NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|496049908|ref|WP_008774415|]
View 

transcription termination/antitermination protein NusG [Parabacteroides distasonis]

Protein Classification

transcription termination/antitermination protein NusG( domain architecture ID 11415705)

transcription termination/antitermination protein NusG (N-Utilization Substance G) is involved in transcription elongation and termination in bacteria

CATH:  2.30.30.30|3.30.70.940
Gene Ontology:  GO:0006353|GO:0032784|GO:0031564|GO:0006354
PubMed:  12198166
SCOP:  4002609

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
65-197 9.04e-17

Transcription termination/antitermination protein NusG [Transcription];


:

Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 77.17  E-value: 9.04e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908  65 FEYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVEEI--FQMKRTlplynflPRVS---SGGMTHFPyLSDDEMGNLR 139
Cdd:COG0250   31 IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDEswYLVRNT-------PGVTgfvGFGGKPAP-LPDEEVERIL 102

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 496049908 140 WVAESYSNElpvyVPDSDRLLKGDRVRITSGYFTGMEAEVV-IQPGGGHKDVMARILDC 197
Cdd:COG0250  103 ARLEEGEEK----PRPKVDFEVGDRVRITDGPFAGFEGTVEeVDPEKGRVKVLVSIFGR 157
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
65-197 9.04e-17

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 77.17  E-value: 9.04e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908  65 FEYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVEEI--FQMKRTlplynflPRVS---SGGMTHFPyLSDDEMGNLR 139
Cdd:COG0250   31 IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDEswYLVRNT-------PGVTgfvGFGGKPAP-LPDEEVERIL 102

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 496049908 140 WVAESYSNElpvyVPDSDRLLKGDRVRITSGYFTGMEAEVV-IQPGGGHKDVMARILDC 197
Cdd:COG0250  103 ARLEEGEEK----PRPKVDFEVGDRVRITDGPFAGFEGTVEeVDPEKGRVKVLVSIFGR 157
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 66-208 3.67e-15

UpxY family transcription antiterminator; The UpxY family of NusG-related transcription antiterminators was described originally from a paralogous family of eight members from Bacteriodes fragilis, UpaY to UphY, each of which was associated with a distinct capsular polysaccharide biosynthesis locus. There is no UpxY protein per se.


Pssm-ID: 468125 [Multi-domain]  Cd Length: 162  Bit Score: 72.12  E-value: 3.67e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908  66 EYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVEEIFQMKRTLPLYNFLPRVSSGgmTHFPYL-SDDEMGNLRWVAES 144
Cdd:NF033644  24 ESFLPMQKEIRQWSDRKKRVEVPLIPNLVFVHITEKELDEVLEQTPGVVRYIRDDRG--KSKPAIiPDKQMERFRLMLDP 101

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 496049908 145 YSNELpVYVpdSDRLLKGDRVRITSGYFTGMEAEVVIQpgGGHKDVMARILDCMWVPLLEVKPG 208
Cdd:NF033644 102 SDEVV-VYL--EAPLKKGDKVRVIGGPLKGLEGELVRV--KGKKRVVVRIPGLGAVATVEVPPS 160
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 28-135 2.24e-06

N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization Substance G (NusG) and its eukaryotic homolog Spt5 are involved in transcription elongation and termination. NusG contains an NGN domain at its N-terminus and Kyrpides Ouzounis and Woese (KOW) repeats at its C-terminus in bacteria and archaea. The eukaryotic ortholog, Spt5, is a large protein composed of an acidic N-terminus, an NGN domain, and multiple KOW motifs at its C-terminus. Spt5 forms a Spt4-Spt5 complex that is an essential RNA Polymerase II elongation factor. NusG was originally discovered as an N-dependent antitermination enhancing activity in Escherichia coli and has a variety of functions, such as being involved in RNA polymerase elongation and Rho-termination in bacteria. Orthologs of the NusG gene exist in all bacteria, but its functions and requirements are different. The diverse activities suggest that, after diverging from a common ancestor, NusG proteins became specialized in different bacteria.


Pssm-ID: 193574 [Multi-domain]  Cd Length: 99  Bit Score: 45.77  E-value: 2.24e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908  28 WYVLtLPSTGvarrdkispaKSLDAEFSRRKRRGETLFEYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVE-EIFQM 106
Cdd:cd08000    2 WYVL-FVKTG----------REEKVEKLLEKRFEANDIEAFVPKKEVPERKRGKIEEVIKPLFPGYVFVETDLSpELYEL 70

                         90       100       110
                 ....*....|....*....|....*....|
gi 496049908 107 KRTLP-LYNFLprvssGGMTHFPYLSDDEM 135
Cdd:cd08000   71 IREVPgVIGIL-----GNGEEPSPVSDEEI 95
NusG pfam02357
Transcription termination factor nusG;
58-139 3.97e-06

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 44.91  E-value: 3.97e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908   58 KRRGetlFEYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRA--SVEEIFQMKRTLPLYNFLprvssGGMTHFPYLSDDEM 135
Cdd:pfam02357  21 ERQG---IEVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMdmTDETWHLVRSTPGVTGFV-----GGSGKPTPIPDEEV 92


                  ....
gi 496049908  136 GNLR 139
Cdd:pfam02357  93 ERIL 96
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 27-138 1.25e-04

In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, this domain may confer affinity for Spt4p.Spt4p


Pssm-ID: 197850 [Multi-domain]  Cd Length: 106  Bit Score: 40.82  E-value: 1.25e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908    27 RWYVLTlpsTGVARRDKIspAKSLdAEFSRRKRRGETLFEYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVEEI--F 104
Cdd:smart00738   1 NWYAVR---TTSGQEKRV--AENL-ERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEvwT 74

                           90       100       110
                   ....*....|....*....|....*....|....
gi 496049908   105 QMKRTLPLYNFLprvssGGMTHFPYLSDDEMGNL 138
Cdd:smart00738  75 AIRGTPGVRGFV-----GGGGKPTPVPDDEIEKI 103
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
65-197 9.04e-17

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 77.17  E-value: 9.04e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908  65 FEYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVEEI--FQMKRTlplynflPRVS---SGGMTHFPyLSDDEMGNLR 139
Cdd:COG0250   31 IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDEswYLVRNT-------PGVTgfvGFGGKPAP-LPDEEVERIL 102

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 496049908 140 WVAESYSNElpvyVPDSDRLLKGDRVRITSGYFTGMEAEVV-IQPGGGHKDVMARILDC 197
Cdd:COG0250  103 ARLEEGEEK----PRPKVDFEVGDRVRITDGPFAGFEGTVEeVDPEKGRVKVLVSIFGR 157
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 66-208 3.67e-15

UpxY family transcription antiterminator; The UpxY family of NusG-related transcription antiterminators was described originally from a paralogous family of eight members from Bacteriodes fragilis, UpaY to UphY, each of which was associated with a distinct capsular polysaccharide biosynthesis locus. There is no UpxY protein per se.


Pssm-ID: 468125 [Multi-domain]  Cd Length: 162  Bit Score: 72.12  E-value: 3.67e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908  66 EYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVEEIFQMKRTLPLYNFLPRVSSGgmTHFPYL-SDDEMGNLRWVAES 144
Cdd:NF033644  24 ESFLPMQKEIRQWSDRKKRVEVPLIPNLVFVHITEKELDEVLEQTPGVVRYIRDDRG--KSKPAIiPDKQMERFRLMLDP 101

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 496049908 145 YSNELpVYVpdSDRLLKGDRVRITSGYFTGMEAEVVIQpgGGHKDVMARILDCMWVPLLEVKPG 208
Cdd:NF033644 102 SDEVV-VYL--EAPLKKGDKVRVIGGPLKGLEGELVRV--KGKKRVVVRIPGLGAVATVEVPPS 160
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 28-135 2.24e-06

N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization Substance G (NusG) and its eukaryotic homolog Spt5 are involved in transcription elongation and termination. NusG contains an NGN domain at its N-terminus and Kyrpides Ouzounis and Woese (KOW) repeats at its C-terminus in bacteria and archaea. The eukaryotic ortholog, Spt5, is a large protein composed of an acidic N-terminus, an NGN domain, and multiple KOW motifs at its C-terminus. Spt5 forms a Spt4-Spt5 complex that is an essential RNA Polymerase II elongation factor. NusG was originally discovered as an N-dependent antitermination enhancing activity in Escherichia coli and has a variety of functions, such as being involved in RNA polymerase elongation and Rho-termination in bacteria. Orthologs of the NusG gene exist in all bacteria, but its functions and requirements are different. The diverse activities suggest that, after diverging from a common ancestor, NusG proteins became specialized in different bacteria.


Pssm-ID: 193574 [Multi-domain]  Cd Length: 99  Bit Score: 45.77  E-value: 2.24e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908  28 WYVLtLPSTGvarrdkispaKSLDAEFSRRKRRGETLFEYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVE-EIFQM 106
Cdd:cd08000    2 WYVL-FVKTG----------REEKVEKLLEKRFEANDIEAFVPKKEVPERKRGKIEEVIKPLFPGYVFVETDLSpELYEL 70

                         90       100       110
                 ....*....|....*....|....*....|
gi 496049908 107 KRTLP-LYNFLprvssGGMTHFPYLSDDEM 135
Cdd:cd08000   71 IREVPgVIGIL-----GNGEEPSPVSDEEI 95
NGN_SP_UpxY cd09895
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; ...
 54-116 3.82e-06

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; The N-Utilization Substance G (NusG) proteins are involved in transcription elongation and termination. NusG is essential in Escherichia coli and is associated with RNA polymerase elongation and Rho-termination. Paralogs of eubacterial NusG, NusG SP (Specialized Paralog of NusG), are more diverse and often found as the first ORF in operons encoding secreted proteins and LPS (lipopolysaccharide) biosynthesis genes. NusG SP family members are operon-specific transcriptional antitermination factors. UpxY proteins, UpxY proteins, where the x is replaced by the letter designation of the specific polysaccharide (UpaY to UphY), are a family of NusG SP factors that act specifically in transcriptional antitermination of operons from which they are encoded. UpxYs are necessary and specific for transcription regulation of the polysaccharide biosynthesis operon. Orthologs of the NusG gene exist in all bacteria, but their functions and requirements are different. The NusG N-terminal (NGN) domain is similar in all NusG orthologs, but its C-terminal domain and the linker that separate these two domains are different. The domain organization of NusG and its orthologs suggests that the common properties of NusG and its orthologs and paralogs are due to their similar NGN domains.


Pssm-ID: 193584 [Multi-domain]  Cd Length: 95  Bit Score: 44.88  E-value: 3.82e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 496049908  54 FSRRKRRGETLF-----EYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVEEIFQMKRTLPLYNFL 116
Cdd:cd09895    8 FPRREKKVAEYLekkgiECFLPMQYEVRQWSGRKKRVEVPLFPNLVFVHITREELDEVLETPGVVRFV 75
NusG pfam02357
Transcription termination factor nusG;
58-139 3.97e-06

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 44.91  E-value: 3.97e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908   58 KRRGetlFEYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRA--SVEEIFQMKRTLPLYNFLprvssGGMTHFPYLSDDEM 135
Cdd:pfam02357  21 ERQG---IEVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMdmTDETWHLVRSTPGVTGFV-----GGSGKPTPIPDEEV 92


                  ....
gi 496049908  136 GNLR 139
Cdd:pfam02357  93 ERIL 96
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 27-138 1.25e-04

In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, this domain may confer affinity for Spt4p.Spt4p


Pssm-ID: 197850 [Multi-domain]  Cd Length: 106  Bit Score: 40.82  E-value: 1.25e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 496049908    27 RWYVLTlpsTGVARRDKIspAKSLdAEFSRRKRRGETLFEYFAPSYVEVRKVDGKMVNTKRPLLFNYVFVRASVEEI--F 104
Cdd:smart00738   1 NWYAVR---TTSGQEKRV--AENL-ERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEvwT 74

                           90       100       110
                   ....*....|....*....|....*....|....
gi 496049908   105 QMKRTLPLYNFLprvssGGMTHFPYLSDDEMGNL 138
Cdd:smart00738  75 AIRGTPGVRGFV-----GGGGKPTPVPDDEIEKI 103
KOW_NusG cd06091
NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif ...
 161-180 1.48e-03

NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif is one of the two domains of N-Utilization Substance G (NusG) a transcription elongation and Rho-termination factor in bacteria and archaea. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. The eukaryotic ortholog of NusG is Spt5 with multiple KOW motifs at its C-terminus.


Pssm-ID: 240515 [Multi-domain]  Cd Length: 56  Bit Score: 36.28  E-value: 1.48e-03
                         10        20
                 ....*....|....*....|
gi 496049908 161 KGDRVRITSGYFTGMEAEVV 180
Cdd:cd06091    6 VGDTVRIISGPFAGFEGKVE 25
 
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