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Conserved domains on  [gi|1845822398|gb|QKD16774|]
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hypothetical protein HGP13_17805 [Mesorhizobium sp. NZP2077]

Protein Classification

transcription termination/antitermination NusG family protein( domain architecture ID 10492263)

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NusG pfam02357
Transcription termination factor nusG;
47-143 2.51e-16

Transcription termination factor nusG;


:

Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 71.10  E-value: 2.51e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  47 AWYAIRTRVNCEKAVDKTMVDAGIGTWLPLRKVEgKVRRGRMlPASYQPVIWGLLFVHVAMNGEAWHGLMSIKHVLAVLG 126
Cdd:pfam02357   2 KWYVLQTYSGKEKKVKENLERQGIEVFLPTEEVV-EIRNGKK-KVVERPLFPGYVFVRMDMTDETWHLVRSTPGVTGFVG 79

                          90
                  ....*....|....*..
gi 1845822398 127 DDSGPKPVIEKEFNRFR 143
Cdd:pfam02357  80 GSGKPTPIPDEEVERIL 96
 
Name Accession Description Interval E-value
NusG pfam02357
Transcription termination factor nusG;
47-143 2.51e-16

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 71.10  E-value: 2.51e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  47 AWYAIRTRVNCEKAVDKTMVDAGIGTWLPLRKVEgKVRRGRMlPASYQPVIWGLLFVHVAMNGEAWHGLMSIKHVLAVLG 126
Cdd:pfam02357   2 KWYVLQTYSGKEKKVKENLERQGIEVFLPTEEVV-EIRNGKK-KVVERPLFPGYVFVRMDMTDETWHLVRSTPGVTGFVG 79

                          90
                  ....*....|....*..
gi 1845822398 127 DDSGPKPVIEKEFNRFR 143
Cdd:pfam02357  80 GSGKPTPIPDEEVERIL 96
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
43-211 1.38e-14

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 68.70  E-value: 1.38e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  43 DEGRAWYAIRTRVNCEKAVDKTMVD--AGIGTWLPLRKVEgKVRRGRMlPASYQPVIWGLLFVHVAMNGEAWHGLMSIKH 120
Cdd:COG0250     2 SMEKRWYVVHTYSGYEKKVKENLERriEGIEVFVPTEEVV-EIKNGKK-KTVERPLFPGYVFVRMDLTDESWYLVRNTPG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398 121 VLAVLGDDSGPKPVIEKEFNRFRSMVTLGVYGDKPAGwKPMVGEYAVIgagaafgqgamVNG-FKG-----------RRR 188
Cdd:COG0250    80 VTGFVGFGGKPAPLPDEEVERILARLEEGEEKPRPKV-DFEVGDRVRI-----------TDGpFAGfegtveevdpeKGR 147

                         170       180
                  ....*....|....*....|...
gi 1845822398 189 DRVLVTLFGGSMPFEVPLAILVK 211
Cdd:COG0250   148 VKVLVSIFGRETPVELDFSQVEK 170
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 48-146 1.30e-10

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: 57.48  E-value: 1.30e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  48 WYAIRTRVNCEKAVDKTMVDAGIGTWLPLRKVEGKV--RRGRMLpasyQPVIWGLLFVHVAMNgEAWHGLMSIKHVLAVL 125
Cdd:NF033644    1 WYALYTRPRREKKVAELLEKKGIESFLPMQKEIRQWsdRKKRVE----VPLIPNLVFVHITEK-ELDEVLEQTPGVVRYI 75

                          90       100
                  ....*....|....*....|....
gi 1845822398 126 GDDSG-PKPVI--EKEFNRFRSMV 146
Cdd:NF033644   76 RDDRGkSKPAIipDKQMERFRLML 99
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 48-143 2.19e-10

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination. NusG is essential in Escherichia coli and is associated with RNA polymerase elongation and Rho-termination in bacteria. 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 biosynthesis genes. NusG SP family members are operon-specific transcriptional antitermination factors. The NusG N-terminal (NGN) domain is quite similar in all NusG orthologs, but its C-terminal domains and the linker that separate these two domains are different. The domain organization of NusG and its orthologs suggest that the common properties of NusG and its orthologs and paralogs are due to their similar NGN domains.


Pssm-ID: 193575 [Multi-domain]  Cd Length: 97  Bit Score: 55.45  E-value: 2.19e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  48 WYAIRTRVNCEKAVDKTMVDAGIGTWLPLRKVEgKVRRGRMLPASYqPVIWGLLFVHV-AMNGEAWHGLMSIKHVLAVLG 126
Cdd:cd09886     2 WYALRTNPGCEQRAEEALEARGVEAFLPMLTEE-RKRRRKKFDVER-PLFPGYVFARLdRSKGQDTSTIRACDGVLGVVG 79

                          90
                  ....*....|....*..
gi 1845822398 127 DDSGPKPVIEKEFNRFR 143
Cdd:cd09886    80 FDGRPAPVPEQEMRDLR 96
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 48-142 7.52e-08

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: 48.91  E-value: 7.52e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398   48 WYAIRTRVNCEKAVDKTM----VDAGIGT-----WLPLRKVEgKVRRGRMLPASyQPVIWGLLFVHVAMNGEAWHGLMSI 118
Cdd:smart00738   2 WYAVRTTSGQEKRVAENLerkaEALGLEDkivsiLVPTEEVK-EIRRGKKKVVE-RKLFPGYIFVEADLEDEVWTAIRGT 79

                           90       100
                   ....*....|....*....|....
gi 1845822398  119 KHVLAVLGDDSGPKPVIEKEFNRF 142
Cdd:smart00738  80 PGVRGFVGGGGKPTPVPDDEIEKI 103
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 48-138 2.82e-03

transcription termination/antitermination factor NusG; NusG proteins are transcription factors which are aparrently universal in prokaryotes (archaea and eukaryotes have homologs that may have related functions). The essential components of these factors include an N-terminal RNP-like (ribonucleoprotein) domain and a C-terminal KOW motif (pfam00467) believed to be a nucleic acid binding domain. In E. coli, NusA has been shown to interact with RNA polymerase and termination factor Rho. This model covers a wide variety of bacterial species but excludes mycoplasmas which are covered by a separate model (TIGR01956).The function of all of these NusG proteins is likely to be the same at the level of interaction with RNA and other protein factors to affect termination; however different species may utilize NusG towards different processes and in combination with different suites of affector proteins.In E. coli, NusG promotes rho-dependent termination. It is an essential gene. In Streptomyces virginiae and related species, an additional N-terminal sequence is also present and is suggested to play a role in butyrolactone-mediated autoregulation. In Thermotoga maritima, NusG has a long insert, fails to substitute for E. coli NusG (with or without the long insert), is a large 0.7 % of total cellular protein, and has a general, sequence non-specific DNA and RNA binding activity that blocks ethidium staining, yet permits transcription.Archaeal proteins once termed NusG share the KOW domain but are actually a ribosomal protein corresponding to L24p in bacterial and L26e in eukaryotes (TIGR00405). [Transcription, Transcription factors]


Pssm-ID: 273341 [Multi-domain]  Cd Length: 172  Bit Score: 37.28  E-value: 2.82e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  48 WYAIRTRVNCEKAVDKTMVD----AGIGTW-----LP------LRKVEGKVRRGRMLPasyqpviwGLLFVHVAMNGEAW 112
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEElielLGMGDYifeviVPteevveIKKGKKKVVERKIFP--------GYVLVKMDLTDVSW 72

                          90       100
                  ....*....|....*....|....*.
gi 1845822398 113 HGLMSIKHVLAVLGDDSGPKPVIEKE 138
Cdd:TIGR00922  73 HLVKNTPGVTGFVGSGGKPKALSEDE 98
 
Name Accession Description Interval E-value
NusG pfam02357
Transcription termination factor nusG;
47-143 2.51e-16

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 71.10  E-value: 2.51e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  47 AWYAIRTRVNCEKAVDKTMVDAGIGTWLPLRKVEgKVRRGRMlPASYQPVIWGLLFVHVAMNGEAWHGLMSIKHVLAVLG 126
Cdd:pfam02357   2 KWYVLQTYSGKEKKVKENLERQGIEVFLPTEEVV-EIRNGKK-KVVERPLFPGYVFVRMDMTDETWHLVRSTPGVTGFVG 79

                          90
                  ....*....|....*..
gi 1845822398 127 DDSGPKPVIEKEFNRFR 143
Cdd:pfam02357  80 GSGKPTPIPDEEVERIL 96
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
43-211 1.38e-14

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 68.70  E-value: 1.38e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  43 DEGRAWYAIRTRVNCEKAVDKTMVD--AGIGTWLPLRKVEgKVRRGRMlPASYQPVIWGLLFVHVAMNGEAWHGLMSIKH 120
Cdd:COG0250     2 SMEKRWYVVHTYSGYEKKVKENLERriEGIEVFVPTEEVV-EIKNGKK-KTVERPLFPGYVFVRMDLTDESWYLVRNTPG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398 121 VLAVLGDDSGPKPVIEKEFNRFRSMVTLGVYGDKPAGwKPMVGEYAVIgagaafgqgamVNG-FKG-----------RRR 188
Cdd:COG0250    80 VTGFVGFGGKPAPLPDEEVERILARLEEGEEKPRPKV-DFEVGDRVRI-----------TDGpFAGfegtveevdpeKGR 147

                         170       180
                  ....*....|....*....|...
gi 1845822398 189 DRVLVTLFGGSMPFEVPLAILVK 211
Cdd:COG0250   148 VKVLVSIFGRETPVELDFSQVEK 170
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 48-146 1.30e-10

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: 57.48  E-value: 1.30e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  48 WYAIRTRVNCEKAVDKTMVDAGIGTWLPLRKVEGKV--RRGRMLpasyQPVIWGLLFVHVAMNgEAWHGLMSIKHVLAVL 125
Cdd:NF033644    1 WYALYTRPRREKKVAELLEKKGIESFLPMQKEIRQWsdRKKRVE----VPLIPNLVFVHITEK-ELDEVLEQTPGVVRYI 75

                          90       100
                  ....*....|....*....|....
gi 1845822398 126 GDDSG-PKPVI--EKEFNRFRSMV 146
Cdd:NF033644   76 RDDRGkSKPAIipDKQMERFRLML 99
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 48-143 2.19e-10

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination. NusG is essential in Escherichia coli and is associated with RNA polymerase elongation and Rho-termination in bacteria. 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 biosynthesis genes. NusG SP family members are operon-specific transcriptional antitermination factors. The NusG N-terminal (NGN) domain is quite similar in all NusG orthologs, but its C-terminal domains and the linker that separate these two domains are different. The domain organization of NusG and its orthologs suggest that the common properties of NusG and its orthologs and paralogs are due to their similar NGN domains.


Pssm-ID: 193575 [Multi-domain]  Cd Length: 97  Bit Score: 55.45  E-value: 2.19e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  48 WYAIRTRVNCEKAVDKTMVDAGIGTWLPLRKVEgKVRRGRMLPASYqPVIWGLLFVHV-AMNGEAWHGLMSIKHVLAVLG 126
Cdd:cd09886     2 WYALRTNPGCEQRAEEALEARGVEAFLPMLTEE-RKRRRKKFDVER-PLFPGYVFARLdRSKGQDTSTIRACDGVLGVVG 79

                          90
                  ....*....|....*..
gi 1845822398 127 DDSGPKPVIEKEFNRFR 143
Cdd:cd09886    80 FDGRPAPVPEQEMRDLR 96
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 48-143 8.19e-10

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: 53.86  E-value: 8.19e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  48 WYAIRTRVNCEKAVDKTMVDAGIGTWL----PLRKVEGKVRRGRmlPASYQPVIWGLLFVHVAMNGEAWHGLMSIKHVLA 123
Cdd:cd08000     2 WYVLFVKTGREEKVEKLLEKRFEANDIeafvPKKEVPERKRGKI--EEVIKPLFPGYVFVETDLSPELYELIREVPGVIG 79

                          90       100
                  ....*....|....*....|
gi 1845822398 124 VLGDDSGPKPVIEKEFNRFR 143
Cdd:cd08000    80 ILGNGEEPSPVSDEEIEMIL 99
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 48-142 7.52e-08

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: 48.91  E-value: 7.52e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398   48 WYAIRTRVNCEKAVDKTM----VDAGIGT-----WLPLRKVEgKVRRGRMLPASyQPVIWGLLFVHVAMNGEAWHGLMSI 118
Cdd:smart00738   2 WYAVRTTSGQEKRVAENLerkaEALGLEDkivsiLVPTEEVK-EIRRGKKKVVE-RKLFPGYIFVEADLEDEVWTAIRGT 79

                           90       100
                   ....*....|....*....|....
gi 1845822398  119 KHVLAVLGDDSGPKPVIEKEFNRF 142
Cdd:smart00738  80 PGVRGFVGGGGKPTPVPDDEIEKI 103
NGN_SP_UpxY cd09895
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; ...
 48-104 2.67e-07

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: 47.19  E-value: 2.67e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1845822398  48 WYAIRTRVNCEKAVDKTMVDAGIGTWLPLRKV----EGKVRRGRMlpasyqPVIWGLLFVH 104
Cdd:cd09895     2 WYALYTFPRREKKVAEYLEKKGIECFLPMQYEvrqwSGRKKRVEV------PLFPNLVFVH 56
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 48-146 4.17e-07

Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination in bacteria. NusG is essential in Escherichia coli and associates with RNA polymerase elongation and Rho-termination. Homologs of the NusG gene exist in all bacteria. The NusG N-terminal domain (NGN) is similar in all NusG homologs, but its C-terminal domain and the linker that separates these two domains are different. The domain organization of NusG suggests that the common properties of NusG and its homologs are due to their similar NGN domains.


Pssm-ID: 193580 [Multi-domain]  Cd Length: 107  Bit Score: 46.70  E-value: 4.17e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  48 WYAIRTRVNCEKAV----DKTMVDAGIGTW-----LPLRKV----EGK--VRRGRMLPasyqpviwGLLFVHVAMNGEAW 112
Cdd:cd09891     2 WYVVHTYSGYENKVkenlEKRIESEGLEDYigevlVPTEEVvevkNGKkkVKERKLFP--------GYVLVEMDMNDDTW 73

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1845822398 113 HGLMSIKHVLAVLGDDSGPKPVIEKEFNRFRSMV 146
Cdd:cd09891    74 HLVRNTPGVTGFVGSGGKPVPLSEEEVERILGQV 107
NGN_SP_TaA cd09893
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; ...
 47-138 9.02e-05

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination. NusG is essential in Escherichia coli and is associated with RNA polymerase elongation and Rho-termination in bacteria. 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 biosynthesis genes. NusG SP family members are operon-specific transcriptional antiterminationn factors. TaA is a NusG SP factor that is required for synthesis of a polyketide antibiotic TA in Myxococcus xanthus. Orthologs of the NusG gene exist in all bacteria, but its functions and requirements are different. The NusG N-terminal (NGN) domain is quite similar in all NusG orthologs, but its C-terminal domains and the linker that separate these two domains are different. The domain organization of NusG and its orthologs suggest that the common properties of NusG and its orthologs and paralogs are due to their similar NGN domains.


Pssm-ID: 193582 [Multi-domain]  Cd Length: 95  Bit Score: 39.98  E-value: 9.02e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  47 AWYAIRTRVNCEKAVDKTMVDAGIGTWLPL-RKVEGKVRRGRMLPasyQPVIWGLLFVHVAMNGEAwHGLMSIKHVLAVL 125
Cdd:cd09893     1 SWYALYTRSRHEKKVADRLAKKGIESFLPLyEVLSRWKDRKKKIK---VPLFPGYLFVRFQLDPER-LRILKTPGVVRIV 76

                          90
                  ....*....|...
gi 1845822398 126 GDDSGPKPVIEKE 138
Cdd:cd09893    77 GNSGGPIPIPDEE 89
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 48-138 2.82e-03

transcription termination/antitermination factor NusG; NusG proteins are transcription factors which are aparrently universal in prokaryotes (archaea and eukaryotes have homologs that may have related functions). The essential components of these factors include an N-terminal RNP-like (ribonucleoprotein) domain and a C-terminal KOW motif (pfam00467) believed to be a nucleic acid binding domain. In E. coli, NusA has been shown to interact with RNA polymerase and termination factor Rho. This model covers a wide variety of bacterial species but excludes mycoplasmas which are covered by a separate model (TIGR01956).The function of all of these NusG proteins is likely to be the same at the level of interaction with RNA and other protein factors to affect termination; however different species may utilize NusG towards different processes and in combination with different suites of affector proteins.In E. coli, NusG promotes rho-dependent termination. It is an essential gene. In Streptomyces virginiae and related species, an additional N-terminal sequence is also present and is suggested to play a role in butyrolactone-mediated autoregulation. In Thermotoga maritima, NusG has a long insert, fails to substitute for E. coli NusG (with or without the long insert), is a large 0.7 % of total cellular protein, and has a general, sequence non-specific DNA and RNA binding activity that blocks ethidium staining, yet permits transcription.Archaeal proteins once termed NusG share the KOW domain but are actually a ribosomal protein corresponding to L24p in bacterial and L26e in eukaryotes (TIGR00405). [Transcription, Transcription factors]


Pssm-ID: 273341 [Multi-domain]  Cd Length: 172  Bit Score: 37.28  E-value: 2.82e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845822398  48 WYAIRTRVNCEKAVDKTMVD----AGIGTW-----LP------LRKVEGKVRRGRMLPasyqpviwGLLFVHVAMNGEAW 112
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEElielLGMGDYifeviVPteevveIKKGKKKVVERKIFP--------GYVLVKMDLTDVSW 72

                          90       100
                  ....*....|....*....|....*.
gi 1845822398 113 HGLMSIKHVLAVLGDDSGPKPVIEKE 138
Cdd:TIGR00922  73 HLVKNTPGVTGFVGSGGKPKALSEDE 98
 
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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