6J4X


Conserved Protein Domain Family
RNA_pol_Rpb1_6

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pfam04992: RNA_pol_Rpb1_6 
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RNA polymerase Rpb1, domain 6
RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 6, represents a mobile module of the RNA polymerase. Domain 6 forms part of the shelf module. This family appears to be specific to the largest subunit of RNA polymerase II.
Statistics
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PSSM-Id: 398590
Aligned: 121 rows
Threshold Bit Score: 102.952
Threshold Setting Gi: 81990383
Created: 20-May-2020
Updated: 7-Aug-2020
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:
6J4X_A        874 LDGTQVERQTIDTIPGSDKAFHKRYYV-------DL-------------M--DeKNSIKPd---------VIEYAA--DI 920  Komagataella ...
EAY19064      891 LDATGLETQRLALVTLNDEDFMKKYHL-------AT-------------E--DpTFGQV-----------EMDDFVldEF 937  Trichomonas v...
EEA07210      903 MAGEFIEDQVIELLQMDPSVFQHKYRH-------NM-------------EhpRwGSNWQ-----------GVSSNTikNL 951  Cryptosporidi...
Q4N0F9        886 MGAEYIEDQFIDLMRLDDEEIHRRFSH-------DF-------------RseSyGLGWI-------------SEEIrnAI 932  Theileria parva
EDO05418      886 MGAEYVEDQTLDLMKLDFASLNRLYAH-------DF-------------RneNyGVGWI------------LDESVrtNI 933  Babesia bovis
A0BYP5        879 MAAEFIEHQEIKCVNLSNAQLEEKYEL-------IKeqwfgseirqkyqN--------------------ILTEDVikDI 931  Paramecium te...
XP_004027344  336 LAGEYIETQKIAEIEYSNEQFEKEYRFi-----------------------rDfENQVSIkeflereyerKLNKDVisEI 392  Ichthyophthir...
Q7T6X5        870 intenqvDQKIDLISANDNKVRNDYVYt-----------------------eDeIKYLIKn------------------- 907  Acanthamoeba ...
EFC41982      864 MDPIKLESQSFEMLSLSDEIFEEKYKWstkledhNI------------------------------------PESDlnEI 907  Naegleria gru...
XP_001007918  884 LAGEFIETQKIGEVDYKEEDFQKEYRFvkanksdDWlfqytkldqmenqIskEiSRDVLI----------AIKEEFmrMI 953  Tetrahymena t...
6J4X_A        921 --LGDVE-LQKE-----LNSEYEQLVSDRKFLReiv--fvNg--dHNWp--LPVNLRRIIQNAQQIFHL----DRAKA-S 981  Komagataella ...
EAY19064      938 --LKTPN-KDKF-----LKEEENRLREYREILQkeifpngS----NTVv--VPVNIARIIESSQRQFDI----NVHVSkS 999  Trichomonas v...
EEA07210      952 --QFDLE-SQNI-----LNTEYKQLVLDRELLGqdifpdgE------TrqhLPINIGRIIQMAQQKFPRynvdDDSGR-F 1016 Cryptosporidi...
Q4N0F9        933 --LSDFS-QQVI-----LVEEFQKLLDLKKMICeeifpsgD------YsqhLPINIKRILEYATTQFPA------SST-S 991  Theileria parva
EDO05418      934 --LTDFS-KQVI-----LVEEYQRILDMKAILCkqvfpdgE------ArqhLPINISRLLEYAKTQFPT----TTESR-K 994  Babesia bovis
A0BYP5        932 --EEDFE-GQAL-----LKGEFDEIKKIRNELRrlflidsApkeeLFThyyLVVNIERIISTIKINKKI----SDREK-C 998  Paramecium te...
XP_004027344  393 --DESARqSRQKyepfcLEEEYRDLLEARDLFRkcfyfysFk---QSLdlnIPVNIDRMLRSTKIEMSKnnriYDKDE-S 466  Ichthyophthir...
Q7T6X5        908 -hKTDKRyTTDL-----NNSLYRKLISMRDQLRriqrlvnLtsaeFKEtykMPVDIQQFIFNIINR-------DVRNNnV 974  Acanthamoeba ...
EFC41982      908 --SLDFAnYLMK-----LNDEYKKLQEYRHLVRdeilqsvD----SKIv--FPVNLSRLIKRVQREYGRkhs-tfNNS-S 972  Naegleria gru...
XP_001007918  954 neRNEGEdPKFI-----LEQEYEELIEARNLFRknfyfyaQe---GKLdinLPVNIGRMIESAKIEMSQknktYTRDQ-C 1024 Tetrahymena t...
6J4X_A        982 DLTIPEIIHGVRDLC-KKLFvl---------------rgENELIKEAQQNATSLFQCLVRARLATRRILEEFRLNRDAFE 1045 Komagataella ...
EAY19064     1000 DLNPLDIISRVDECV-NSLIvv---------------kgNDNISRTEQENATLLLRIMLYSHLSAKQCIFEYRLNEQAFK 1063 Trichomonas v...
EEA07210     1017 EWGPVTIIKQVEGLL-DKLLlwknmstkdnldnpklpptFDNIIAEVQKNATTLLGIHIRSALASKKILEIDRLGPTAFE 1095 Cryptosporidi...
Q4N0F9        992 KLNPVEIAQRTNKLL-ESLIiint------------sgpNDILSEEAQQNATILIKAHLRCHLNSRYLMEQVQISSLALD 1058 Theileria parva
EDO05418      995 LMNPVDIAQRVQQLL-DSLTivvt------------sgpHDILAAEAQENATILIKAHLSTALNSRRLMEREKIGNLAFD 1061 Babesia bovis
A0BYP5        999 RLNPIYVTQQVDELI-QKVDkl------------------lsYDLEERKDCINLFRTHLKVSLASKDLCCRHRLTPEAFQ 1059 Paramecium te...
XP_004027344  467 RLSPIYVYRVINELF-TKLD-------------------NDAINRGVDPNALMLFKAHVRLHLSSKKIVIKHKINKEKFE 526  Ichthyophthir...
Q7T6X5        975 VVDPYYVLKMIKDMYyGSDSkimk-----------ynnrTSRIKKEDEKRIKFLMKIYLYDVLAPKKCTHVYKFSKQEFD 1043 Acanthamoeba ...
EFC41982      973 DLNPLYVIKKVNSTC-EELLii---------------kgKDKLSEEAQRNAILLFSIFLKFSLASKVVMNELNLTRESLE 1036 Naegleria gru...
XP_001007918 1025 KTNPIQVYKSLLELF-KNLD-------------------DYAVKRGMEYESLALFKAHIRLHLGSKKIVLRHKLSMEVFD 1084 Tetrahymena t...
6J4X_A       1046 WVLGTIEAQFQRS 1058 Komagataella phaffii GS115
EAY19064     1064 YILGSIKDRFYRS 1076 Trichomonas vaginalis G3
EEA07210     1096 WVIGEIQHQFYRS 1108 Cryptosporidium muris RN66
Q4N0F9       1059 WVYGEVERCFFKA 1071 Theileria parva
EDO05418     1062 WLLGEVKRIFYKS 1074 Babesia bovis
A0BYP5       1060 ELISEIIYKLKKS 1072 Paramecium tetraurelia
XP_004027344  527 QLVREVEARYKQA 539  Ichthyophthirius multifiliis
Q7T6X5       1044 EIVD-----YFKK 1051 Acanthamoeba polyphaga mimivirus
EFC41982     1037 YLLGEVKYTFLng 1049 Naegleria gruberi
XP_001007918 1085 KLTKEIFDKFKKA 1097 Tetrahymena thermophila SB210
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