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Conserved domains on  [gi|1899198664|gb|QNO39188|]
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RNA polymerase beta subunit, partial [Candidatus Coxiella mudrowiae]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ricin_B_lectin super family cl47023
Ricin-type beta-trefoil lectin domain;
1-175 9.21e-85

Ricin-type beta-trefoil lectin domain;


The actual alignment was detected with superfamily member PRK00405:

Pssm-ID: 481363 [Multi-domain]  Cd Length: 1112  Bit Score: 269.66  E-value: 9.21e-85
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGIKigelidqgvdakqlrkilkpiydls 80
Cdd:PRK00405   893 KGVVSRILPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAAKGLGIK------------------------- 947

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   81 ktqkfnlevlndeevttlaknlrkgvpISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:PRK00405   948 ---------------------------FATPVFDGAKEEEIKELLEEAGLPEDGKTTLYDGRTGEPFDRPVTVGYMYMLK 1000

                          170
                   ....*....|....*
gi 1899198664  161 LNHLVDDKMHARSTG 175
Cdd:PRK00405  1001 LHHLVDDKIHARSTG 1015
 
Name Accession Description Interval E-value
rpoB PRK00405
DNA-directed RNA polymerase subunit beta; Reviewed
 1-175 9.21e-85

DNA-directed RNA polymerase subunit beta; Reviewed


Pssm-ID: 234749 [Multi-domain]  Cd Length: 1112  Bit Score: 269.66  E-value: 9.21e-85
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGIKigelidqgvdakqlrkilkpiydls 80
Cdd:PRK00405   893 KGVVSRILPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAAKGLGIK------------------------- 947

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   81 ktqkfnlevlndeevttlaknlrkgvpISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:PRK00405   948 ---------------------------FATPVFDGAKEEEIKELLEEAGLPEDGKTTLYDGRTGEPFDRPVTVGYMYMLK 1000

                          170
                   ....*....|....*
gi 1899198664  161 LNHLVDDKMHARSTG 175
Cdd:PRK00405  1001 LHHLVDDKIHARSTG 1015
rpoB TIGR02013
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ...
 1-175 1.53e-71

DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit of Bacterial RNA polymerase. The core enzyme consists of two alpha chains, one beta chain, and one beta' subunit. [Transcription, DNA-dependent RNA polymerase]


Pssm-ID: 273928 [Multi-domain]  Cd Length: 1065  Bit Score: 233.02  E-value: 1.53e-71
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGikigelidqgvdakqlrkilkpiydls 80
Cdd:TIGR02013  850 KGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAGKRLG--------------------------- 902

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   81 ktqkfnlevlndeevttlaknlRKGVPISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:TIGR02013  903 ----------------------RKGVPIATPVFDGASEEEIKEYLEKAGLPRDGKVRLYDGRTGEQFDRPVTVGYMYMLK 960

                          170
                   ....*....|....*
gi 1899198664  161 LNHLVDDKMHARSTG 175
Cdd:TIGR02013  961 LHHLVDDKMHARSTG 975
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 1-175 1.06e-70

DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA polymerase, beta subunit/140 kD subunit is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 439855 [Multi-domain]  Cd Length: 1001  Bit Score: 230.00  E-value: 1.06e-70
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGIKigelidqgvdakqlrkilkpiydls 80
Cdd:COG0085    784 KGVISRILPQEDMPFLEDGTPVDIVLNPLGVPSRMNVGQVLETHLGWAAALLGRR------------------------- 838

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   81 ktqkfnlevlndeevttlaknlrkgvpISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:COG0085    839 ---------------------------VATPVFDGAPEEEIRELLEKAGLPPDGKEVLYDGRTGEPFDNPVTVGYMYYLK 891

                          170
                   ....*....|....*
gi 1899198664  161 LNHLVDDKMHARSTG 175
Cdd:COG0085    892 LHHMVDDKIHARSTG 906
RNA_pol_Rpb2_6 pfam00562
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of ...
 1-175 1.81e-60

RNA polymerase Rpb2, 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 represents the hybrid binding domain and the wall domain. The hybrid binding domain binds the nascent RNA strand / template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion. This domain is also involved in binding to Rpb1 and Rpb3. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 2 (DRII).


Pssm-ID: 459854 [Multi-domain]  Cd Length: 371  Bit Score: 191.59  E-value: 1.81e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGlgikigelidqgvdakqlrkilkpiydls 80
Cdd:pfam00562 232 KGVVSRILPQEDMPFTEDGIPPDIILNPHGVPSRMTIGQLLETHLGKAAAL----------------------------- 282

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664  81 ktqkfnlevlndeevttlaknlrKGVPISSPVFDGATE--EEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYM 158
Cdd:pfam00562 283 -----------------------LGVFVDATPFDGASTevEDIGELLEKAGYNYYGKEVLYDGRTGEPFEAPIFVGPIYY 339

                         170
                  ....*....|....*..
gi 1899198664 159 LKLNHLVDDKMHARSTG 175
Cdd:pfam00562 340 QKLKHMVDDKIHARSTG 356
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-175 1.38e-52

RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase complex contains two related members of this family, in each case they are the two largest subunits.The clamp is a mobile structure that grips DNA during elongation.


Pssm-ID: 238353 [Multi-domain]  Cd Length: 866  Bit Score: 178.92  E-value: 1.38e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKglgikigelidqgvdakqlrkilkpiydls 80
Cdd:cd00653   643 KGVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQLLESLLGKAGA------------------------------ 692

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664  81 ktqkfnlevlndeevttlaknlRKGVPISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:cd00653   693 ----------------------LLGKFGDATPFDGAEEEDISELLGEAGLNYYGKEVLYDGRTGEPLEAPIFVGPVYYQR 750

                         170
                  ....*....|....*
gi 1899198664 161 LNHLVDDKMHARSTG 175
Cdd:cd00653   751 LKHMVDDKIHARSTG 765
 
Name Accession Description Interval E-value
rpoB PRK00405
DNA-directed RNA polymerase subunit beta; Reviewed
 1-175 9.21e-85

DNA-directed RNA polymerase subunit beta; Reviewed


Pssm-ID: 234749 [Multi-domain]  Cd Length: 1112  Bit Score: 269.66  E-value: 9.21e-85
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGIKigelidqgvdakqlrkilkpiydls 80
Cdd:PRK00405   893 KGVVSRILPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAAKGLGIK------------------------- 947

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   81 ktqkfnlevlndeevttlaknlrkgvpISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:PRK00405   948 ---------------------------FATPVFDGAKEEEIKELLEEAGLPEDGKTTLYDGRTGEPFDRPVTVGYMYMLK 1000

                          170
                   ....*....|....*
gi 1899198664  161 LNHLVDDKMHARSTG 175
Cdd:PRK00405  1001 LHHLVDDKIHARSTG 1015
rpoB TIGR02013
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ...
 1-175 1.53e-71

DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit of Bacterial RNA polymerase. The core enzyme consists of two alpha chains, one beta chain, and one beta' subunit. [Transcription, DNA-dependent RNA polymerase]


Pssm-ID: 273928 [Multi-domain]  Cd Length: 1065  Bit Score: 233.02  E-value: 1.53e-71
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGikigelidqgvdakqlrkilkpiydls 80
Cdd:TIGR02013  850 KGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAGKRLG--------------------------- 902

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   81 ktqkfnlevlndeevttlaknlRKGVPISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:TIGR02013  903 ----------------------RKGVPIATPVFDGASEEEIKEYLEKAGLPRDGKVRLYDGRTGEQFDRPVTVGYMYMLK 960

                          170
                   ....*....|....*
gi 1899198664  161 LNHLVDDKMHARSTG 175
Cdd:TIGR02013  961 LHHLVDDKMHARSTG 975
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 1-175 1.06e-70

DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA polymerase, beta subunit/140 kD subunit is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 439855 [Multi-domain]  Cd Length: 1001  Bit Score: 230.00  E-value: 1.06e-70
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGIKigelidqgvdakqlrkilkpiydls 80
Cdd:COG0085    784 KGVISRILPQEDMPFLEDGTPVDIVLNPLGVPSRMNVGQVLETHLGWAAALLGRR------------------------- 838

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   81 ktqkfnlevlndeevttlaknlrkgvpISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:COG0085    839 ---------------------------VATPVFDGAPEEEIRELLEKAGLPPDGKEVLYDGRTGEPFDNPVTVGYMYYLK 891

                          170
                   ....*....|....*
gi 1899198664  161 LNHLVDDKMHARSTG 175
Cdd:COG0085    892 LHHMVDDKIHARSTG 906
RNA_pol_Rpb2_6 pfam00562
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of ...
 1-175 1.81e-60

RNA polymerase Rpb2, 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 represents the hybrid binding domain and the wall domain. The hybrid binding domain binds the nascent RNA strand / template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion. This domain is also involved in binding to Rpb1 and Rpb3. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 2 (DRII).


Pssm-ID: 459854 [Multi-domain]  Cd Length: 371  Bit Score: 191.59  E-value: 1.81e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGlgikigelidqgvdakqlrkilkpiydls 80
Cdd:pfam00562 232 KGVVSRILPQEDMPFTEDGIPPDIILNPHGVPSRMTIGQLLETHLGKAAAL----------------------------- 282

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664  81 ktqkfnlevlndeevttlaknlrKGVPISSPVFDGATE--EEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYM 158
Cdd:pfam00562 283 -----------------------LGVFVDATPFDGASTevEDIGELLEKAGYNYYGKEVLYDGRTGEPFEAPIFVGPIYY 339

                         170
                  ....*....|....*..
gi 1899198664 159 LKLNHLVDDKMHARSTG 175
Cdd:pfam00562 340 QKLKHMVDDKIHARSTG 356
PRK14844 PRK14844
DNA-directed RNA polymerase subunit beta/beta';
1-175 9.76e-59

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 173305 [Multi-domain]  Cd Length: 2836  Bit Score: 197.54  E-value: 9.76e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGIKIGELIDQ-------------GVDAK 67
Cdd:PRK14844  1094 KGVISRVVPVEDMPYLEDGTPVDIILNPLGVPSRMNVGQILETHVGWACKKLGEKVGNILDEinkiksafckgirSLNDD 1173

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   68 QLRKILKPIYDLSKTQKF-------------NLEVLNDeEVTTLAKN--------------------------------- 101
Cdd:PRK14844  1174 NFTKFAAAYLDNKKIENIdddeitasvlntpNKNALND-ELNELVENylnscksaysnlrnflievyscgsnvsicnnir 1252

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664  102 -------------LRKGVPISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLKLNHLVDDK 168
Cdd:PRK14844  1253 disdnnliefarkLRDGIPVAAPVFEGPKDEQIAKLFELAGLDNSGQAVLYDGCSGEKFDRKVTVGYMYMLKLHHLVDGK 1332


                   ....*..
gi 1899198664  169 MHARSTG 175
Cdd:PRK14844  1333 IHARSVG 1339
PRK09603 PRK09603
DNA-directed RNA polymerase subunit beta/beta';
1-175 1.40e-56

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 181983 [Multi-domain]  Cd Length: 2890  Bit Score: 191.29  E-value: 1.40e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGIKIGELIDQGVD--AKQLRKILKPIYD 78
Cdd:PRK09603  1101 KGIVSNIVPVADMPYTADGEPVDIVLNPLGVPSRMNIGQILEMHLGLVGKEFGKQIASMLEDKTKdfAKELRAKMLEIAN 1180

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   79 LSKTQ----KFNLEVLNDEEVTTLAKNLRKGVPISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVV 154
Cdd:PRK09603  1181 AINEKdpltIHALENCSDEELLEYAKDWSKGVKMAIPVFEGISQEKFYKLFELAKIAMDGKMDLYDGRTGEKMRERVNVG 1260

                          170       180
                   ....*....|....*....|.
gi 1899198664  155 YMYMLKLNHLVDDKMHARSTG 175
Cdd:PRK09603  1261 YMYMIKLHHLVDEKVHARSTG 1281
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-175 1.38e-52

RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase complex contains two related members of this family, in each case they are the two largest subunits.The clamp is a mobile structure that grips DNA during elongation.


Pssm-ID: 238353 [Multi-domain]  Cd Length: 866  Bit Score: 178.92  E-value: 1.38e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKglgikigelidqgvdakqlrkilkpiydls 80
Cdd:cd00653   643 KGVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQLLESLLGKAGA------------------------------ 692

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664  81 ktqkfnlevlndeevttlaknlRKGVPISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:cd00653   693 ----------------------LLGKFGDATPFDGAEEEDISELLGEAGLNYYGKEVLYDGRTGEPLEAPIFVGPVYYQR 750

                         170
                  ....*....|....*
gi 1899198664 161 LNHLVDDKMHARSTG 175
Cdd:cd00653   751 LKHMVDDKIHARSTG 765
rpoB CHL00001
RNA polymerase beta subunit
 1-175 1.37e-38

RNA polymerase beta subunit


Pssm-ID: 214330 [Multi-domain]  Cd Length: 1070  Bit Score: 139.65  E-value: 1.37e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAakglgikiGELIDqgvdaKQLRkiLKPI---Y 77
Cdd:CHL00001   827 KGIISKILPRQDMPYLQDGTPVDMVLNPLGVPSRMNVGQIFECLLGLA--------GDLLN-----RHYR--IAPFderY 891

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   78 DLSKTQKFNLEVLNDEEVTTlaknlrkgvpiSSP-VFdgateeEIKHLlemaglptsGQAHL*DGRTGKRFDRAVTVVYM 156
Cdd:CHL00001   892 EQEASRKLVFSELYEASKQT-----------ANPwVF------EPEYP---------GKSRLFDGRTGDPFEQPVTIGKA 945

                          170
                   ....*....|....*....
gi 1899198664  157 YMLKLNHLVDDKMHARSTG 175
Cdd:CHL00001   946 YILKLIHQVDDKIHARSSG 964
rpoB CHL00207
RNA polymerase beta subunit; Provisional
 1-175 1.49e-36

RNA polymerase beta subunit; Provisional


Pssm-ID: 214397 [Multi-domain]  Cd Length: 1077  Bit Score: 133.68  E-value: 1.49e-36
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLETHLGWAAKGLGIKIgelidqgvdakqlrKILkpiydls 80
Cdd:CHL00207   823 KGIISRILPRQDMPYLPDGTPPDIILNPLGVPSRMNVGQLFECLLGLAGDNLNKRF--------------KIL------- 881

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   81 ktqKFNlEVLNDEEVTTLAKNlrkgvpisspVFDGATEEEIKHLLEMAGLPtsGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:CHL00207   882 ---PFD-EMYGSEYSRILINN----------KLNQASIKNNEYWLFNSYHP--GKMVLRDGRTGYKFKNPVTVGIAYMLK 945

                          170
                   ....*....|....*
gi 1899198664  161 LNHLVDDKMHARSTG 175
Cdd:CHL00207   946 LIHLVDDKIHARTTG 960
PRK07225 PRK07225
DNA-directed RNA polymerase subunit B'; Validated
 1-175 4.06e-28

DNA-directed RNA polymerase subunit B'; Validated


Pssm-ID: 235972 [Multi-domain]  Cd Length: 605  Bit Score: 109.28  E-value: 4.06e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLEThlgwaakgLGIKIGELIDQGVDAKqlrkilkpiydls 80
Cdd:PRK07225  371 KGVIGLIVPQEDMPFTESGVVPDLIINPHAIPSRMTVGHVLEM--------IGGKVGSLEGRRVDGT------------- 429

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664  81 ktqkfnlevlndeevttlaknlrkgvpisspVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:PRK07225  430 -------------------------------AFSGEDEEDLREALEKLGFEHTGKEVMYDGITGEKIEAEIFVGVIYYQK 478

                         170
                  ....*....|....*
gi 1899198664 161 LNHLVDDKMHARSTG 175
Cdd:PRK07225  479 LHHMVANKLHARSRG 493
PRK08565 PRK08565
DNA-directed RNA polymerase subunit B; Provisional
 1-175 2.74e-27

DNA-directed RNA polymerase subunit B; Provisional


Pssm-ID: 236291 [Multi-domain]  Cd Length: 1103  Bit Score: 106.96  E-value: 2.74e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664    1 KGVISTIVPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQVLEThlgwaakgLGIKIGELidqgvdakqlrkilkpiydls 80
Cdd:PRK08565   869 KGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLES--------IAGKVAAL--------------------- 919

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1899198664   81 ktqkfnlevlndeevttlaknlrKGVPISSPVFDGATEEEIKHLLEMAGLPTSGQAHL*DGRTGKRFDRAVTVVYMYMLK 160
Cdd:PRK08565   920 -----------------------EGRFVDATPFYGEPEEELRKELLKLGYKPDGTEVMYDGRTGEKIKAPIFIGVVYYQK 976

                          170
                   ....*....|....*
gi 1899198664  161 LNHLVDDKMHARSTG 175
Cdd:PRK08565   977 LHHMVADKIHARARG 991
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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