4C2M,5FLM,3H0G,2PA8,4QJV,1XPP


Conserved Protein Domain Family
RNA_pol_L_2

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pfam13656: RNA_pol_L_2 
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RNA polymerase Rpb3/Rpb11 dimerization domain
The two eukaryotic subunits Rpb3 and Rpb11 dimerize to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerization domain of the alpha subunit/Rpb3 is interrupted by an insert domain (pfam01000). Some of the alpha subunits also contain iron-sulphur binding domains (pfam00037). Rpb11 is found as a continuous domain. Members of this family include: alpha subunit from eubacteria, alpha subunits from chloroplasts, Rpb3 subunits from eukaryotes, Rpb11 subunits from eukaryotes, RpoD subunits from archaeal spp, and RpoL subunits from archaeal spp. Many of the members of this family carry only the N-terminal region of Rpb11.
Statistics
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PSSM-Id: 338878
View PSSM: pfam13656
Aligned: 272 rows
Threshold Bit Score: 42.4686
Threshold Setting Gi: 504399760
Created: 30-Mar-2017
Updated: 23-May-2017
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4C2M_K        60 SASFQIVEEDHTLGNALRYVIMKNPDVEFCGYSIPHP--SE-NLLNIRIQTYGeT---TAVDALQKGLKDLMDLCDVVES 133
gi 21263946   16 YLELKAKGETYTLFSPLVEYLSNDPDVEYVQFDVDHP--LQ-ENAYFKLKVkr----gNPLEAIQRAVNAILSDLEELER 88
gi 73917889   12 LLEFYLEGEDHTFANLLTETLHENEHVTFAGYTIEHPitMA-RKPRFKVVT---DgkiTPEKALEEAAQKIFDRAREVLe 87
gi 501138095  15 YMEVTVEGEDYTVMSPLLTYILQDPEVEFATFDMDHP--LL-RNITLKLRTKG-K---DPLKVLEDAVNRILNDIGELEg 87
gi 503101586  13 YLEAVVQGETYTLFAPLIEYLLKRPDVEYAMYDVDHP--LT-QNVRFRIKTKG-R---PPLDVIKEAVNEILRDVEELEK 85
gi 350275711  12 YLELKTKGETYTLFSPLVEYLSEDPDVEYVTFDVGHP--LI-EDVTFKVKTRN-G---APLDAIRRAVQNILNDLEALER 84
gi 501694210  12 KARLLIAGEGNTFMNALTEEILTDPEVDVARYRIKYQ--FSdPELFITTKGEk-----SPIAVIREACGRLSGFCDELLK 84
gi 501054520  12 KARLVIQGEGHTFMNALVEEILTDPDVDVAKYTIEFQ--FSdPELLVTTKNAk----kNPLTVIKKACKRISSNCDDLLK 85
gi 851284322  12 lARIMFVGEGHTFMNVLVDEILKNPEVDVANYSSEFH--FTdPVLLVTTKNGk-----NPLDAIREAASAISGNCTGLie 84
gi 500170575  12 KARILFEGEGNTYIDALATELIRDPQVDVAQRKQAFR--FTdPELVVTTVGg-----rPPLLAITDAAKRLSGYAGEILS 84
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