NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2520246509|gb|WIW80019|]
View 

RNA polymerase beta subunit, partial [Aeromonas caviae]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Ricin_B_lectin super family cl47023
Ricin-type beta-trefoil lectin domain;
1-167 1.56e-136

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: 407.18  E-value: 1.56e-136
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDGVI 80
Cdd:PRK00405   441 PLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATYARVNEYGFIETPYRKVVDGKV 520

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   81 TDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:PRK00405   521 TDEIVYLTADEEDNYVIAQANAPLDEDGRFVDELVTARYKGEFVLVPPEEVDYMDVSPKQVVSVAASLIPFLEHDDANRA 600


                   ....*..
gi 2520246509  161 LMGPNMQ 167
Cdd:PRK00405   601 LMGSNMQ 607
 
Name Accession Description Interval E-value
rpoB PRK00405
DNA-directed RNA polymerase subunit beta; Reviewed
 1-167 1.56e-136

DNA-directed RNA polymerase subunit beta; Reviewed


Pssm-ID: 234749 [Multi-domain]  Cd Length: 1112  Bit Score: 407.18  E-value: 1.56e-136
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDGVI 80
Cdd:PRK00405   441 PLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATYARVNEYGFIETPYRKVVDGKV 520

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   81 TDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:PRK00405   521 TDEIVYLTADEEDNYVIAQANAPLDEDGRFVDELVTARYKGEFVLVPPEEVDYMDVSPKQVVSVAASLIPFLEHDDANRA 600


                   ....*..
gi 2520246509  161 LMGPNMQ 167
Cdd:PRK00405   601 LMGSNMQ 607
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 1-167 2.55e-115

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: 349.02  E-value: 2.55e-115
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDGVI 80
Cdd:COG0085    380 PLSELTHKRRLSALGPGGLSRERAGFEVRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVNEYGFIETPYRKVENGKV 459

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   81 TDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:COG0085    460 TDEIEYLTADEEENYYIAQANAPLDEDGNFLEERVLVRYRGEEVLVPPEEVDYMDVSPKQIVSVATSLIPFLEHDDANRA 539


                   ....*..
gi 2520246509  161 LMGPNMQ 167
Cdd:COG0085    540 LMGANMQ 546
rpoB TIGR02013
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ...
 1-167 1.81e-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: 345.49  E-value: 1.81e-113
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDG-- 78
Cdd:TIGR02013  396 PLAELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNEYGFIETPYRKVKDGkv 475

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   79 VITDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDAN 158
Cdd:TIGR02013  476 VVTDEIDYLTADEEDNYVIAQANAPLDENGRFVEDLVVARYRGEITLVSPDQVDYMDVSPKQVVSVAASLIPFLEHDDAN 555


                   ....*....
gi 2520246509  159 RALMGPNMQ 167
Cdd:TIGR02013  556 RALMGSNMQ 564
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-167 1.73e-53

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: 181.23  E-value: 1.73e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   1 PLSEVTHKRRISAlgpGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNeyGFLETPYRKVIdgvi 80
Cdd:cd00653   322 PLSELSHKRRISS---LGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS--GRIERPYRIVE---- 392

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509  81 tdevdylsaieegkyviaqanaattedgrlkdelipcrhkgestfmnaDQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:cd00653   393 ------------------------------------------------KEVTHIEISPSQILSVAASLIPFPEHNQSPRN 424


                  ....*..
gi 2520246509 161 LMGPNMQ 167
Cdd:cd00653   425 LYQSNMQ 431
RNA_pol_Rpb2_45 pfam10385
RNA polymerase beta subunit external 1 domain; RNA polymerases catalyze the DNA-dependent ...
 72-137 3.92e-37

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: 122.09  E-value: 3.92e-37
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2520246509  72 YRKVIDGVITDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVS 137
Cdd:pfam10385   1 YRKVEDGKVTDEIVYLTADEEDGYVIAQANAPLDEDGRFVDERVSARYRGEFPLVPPEEVDYMDVS 66
 
Name Accession Description Interval E-value
rpoB PRK00405
DNA-directed RNA polymerase subunit beta; Reviewed
 1-167 1.56e-136

DNA-directed RNA polymerase subunit beta; Reviewed


Pssm-ID: 234749 [Multi-domain]  Cd Length: 1112  Bit Score: 407.18  E-value: 1.56e-136
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDGVI 80
Cdd:PRK00405   441 PLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATYARVNEYGFIETPYRKVVDGKV 520

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   81 TDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:PRK00405   521 TDEIVYLTADEEDNYVIAQANAPLDEDGRFVDELVTARYKGEFVLVPPEEVDYMDVSPKQVVSVAASLIPFLEHDDANRA 600


                   ....*..
gi 2520246509  161 LMGPNMQ 167
Cdd:PRK00405   601 LMGSNMQ 607
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 1-167 2.55e-115

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: 349.02  E-value: 2.55e-115
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDGVI 80
Cdd:COG0085    380 PLSELTHKRRLSALGPGGLSRERAGFEVRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVNEYGFIETPYRKVENGKV 459

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   81 TDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:COG0085    460 TDEIEYLTADEEENYYIAQANAPLDEDGNFLEERVLVRYRGEEVLVPPEEVDYMDVSPKQIVSVATSLIPFLEHDDANRA 539


                   ....*..
gi 2520246509  161 LMGPNMQ 167
Cdd:COG0085    540 LMGANMQ 546
rpoB TIGR02013
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ...
 1-167 1.81e-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: 345.49  E-value: 1.81e-113
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDG-- 78
Cdd:TIGR02013  396 PLAELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNEYGFIETPYRKVKDGkv 475

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   79 VITDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDAN 158
Cdd:TIGR02013  476 VVTDEIDYLTADEEDNYVIAQANAPLDENGRFVEDLVVARYRGEITLVSPDQVDYMDVSPKQVVSVAASLIPFLEHDDAN 555


                   ....*....
gi 2520246509  159 RALMGPNMQ 167
Cdd:TIGR02013  556 RALMGSNMQ 564
PRK14844 PRK14844
DNA-directed RNA polymerase subunit beta/beta';
1-167 3.91e-86

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 173305 [Multi-domain]  Cd Length: 2836  Bit Score: 275.35  E-value: 3.91e-86
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDGVI 80
Cdd:PRK14844   541 PLSEITHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGQNIGLINSLAIYARINKYGFIESPYRKVVNRVV 620

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   81 TDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:PRK14844   621 TDQIEYLSAIDEGLYYIADTSAKLDENNCFVDDMLYCRYAGSFVMVSSDQVSYIDVSPKQVISVAASLIPFLENDDANRA 700


                   ....*..
gi 2520246509  161 LMGPNMQ 167
Cdd:PRK14844   701 LMGSNMQ 707
PRK09603 PRK09603
DNA-directed RNA polymerase subunit beta/beta';
1-167 9.52e-81

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 181983 [Multi-domain]  Cd Length: 2890  Bit Score: 259.86  E-value: 9.52e-81
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDGVI 80
Cdd:PRK09603   534 PLSEVTHKRRLSALGEGGLVKDRVGFEARDVHPTHYGRICPIETPEGQNIGLINTLSTFTRVNDLGFIEAPYKKVVDGKV 613

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   81 TDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:PRK09603   614 VGETIYLTAIQEDSHIIAPASTPIDEEGNILGDLIETRVEGEIVLNEKSKVTLMDLSSSMLVGVAASLIPFLEHDDANRA 693


                   ....*..
gi 2520246509  161 LMGPNMQ 167
Cdd:PRK09603   694 LMGTNMQ 700
rpoB CHL00001
RNA polymerase beta subunit
 1-167 1.72e-70

RNA polymerase beta subunit


Pssm-ID: 214330 [Multi-domain]  Cd Length: 1070  Bit Score: 229.79  E-value: 1.72e-70
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDGVI 80
Cdd:CHL00001   383 PLTEIVHGRKLSSLGPGGLTGRTASFRVRDIHPSHYGRICPIDTSEGINAGLIGSLAIHARIGHWGSLESPFYEISERSK 462

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   81 TDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:CHL00001   463 EERMVYLSPSEDEYYMIAAGNSLALNQGIQEEQVVPARYRQEFLTIAWEQIHLRSIFPFQYFSIGASLIPFLEHNDANRA 542


                   ....*..
gi 2520246509  161 LMGPNMQ 167
Cdd:CHL00001   543 LMGSNMQ 549
rpoB CHL00207
RNA polymerase beta subunit; Provisional
 1-167 2.87e-70

RNA polymerase beta subunit; Provisional


Pssm-ID: 214397 [Multi-domain]  Cd Length: 1077  Bit Score: 229.21  E-value: 2.87e-70
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    1 PLSEVTHKRRISALGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNEYGFLETPYRKVIDGVI 80
Cdd:CHL00207   375 PLSELTHKRRISILGPGGLDKDRISFAVRDIHPSHYGRICPIETPEGPNCGLIGSLATNARINKFGFIETPFYKVINGKV 454

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   81 --TDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVSPQQIVSVAAALIPFLEHDDAN 158
Cdd:CHL00207   455 kkFGNPIYLTADSEDLYRIAPNDINLNKNNYFKKNIIPVRYKQEFKTVNPSKVDFIAISPIQVFSIAESLIPFLEHNDAN 534


                   ....*....
gi 2520246509  159 RALMGPNMQ 167
Cdd:CHL00207   535 RALMGSNMQ 543
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-167 1.73e-53

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: 181.23  E-value: 1.73e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   1 PLSEVTHKRRISAlgpGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSRTNeyGFLETPYRKVIdgvi 80
Cdd:cd00653   322 PLSELSHKRRISS---LGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS--GRIERPYRIVE---- 392

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509  81 tdevdylsaieegkyviaqanaattedgrlkdelipcrhkgestfmnaDQIQYMDVSPQQIVSVAAALIPFLEHDDANRA 160
Cdd:cd00653   393 ------------------------------------------------KEVTHIEISPSQILSVAASLIPFPEHNQSPRN 424


                  ....*..
gi 2520246509 161 LMGPNMQ 167
Cdd:cd00653   425 LYQSNMQ 431
RNA_pol_Rpb2_45 pfam10385
RNA polymerase beta subunit external 1 domain; RNA polymerases catalyze the DNA-dependent ...
 72-137 3.92e-37

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: 122.09  E-value: 3.92e-37
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2520246509  72 YRKVIDGVITDEVDYLSAIEEGKYVIAQANAATTEDGRLKDELIPCRHKGESTFMNADQIQYMDVS 137
Cdd:pfam10385   1 YRKVEDGKVTDEIVYLTADEEDGYVIAQANAPLDEDGRFVDERVSARYRGEFPLVPPEEVDYMDVS 66
RNA_pol_Rpb2_3 pfam04565
RNA polymerase Rpb2, domain 3; RNA polymerases catalyze the DNA dependent polymerization of ...
 1-61 4.69e-35

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: 116.86  E-value: 4.69e-35
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2520246509   1 PLSEVTHKRRISAlGPGGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYSR 61
Cdd:pfam04565   8 YLSTLSHLRRVNS-PRGGLFREMKTTEVRDLHPSHWGRICPVETPEGPNCGLVKHLALYAR 67
PRK08565 PRK08565
DNA-directed RNA polymerase subunit B; Provisional
 2-166 1.61e-17

DNA-directed RNA polymerase subunit B; Provisional


Pssm-ID: 236291 [Multi-domain]  Cd Length: 1103  Bit Score: 78.85  E-value: 1.61e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509    2 LSEVTHKRRIsaLGPggLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLS------------------------ 57
Cdd:PRK08565   412 LSTLSHLRRV--VSP--LSRGQPHFEARDLHGTQWGRICPFETPEGPNCGLVKNLAlmaqisvgvdeeeveeilyelgvv 487

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509   58 --VYSRTNEY-------------GFLETP---YRKVID----GVITDEVDyLSAIEEG--KYVIAQANAA-------TTE 106
Cdd:PRK08565   488 pvEEAREEEYiswsrvylngrliGYHPDGeelAEKIRElrrsGKISDEVN-VAYIETGeiNEVYVNCDSGrvrrpliVVE 566

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2520246509  107 DGRLK--DELIPCRHKGESTF-----------MNADQIQY----------------MDVSPQQIVSVAAALIPFLEHDDA 157
Cdd:PRK08565   567 NGKPKltREHVEKLKKGELTFddlvkmgvieyLDAEEEENayvaldpedltpehthLEIWPPAILGITASIIPYPEHNQS 646


                   ....*....
gi 2520246509  158 NRALMGPNM 166
Cdd:PRK08565   647 PRNTYQAAM 655
PRK09606 PRK09606
DNA-directed RNA polymerase subunit B''; Validated
 2-60 3.73e-16

DNA-directed RNA polymerase subunit B''; Validated


Pssm-ID: 236587 [Multi-domain]  Cd Length: 494  Bit Score: 74.60  E-value: 3.73e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2520246509   2 LSEVTHKRRISAlgpgGLTRERAGFEVRDVHPTHYGRLCPIETPEGPNIGLINSLSVYS 60
Cdd:PRK09606  415 MATLSHLRRVVS----PLSRSQPHFEARDLHPTQWGRICPSETPEGPNCGLVKNFAQMV 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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH