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Conserved domains on  [gi|110294709|gb|ABG66788|]
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RpoB, partial [Actinobacillus capsulatus]

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;
1-173 9.47e-138

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: 410.65  E-value: 9.47e-138
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    1 SQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLE 80
Cdd:PRK00405  430 SQLSQFMDQTNPLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATYARVNEYGFIE 509

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   81 TPFRKVVNGQVTEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRgEHGESGLYKPEDIHYMDISTQQVVSVAAAL 160
Cdd:PRK00405  510 TPYRKVVDGKVTDEIVYLTADEEDNYVIAQANAPLDEDGRFVDELVTAR-YKGEFVLVPPEEVDYMDVSPKQVVSVAASL 588

                         170
                  ....*....|...
gi 110294709  161 IPFLEHDDANRAL 173
Cdd:PRK00405  589 IPFLEHDDANRAL 601
 
Name Accession Description Interval E-value
rpoB PRK00405
DNA-directed RNA polymerase subunit beta; Reviewed
 1-173 9.47e-138

DNA-directed RNA polymerase subunit beta; Reviewed


Pssm-ID: 234749 [Multi-domain]  Cd Length: 1112  Bit Score: 410.65  E-value: 9.47e-138
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    1 SQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLE 80
Cdd:PRK00405  430 SQLSQFMDQTNPLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATYARVNEYGFIE 509

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   81 TPFRKVVNGQVTEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRgEHGESGLYKPEDIHYMDISTQQVVSVAAAL 160
Cdd:PRK00405  510 TPYRKVVDGKVTDEIVYLTADEEDNYVIAQANAPLDEDGRFVDELVTAR-YKGEFVLVPPEEVDYMDVSPKQVVSVAASL 588

                         170
                  ....*....|...
gi 110294709  161 IPFLEHDDANRAL 173
Cdd:PRK00405  589 IPFLEHDDANRAL 601
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 1-173 5.51e-118

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: 356.34  E-value: 5.51e-118
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    1 SQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLE 80
Cdd:COG0085   369 SQLSQFMDQTNPLSELTHKRRLSALGPGGLSRERAGFEVRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVNEYGFIE 448

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   81 TPFRKVVNGQVTEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRgEHGESGLYKPEDIHYMDISTQQVVSVAAAL 160
Cdd:COG0085   449 TPYRKVENGKVTDEIEYLTADEEENYYIAQANAPLDEDGNFLEERVLVR-YRGEEVLVPPEEVDYMDVSPKQIVSVATSL 527

                         170
                  ....*....|...
gi 110294709  161 IPFLEHDDANRAL 173
Cdd:COG0085   528 IPFLEHDDANRAL 540
rpoB TIGR02013
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ...
 1-173 1.71e-113

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: 345.88  E-value: 1.71e-113
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709     1 SQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLE 80
Cdd:TIGR02013  385 SQLSQFMDQTNPLAELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNEYGFIE 464

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    81 TPFRKVVNGQV--TEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRGEhGESGLYKPEDIHYMDISTQQVVSVAA 158
Cdd:TIGR02013  465 TPYRKVKDGKVvvTDEIDYLTADEEDNYVIAQANAPLDENGRFVEDLVVARYR-GEITLVSPDQVDYMDVSPKQVVSVAA 543

                          170
                   ....*....|....*
gi 110294709   159 ALIPFLEHDDANRAL 173
Cdd:TIGR02013  544 SLIPFLEHDDANRAL 558
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-173 5.19e-56

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: 188.55  E-value: 5.19e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   1 SQLSQFMDQNNPLSEVTHKRRISAlgpGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNnyGFLE 80
Cdd:cd00653  311 SGLSQVLDRLNPLSELSHKRRISS---LGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS--GRIE 385

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709  81 TPFRKVVngqvtedieylsaieegnyviaqansnldeefrftdtyvtcrgehgesglykpEDIHYMDISTQQVVSVAAAL 160
Cdd:cd00653  386 RPYRIVE-----------------------------------------------------KEVTHIEISPSQILSVAASL 412

                        170
                 ....*....|...
gi 110294709 161 IPFLEHDDANRAL 173
Cdd:cd00653  413 IPFPEHNQSPRNL 425
RNA_pol_Rpb2_3 pfam04565
RNA polymerase Rpb2, domain 3; RNA polymerases catalyze the DNA dependent polymerization of ...
 5-72 3.71e-40

RNA polymerase Rpb2, domain 3; 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). Domain 3, s also known as the fork domain and is proximal to catalytic site.


Pssm-ID: 428011 [Multi-domain]  Cd Length: 67  Bit Score: 129.95  E-value: 3.71e-40
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 110294709    5 QFMDQNNPLSEVTHKRRISAlGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYAR 72
Cdd:pfam04565   1 QVLDRTNYLSTLSHLRRVNS-PRGGLFREMKTTEVRDLHPSHWGRICPVETPEGPNCGLVKHLALYAR 67
 
Name Accession Description Interval E-value
rpoB PRK00405
DNA-directed RNA polymerase subunit beta; Reviewed
 1-173 9.47e-138

DNA-directed RNA polymerase subunit beta; Reviewed


Pssm-ID: 234749 [Multi-domain]  Cd Length: 1112  Bit Score: 410.65  E-value: 9.47e-138
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    1 SQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLE 80
Cdd:PRK00405  430 SQLSQFMDQTNPLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATYARVNEYGFIE 509

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   81 TPFRKVVNGQVTEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRgEHGESGLYKPEDIHYMDISTQQVVSVAAAL 160
Cdd:PRK00405  510 TPYRKVVDGKVTDEIVYLTADEEDNYVIAQANAPLDEDGRFVDELVTAR-YKGEFVLVPPEEVDYMDVSPKQVVSVAASL 588

                         170
                  ....*....|...
gi 110294709  161 IPFLEHDDANRAL 173
Cdd:PRK00405  589 IPFLEHDDANRAL 601
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 1-173 5.51e-118

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: 356.34  E-value: 5.51e-118
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    1 SQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLE 80
Cdd:COG0085   369 SQLSQFMDQTNPLSELTHKRRLSALGPGGLSRERAGFEVRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVNEYGFIE 448

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   81 TPFRKVVNGQVTEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRgEHGESGLYKPEDIHYMDISTQQVVSVAAAL 160
Cdd:COG0085   449 TPYRKVENGKVTDEIEYLTADEEENYYIAQANAPLDEDGNFLEERVLVR-YRGEEVLVPPEEVDYMDVSPKQIVSVATSL 527

                         170
                  ....*....|...
gi 110294709  161 IPFLEHDDANRAL 173
Cdd:COG0085   528 IPFLEHDDANRAL 540
rpoB TIGR02013
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ...
 1-173 1.71e-113

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: 345.88  E-value: 1.71e-113
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709     1 SQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLE 80
Cdd:TIGR02013  385 SQLSQFMDQTNPLAELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNEYGFIE 464

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    81 TPFRKVVNGQV--TEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRGEhGESGLYKPEDIHYMDISTQQVVSVAA 158
Cdd:TIGR02013  465 TPYRKVKDGKVvvTDEIDYLTADEEDNYVIAQANAPLDENGRFVEDLVVARYR-GEITLVSPDQVDYMDVSPKQVVSVAA 543

                          170
                   ....*....|....*
gi 110294709   159 ALIPFLEHDDANRAL 173
Cdd:TIGR02013  544 SLIPFLEHDDANRAL 558
PRK14844 PRK14844
DNA-directed RNA polymerase subunit beta/beta';
1-173 2.54e-84

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 173305 [Multi-domain]  Cd Length: 2836  Bit Score: 270.73  E-value: 2.54e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    1 SQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLE 80
Cdd:PRK14844  530 SQLSQFMDQTNPLSEITHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGQNIGLINSLAIYARINKYGFIE 609

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   81 TPFRKVVNGQVTEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRgEHGESGLYKPEDIHYMDISTQQVVSVAAAL 160
Cdd:PRK14844  610 SPYRKVVNRVVTDQIEYLSAIDEGLYYIADTSAKLDENNCFVDDMLYCR-YAGSFVMVSSDQVSYIDVSPKQVISVAASL 688

                         170
                  ....*....|...
gi 110294709  161 IPFLEHDDANRAL 173
Cdd:PRK14844  689 IPFLENDDANRAL 701
PRK09603 PRK09603
DNA-directed RNA polymerase subunit beta/beta';
2-173 1.24e-77

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 181983 [Multi-domain]  Cd Length: 2890  Bit Score: 251.38  E-value: 1.24e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    2 QLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLET 81
Cdd:PRK09603  524 QLSQFMDQTNPLSEVTHKRRLSALGEGGLVKDRVGFEARDVHPTHYGRICPIETPEGQNIGLINTLSTFTRVNDLGFIEA 603

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   82 PFRKVVNGQVTEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRGEhGESGLYKPEDIHYMDISTQQVVSVAAALI 161
Cdd:PRK09603  604 PYKKVVDGKVVGETIYLTAIQEDSHIIAPASTPIDEEGNILGDLIETRVE-GEIVLNEKSKVTLMDLSSSMLVGVAASLI 682

                         170
                  ....*....|..
gi 110294709  162 PFLEHDDANRAL 173
Cdd:PRK09603  683 PFLEHDDANRAL 694
rpoB CHL00001
RNA polymerase beta subunit
 2-173 1.25e-70

RNA polymerase beta subunit


Pssm-ID: 214330 [Multi-domain]  Cd Length: 1070  Bit Score: 230.56  E-value: 1.25e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    2 QLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLET 81
Cdd:CHL00001  373 PLSQFLDQTNPLTEIVHGRKLSSLGPGGLTGRTASFRVRDIHPSHYGRICPIDTSEGINAGLIGSLAIHARIGHWGSLES 452

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   82 PFRKVVNGQVTEDIEYLSAIEEGNYVIAQANS-----NLDEEF----RFTDTYVTCRgehgesglykPEDIHYMDISTQQ 152
Cdd:CHL00001  453 PFYEISERSKEERMVYLSPSEDEYYMIAAGNSlalnqGIQEEQvvpaRYRQEFLTIA----------WEQIHLRSIFPFQ 522

                         170       180
                  ....*....|....*....|.
gi 110294709  153 VVSVAAALIPFLEHDDANRAL 173
Cdd:CHL00001  523 YFSIGASLIPFLEHNDANRAL 543
rpoB CHL00207
RNA polymerase beta subunit; Provisional
 1-173 3.42e-70

RNA polymerase beta subunit; Provisional


Pssm-ID: 214397 [Multi-domain]  Cd Length: 1077  Bit Score: 229.21  E-value: 3.42e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709    1 SQLSQFMDQNNPLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNNYGFLE 80
Cdd:CHL00207  364 SQLSQYMDQTNPLSELTHKRRISILGPGGLDKDRISFAVRDIHPSHYGRICPIETPEGPNCGLIGSLATNARINKFGFIE 443

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   81 TPFRKVVNGQV--TEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRgEHGESGLYKPEDIHYMDISTQQVVSVAA 158
Cdd:CHL00207  444 TPFYKVINGKVkkFGNPIYLTADSEDLYRIAPNDINLNKNNYFKKNIIPVR-YKQEFKTVNPSKVDFIAISPIQVFSIAE 522

                         170
                  ....*....|....*
gi 110294709  159 ALIPFLEHDDANRAL 173
Cdd:CHL00207  523 SLIPFLEHNDANRAL 537
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-173 5.19e-56

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: 188.55  E-value: 5.19e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709   1 SQLSQFMDQNNPLSEVTHKRRISAlgpGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYARTNnyGFLE 80
Cdd:cd00653  311 SGLSQVLDRLNPLSELSHKRRISS---LGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS--GRIE 385

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110294709  81 TPFRKVVngqvtedieylsaieegnyviaqansnldeefrftdtyvtcrgehgesglykpEDIHYMDISTQQVVSVAAAL 160
Cdd:cd00653  386 RPYRIVE-----------------------------------------------------KEVTHIEISPSQILSVAASL 412

                        170
                 ....*....|...
gi 110294709 161 IPFLEHDDANRAL 173
Cdd:cd00653  413 IPFPEHNQSPRNL 425
RNA_pol_Rpb2_3 pfam04565
RNA polymerase Rpb2, domain 3; RNA polymerases catalyze the DNA dependent polymerization of ...
 5-72 3.71e-40

RNA polymerase Rpb2, domain 3; 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). Domain 3, s also known as the fork domain and is proximal to catalytic site.


Pssm-ID: 428011 [Multi-domain]  Cd Length: 67  Bit Score: 129.95  E-value: 3.71e-40
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 110294709    5 QFMDQNNPLSEVTHKRRISAlGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYAR 72
Cdd:pfam04565   1 QVLDRTNYLSTLSHLRRVNS-PRGGLFREMKTTEVRDLHPSHWGRICPVETPEGPNCGLVKHLALYAR 67
RNA_pol_Rpb2_45 pfam10385
RNA polymerase beta subunit external 1 domain; RNA polymerases catalyze the DNA-dependent ...
 83-149 1.63e-31

RNA polymerase beta subunit external 1 domain; RNA polymerases catalyze the DNA-dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared with three in eukaryotes (not including mitochondrial or chloroplast polymerases). This domain in prokaryotes spans the gap between domains 4 and 5 of the yeast protein. It is also known as the external 1 region of the polymerase and is bound in association with the external 2 region.


Pssm-ID: 463067 [Multi-domain]  Cd Length: 66  Bit Score: 108.22  E-value: 1.63e-31
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 110294709   83 FRKVVNGQVTEDIEYLSAIEEGNYVIAQANSNLDEEFRFTDTYVTCRgEHGESGLYKPEDIHYMDIS 149
Cdd:pfam10385   1 YRKVEDGKVTDEIVYLTADEEDGYVIAQANAPLDEDGRFVDERVSAR-YRGEFPLVPPEEVDYMDVS 66
PRK08565 PRK08565
DNA-directed RNA polymerase subunit B; Provisional
 4-71 2.72e-20

DNA-directed RNA polymerase subunit B; Provisional


Pssm-ID: 236291 [Multi-domain]  Cd Length: 1103  Bit Score: 86.93  E-value: 2.72e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 110294709    4 SQFMDQNNPLSEVTHKRRIsaLGPggLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYA 71
Cdd:PRK08565  403 SQLLDRTNYLSTLSHLRRV--VSP--LSRGQPHFEARDLHGTQWGRICPFETPEGPNCGLVKNLALMA 466
PRK09606 PRK09606
DNA-directed RNA polymerase subunit B''; Validated
 4-71 3.46e-19

DNA-directed RNA polymerase subunit B''; Validated


Pssm-ID: 236587 [Multi-domain]  Cd Length: 494  Bit Score: 83.46  E-value: 3.46e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 110294709   4 SQFMDQNNPLSEVTHKRRISAlgPggLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYA 71
Cdd:PRK09606 406 SQLLDRTDYMATLSHLRRVVS--P--LSRSQPHFEARDLHPTQWGRICPSETPEGPNCGLVKNFAQMV 469
 
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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