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Protein

DNA-directed RNA polymerase II subunit RPB11

Gene

RPB11

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 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. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB11 is part of the core element with the central large cleft. Seems to be involved transcript termination.1 Publication

GO - Molecular functioni

GO - Biological processi

  • termination of RNA polymerase II transcription Source: SGD
  • transcription, RNA-templated Source: GOC
  • transcription from RNA polymerase II promoter Source: SGD
Complete GO annotation...

Keywords - Biological processi

Transcription

Enzyme and pathway databases

BioCyciYEAST:G3O-33422-MONOMER.
ReactomeiR-SCE-113418. Formation of the Early Elongation Complex.
R-SCE-674695. RNA Polymerase II Pre-transcription Events.
R-SCE-6781823. Formation of TC-NER Pre-Incision Complex.
R-SCE-6782135. Dual incision in TC-NER.
R-SCE-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.
R-SCE-6796648. TP53 Regulates Transcription of DNA Repair Genes.
R-SCE-72086. mRNA Capping.
R-SCE-72165. mRNA Splicing - Minor Pathway.
R-SCE-73776. RNA Polymerase II Promoter Escape.
R-SCE-73779. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
R-SCE-75953. RNA Polymerase II Transcription Initiation.
R-SCE-76042. RNA Polymerase II Transcription Initiation And Promoter Clearance.
R-SCE-77075. RNA Pol II CTD phosphorylation and interaction with CE.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase II subunit RPB11
Short name:
RNA polymerase II subunit B11
Alternative name(s):
B13.6
DNA-directed RNA polymerase II 13.6 kDa polypeptide
Gene namesi
Name:RPB11
Ordered Locus Names:YOL005C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XV

Organism-specific databases

EuPathDBiFungiDB:YOL005C.
SGDiS000005365. RPB11.

Subcellular locationi

GO - Cellular componenti

  • DNA-directed RNA polymerase II, core complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

DNA-directed RNA polymerase, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi108E → G or V: Transcript termination readthrough. 1 Publication1
Mutagenesisi108E → K: Transcript termination readthrough. Lethal. 1 Publication1
Mutagenesisi111L → P: Transcript termination readthrough. 1 Publication1
Mutagenesisi114L → P: Transcript termination readthrough. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001493151 – 120DNA-directed RNA polymerase II subunit RPB11Add BLAST120

Proteomic databases

MaxQBiP38902.
PRIDEiP38902.

Interactioni

Subunit structurei

Component of the RNA polymerase II (Pol II) complex consisting of 12 subunits.3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
RPB3P163704EBI-15806,EBI-15773

Protein-protein interaction databases

BioGridi34399. 50 interactors.
DIPiDIP-937N.
IntActiP38902. 15 interactors.
MINTiMINT-618340.

Structurei

Secondary structure

1120
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi7 – 9Combined sources3
Beta strandi18 – 20Combined sources3
Beta strandi21 – 23Combined sources3
Beta strandi25 – 27Combined sources3
Beta strandi30 – 37Combined sources8
Helixi40 – 50Combined sources11
Beta strandi51 – 53Combined sources3
Beta strandi56 – 62Combined sources7
Beta strandi66 – 68Combined sources3
Beta strandi70 – 77Combined sources8
Helixi83 – 108Combined sources26
Turni109 – 111Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1I3QX-ray3.10K1-120[»]
1I50X-ray2.80K1-120[»]
1I6HX-ray3.30K1-120[»]
1K83X-ray2.80K1-120[»]
1NIKX-ray4.10K1-120[»]
1NT9X-ray4.20K1-120[»]
1PQVX-ray3.80K1-120[»]
1R5UX-ray4.50K1-120[»]
1R9SX-ray4.25K1-120[»]
1R9TX-ray3.50K1-120[»]
1SFOX-ray3.61K1-120[»]
1TWAX-ray3.20K1-120[»]
1TWCX-ray3.00K1-120[»]
1TWFX-ray2.30K1-120[»]
1TWGX-ray3.30K1-120[»]
1TWHX-ray3.40K1-120[»]
1WCMX-ray3.80K1-120[»]
1Y1VX-ray3.80K1-120[»]
1Y1WX-ray4.00K1-120[»]
1Y1YX-ray4.00K1-120[»]
1Y77X-ray4.50K1-120[»]
2B63X-ray3.80K1-120[»]
2B8KX-ray4.15K1-120[»]
2E2HX-ray3.95K1-120[»]
2E2IX-ray3.41K1-120[»]
2E2JX-ray3.50K1-120[»]
2JA5X-ray3.80K1-120[»]
2JA6X-ray4.00K1-120[»]
2JA7X-ray3.80K/W1-120[»]
2JA8X-ray3.80K1-120[»]
2NVQX-ray2.90K1-120[»]
2NVTX-ray3.36K1-120[»]
2NVXX-ray3.60K1-120[»]
2NVYX-ray3.40K1-120[»]
2NVZX-ray4.30K1-120[»]
2R7ZX-ray3.80K1-120[»]
2R92X-ray3.80K1-120[»]
2R93X-ray4.00K1-120[»]
2VUMX-ray3.40K1-120[»]
2YU9X-ray3.40K1-120[»]
3CQZX-ray2.80K1-120[»]
3FKIX-ray3.88K1-120[»]
3GTGX-ray3.78K1-120[»]
3GTJX-ray3.42K1-120[»]
3GTKX-ray3.80K1-120[»]
3GTLX-ray3.38K1-120[»]
3GTMX-ray3.80K1-120[»]
3GTOX-ray4.00K1-120[»]
3GTPX-ray3.90K1-120[»]
3GTQX-ray3.80K1-120[»]
3H3VX-ray4.00L1-120[»]
3HOUX-ray3.20K/W1-120[»]
3HOVX-ray3.50K1-120[»]
3HOWX-ray3.60K1-120[»]
3HOXX-ray3.65K1-120[»]
3HOYX-ray3.40K1-120[»]
3HOZX-ray3.65K1-120[»]
3I4MX-ray3.70K1-120[»]
3I4NX-ray3.90K1-120[»]
3J0Kelectron microscopy36.00K1-120[»]
3J1Nelectron microscopy16.00K1-120[»]
3K1FX-ray4.30K1-120[»]
3K7AX-ray3.80K1-120[»]
3M3YX-ray3.18K1-120[»]
3M4OX-ray3.57K1-120[»]
3PO2X-ray3.30K1-120[»]
3PO3X-ray3.30K1-120[»]
3QT1X-ray4.30K1-120[»]
3RZDX-ray3.30K1-120[»]
3RZOX-ray3.00K1-120[»]
3S14X-ray2.85K1-120[»]
3S15X-ray3.30K1-120[»]
3S16X-ray3.24K1-120[»]
3S17X-ray3.20K1-120[»]
3S1MX-ray3.13K1-120[»]
3S1NX-ray3.10K1-120[»]
3S1QX-ray3.30K1-120[»]
3S1RX-ray3.20K1-120[»]
3S2DX-ray3.20K1-120[»]
3S2HX-ray3.30K1-120[»]
4A3BX-ray3.50K1-120[»]
4A3CX-ray3.50K1-120[»]
4A3DX-ray3.40K1-120[»]
4A3EX-ray3.40K1-120[»]
4A3FX-ray3.50K1-120[»]
4A3GX-ray3.50K1-120[»]
4A3IX-ray3.80K1-120[»]
4A3JX-ray3.70K1-120[»]
4A3KX-ray3.50K1-120[»]
4A3LX-ray3.50K1-120[»]
4A3MX-ray3.90K1-120[»]
4A93X-ray3.40K1-120[»]
4BBRX-ray3.40K1-120[»]
4BBSX-ray3.60K1-120[»]
4BXXX-ray3.28K1-120[»]
4BXZX-ray4.80K1-120[»]
4BY1X-ray3.60K1-120[»]
4BY7X-ray3.15K1-120[»]
4V1Melectron microscopy6.60K1-120[»]
4V1Nelectron microscopy7.80K1-120[»]
4V1Oelectron microscopy9.70K1-120[»]
4X67X-ray4.10K1-120[»]
4X6AX-ray3.96K1-120[»]
4Y52X-ray3.50K1-120[»]
4Y7NX-ray3.30K1-120[»]
5C3EX-ray3.70K1-120[»]
5C44X-ray3.95K1-120[»]
5C4AX-ray4.20K1-120[»]
5C4JX-ray4.00K1-120[»]
5C4XX-ray4.00K1-120[»]
5FMFelectron microscopy6.00K1-115[»]
5FYWelectron microscopy4.35K1-120[»]
5FZ5electron microscopy8.80K1-120[»]
5IP7X-ray3.52K1-115[»]
5IP9X-ray3.90K1-115[»]
5SVAelectron microscopy15.30K1-120[»]
ProteinModelPortaliP38902.
SMRiP38902.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP38902.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00550000074975.
HOGENOMiHOG000179862.
InParanoidiP38902.
KOiK03008.
OMAiFEREDHT.
OrthoDBiEOG092C5QHE.

Family and domain databases

InterProiIPR009025. RBP11-like_dimer.
IPR008193. RNA_pol_Rpb11_13-16kDa_CS.
[Graphical view]
PfamiPF13656. RNA_pol_L_2. 1 hit.
[Graphical view]
SUPFAMiSSF55257. SSF55257. 1 hit.
PROSITEiPS01154. RNA_POL_L_13KD. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P38902-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNAPDRFELF LLGEGESKLK IDPDTKAPNA VVITFEKEDH TLGNLIRAEL
60 70 80 90 100
LNDRKVLFAA YKVEHPFFAR FKLRIQTTEG YDPKDALKNA CNSIINKLGA
110 120
LKTNFETEWN LQTLAADDAF
Length:120
Mass (Da):13,616
Last modified:February 1, 1995 - v1
Checksum:iA98D109C5FF8E356
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S62624 Genomic DNA. Translation: AAB27135.1.
Z74747 Genomic DNA. Translation: CAA99004.1.
AY557998 Genomic DNA. Translation: AAS56324.1.
BK006948 Genomic DNA. Translation: DAA10778.1.
PIRiS58933.
RefSeqiNP_014638.1. NM_001183259.1.

Genome annotation databases

EnsemblFungiiYOL005C; YOL005C; YOL005C.
GeneIDi854157.
KEGGisce:YOL005C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S62624 Genomic DNA. Translation: AAB27135.1.
Z74747 Genomic DNA. Translation: CAA99004.1.
AY557998 Genomic DNA. Translation: AAS56324.1.
BK006948 Genomic DNA. Translation: DAA10778.1.
PIRiS58933.
RefSeqiNP_014638.1. NM_001183259.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1I3QX-ray3.10K1-120[»]
1I50X-ray2.80K1-120[»]
1I6HX-ray3.30K1-120[»]
1K83X-ray2.80K1-120[»]
1NIKX-ray4.10K1-120[»]
1NT9X-ray4.20K1-120[»]
1PQVX-ray3.80K1-120[»]
1R5UX-ray4.50K1-120[»]
1R9SX-ray4.25K1-120[»]
1R9TX-ray3.50K1-120[»]
1SFOX-ray3.61K1-120[»]
1TWAX-ray3.20K1-120[»]
1TWCX-ray3.00K1-120[»]
1TWFX-ray2.30K1-120[»]
1TWGX-ray3.30K1-120[»]
1TWHX-ray3.40K1-120[»]
1WCMX-ray3.80K1-120[»]
1Y1VX-ray3.80K1-120[»]
1Y1WX-ray4.00K1-120[»]
1Y1YX-ray4.00K1-120[»]
1Y77X-ray4.50K1-120[»]
2B63X-ray3.80K1-120[»]
2B8KX-ray4.15K1-120[»]
2E2HX-ray3.95K1-120[»]
2E2IX-ray3.41K1-120[»]
2E2JX-ray3.50K1-120[»]
2JA5X-ray3.80K1-120[»]
2JA6X-ray4.00K1-120[»]
2JA7X-ray3.80K/W1-120[»]
2JA8X-ray3.80K1-120[»]
2NVQX-ray2.90K1-120[»]
2NVTX-ray3.36K1-120[»]
2NVXX-ray3.60K1-120[»]
2NVYX-ray3.40K1-120[»]
2NVZX-ray4.30K1-120[»]
2R7ZX-ray3.80K1-120[»]
2R92X-ray3.80K1-120[»]
2R93X-ray4.00K1-120[»]
2VUMX-ray3.40K1-120[»]
2YU9X-ray3.40K1-120[»]
3CQZX-ray2.80K1-120[»]
3FKIX-ray3.88K1-120[»]
3GTGX-ray3.78K1-120[»]
3GTJX-ray3.42K1-120[»]
3GTKX-ray3.80K1-120[»]
3GTLX-ray3.38K1-120[»]
3GTMX-ray3.80K1-120[»]
3GTOX-ray4.00K1-120[»]
3GTPX-ray3.90K1-120[»]
3GTQX-ray3.80K1-120[»]
3H3VX-ray4.00L1-120[»]
3HOUX-ray3.20K/W1-120[»]
3HOVX-ray3.50K1-120[»]
3HOWX-ray3.60K1-120[»]
3HOXX-ray3.65K1-120[»]
3HOYX-ray3.40K1-120[»]
3HOZX-ray3.65K1-120[»]
3I4MX-ray3.70K1-120[»]
3I4NX-ray3.90K1-120[»]
3J0Kelectron microscopy36.00K1-120[»]
3J1Nelectron microscopy16.00K1-120[»]
3K1FX-ray4.30K1-120[»]
3K7AX-ray3.80K1-120[»]
3M3YX-ray3.18K1-120[»]
3M4OX-ray3.57K1-120[»]
3PO2X-ray3.30K1-120[»]
3PO3X-ray3.30K1-120[»]
3QT1X-ray4.30K1-120[»]
3RZDX-ray3.30K1-120[»]
3RZOX-ray3.00K1-120[»]
3S14X-ray2.85K1-120[»]
3S15X-ray3.30K1-120[»]
3S16X-ray3.24K1-120[»]
3S17X-ray3.20K1-120[»]
3S1MX-ray3.13K1-120[»]
3S1NX-ray3.10K1-120[»]
3S1QX-ray3.30K1-120[»]
3S1RX-ray3.20K1-120[»]
3S2DX-ray3.20K1-120[»]
3S2HX-ray3.30K1-120[»]
4A3BX-ray3.50K1-120[»]
4A3CX-ray3.50K1-120[»]
4A3DX-ray3.40K1-120[»]
4A3EX-ray3.40K1-120[»]
4A3FX-ray3.50K1-120[»]
4A3GX-ray3.50K1-120[»]
4A3IX-ray3.80K1-120[»]
4A3JX-ray3.70K1-120[»]
4A3KX-ray3.50K1-120[»]
4A3LX-ray3.50K1-120[»]
4A3MX-ray3.90K1-120[»]
4A93X-ray3.40K1-120[»]
4BBRX-ray3.40K1-120[»]
4BBSX-ray3.60K1-120[»]
4BXXX-ray3.28K1-120[»]
4BXZX-ray4.80K1-120[»]
4BY1X-ray3.60K1-120[»]
4BY7X-ray3.15K1-120[»]
4V1Melectron microscopy6.60K1-120[»]
4V1Nelectron microscopy7.80K1-120[»]
4V1Oelectron microscopy9.70K1-120[»]
4X67X-ray4.10K1-120[»]
4X6AX-ray3.96K1-120[»]
4Y52X-ray3.50K1-120[»]
4Y7NX-ray3.30K1-120[»]
5C3EX-ray3.70K1-120[»]
5C44X-ray3.95K1-120[»]
5C4AX-ray4.20K1-120[»]
5C4JX-ray4.00K1-120[»]
5C4XX-ray4.00K1-120[»]
5FMFelectron microscopy6.00K1-115[»]
5FYWelectron microscopy4.35K1-120[»]
5FZ5electron microscopy8.80K1-120[»]
5IP7X-ray3.52K1-115[»]
5IP9X-ray3.90K1-115[»]
5SVAelectron microscopy15.30K1-120[»]
ProteinModelPortaliP38902.
SMRiP38902.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi34399. 50 interactors.
DIPiDIP-937N.
IntActiP38902. 15 interactors.
MINTiMINT-618340.

Proteomic databases

MaxQBiP38902.
PRIDEiP38902.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYOL005C; YOL005C; YOL005C.
GeneIDi854157.
KEGGisce:YOL005C.

Organism-specific databases

EuPathDBiFungiDB:YOL005C.
SGDiS000005365. RPB11.

Phylogenomic databases

GeneTreeiENSGT00550000074975.
HOGENOMiHOG000179862.
InParanoidiP38902.
KOiK03008.
OMAiFEREDHT.
OrthoDBiEOG092C5QHE.

Enzyme and pathway databases

BioCyciYEAST:G3O-33422-MONOMER.
ReactomeiR-SCE-113418. Formation of the Early Elongation Complex.
R-SCE-674695. RNA Polymerase II Pre-transcription Events.
R-SCE-6781823. Formation of TC-NER Pre-Incision Complex.
R-SCE-6782135. Dual incision in TC-NER.
R-SCE-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.
R-SCE-6796648. TP53 Regulates Transcription of DNA Repair Genes.
R-SCE-72086. mRNA Capping.
R-SCE-72165. mRNA Splicing - Minor Pathway.
R-SCE-73776. RNA Polymerase II Promoter Escape.
R-SCE-73779. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
R-SCE-75953. RNA Polymerase II Transcription Initiation.
R-SCE-76042. RNA Polymerase II Transcription Initiation And Promoter Clearance.
R-SCE-77075. RNA Pol II CTD phosphorylation and interaction with CE.

Miscellaneous databases

EvolutionaryTraceiP38902.
PROiP38902.

Family and domain databases

InterProiIPR009025. RBP11-like_dimer.
IPR008193. RNA_pol_Rpb11_13-16kDa_CS.
[Graphical view]
PfamiPF13656. RNA_pol_L_2. 1 hit.
[Graphical view]
SUPFAMiSSF55257. SSF55257. 1 hit.
PROSITEiPS01154. RNA_POL_L_13KD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRPB11_YEAST
AccessioniPrimary (citable) accession number: P38902
Secondary accession number(s): D6W262
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: November 30, 2016
This is version 159 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 4280 molecules/cell in log phase SD medium.1 Publication

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
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XV
    Yeast (Saccharomyces cerevisiae) chromosome XV: entries and gene names

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.