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Conserved domains on  [gi|493739733|ref|WP_006688871|]
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transcription antitermination protein NusB [Ureaplasma parvum]

Protein Classification

transcription antitermination protein NusB( domain architecture ID 10020107)

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:0003723|GO:0031564|GO:0006353
SCOP:  4001076

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
nusB TIGR01951
transcription antitermination factor NusB; A transcription antitermination complex active in ...
 4-125 7.64e-24

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: 88.70  E-value: 7.64e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493739733    4 QWAKRVKLFQFIYHWLITKKNKPIALKCALVDFDLDLN----WINVGEYILDNYEQLTKMIKPLIsKDWTFERLSYVEQA 79
Cdd:TIGR01951   1 RRKARELALQALYQWELSGEDVDEIIEEFLEERELDEEdreyFRELVRGVLENQEEIDELISPHL-EDWTLERLDPVDRA 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 493739733   80 LLLSAYGEYL-VLKTPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:TIGR01951  80 ILRLAIYELLyRPDVPYKVVINEAVELAKKFGDEDSHKFVNGVLDKI 126
 
Name Accession Description Interval E-value
nusB TIGR01951
transcription antitermination factor NusB; A transcription antitermination complex active in ...
 4-125 7.64e-24

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: 88.70  E-value: 7.64e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493739733    4 QWAKRVKLFQFIYHWLITKKNKPIALKCALVDFDLDLN----WINVGEYILDNYEQLTKMIKPLIsKDWTFERLSYVEQA 79
Cdd:TIGR01951   1 RRKARELALQALYQWELSGEDVDEIIEEFLEERELDEEdreyFRELVRGVLENQEEIDELISPHL-EDWTLERLDPVDRA 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 493739733   80 LLLSAYGEYL-VLKTPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:TIGR01951  80 ILRLAIYELLyRPDVPYKVVINEAVELAKKFGDEDSHKFVNGVLDKI 126
NusB COG0781
Transcription antitermination protein NusB [Transcription];
12-125 2.82e-17

Transcription antitermination protein NusB [Transcription];


Pssm-ID: 440544 [Multi-domain]  Cd Length: 128  Bit Score: 72.10  E-value: 2.82e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493739733  12 FQFIYHWLITKKNKPIALKCALVDFDL---DLNWI-NVGEYILDNYEQLTKMIKPLiSKDWTFERLSYVEQALL-LSAYg 86
Cdd:COG0781    4 LQALYQVELSGAYANEILEEFLEDEELseaDRAFAtELVYGVLRNQEELDALIAPY-LKDWPLERLDPVDRAILrLAAY- 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 493739733  87 EYLVL-KTPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:COG0781   82 ELLYLdDVPYKVAINEAVELAKKFGTEDSPKFVNGVLDKI 121
nusB PRK00202
transcription antitermination factor NusB;
49-125 3.99e-15

transcription antitermination factor NusB;


Pssm-ID: 234686 [Multi-domain]  Cd Length: 137  Bit Score: 66.74  E-value: 3.99e-15
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 493739733  49 ILDNYEQLTKMIKPLIsKDWTFERLSYVEQALL-LSAYgEYL-VLKTPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:PRK00202  52 VVENQAELDELISPYL-KDWTLERLDPVERAILrLALY-ELLfRDDVPYKVVINEAIELAKKFGDEDSHKFVNGVLDKI 128
Terminator_NusB cd00619
Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key ...
 8-125 5.16e-14

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: 63.45  E-value: 5.16e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493739733   8 RVKLFQFIYHWLItkknKPIALKcALVDFDLDLNWIN--VGEY-------ILDNYEQLTKMIKPlISKDWTFERLSYVEQ 78
Cdd:cd00619    5 RELAVQALYAWEL----APEILA-EVVSLLELLQYKSkkVLPFalklvrgVLENIEEIDELIEK-HLRNWSLDRLAIVER 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 493739733  79 ALL-LSAYgEYLVLK-TPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:cd00619   79 AILrLAVY-ELLFLPdVPHPVVINEAIELAKRFGGDDSHKFVNGVLDKI 126
NusB pfam01029
NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by ...
 49-126 2.26e-11

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: 56.89  E-value: 2.26e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493739733   49 ILDNYEQLTKMIKPLiSKDWTFERLSYVEQALL-LSAYgEYLVL-KTPKKIIIDQTLITTHNYSNNESYKFINAILDQLL 126
Cdd:pfam01029  55 VLRNLEELDALIEKL-LENWPLERLSPVDRAILrLGLY-ELLFLdDVPPHVAINEAVELAKKFGGEKSAKFVNGVLRNVA 132
 
Name Accession Description Interval E-value
nusB TIGR01951
transcription antitermination factor NusB; A transcription antitermination complex active in ...
 4-125 7.64e-24

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: 88.70  E-value: 7.64e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493739733    4 QWAKRVKLFQFIYHWLITKKNKPIALKCALVDFDLDLN----WINVGEYILDNYEQLTKMIKPLIsKDWTFERLSYVEQA 79
Cdd:TIGR01951   1 RRKARELALQALYQWELSGEDVDEIIEEFLEERELDEEdreyFRELVRGVLENQEEIDELISPHL-EDWTLERLDPVDRA 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 493739733   80 LLLSAYGEYL-VLKTPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:TIGR01951  80 ILRLAIYELLyRPDVPYKVVINEAVELAKKFGDEDSHKFVNGVLDKI 126
NusB COG0781
Transcription antitermination protein NusB [Transcription];
12-125 2.82e-17

Transcription antitermination protein NusB [Transcription];


Pssm-ID: 440544 [Multi-domain]  Cd Length: 128  Bit Score: 72.10  E-value: 2.82e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493739733  12 FQFIYHWLITKKNKPIALKCALVDFDL---DLNWI-NVGEYILDNYEQLTKMIKPLiSKDWTFERLSYVEQALL-LSAYg 86
Cdd:COG0781    4 LQALYQVELSGAYANEILEEFLEDEELseaDRAFAtELVYGVLRNQEELDALIAPY-LKDWPLERLDPVDRAILrLAAY- 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 493739733  87 EYLVL-KTPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:COG0781   82 ELLYLdDVPYKVAINEAVELAKKFGTEDSPKFVNGVLDKI 121
nusB PRK00202
transcription antitermination factor NusB;
49-125 3.99e-15

transcription antitermination factor NusB;


Pssm-ID: 234686 [Multi-domain]  Cd Length: 137  Bit Score: 66.74  E-value: 3.99e-15
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 493739733  49 ILDNYEQLTKMIKPLIsKDWTFERLSYVEQALL-LSAYgEYL-VLKTPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:PRK00202  52 VVENQAELDELISPYL-KDWTLERLDPVERAILrLALY-ELLfRDDVPYKVVINEAIELAKKFGDEDSHKFVNGVLDKI 128
Terminator_NusB cd00619
Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key ...
 8-125 5.16e-14

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: 63.45  E-value: 5.16e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493739733   8 RVKLFQFIYHWLItkknKPIALKcALVDFDLDLNWIN--VGEY-------ILDNYEQLTKMIKPlISKDWTFERLSYVEQ 78
Cdd:cd00619    5 RELAVQALYAWEL----APEILA-EVVSLLELLQYKSkkVLPFalklvrgVLENIEEIDELIEK-HLRNWSLDRLAIVER 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 493739733  79 ALL-LSAYgEYLVLK-TPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:cd00619   79 AILrLAVY-ELLFLPdVPHPVVINEAIELAKRFGGDDSHKFVNGVLDKI 126
NusB_Sun cd00447
RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or ...
 49-125 6.83e-12

RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-specific 5-methylcytidine transferase (m5C-methyltransferase) Sun. The NusB protein 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. The m5C-methyltransferase Sun shares the N-terminal non-catalytic RNA-binding domain with NusB.


Pssm-ID: 238253 [Multi-domain]  Cd Length: 129  Bit Score: 58.13  E-value: 6.83e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 493739733  49 ILDNYEQLTKMIKPLIsKDWTFERLSYVEQALL-LSAYGEYLVL-KTPKKIIIDQTLITTHNYSNNESYKFINAILDQL 125
Cdd:cd00447   48 VLRNLPELDDIISPLL-KKWLLDRLDKVDRAILrLLLYELYQLLyDVPPPVAINEAVELAKRFGDDDSAKFVNGVLRRI 125
NusB pfam01029
NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by ...
 49-126 2.26e-11

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: 56.89  E-value: 2.26e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493739733   49 ILDNYEQLTKMIKPLiSKDWTFERLSYVEQALL-LSAYgEYLVL-KTPKKIIIDQTLITTHNYSNNESYKFINAILDQLL 126
Cdd:pfam01029  55 VLRNLEELDALIEKL-LENWPLERLSPVDRAILrLGLY-ELLFLdDVPPHVAINEAVELAKKFGGEKSAKFVNGVLRNVA 132
 
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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