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Conserved domains on  [gi|1277649239|gb|ATW21564|]
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N utilization substance protein B [Chlamydia trachomatis]

Protein Classification

transcription antitermination protein NusB( domain architecture ID 10089769)

transcription antitermination protein NusB (N utilization substance protein B) is a lambda and rRNA transcription antitermination protein which also plays a role in ribosomal RNA biogenesis

CATH:  1.10.940.10
Gene Ontology:  GO:0031564|GO:0003723|GO:0006353
SCOP:  4001076

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Terminator_NusB cd00619
Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key ...
 21-153 3.78e-47

Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation.


:

Pssm-ID: 238342 [Multi-domain]  Cd Length: 130  Bit Score: 149.74  E-value: 3.78e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  21 KQKLRELVLQALYALEIDPEGEDSLVSLLMTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIERNI 100
Cdd:cd00619     1 RRRARELAVQALYAWELAPEILAEVVSLLELLQYKSKKVLPFALKLVRGVLENIEEIDELIEKHLRNWSLDRLAIVERAI 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1277649239 101 LRMMLFEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSIFDHP 153
Cdd:cd00619    81 LRLAVYELLFLPD---VPHPVVINEAIELAKRFGGDDSHKFVNGVLDKIAKDL 130
 
Name Accession Description Interval E-value
Terminator_NusB cd00619
Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key ...
 21-153 3.78e-47

Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation.


Pssm-ID: 238342 [Multi-domain]  Cd Length: 130  Bit Score: 149.74  E-value: 3.78e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  21 KQKLRELVLQALYALEIDPEGEDSLVSLLMTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIERNI 100
Cdd:cd00619     1 RRRARELAVQALYAWELAPEILAEVVSLLELLQYKSKKVLPFALKLVRGVLENIEEIDELIEKHLRNWSLDRLAIVERAI 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1277649239 101 LRMMLFEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSIFDHP 153
Cdd:cd00619    81 LRLAVYELLFLPD---VPHPVVINEAIELAKRFGGDDSHKFVNGVLDKIAKDL 130
nusB PRK00202
transcription antitermination factor NusB;
19-156 3.69e-40

transcription antitermination factor NusB;


Pssm-ID: 234686 [Multi-domain]  Cd Length: 137  Bit Score: 132.22  E-value: 3.69e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  19 FPKQKLRELVLQALYALEIDPEGEDSLVSLLMTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIER 98
Cdd:PRK00202    1 AARRKAREAAVQALYQWELSGNDIAEIIEAQLLEEQYDKADPAYFRSLVRGVVENQAELDELISPYLKDWTLERLDPVER 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1277649239  99 NILRMMLFEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSIFDHPAPA 156
Cdd:PRK00202   81 AILRLALYELLFRDD---VPYKVVINEAIELAKKFGDEDSHKFVNGVLDKIAKELRPA 135
nusB TIGR01951
transcription antitermination factor NusB; A transcription antitermination complex active in ...
 21-152 2.97e-33

transcription antitermination factor NusB; A transcription antitermination complex active in many bacteria was designated N-utilization substance (Nus) in E. coli because of its interaction with phage lambda protein N. This model represents NusB. Other components are NusA and NusG. NusE is, in fact, ribosomal protein S10. [Transcription, Transcription factors]


Pssm-ID: 273891 [Multi-domain]  Cd Length: 129  Bit Score: 114.51  E-value: 2.97e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  21 KQKLRELVLQALYALEIDPEGEDSLVSLLMTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIERNI 100
Cdd:TIGR01951   1 RRKARELALQALYQWELSGEDVDEIIEEFLEERELDEEDREYFRELVRGVLENQEEIDELISPHLEDWTLERLDPVDRAI 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1277649239 101 LRMMLFEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSIFDH 152
Cdd:TIGR01951  81 LRLAIYELLYRPD---VPYKVVINEAVELAKKFGDEDSHKFVNGVLDKIAKE 129
NusB COG0781
Transcription antitermination protein NusB [Transcription];
26-149 1.25e-23

Transcription antitermination protein NusB [Transcription];


Pssm-ID: 440544 [Multi-domain]  Cd Length: 128  Bit Score: 89.82  E-value: 1.25e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  26 ELVLQALYALEIDPEGEDSLVSLLMTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIERNILRMML 105
Cdd:COG0781     1 ELALQALYQVELSGAYANEILEEFLEDEELSEADRAFATELVYGVLRNQEELDALIAPYLKDWPLERLDPVDRAILRLAA 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1277649239 106 FEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSI 149
Cdd:COG0781    81 YELLYLDD---VPYKVAINEAVELAKKFGTEDSPKFVNGVLDKI 121
NusB pfam01029
NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by ...
 25-149 3.27e-16

NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by transcriptional antitermination.


Pssm-ID: 460031 [Multi-domain]  Cd Length: 133  Bit Score: 70.76  E-value: 3.27e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  25 RELVLQALYALEIDPEGEDSLVSLL------MTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIER 98
Cdd:pfam01029   4 RELALQALYQVEINGSDEEEKGAYLnealdkALEGDLSEEDRAFATELVYGVLRNLEELDALIEKLLENWPLERLSPVDR 83

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1277649239  99 NILRMMLFEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSI 149
Cdd:pfam01029  84 AILRLGLYELLFLDD---VPPHVAINEAVELAKKFGGEKSAKFVNGVLRNV 131
 
Name Accession Description Interval E-value
Terminator_NusB cd00619
Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key ...
 21-153 3.78e-47

Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation.


Pssm-ID: 238342 [Multi-domain]  Cd Length: 130  Bit Score: 149.74  E-value: 3.78e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  21 KQKLRELVLQALYALEIDPEGEDSLVSLLMTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIERNI 100
Cdd:cd00619     1 RRRARELAVQALYAWELAPEILAEVVSLLELLQYKSKKVLPFALKLVRGVLENIEEIDELIEKHLRNWSLDRLAIVERAI 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1277649239 101 LRMMLFEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSIFDHP 153
Cdd:cd00619    81 LRLAVYELLFLPD---VPHPVVINEAIELAKRFGGDDSHKFVNGVLDKIAKDL 130
nusB PRK00202
transcription antitermination factor NusB;
19-156 3.69e-40

transcription antitermination factor NusB;


Pssm-ID: 234686 [Multi-domain]  Cd Length: 137  Bit Score: 132.22  E-value: 3.69e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  19 FPKQKLRELVLQALYALEIDPEGEDSLVSLLMTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIER 98
Cdd:PRK00202    1 AARRKAREAAVQALYQWELSGNDIAEIIEAQLLEEQYDKADPAYFRSLVRGVVENQAELDELISPYLKDWTLERLDPVER 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1277649239  99 NILRMMLFEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSIFDHPAPA 156
Cdd:PRK00202   81 AILRLALYELLFRDD---VPYKVVINEAIELAKKFGDEDSHKFVNGVLDKIAKELRPA 135
nusB TIGR01951
transcription antitermination factor NusB; A transcription antitermination complex active in ...
 21-152 2.97e-33

transcription antitermination factor NusB; A transcription antitermination complex active in many bacteria was designated N-utilization substance (Nus) in E. coli because of its interaction with phage lambda protein N. This model represents NusB. Other components are NusA and NusG. NusE is, in fact, ribosomal protein S10. [Transcription, Transcription factors]


Pssm-ID: 273891 [Multi-domain]  Cd Length: 129  Bit Score: 114.51  E-value: 2.97e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  21 KQKLRELVLQALYALEIDPEGEDSLVSLLMTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIERNI 100
Cdd:TIGR01951   1 RRKARELALQALYQWELSGEDVDEIIEEFLEERELDEEDREYFRELVRGVLENQEEIDELISPHLEDWTLERLDPVDRAI 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1277649239 101 LRMMLFEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSIFDH 152
Cdd:TIGR01951  81 LRLAIYELLYRPD---VPYKVVINEAVELAKKFGDEDSHKFVNGVLDKIAKE 129
NusB COG0781
Transcription antitermination protein NusB [Transcription];
26-149 1.25e-23

Transcription antitermination protein NusB [Transcription];


Pssm-ID: 440544 [Multi-domain]  Cd Length: 128  Bit Score: 89.82  E-value: 1.25e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  26 ELVLQALYALEIDPEGEDSLVSLLMTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIERNILRMML 105
Cdd:COG0781     1 ELALQALYQVELSGAYANEILEEFLEDEELSEADRAFATELVYGVLRNQEELDALIAPYLKDWPLERLDPVDRAILRLAA 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1277649239 106 FEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSI 149
Cdd:COG0781    81 YELLYLDD---VPYKVAINEAVELAKKFGTEDSPKFVNGVLDKI 121
NusB pfam01029
NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by ...
 25-149 3.27e-16

NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by transcriptional antitermination.


Pssm-ID: 460031 [Multi-domain]  Cd Length: 133  Bit Score: 70.76  E-value: 3.27e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1277649239  25 RELVLQALYALEIDPEGEDSLVSLL------MTEASVSKKNAAYALMFCRAIRANQPDLDALLDATIRTTTLARLTIIER 98
Cdd:pfam01029   4 RELALQALYQVEINGSDEEEKGAYLnealdkALEGDLSEEDRAFATELVYGVLRNLEELDALIEKLLENWPLERLSPVDR 83

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1277649239  99 NILRMMLFEHQQNQDccpVPVAVLIAETTRLIKKFSYSEGSSLILAVLGSI 149
Cdd:pfam01029  84 AILRLGLYELLFLDD---VPPHVAINEAVELAKKFGGEKSAKFVNGVLRNV 131
 
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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