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Protein

DNA-directed RNA polymerase subunit beta

Gene

rpoB

Organism
Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. This subunit often mutates to generate rifampicin (Rif) resistance. Interaction with RbpA partially restores Rif-inhibited transcription; once the subunit is Rif-resistant however RbpA no longer stimulates transcription.UniRule annotation1 Publication

Miscellaneous

Mutations in the RRDR sequence (residues 423-449) confer rifampicin (Rif) resistance. Rif blocks transcription inititiation but not elongation.

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).UniRule annotation

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionNucleotidyltransferase, Transferase
Biological processAntibiotic resistance, Transcription

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase subunit betaUniRule annotation (EC:2.7.7.6UniRule annotation)
Short name:
RNAP subunit betaUniRule annotation
Alternative name(s):
RNA polymerase subunit betaUniRule annotation
Transcriptase subunit betaUniRule annotation
Gene namesi
Name:rpoBUniRule annotation
Ordered Locus Names:MSMEG_1367, MSMEI_1328
OrganismiMycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Taxonomic identifieri246196 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium
Proteomesi
  • UP000006158 Componenti: Chromosome
  • UP000000757 Componenti: Chromosome

Subcellular locationi

Keywords - Cellular componenti

DNA-directed RNA polymerase

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi429Q → K or L: Rifampicin (Rif) resistant. 1 Publication1
Mutagenesisi432D → V: Rifampicin (Rif) resistant. 2 Publications1
Mutagenesisi432D → Y: Rifampicin (Rif) resistant; RbpA no longer rescues transcription in the presence of Rif. Decreased affinity for Rif, no change in affinity for RbpA. 2 Publications1
Mutagenesisi442H → D, L, P, R or Y: Rifampicin (Rif) resistant. 1 Publication1
Mutagenesisi445R → L or P: Rifampicin (Rif) resistant. 1 Publication1
Mutagenesisi447S → L, P or W: Rifampicin (Rif) resistant; RbpA no longer rescues transcription in the presence of Rif, decreased affinity for Rif, no change in affinity for RbpA; tested in the Leu mutation. 2 Publications1
Mutagenesisi449L → P: Rifampicin (Rif) resistant. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000479261 – 1169DNA-directed RNA polymerase subunit betaAdd BLAST1169

Interactioni

Subunit structurei

The RNAP catalytic core consists of 2 alpha, 1 beta, 1 beta' and 1 omega subunit. When a sigma factor is associated with the core the holoenzyme is formed, which can initiate transcription. Interacts with RbpA, which partially restores Rif-inhibited transcription.UniRule annotation1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
carDA0R5612EBI-2408357,EBI-2408339

Protein-protein interaction databases

IntActiP60281. 2 interactors.
STRINGi246196.MSMEG_1367.

Structurei

Secondary structure

11169
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi29 – 31Combined sources3
Helixi46 – 56Combined sources11
Helixi59 – 67Combined sources9
Helixi76 – 84Combined sources9
Beta strandi93 – 103Combined sources11
Helixi110 – 116Combined sources7
Beta strandi121 – 132Combined sources12
Turni133 – 135Combined sources3
Beta strandi138 – 149Combined sources12
Beta strandi157 – 159Combined sources3
Beta strandi162 – 166Combined sources5
Beta strandi168 – 172Combined sources5
Beta strandi174 – 178Combined sources5
Turni184 – 186Combined sources3
Beta strandi193 – 196Combined sources4
Beta strandi198 – 200Combined sources3
Beta strandi203 – 205Combined sources3
Helixi225 – 229Combined sources5
Turni230 – 233Combined sources4
Helixi236 – 243Combined sources8
Helixi247 – 255Combined sources9
Helixi261 – 272Combined sources12
Helixi280 – 290Combined sources11
Turni294 – 296Combined sources3
Helixi301 – 310Combined sources10
Helixi326 – 340Combined sources15
Beta strandi344 – 346Combined sources3
Beta strandi349 – 351Combined sources3
Helixi364 – 366Combined sources3
Beta strandi367 – 370Combined sources4
Helixi372 – 397Combined sources26
Helixi405 – 408Combined sources4
Helixi412 – 422Combined sources11
Beta strandi426 – 430Combined sources5
Helixi436 – 442Combined sources7
Beta strandi445 – 448Combined sources4
Turni456 – 458Combined sources3
Helixi461 – 464Combined sources4
Helixi468 – 470Combined sources3
Turni471 – 473Combined sources3
Turni483 – 487Combined sources5
Beta strandi488 – 491Combined sources4
Beta strandi503 – 511Combined sources9
Beta strandi514 – 522Combined sources9
Helixi524 – 527Combined sources4
Beta strandi547 – 553Combined sources7
Beta strandi555 – 557Combined sources3
Beta strandi559 – 563Combined sources5
Beta strandi569 – 573Combined sources5
Beta strandi576 – 578Combined sources3
Helixi582 – 584Combined sources3
Helixi588 – 590Combined sources3
Helixi593 – 603Combined sources11
Beta strandi616 – 618Combined sources3
Helixi622 – 627Combined sources6
Beta strandi632 – 634Combined sources3
Beta strandi639 – 644Combined sources6
Beta strandi646 – 653Combined sources8
Beta strandi658 – 662Combined sources5
Beta strandi692 – 695Combined sources4
Beta strandi697 – 700Combined sources4
Beta strandi707 – 713Combined sources7
Turni718 – 720Combined sources3
Beta strandi726 – 729Combined sources4
Helixi731 – 734Combined sources4
Beta strandi740 – 753Combined sources14
Helixi771 – 774Combined sources4
Beta strandi779 – 781Combined sources3
Beta strandi792 – 794Combined sources3
Beta strandi796 – 799Combined sources4
Helixi807 – 816Combined sources10
Beta strandi822 – 825Combined sources4
Beta strandi836 – 849Combined sources14
Beta strandi856 – 868Combined sources13
Beta strandi875 – 878Combined sources4
Beta strandi883 – 890Combined sources8
Beta strandi905 – 908Combined sources4
Helixi912 – 915Combined sources4
Helixi920 – 933Combined sources14
Beta strandi940 – 942Combined sources3
Helixi946 – 949Combined sources4
Beta strandi962 – 964Combined sources3
Beta strandi967 – 969Combined sources3
Helixi973 – 980Combined sources8
Beta strandi986 – 989Combined sources4
Beta strandi997 – 999Combined sources3
Turni1004 – 1006Combined sources3
Beta strandi1014 – 1025Combined sources12
Helixi1028 – 1031Combined sources4
Beta strandi1033 – 1037Combined sources5
Beta strandi1040 – 1044Combined sources5
Turni1051 – 1054Combined sources4
Beta strandi1057 – 1059Combined sources3
Helixi1061 – 1070Combined sources10
Helixi1073 – 1080Combined sources8
Turni1081 – 1085Combined sources5
Helixi1087 – 1098Combined sources12
Helixi1110 – 1120Combined sources11
Turni1121 – 1123Combined sources3
Beta strandi1127 – 1129Combined sources3
Beta strandi1131 – 1136Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5TW1X-ray2.76C1-1169[»]
5VI8X-ray2.76C1-1169[»]
ProteinModelPortaliP60281.
SMRiP60281.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the RNA polymerase beta chain family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108IIJ. Bacteria.
COG0085. LUCA.
HOGENOMiHOG000218611.
KOiK03043.
OMAiFMTWEGY.
OrthoDBiPOG091H01MI.

Family and domain databases

CDDicd00653. RNA_pol_B_RPB2. 1 hit.
Gene3Di2.40.270.10. 3 hits.
3.90.1110.10. 1 hit.
HAMAPiMF_01321. RNApol_bact_RpoB. 1 hit.
InterProiView protein in InterPro
IPR019462. DNA-dir_RNA_pol_bsu_external_1.
IPR015712. DNA-dir_RNA_pol_su2.
IPR007120. DNA-dir_RNA_pol_su2_6.
IPR010243. RNA_pol_bsu_bac.
IPR007121. RNA_pol_bsu_CS.
IPR007644. RNA_pol_bsu_protrusion.
IPR007642. RNA_pol_Rpb2_2.
IPR007645. RNA_pol_Rpb2_3.
IPR007641. RNA_pol_Rpb2_7.
PANTHERiPTHR20856. PTHR20856. 1 hit.
PfamiView protein in Pfam
PF04563. RNA_pol_Rpb2_1. 1 hit.
PF04561. RNA_pol_Rpb2_2. 1 hit.
PF04565. RNA_pol_Rpb2_3. 1 hit.
PF10385. RNA_pol_Rpb2_45. 1 hit.
PF00562. RNA_pol_Rpb2_6. 1 hit.
PF04560. RNA_pol_Rpb2_7. 1 hit.
TIGRFAMsiTIGR02013. rpoB. 1 hit.
PROSITEiView protein in PROSITE
PS01166. RNA_POL_BETA. 1 hit.

Sequencei

Sequence statusi: Complete.

P60281-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLEGCILAVS SQSKSNAITN NSVPGAPNRV SFAKLREPLE VPGLLDVQTD
60 70 80 90 100
SFEWLVGSDR WRQAAIDRGE ENPVGGLEEV LAELSPIEDF SGSMSLSFSD
110 120 130 140 150
PRFDEVKASV DECKDKDMTY AAPLFVTAEF INNNTGEIKS QTVFMGDFPM
160 170 180 190 200
MTEKGTFIIN GTERVVVSQL VRSPGVYFDE TIDKSTEKTL HSVKVIPGRG
210 220 230 240 250
AWLEFDVDKR DTVGVRIDRK RRQPVTVLLK ALGWTNEQIV ERFGFSEIMM
260 270 280 290 300
GTLEKDTTSG TDEALLDIYR KLRPGEPPTK ESAQTLLENL FFKEKRYDLA
310 320 330 340 350
RVGRYKVNKK LGLNAGKPIT SSTLTEEDVV ATIEYLVRLH EGQTSMTVPG
360 370 380 390 400
GVEVPVEVDD IDHFGNRRLR TVGELIQNQI RVGLSRMERV VRERMTTQDV
410 420 430 440 450
EAITPQTLIN IRPVVAAIKE FFGTSQLSQF MDQNNPLSGL THKRRLSALG
460 470 480 490 500
PGGLSRERAG LEVRDVHPSH YGRMCPIETP EGPNIGLIGS LSVYARVNPF
510 520 530 540 550
GFIETPYRKV ENGVVTDQID YLTADEEDRH VVAQANSPTD ENGRFTEDRV
560 570 580 590 600
MVRKKGGEVE FVSADQVDYM DVSPRQMVSV ATAMIPFLEH DDANRALMGA
610 620 630 640 650
NMQRQAVPLV RSEAPLVGTG MELRAAIDAG DVVVADKTGV IEEVSADYIT
660 670 680 690 700
VMADDGTRQS YRLRKFARSN HGTCANQRPI VDAGQRVEAG QVIADGPCTQ
710 720 730 740 750
NGEMALGKNL LVAIMPWEGH NYEDAIILSN RLVEEDVLTS IHIEEHEIDA
760 770 780 790 800
RDTKLGAEEI TRDIPNVSDE VLADLDERGI VRIGAEVRDG DILVGKVTPK
810 820 830 840 850
GETELTPEER LLRAIFGEKA REVRDTSLKV PHGESGKVIG IRVFSREDDD
860 870 880 890 900
ELPAGVNELV RVYVAQKRKI SDGDKLAGRH GNKGVIGKIL PVEDMPFLPD
910 920 930 940 950
GTPVDIILNT HGVPRRMNIG QILETHLGWV AKAGWNIDVA AGVPDWASKL
960 970 980 990 1000
PEELYSAPAD STVATPVFDG AQEGELAGLL GSTLPNRDGE VMVDADGKST
1010 1020 1030 1040 1050
LFDGRSGEPF PYPVTVGYMY ILKLHHLVDD KIHARSTGPY SMITQQPLGG
1060 1070 1080 1090 1100
KAQFGGQRFG EMECWAMQAY GAAYTLQELL TIKSDDTVGR VKVYEAIVKG
1110 1120 1130 1140 1150
ENIPEPGIPE SFKVLLKELQ SLCLNVEVLS SDGAAIEMRD GDDEDLERAA
1160
ANLGINLSRN ESASVEDLA
Length:1,169
Mass (Da):128,531
Last modified:January 16, 2004 - v1
Checksum:iD17F0E28A863FE15
GO

Sequence cautioni

The sequence AFP37801 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ605718 Genomic DNA. Translation: CAE53837.1.
CP000480 Genomic DNA. Translation: ABK70312.1.
CP001663 Genomic DNA. Translation: AFP37801.1. Different initiation.
RefSeqiWP_011727628.1. NZ_CP009494.1.
YP_885753.1. NC_008596.1.

Genome annotation databases

EnsemblBacteriaiABK70312; ABK70312; MSMEG_1367.
AFP37801; AFP37801; MSMEI_1328.
GeneIDi4535217.
KEGGimsb:LJ00_06815.
msg:MSMEI_1328.
msm:MSMEG_1367.
PATRICifig|246196.19.peg.1351.

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.

Entry informationi

Entry nameiRPOB_MYCS2
AccessioniPrimary (citable) accession number: P60281
Secondary accession number(s): A0QS65, I7G3Q0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 16, 2004
Last sequence update: January 16, 2004
Last modified: July 5, 2017
This is version 88 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families