Conserved Protein Domain Family
RpoD

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COG0568: RpoD (this model, PSSM-Id:30914 is obsolete and has been replaced by 223642)
DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]
Statistics
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PSSM-Id: 30914
View PSSM: COG0568
Aligned: 100 rows
Threshold Bit Score: -1
Threshold Setting Gi: 0
Created: 7-Oct-2002
Updated: 7-Oct-2002
Structure
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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
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17546934 397 LMTIRFTARNVERLCDTLRGQVDEVRKLERAILNIVVDKCGMsrgdfvsr---fpgnetnlGWINTVVADGKP-YSAIVE 472
gi 17986661   1 ----------------------------------------------------------------------------maqm 4
gi 7994684    1 ----------------------------------------------------------------------------mink 4
gi 15895322     --------------------------------------------------------------------------------
gi 19704652   1 -----MKLLSLEKYLLKNSLDDEEFQKLVFEISEKLELEALS---------------------EDRKLTDEEIdYEYID- 53
gi 15828925  87 DDLVEVSGDTIENELDDEVDIKKLKSIKKEMLNDDLFNDDDLnddgdedfesnifdddeikEYSSKSLQDKNIsKLSGEK 166
gi 15793882   1 ------------------------------------------------------------------------mpqmnnaf 8
gi 15794630 280 LLEVRFATRQIDSLSSSLRGKVENIRKLEREIRDICLDRVHMerdyfiqn---flpeitnlEWIEEEIAKGRV-WSDALD 355
gi 15639996   1 --------------MLSIWYVPFEQKEYSVRQMQFRHDEN----------------------TLTAYLNDLKR------- 37
gi 17158744   5 TSNTKFSTDIVRNYLQDIVRVPLLTHEEEIVYSKQVQQMMVL-------------------QKKKETLKK-QLnHEPSQK 64
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17546934 473 r---NIPAVHELQQKLIDL-QARVVLPLAELKDVNKKMSEGERrAREAKREMTEANLRLVISIAK--KYTNRGLQFLDLI 546
gi 17986661   5 klpsITSGDGGLTRYLEEI-RRFPMLEPQEEYMLAKRYHEHa--DPKAAHKLVTSHLRLVAKIAM--GYRGYGLPIGEVI 79
gi 7994684    5 vqilSVTPPGNLDAYIRIA-NLWPMLSIEEEKKLTKRLRYNg--DLDAAKTLILSHLRFVIHISR--NYSGYGLLQSDLI 79
gi 15895322   1 -----------------------MYMEDKEVKDLILRAKDG---SKDAKSFLIDSSMKYIKKIANgfCLNNKSLSLEDLM 54
gi 19704652  54 -----------------------FLIAETLESLKDDVCTCG---VEDCCGTRVEKNLKKVYEIAL--YMLRDGISYEDLT 105
gi 15828925 167 lkskLIETNDIVKWYMRWIgKYGTLLTAAEEKQLAIDMKKGGLkgKIAKDKLINRNLRLVINNAK--KYKNRGLSFIDLI 244
gi 15793882   9 alpaIQSGNGSLEQYIHTV-NSIPMLSQEEETRLAERRIKg---DLNAAKQLILSHLRVVVSIAR--GYDGYGLNQADLI 82
gi 15794630 356 r---FRHAILEKQTELADM-EKETRISIEELKEINKNMVSSEKeTAAAKQEMIQANLRLVISIAK--KYTNRGLQFLDLI 429
gi 15639996  38 ----------------------IPLMNEKEEYACACAAYAG---DAQAKNALVRANVRFVISVAR--HYRTCGLPLADLI 90
gi 17158744  65 --------------------ELAKYVQLSE-IEVKDIFQQGTQ----AKQKMMVANLRLVVAIAK--KYQRRNLELMDLI 117
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17546934 547 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV---HMIETINKMNRISRQILQE---TGNEPD 620
gi 17986661  80 SEGNVGLMQAVKRFEPERGFRLATYAMWWIKASIQEYILRSWSLVKMGTt-aNQKRLFFNLRKMKSKIQALddgDLNPDQ 158
gi 7994684   80 QEGNIGLMKAVRRFNPEIGVRLVSFAVHWIKSEIHEYVLRNWRIVKVATt-kSQRKLFFNLRKTKKRLGW-----FNEEE 153
gi 15895322  55 QEGIIAVIKAINSYDLDKNVKFSTYVYSMINFTLISEIKKKYSYFKIPE---HQVSKIVKFKR--RASELK----VEDTC 125
gi 19704652 106 QEGIIGLIKAHELFEDDK--DFKLYKDYYIAKEMFNYINNYANYRKSAF---------------------------KDYA 156
gi 15828925 245 SEGNAGIIKAVQKFDESKGFKFSTYATWWIRQSITRAVADQARTIRIPV---HMVETINKIIKIERELQQE---LGVNPT 318
gi 15793882  83 QEGNIGLMKAVKRYEPGRGARLFSFAVHWIKAEIHEFILRNWRLVRVATt-kPQRKLFFNLRSMRKNLNA-----LSPKE 156
gi 15794630 430 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV---HMIETINKMNRISRQHLQE---TGEEPD 503
gi 15639996  91 SEGNIGLLTAAERFNPARGCRFISYAACWIRQSILKALNEKARIIRLPVsriRAAKSTYEYIPPVTSVNVG---ISKTQG 167
gi 17158744 118 QEGSLGLERGVEKFDPTRGYKFSTYAYWWISQAMTRAISQQSRTIRLPI---HITEKLNKFKKVQRELSQK---LKRSPS 191
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17546934 621 PATLAEKMEMPED--KIRKIMKIAKE--PISMETPIGDD----DDS-----HLGDFIEDTNTLAPAEAALHGSMRGVVKD 687
gi 17986661 159 VKQIATKLNVSED--EVVSMNRRLSG--DASLNAPLRAS----Ege---sgEWQDWLVDDSN-SQEQVLIEQDELESRRS 226
gi 7994684  154 IQIVARELGVSSR--DVREMESRMSAq-DVAFNPSPEEH----C-Dsk-tnSSIQYLQDKTS-NFANGVEQDNWEEHAAN 223
gi 15895322 126 YKYGCERIGLSYE--QYADMMHLSKLnnVAYLDEKKYFD-------------G-KVSEEDKFAYEDVNYKRVEEKIDLNV 189
gi 19704652 157 EHEIHKDSHLk------------------VSLKDRDKSE------------ELKKLEKENKEKHIEEMKHLEKRAETLFD 206
gi 15828925 319 DEQIAERYGNDYDakKVRYIRKMNID--PISLDKTVGKE----NDS-----FFSDFVKDESVISPIDHAAKEDLNEHLLE 387
gi 15793882 157 AQDIADDLGVKLS--EVLEMEQRMTGh-DIAIMADNSDD----Eds----fAPIDWLADHDS-EPSRQLSKQAHYALQTE 224
gi 15794630 504 SAKLAELMQMPED--KIRKIMKIAKE--PISMETPIGDD----DDS-----HLGDFIEDANNVAPADAAMYTSLHEVTKE 570
gi 15639996 168 GNRYGKRRATMCR--AVPTVEEVHIWhtPLSLDAPLGASgsrgESGdvdglRIGDCVPDDLYAQPEEHMLACALQADIAK 245
gi 17158744 192 ADEIAEKMKLNPA--QIRELLMISRQ--PASLDKQVGDN----EDT-----ELQELLTEVPETSPEIQVTQNLMRQDIYL 258
                       330       340       350       360       370       380       390
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17546934 688 VLDS----LTPREAKVLRMRFGIE---MST---DHTLEEVGKQFDVTRERIRQIEAKALRKLR-HPSRSDKL-KSFLE 753
gi 17986661 227 MLEQametLNDRERHIFEARRLA-----EE---PMTLEDLSGEFGISRERVRQIEVRAFEKVQaAVKAAAHKqQKALN 296
gi 7994684  224 KLSSallrLDERSRHIIHARWLDK----NK---KNTLQNIANNYGISAERVRQLEKNAMKKLKlAIEA---------- 284
gi 15895322 190 ILKEnadkLSQLEKYIIREILIKD-------------QKVKNISKITKMSTKKYLTLNIAL----------------- 237
gi 19704652 207 YLNLky-rLSEREIAVLVLYYGLD---GHK---KKTFSQISEITKIDDDNLDKILKGAMFKLSnVDEKVEL------- 270
gi 15828925 388 LLNEq---LTEEERVLIMKRYGIGedeNGVpyqVHTFDQLATEKNTSKEKIRQWENKILRRLK--ATKKRKIlKEYLV 460
gi 15793882 225 GLQNalaqLDDRSRRIVESRWLQd--dG-----GLTLHQLAAEYGVSAERIRQIEAKAMQKLRgFLTEEAEAv----- 290
gi 15794630 571 ILES----LTPREAKVLRMRFGID---MNT---DHTLEEVGRQFDVTRERIRQIEAKALRKLR-HPTRSDRL-RSFLD 636
gi 15639996 246 ILRL----LPARDAQVIRYRFGLG---GYE---RRSLQEIGEIFQITKERVRQIEKKALLRIR-SCARQHRL-DSYIA 311
gi 17158744 259 SLRE----LTPQQQQVLILHYGLE---DNY---ELTLTQVAQHLNISERRVRYLEKQALSYLR---RCQTNL-REYIF 322
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