UniProtKB - P60240 (RAPA_ECOLI)
Protein
RNA polymerase-associated protein RapA
Gene
rapA
Organism
Escherichia coli (strain K12)
Status
Functioni
Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair (By similarity).By similarity1 Publication
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Nucleotide bindingi | 177 – 184 | ATPBy similarity | 8 |
GO - Molecular functioni
- ATPase activity Source: EcoCyc
- ATP binding Source: UniProtKB-UniRule
- bacterial-type RNA polymerase core enzyme binding Source: EcoCyc
- DNA binding Source: UniProtKB-KW
- helicase activity Source: UniProtKB-UniRule
- nucleic acid binding Source: EcoCyc
- nucleosome-dependent ATPase activity Source: InterPro
GO - Biological processi
- positive regulation of transcription, DNA-templated Source: EcoCyc
Keywordsi
Molecular function | Activator, DNA-binding, Helicase, Hydrolase |
Biological process | Transcription, Transcription regulation |
Ligand | ATP-binding, Nucleotide-binding |
Enzyme and pathway databases
BioCyci | EcoCyc:EG11083-MONOMER |
Names & Taxonomyi
Protein namesi | Recommended name: RNA polymerase-associated protein RapA (EC:3.6.4.-)Alternative name(s): ATP-dependent helicase HepA |
Gene namesi | Name:rapA Synonyms:hepA, yabA Ordered Locus Names:b0059, JW0058 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Pathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 183 | K → A: Loss of function. Still interacts with RNAP. 1 Publication | 1 | |
Mutagenesisi | 280 – 281 | DE → AA: Loss of function. Still interacts with RNAP. 1 Publication | 2 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Initiator methioninei | Removed2 Publications | |||
ChainiPRO_0000207172 | 2 – 968 | RNA polymerase-associated protein RapAAdd BLAST | 967 |
Proteomic databases
jPOSTi | P60240 |
PaxDbi | P60240 |
PRIDEi | P60240 |
Expressioni
Developmental stagei
During growth phase, peaking during at the early log phase.1 Publication
Interactioni
Subunit structurei
Interacts with the RNAP. Has a higher affinity for the core RNAP than for the holoenzyme. Its ATPase activity is stimulated by binding to RNAP (By similarity).
By similarityBinary interactionsi
P60240
With | #Exp. | IntAct |
---|---|---|
rpoB [P0A8V2] | 5 | EBI-551542,EBI-544996 |
GO - Molecular functioni
- bacterial-type RNA polymerase core enzyme binding Source: EcoCyc
Protein-protein interaction databases
BioGRIDi | 4262039, 363 interactors 852817, 5 interactors |
DIPi | DIP-35881N |
IntActi | P60240, 20 interactors |
STRINGi | 511145.b0059 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P60240 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P60240 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 164 – 334 | Helicase ATP-bindingAdd BLAST | 171 | |
Domaini | 490 – 662 | Helicase C-terminalAdd BLAST | 173 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 280 – 283 | DEAH box | 4 |
Sequence similaritiesi
Phylogenomic databases
eggNOGi | COG0553, Bacteria |
HOGENOMi | CLU_011520_0_0_6 |
InParanoidi | P60240 |
PhylomeDBi | P60240 |
Family and domain databases
Gene3Di | 3.40.50.10810, 1 hit |
HAMAPi | MF_01821, Helicase_RapA, 1 hit |
InterProi | View protein in InterPro IPR014001, Helicase_ATP-bd IPR001650, Helicase_C IPR023949, Helicase_RapA IPR027417, P-loop_NTPase IPR022737, RapA_C IPR038718, SNF2-like_sf IPR000330, SNF2_dom IPR040765, Tudor_1_RapA IPR040766, Tudor_2_RapA |
Pfami | View protein in Pfam PF00271, Helicase_C, 1 hit PF12137, RapA_C, 1 hit PF00176, SNF2_N, 1 hit PF18339, Tudor_1_RapA, 1 hit PF18337, Tudor_RapA, 1 hit |
SMARTi | View protein in SMART SM00487, DEXDc, 1 hit SM00490, HELICc, 1 hit |
SUPFAMi | SSF52540, SSF52540, 2 hits |
PROSITEi | View protein in PROSITE PS51192, HELICASE_ATP_BIND_1, 1 hit PS51194, HELICASE_CTER, 1 hit |
i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
P60240-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MPFTLGQRWI SDTESELGLG TVVAVDARTV TLLFPSTGEN RLYARSDSPV
60 70 80 90 100
TRVMFNPGDT ITSHDGWQMQ VEEVKEENGL LTYIGTRLDT EESGVALREV
110 120 130 140 150
FLDSKLVFSK PQDRLFAGQI DRMDRFALRY RARKYSSEQF RMPYSGLRGQ
160 170 180 190 200
RTSLIPHQLN IAHDVGRRHA PRVLLADEVG LGKTIEAGMI LHQQLLSGAA
210 220 230 240 250
ERVLIIVPET LQHQWLVEML RRFNLRFALF DDERYAEAQH DAYNPFDTEQ
260 270 280 290 300
LVICSLDFAR RSKQRLEHLC EAEWDLLVVD EAHHLVWSED APSREYQAIE
310 320 330 340 350
QLAEHVPGVL LLTATPEQLG MESHFARLRL LDPNRFHDFA QFVEEQKNYR
360 370 380 390 400
PVADAVAMLL AGNKLSNDEL NMLGEMIGEQ DIEPLLQAAN SDSEDAQSAR
410 420 430 440 450
QELVSMLMDR HGTSRVLFRN TRNGVKGFPK RELHTIKLPL PTQYQTAIKV
460 470 480 490 500
SGIMGARKSA EDRARDMLYP ERIYQEFEGD NATWWNFDPR VEWLMGYLTS
510 520 530 540 550
HRSQKVLVIC AKAATALQLE QVLREREGIR AAVFHEGMSI IERDRAAAWF
560 570 580 590 600
AEEDTGAQVL LCSEIGSEGR NFQFASHMVM FDLPFNPDLL EQRIGRLDRI
610 620 630 640 650
GQAHDIQIHV PYLEKTAQSV LVRWYHEGLD AFEHTCPTGR TIYDSVYNDL
660 670 680 690 700
INYLASPDQT EGFDDLIKNC REQHEALKAQ LEQGRDRLLE IHSNGGEKAQ
710 720 730 740 750
ALAESIEEQD DDTNLIAFAM NLFDIIGINQ DDRGDNMIVL TPSDHMLVPD
760 770 780 790 800
FPGLSEDGIT ITFDREVALA REDAQFITWE HPLIRNGLDL ILSGDTGSST
810 820 830 840 850
ISLLKNKALP VGTLLVELIY VVEAQAPKQL QLNRFLPPTP VRMLLDKNGN
860 870 880 890 900
NLAAQVEFET FNRQLNAVNR HTGSKLVNAV QQDVHAILQL GEAQIEKSAR
910 920 930 940 950
ALIDAARNEA DEKLSAELSR LEALRAVNPN IRDDELTAIE SNRQQVMESL
960
DQAGWRLDAL RLIVVTHQ
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 11 | S → V AA sequence (PubMed:9507009).Curated | 1 | |
Sequence conflicti | 510 – 538 | CAKAA…FHEGM → RGIRNHGHSCFLCEIVIRSQ FHTTYEPEA (PubMed:1577702).CuratedAdd BLAST | 29 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X54847 Genomic DNA Translation: CAA38617.1 U00096 Genomic DNA Translation: AAC73170.1 AP009048 Genomic DNA Translation: BAB96627.1 |
PIRi | C64727 |
RefSeqi | NP_414601.1, NC_000913.3 WP_001117011.1, NZ_STEB01000010.1 |
Genome annotation databases
EnsemblBacteriai | AAC73170; AAC73170; b0059 BAB96627; BAB96627; BAB96627 |
GeneIDi | 58460803 948523 |
KEGGi | ecj:JW0058 eco:b0059 |
PATRICi | fig|1411691.4.peg.2224 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X54847 Genomic DNA Translation: CAA38617.1 U00096 Genomic DNA Translation: AAC73170.1 AP009048 Genomic DNA Translation: BAB96627.1 |
PIRi | C64727 |
RefSeqi | NP_414601.1, NC_000913.3 WP_001117011.1, NZ_STEB01000010.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
4S20 | X-ray | 4.70 | K/L | 1-968 | [»] | |
6BOG | X-ray | 3.20 | A/B | 1-968 | [»] | |
SMRi | P60240 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4262039, 363 interactors 852817, 5 interactors |
DIPi | DIP-35881N |
IntActi | P60240, 20 interactors |
STRINGi | 511145.b0059 |
Proteomic databases
jPOSTi | P60240 |
PaxDbi | P60240 |
PRIDEi | P60240 |
Genome annotation databases
EnsemblBacteriai | AAC73170; AAC73170; b0059 BAB96627; BAB96627; BAB96627 |
GeneIDi | 58460803 948523 |
KEGGi | ecj:JW0058 eco:b0059 |
PATRICi | fig|1411691.4.peg.2224 |
Organism-specific databases
EchoBASEi | EB1075 |
Phylogenomic databases
eggNOGi | COG0553, Bacteria |
HOGENOMi | CLU_011520_0_0_6 |
InParanoidi | P60240 |
PhylomeDBi | P60240 |
Enzyme and pathway databases
BioCyci | EcoCyc:EG11083-MONOMER |
Miscellaneous databases
EvolutionaryTracei | P60240 |
PROi | PR:P60240 |
Family and domain databases
Gene3Di | 3.40.50.10810, 1 hit |
HAMAPi | MF_01821, Helicase_RapA, 1 hit |
InterProi | View protein in InterPro IPR014001, Helicase_ATP-bd IPR001650, Helicase_C IPR023949, Helicase_RapA IPR027417, P-loop_NTPase IPR022737, RapA_C IPR038718, SNF2-like_sf IPR000330, SNF2_dom IPR040765, Tudor_1_RapA IPR040766, Tudor_2_RapA |
Pfami | View protein in Pfam PF00271, Helicase_C, 1 hit PF12137, RapA_C, 1 hit PF00176, SNF2_N, 1 hit PF18339, Tudor_1_RapA, 1 hit PF18337, Tudor_RapA, 1 hit |
SMARTi | View protein in SMART SM00487, DEXDc, 1 hit SM00490, HELICc, 1 hit |
SUPFAMi | SSF52540, SSF52540, 2 hits |
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 | RAPA_ECOLI | |
Accessioni | P60240Primary (citable) accession number: P60240 Secondary accession number(s): P23852, P75633 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | January 16, 2004 |
Last sequence update: | January 23, 2007 | |
Last modified: | April 7, 2021 | |
This is version 146 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, Direct protein sequencing, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families