2B63,2C35


Conserved Protein Domain Family
RNAP_II_Rpb7_N

?
cd04329: RNAP_II_Rpb7_N 
Click on image for an interactive view with Cn3D
RNAP_II_Rpb7_N: Rpb7, N-terminal ribonucleoprotein (RNP) domain. Rpb7 is a subunit of eukaryotic RNA polymerase (RNAP) II that is homologous to Rpc25 of RNAP III, RpoE of archaeal RNAP, and Rpa43 of eukaryotic RNAP I. Rpb7 heterodimerizes with Rpb4 and this heterodimer binds the 10-subunit core of RNAP II, forming part of the floor of the DNA-binding cleft. Rpb7 has two domains, an N-terminal RNP domain and a C-terminal oligonucleotide-binding (OB) domain, both of which bind single-stranded RNA. Rpb7 is thought to interact with the nascent RNA strand as it exits the RNAP II complex during transcription elongation. The Rpb7/Rpb4 heterodimer is also thought to serve as an upstream interface between the C-terminal domain of Rpb1 and the transcription factor IIB (TFIIB), recruiting pol II to the pol II promoter.
Statistics
?
PSSM-Id: 239821
Aligned: 26 rows
Threshold Bit Score: 79.9187
Created: 11-Aug-2006
Updated: 2-Oct-2020
Structure
?
Program:
Drawing:
Aligned Rows:
 
Conserved site includes 15 residues -Click on image for an interactive view with Cn3D
Feature 1:Rpb4 interaction site [polypeptide binding site]
Evidence:
  • Structure:2B63_DG; Saccharomyces cerevisiae Rpb7 binds Rpb4; defined using 3.5A contacts.

Sequence Alignment
?
Format: Row Display: Color Bits: Type Selection:
Feature 1     ## #  #                             ##               #             # #          
2B63_G      2 FFIKDLSLNITLHPS---FFGPRMKQYLKTKLLEEVEGSCt----------gKFGYi----------LCVLDydNIDI-- 56  baker's yeast
CAJ08648    2 FYKIVLQRTVNVKPA---DLCNTLNRSLLTFLREAVEGKPlpspdsiasialDYVTasks---savvIAVLD--ILNAet 73  Leishmania major
XP_829505   2 FYKMKLERNIKVEPH---LLERTLHRHLEEYLRKAVEGTPlhlsl---gnalRSGLartnqnssaviIAVLD--ILNTss 73  Trypanosoma brucei...
NP_700742   2 YFVIEEWKNVIIKPS---QLGPRYQQYIEDMLRNSVEGQCs----------vKYGYv----------ICVIR--IIHS-- 54  Plasmodium falcipa...
NP_586102   2 FFVRDFVQNIHLSPN---YLGPNIQALIEEYLLSKVEGSCs-----------SSGYv----------VMVLS--IDEI-- 53  Encephalitozoon cu...
EAL21463    2 FFLRELTHTILLHPS---YFGAQLEDYLRQKLYEDVEGTCs----------gKHGYi----------ISVIT--ITDI-- 54  Cryptococcus neofo...
NP_113115  28 YAIMTLNQNLFIPAK---LLNNQLKSTLIAQLITLTEGLPf----------gNVGSi----------IMIIN--IDNQk- 81  Guillardia theta
XP_761481   2 FFLKHLTHKTELHPS---YFGPSMVEFLNQKLRDDVEGTCt----------gKHGYi----------IKVIG--LVDV-- 54  Ustilago maydis 521
NP_193202   2 FLKVQLPWNVMIPAEnmdAKGLMLKRAILVELLEAFASKKat---------kELGYy----------VAVTT--LDKI-- 58  thale cress
NP_566719   2 FIKVKLPWDVTIPAEd-mDTGLMLQRAIVIRLLEAFSKEKat---------kDLGYl----------ITPTI--LENI-- 57  thale cress
Feature 1                     # # #  # ##
2B63_G     57 QRGRIlpTDGSAEFNVKYRAVVFKPFK 83  baker's yeast
CAJ08648   74 LQGKVl-DDGSVSFRLTYEAMVLKLHR 99  Leishmania major
XP_829505  74 LEGRVl-DDGSVSFFVKYEGLVFKLHR 99  Trypanosoma brucei TREU927
NP_700742  55 EPGRVqdGTGMIVVKVKYQAIVFKPFK 81  Plasmodium falciparum 3D7
NP_586102  54 SESRIi-LTGETIFTVKYKALTLKPLK 79  Encephalitozoon cuniculi GB-M1
EAL21463   55 GEGKIipSTGQAKFKTRYTAIVMKPFK 81  Cryptococcus neoformans var. neoformans B-3501A
NP_113115  82 LYGKIlpGFSSVLFKVNFQAVVLKIFK 108 Guillardia theta
XP_761481  55 GQGKVipGSGLAEFNSTYQAVVLKPFK 81  Ustilago maydis 521
NP_193202  59 GEGKIreHTGEVLFPVMFSGMTFKIFK 85  thale cress
NP_566719  58 GEGKIkeQTGEIQFPVVFNGICFKMFK 84  thale cress

| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap