA [P0A698] | 2 | EBI-554211,EBI-552091 |
GO - Molecular functioni
- RNA polymerase core enzyme binding Source: EcoCyc
Protein-protein interaction databases
BioGRIDi | 4260086, 165 interactors |
ComplexPortali | CPX-2155, TRCF-UvrA complex |
DIPi | DIP-10199N |
IntActi | P30958, 17 interactors |
STRINGi | 511145.b1114 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P30958 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P30958 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 615 – 776 | Helicase ATP-bindingUniRule annotationAdd BLAST | 162 | |
Domaini | 798 – 951 | Helicase C-terminalUniRule annotationAdd BLAST | 154 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 729 – 732 | DEEH box | 4 |
Domaini
Consists of a compact arrangement of structured domains linked by long, flexible linkers. The N-terminal region interacts with UvrA, the central region interacts with RNAP, and the C-terminal DNA translocase region possesses ATPase activity. Activity is regulated by a conformational switch from a dormant closed state to an active open state upon substrate binding.5 Publications
Sequence similaritiesi
In the N-terminal section; belongs to the UvrB family.UniRule annotation
Phylogenomic databases
eggNOGi | COG1197, Bacteria |
HOGENOMi | CLU_005122_0_2_6 |
InParanoidi | P30958 |
PhylomeDBi | P30958 |
Family and domain databases
Gene3Di | 2.30.30.840, 1 hit 3.90.1150.50, 1 hit |
HAMAPi | MF_00969, TRCF, 1 hit |
InterProi | View protein in InterPro IPR036101, CarD-like/TRCF_dom_sf IPR003711, CarD-like/TRCF_domain IPR011545, DEAD/DEAH_box_helicase_dom IPR014001, Helicase_ATP-bd IPR001650, Helicase_C IPR004576, Mfd IPR027417, P-loop_NTPase IPR037235, TRCF-like_C IPR005118, TRCF_C IPR041471, UvrB_inter |
Pfami | View protein in Pfam PF02559, CarD_CdnL_TRCF, 1 hit PF00270, DEAD, 1 hit PF00271, Helicase_C, 1 hit PF03461, TRCF, 1 hit PF17757, UvrB_inter, 1 hit |
SMARTi | View protein in SMART SM01058, CarD_TRCF, 1 hit SM00487, DEXDc, 1 hit SM00490, HELICc, 1 hit SM00982, TRCF, 1 hit |
SUPFAMi | SSF141259, SSF141259, 1 hit SSF143517, SSF143517, 1 hit SSF52540, SSF52540, 4 hits |
TIGRFAMsi | TIGR00580, mfd, 1 hit |
PROSITEi | View protein in PROSITE PS51192, HELICASE_ATP_BIND_1, 1 hit PS51194, HELICASE_CTER, 1 hit |
i Sequence
Sequence statusi: Complete.
P30958-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MPEQYRYTLP VKAGEQRLLG ELTGAACATL VAEIAERHAG PVVLIAPDMQ
60 70 80 90 100
NALRLHDEIS QFTDQMVMNL ADWETLPYDS FSPHQDIISS RLSTLYQLPT
110 120 130 140 150
MQRGVLIVPV NTLMQRVCPH SFLHGHALVM KKGQRLSRDA LRTQLDSAGY
160 170 180 190 200
RHVDQVMEHG EYATRGALLD LFPMGSELPY RLDFFDDEID SLRVFDVDSQ
210 220 230 240 250
RTLEEVEAIN LLPAHEFPTD KAAIELFRSQ WRDTFEVKRD PEHIYQQVSK
260 270 280 290 300
GTLPAGIEYW QPLFFSEPLP PLFSYFPANT LLVNTGDLET SAERFQADTL
310 320 330 340 350
ARFENRGVDP MRPLLPPQSL WLRVDELFSE LKNWPRVQLK TEHLPTKAAN
360 370 380 390 400
ANLGFQKLPD LAVQAQQKAP LDALRKFLET FDGPVVFSVE SEGRREALGE
410 420 430 440 450
LLARIKIAPQ RIMRLDEASD RGRYLMIGAA EHGFVDTVRN LALICESDLL
460 470 480 490 500
GERVARRRQD SRRTINPDTL IRNLAELHIG QPVVHLEHGV GRYAGMTTLE
510 520 530 540 550
AGGITGEYLM LTYANDAKLY VPVSSLHLIS RYAGGAEENA PLHKLGGDAW
560 570 580 590 600
SRARQKAAEK VRDVAAELLD IYAQRAAKEG FAFKHDREQY QLFCDSFPFE
610 620 630 640 650
TTPDQAQAIN AVLSDMCQPL AMDRLVCGDV GFGKTEVAMR AAFLAVDNHK
660 670 680 690 700
QVAVLVPTTL LAQQHYDNFR DRFANWPVRI EMISRFRSAK EQTQILAEVA
710 720 730 740 750
EGKIDILIGT HKLLQSDVKF KDLGLLIVDE EHRFGVRHKE RIKAMRANVD
760 770 780 790 800
ILTLTATPIP RTLNMAMSGM RDLSIIATPP ARRLAVKTFV REYDSMVVRE
810 820 830 840 850
AILREILRGG QVYYLYNDVE NIQKAAERLA ELVPEARIAI GHGQMREREL
860 870 880 890 900
ERVMNDFHHQ RFNVLVCTTI IETGIDIPTA NTIIIERADH FGLAQLHQLR
910 920 930 940 950
GRVGRSHHQA YAWLLTPHPK AMTTDAQKRL EAIASLEDLG AGFALATHDL
960 970 980 990 1000
EIRGAGELLG EEQSGSMETI GFSLYMELLE NAVDALKAGR EPSLEDLTSQ
1010 1020 1030 1040 1050
QTEVELRMPS LLPDDFIPDV NTRLSFYKRI ASAKTENELE EIKVELIDRF
1060 1070 1080 1090 1100
GLLPDPARTL LDIARLRQQA QKLGIRKLEG NEKGGVIEFA EKNHVNPAWL
1110 1120 1130 1140
IGLLQKQPQH YRLDGPTRLK FIQDLSERKT RIEWVRQFMR ELEENAIA
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 365 | A → R (PubMed:8465200).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00096 Genomic DNA Translation: AAC74198.1 AP009048 Genomic DNA Translation: BAA35929.1 |
PIRi | G64855 |
RefSeqi | NP_415632.1, NC_000913.3 WP_001115094.1, NZ_SSZK01000019.1 |
Genome annotation databases
EnsemblBacteriai | AAC74198; AAC74198; b1114 BAA35929; BAA35929; BAA35929 |
GeneIDi | 945681 |
KEGGi | ecj:JW1100 eco:b1114 |
PATRICi | fig|511145.12.peg.1158 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U00096 Genomic DNA Translation: AAC74198.1 AP009048 Genomic DNA Translation: BAA35929.1 |
PIRi | G64855 |
RefSeqi | NP_415632.1, NC_000913.3 WP_001115094.1, NZ_SSZK01000019.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2B2N | X-ray | 2.10 | A/B | 1-333 | [»] | |
2EYQ | X-ray | 3.20 | A/B | 1-1148 | [»] | |
3HJH | X-ray | 1.95 | A | 1-470 | [»] | |
4DFC | X-ray | 2.80 | A/C | 127-213 | [»] | |
6XEO | electron microscopy | 5.50 | A | 1-1148 | [»] | |
6YHZ | NMR | - | A | 472-547 | [»] | |
SMRi | P30958 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4260086, 165 interactors |
ComplexPortali | CPX-2155, TRCF-UvrA complex |
DIPi | DIP-10199N |
IntActi | P30958, 17 interactors |
STRINGi | 511145.b1114 |
Proteomic databases
jPOSTi | P30958 |
PaxDbi | P30958 |
PRIDEi | P30958 |
Genome annotation databases
EnsemblBacteriai | AAC74198; AAC74198; b1114 BAA35929; BAA35929; BAA35929 |
GeneIDi | 945681 |
KEGGi | ecj:JW1100 eco:b1114 |
PATRICi | fig|511145.12.peg.1158 |
Organism-specific databases
EchoBASEi | EB1576 |
Phylogenomic databases
eggNOGi | COG1197, Bacteria |
HOGENOMi | CLU_005122_0_2_6 |
InParanoidi | P30958 |
PhylomeDBi | P30958 |
Enzyme and pathway databases
BioCyci | EcoCyc:EG11619-MONOMER |
Miscellaneous databases
EvolutionaryTracei | P30958 |
PROi | PR:P30958 |
Family and domain databases
Gene3Di | 2.30.30.840, 1 hit 3.90.1150.50, 1 hit |
HAMAPi | MF_00969, TRCF, 1 hit |
InterProi | View protein in InterPro IPR036101, CarD-like/TRCF_dom_sf IPR003711, CarD-like/TRCF_domain IPR011545, DEAD/DEAH_box_helicase_dom IPR014001, Helicase_ATP-bd IPR001650, Helicase_C IPR004576, Mfd IPR027417, P-loop_NTPase IPR037235, TRCF-like_C IPR005118, TRCF_C IPR041471, UvrB_inter |
Pfami | View protein in Pfam PF02559, CarD_CdnL_TRCF, 1 hit PF00270, DEAD, 1 hit PF00271, Helicase_C, 1 hit PF03461, TRCF, 1 hit PF17757, UvrB_inter, 1 hit |
SMARTi | View protein in SMART SM01058, CarD_TRCF, 1 hit SM00487, DEXDc, 1 hit SM00490, HELICc, 1 hit SM00982, TRCF, 1 hit |
SUPFAMi | SSF141259, SSF141259, 1 hit SSF143517, SSF143517, 1 hit SSF52540, SSF52540, 4 hits |
TIGRFAMsi | TIGR00580, mfd, 1 hit |
PROSITEi | View protein in PROSITE PS51192, HELICASE_ATP_BIND_1, 1 hit PS51194, HELICASE_CTER, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | MFD_ECOLI | |
Accessioni | P30958Primary (citable) accession number: P30958 Secondary accession number(s): P77592 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | July 1, 1993 |
Last sequence update: | November 1, 1997 | |
Last modified: | April 7, 2021 | |
This is version 173 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families