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Conserved domains on  [gi|1330010723|ref|WP_102265214|]
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MULTISPECIES: transcription termination/antitermination protein NusG [Mesobacillus]

Protein Classification

transcription termination/antitermination protein NusG( domain architecture ID 11489978)

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:  27899640|29887376
SCOP:  4002609

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 5-176 9.05e-81

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: 236.81  E-value: 9.05e-81
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   5 WYVVHTYSGYENKVKTNLEKRVETMGMQDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTPG 84
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  85 VTGFVGSAGAGSKPTALLPEEVTFILKRMGVEEKKVDINFELGETVQVSEGPFANFTGTIEEIDKDKAKLKVLVNMFGRD 164
Cdd:TIGR00922  81 VTGFVGSGGKPKALSEDEEVKNILNALEEGKDKPKPKIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGRE 160

                         170
                  ....*....|..
gi 1330010723 165 TPVELEFSQIEK 176
Cdd:TIGR00922 161 TPVELEFSQVEK 172
 
Name Accession Description Interval E-value
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 5-176 9.05e-81

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: 236.81  E-value: 9.05e-81
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   5 WYVVHTYSGYENKVKTNLEKRVETMGMQDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTPG 84
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  85 VTGFVGSAGAGSKPTALLPEEVTFILKRMGVEEKKVDINFELGETVQVSEGPFANFTGTIEEIDKDKAKLKVLVNMFGRD 164
Cdd:TIGR00922  81 VTGFVGSGGKPKALSEDEEVKNILNALEEGKDKPKPKIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGRE 160

                         170
                  ....*....|..
gi 1330010723 165 TPVELEFSQIEK 176
Cdd:TIGR00922 161 TPVELEFSQVEK 172
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-177 7.35e-78

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 229.33  E-value: 7.35e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   1 MEKNWYVVHTYSGYENKVKTNLEKRVETMgmqdkifRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVR 80
Cdd:COG0250     3 MEKRWYVVHTYSGYEKKVKENLERRIEGI-------EVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYLVR 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  81 NTPGVTGFVGSagaGSKPTALLPEEVTFILKRM--GVEEKKVDINFELGETVQVSEGPFANFTGTIEEIDKDKAKLKVLV 158
Cdd:COG0250    76 NTPGVTGFVGF---GGKPAPLPDEEVERILARLeeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPEKGRVKVLV 152

                         170
                  ....*....|....*....
gi 1330010723 159 NMFGRDTPVELEFSQIEKL 177
Cdd:COG0250   153 SIFGRETPVELDFSQVEKI 171
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 4-113 1.42e-55

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: 170.73  E-value: 1.42e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   4 NWYVVHTYSGYENKVKTNLEKRVETMGMQDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTP 83
Cdd:cd09891     1 KWYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTP 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 1330010723  84 GVTGFVGSagaGSKPTALLPEEVTFILKRM 113
Cdd:cd09891    81 GVTGFVGS---GGKPVPLSEEEVERILGQV 107
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 4-112 7.72e-41

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: 133.27  E-value: 7.72e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723    4 NWYVVHTYSGYENKVKTNLEKRVETMGMQDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTP 83
Cdd:smart00738   1 NWYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTP 80

                           90       100
                   ....*....|....*....|....*....
gi 1330010723   84 GVTGFVGSagaGSKPTALLPEEVTFILKR 112
Cdd:smart00738  81 GVRGFVGG---GGKPTPVPDDEIEKILKP 106
NusG pfam02357
Transcription termination factor nusG;
3-106 2.51e-36

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 121.56  E-value: 2.51e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   3 KNWYVVHTYSGYENKVKTNLEKRvetmGMQdkifrVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNT 82
Cdd:pfam02357   1 KKWYVLQTYSGKEKKVKENLERQ----GIE-----VFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRST 71

                          90       100
                  ....*....|....*....|....
gi 1330010723  83 PGVTGFVGSagaGSKPTALLPEEV 106
Cdd:pfam02357  72 PGVTGFVGG---SGKPTPIPDEEV 92
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 5-176 4.78e-30

antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The founding member, from Bacillus amyloliquefaciens, was shown to serve as an antiterminator for the transcription of genes involved in antibiotic biosynthesis.


Pssm-ID: 468124 [Multi-domain]  Cd Length: 166  Bit Score: 107.47  E-value: 4.78e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   5 WYVVHTYSGYENKVKTNLEKRVEtmgmqDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTPG 84
Cdd:NF033641    1 WYVLFVRTGKEEKVKKLLNKLFD-----KELLRCFVPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  85 VTGFVGSagAGSKPTALLPEEVTFILKRMG----VEEKKVDINfelGETVQVSEGPFANFTGTIEEIDKDKAKLKVLVNM 160
Cdd:NF033641   76 IIRLLGN--EGDEFSPIPEEEMEFLLKLLNdddiIEYSKGYIE---GDKVIVISGPLKGLEGIIKKIDKRKRRAKIELNF 150

                         170
                  ....*....|....*.
gi 1330010723 161 FGRDTPVELEFSQIEK 176
Cdd:NF033641  151 MGEERLVDVGIEIVSK 166
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
3-177 2.20e-10

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 56.44  E-value: 2.20e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   3 KNWYVVHTYSGYENKVKTNLEKR-VET---MGMQDKIFRvivpeeeetdfknGKKKVVKRKTFPGYVLVELVMTDDSWYV 78
Cdd:PRK09014    2 KSWYLLYCKRGQLQRAQEHLERQgVEClypMITLEKIVR-------------GKRTEVSEPLFPNYLFVEFDPEVIHTTT 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  79 VRNTPGVTGFVgsaGAGSKPtALLPEEVTFILKrMGVEEKKVDIN-FELGETVQVSEGPFANFTGTIEEIDKDKAKLkVL 157
Cdd:PRK09014   69 IRSTRGVSHFV---RFGAQP-AIVPSDVIYQLS-VYKPEKIVDPEtPKPGDKVIITEGAFEGLQAIYTEPDGEARSI-LL 142

                         170       180
                  ....*....|....*....|
gi 1330010723 158 VNMFGRDTPVELEFSQIEKL 177
Cdd:PRK09014  143 LNLLNKQVKHSVDNTQFRKI 162
 
Name Accession Description Interval E-value
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 5-176 9.05e-81

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: 236.81  E-value: 9.05e-81
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   5 WYVVHTYSGYENKVKTNLEKRVETMGMQDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTPG 84
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  85 VTGFVGSAGAGSKPTALLPEEVTFILKRMGVEEKKVDINFELGETVQVSEGPFANFTGTIEEIDKDKAKLKVLVNMFGRD 164
Cdd:TIGR00922  81 VTGFVGSGGKPKALSEDEEVKNILNALEEGKDKPKPKIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGRE 160

                         170
                  ....*....|..
gi 1330010723 165 TPVELEFSQIEK 176
Cdd:TIGR00922 161 TPVELEFSQVEK 172
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-177 7.35e-78

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 229.33  E-value: 7.35e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   1 MEKNWYVVHTYSGYENKVKTNLEKRVETMgmqdkifRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVR 80
Cdd:COG0250     3 MEKRWYVVHTYSGYEKKVKENLERRIEGI-------EVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYLVR 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  81 NTPGVTGFVGSagaGSKPTALLPEEVTFILKRM--GVEEKKVDINFELGETVQVSEGPFANFTGTIEEIDKDKAKLKVLV 158
Cdd:COG0250    76 NTPGVTGFVGF---GGKPAPLPDEEVERILARLeeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPEKGRVKVLV 152

                         170
                  ....*....|....*....
gi 1330010723 159 NMFGRDTPVELEFSQIEKL 177
Cdd:COG0250   153 SIFGRETPVELDFSQVEKI 171
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 4-113 1.42e-55

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: 170.73  E-value: 1.42e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   4 NWYVVHTYSGYENKVKTNLEKRVETMGMQDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTP 83
Cdd:cd09891     1 KWYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTP 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 1330010723  84 GVTGFVGSagaGSKPTALLPEEVTFILKRM 113
Cdd:cd09891    81 GVTGFVGS---GGKPVPLSEEEVERILGQV 107
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 4-112 7.72e-41

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: 133.27  E-value: 7.72e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723    4 NWYVVHTYSGYENKVKTNLEKRVETMGMQDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTP 83
Cdd:smart00738   1 NWYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTP 80

                           90       100
                   ....*....|....*....|....*....
gi 1330010723   84 GVTGFVGSagaGSKPTALLPEEVTFILKR 112
Cdd:smart00738  81 GVRGFVGG---GGKPTPVPDDEIEKILKP 106
NusG pfam02357
Transcription termination factor nusG;
3-106 2.51e-36

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 121.56  E-value: 2.51e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   3 KNWYVVHTYSGYENKVKTNLEKRvetmGMQdkifrVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNT 82
Cdd:pfam02357   1 KKWYVLQTYSGKEKKVKENLERQ----GIE-----VFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRST 71

                          90       100
                  ....*....|....*....|....
gi 1330010723  83 PGVTGFVGSagaGSKPTALLPEEV 106
Cdd:pfam02357  72 PGVTGFVGG---SGKPTPIPDEEV 92
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 5-176 4.78e-30

antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The founding member, from Bacillus amyloliquefaciens, was shown to serve as an antiterminator for the transcription of genes involved in antibiotic biosynthesis.


Pssm-ID: 468124 [Multi-domain]  Cd Length: 166  Bit Score: 107.47  E-value: 4.78e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   5 WYVVHTYSGYENKVKTNLEKRVEtmgmqDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTPG 84
Cdd:NF033641    1 WYVLFVRTGKEEKVKKLLNKLFD-----KELLRCFVPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  85 VTGFVGSagAGSKPTALLPEEVTFILKRMG----VEEKKVDINfelGETVQVSEGPFANFTGTIEEIDKDKAKLKVLVNM 160
Cdd:NF033641   76 IIRLLGN--EGDEFSPIPEEEMEFLLKLLNdddiIEYSKGYIE---GDKVIVISGPLKGLEGIIKKIDKRKRRAKIELNF 150

                         170
                  ....*....|....*.
gi 1330010723 161 FGRDTPVELEFSQIEK 176
Cdd:NF033641  151 MGEERLVDVGIEIVSK 166
KOW_NusG cd06091
NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif ...
 121-176 8.27e-25

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: 90.98  E-value: 8.27e-25
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1330010723 121 DINFELGETVQVSEGPFANFTGTIEEIDKDKAKLKVLVNMFGRDTPVELEFSQIEK 176
Cdd:cd06091     1 EVDFEVGDTVRIISGPFAGFEGKVEEIDEEKGKVKVLVEMFGRETPVELDFDQVEK 56
NusG_myco TIGR01956
NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the ...
 4-176 1.79e-23

NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the bacterial transcription termination/antitermination factor NusG. These sequences from Mycoplasma are notably diverged (long branches in a Neighbor-joining phylogenetic tree) from the bacterial species. And although NusA and ribosomal protein S10 (NusE) appear to be present, NusB may be absent in Mycoplasmas calling into question whether these species have a functional Nus system including this family as a member.


Pssm-ID: 273895 [Multi-domain]  Cd Length: 258  Bit Score: 93.10  E-value: 1.79e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   4 NWYVVHTYSGYENKVKTNLEKRVETMGMQDKI--FRVI---VPEEEETDFKNG-----------------------KKKV 55
Cdd:TIGR01956   1 QWYIATTINGNEDEVIENIKAKVRALGLENYIsdFKILkerEIEEKVFEPKNGqaprsmkntattkwetldetkykKTKI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  56 VKRKTFPGYVLVELVMTDDSWYVVRNTPGVTGFVGSAGAGSKPTALLPEEVTFILKRMGVEEKKVDI------------- 122
Cdd:TIGR01956  81 SEKNKYNGYIYIKMIMTEDAWFLIRNTENVTGLVGSSGKGAKPIPISADADKLKMLKGISENTKKRVlvtntaivemeen 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723 123 --------------------------------------------NFELGETVQVSEGPFANFTGTIEEIDKDKAKLKVLV 158
Cdd:TIGR01956 161 kfdekcqyilkhkqvkpeaiaqvsesgeiideiveefqlvdnlsKFRVGNFVKIVDGPFKGIVGKIKKIDQEKKKAIVEV 240

                         250
                  ....*....|....*...
gi 1330010723 159 NMFGRDTPVELEFSQIEK 176
Cdd:TIGR01956 241 EILGKSVDVDLNFKHLKL 258
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 4-110 3.75e-22

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: 85.45  E-value: 3.75e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   4 NWYVVHTYSGYENKVKTNLEKRVEtmgmqDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTP 83
Cdd:cd08000     1 NWYVLFVKTGREEKVEKLLEKRFE-----ANDIEAFVPKKEVPERKRGKIEEVIKPLFPGYVFVETDLSPELYELIREVP 75

                          90       100
                  ....*....|....*....|....*..
gi 1330010723  84 GVTGFVGSagaGSKPTALLPEEVTFIL 110
Cdd:cd08000    76 GVIGILGN---GEEPSPVSDEEIEMIL 99
RfaH TIGR01955
transcription elongation factor/antiterminator RfaH; This model represents the transcription ...
 5-175 1.04e-20

transcription elongation factor/antiterminator RfaH; This model represents the transcription elongation factor/antiterminator, RfaH. This protein is most closely related to the transcriptional termination/antitermination protein NusG (TIGR00922) and contains the KOW motif (pfam00467). This protein appears to be limited to the gamma proteobacteria. In E. coli, this gene appears to control the expression of haemolysin, sex factor and lipopolysaccharide genes. [Transcription, Transcription factors]


Pssm-ID: 131010 [Multi-domain]  Cd Length: 159  Bit Score: 83.28  E-value: 1.04e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   5 WYVVHTYSGYENKVKTNLEKrvetmgmQDkiFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTPG 84
Cdd:TIGR01955   1 WYLLYCKPRQEQRAQEHLER-------QA--VECYLPMITVEKIVRGKRQAVSEPLFPNYLFIEFDPEVDSWTTIRSTRG 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  85 VTGFVgsaGAGSKPTALLPEEVTFILKRMGVEEKKV-DINFELGETVQVSEGPFANFTGTIEEIDKDKaKLKVLVNMFGR 163
Cdd:TIGR01955  72 VSRFV---RFGGHPAPVPDDLIHQLRQYEPKDSVPPaTTLPYKGDKVRITDGAFAGFEAIFLEPDGEK-RSMLLLNMIGK 147

                         170
                  ....*....|..
gi 1330010723 164 DTPVELEFSQIE 175
Cdd:TIGR01955 148 QIKVSVPNTSVE 159
NGN_SP_RfaH cd09892
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; ...
 4-106 1.60e-12

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; RfaH is an operon-specific virulence regulator, thought to have arisen from an early duplication of N-Utilization Substance G (NusG). 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. NusG is essential in Escherichia coli and is associated with RNA polymerase elongation and Rho-termination in bacteria. In contrast, RfaH is a non-essential protein that controls expression of operons containing an ops (operon polarity suppressor) element in their transcribed DNA. RfaH and NusG are different in their response to Rho-dependent terminators and regulatory targets. 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 homologs suggest that the common properties of NusG and RfaH are due to their similar NGN domains.


Pssm-ID: 193581 [Multi-domain]  Cd Length: 96  Bit Score: 60.27  E-value: 1.60e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   4 NWYVVHTYSGYENKVKTNLEKrvetmgmQDkiFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTP 83
Cdd:cd09892     1 AWYLLYTKPRQEERAAENLER-------QG--FEVFLPMIRVEKRRRGKRTVVTEPLFPGYLFVRLDPEVQNWRPIRSTR 71

                          90       100
                  ....*....|....*....|...
gi 1330010723  84 GVTGFVGSagaGSKPTAlLPEEV 106
Cdd:cd09892    72 GVSRLVRF---GGEPAP-VPDAL 90
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 5-112 4.11e-11

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: 56.61  E-value: 4.11e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   5 WYVVHTysgyenkvKTNLEKRVEtMGMQDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVEL-VMTDDSWYVVRNTP 83
Cdd:cd09886     2 WYALRT--------NPGCEQRAE-EALEARGVEAFLPMLTEERKRRRKKFDVERPLFPGYVFARLdRSKGQDTSTIRACD 72

                          90       100
                  ....*....|....*....|....*....
gi 1330010723  84 GVTGFVGSAGagsKPtALLPEEVTFILKR 112
Cdd:cd09886    73 GVLGVVGFDG---RP-APVPEQEMRDLRK 97
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
3-177 2.20e-10

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 56.44  E-value: 2.20e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   3 KNWYVVHTYSGYENKVKTNLEKR-VET---MGMQDKIFRvivpeeeetdfknGKKKVVKRKTFPGYVLVELVMTDDSWYV 78
Cdd:PRK09014    2 KSWYLLYCKRGQLQRAQEHLERQgVEClypMITLEKIVR-------------GKRTEVSEPLFPNYLFVEFDPEVIHTTT 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723  79 VRNTPGVTGFVgsaGAGSKPtALLPEEVTFILKrMGVEEKKVDIN-FELGETVQVSEGPFANFTGTIEEIDKDKAKLkVL 157
Cdd:PRK09014   69 IRSTRGVSHFV---RFGAQP-AIVPSDVIYQLS-VYKPEKIVDPEtPKPGDKVIITEGAFEGLQAIYTEPDGEARSI-LL 142

                         170       180
                  ....*....|....*....|
gi 1330010723 158 VNMFGRDTPVELEFSQIEKL 177
Cdd:PRK09014  143 LNLLNKQVKHSVDNTQFRKI 162
NGN_Bact_2 cd09889
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; The ...
 4-110 2.50e-10

Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination. NusG is essential in Escherichia coli and associates 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 biosynthesis genes. NusG SP family members are operon-specific transcriptional antitermination factors. The NusG N-terminal domain (NGN) is quite similar in all NusG orthologs, but its C-terminal domain and the linker that separates 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: 193578 [Multi-domain]  Cd Length: 100  Bit Score: 54.64  E-value: 2.50e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   4 NWYVVHTYSGYENKVKtnleKRVETMGMQDKIFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTP 83
Cdd:cd09889     1 MWYVVQVRTGREKAVL----ELLEKLVGPDVLQECFIPQYERKKRSQGVWRERKYTLFPGYVFVVTDDIDELYYELKRVP 76

                          90       100
                  ....*....|....*....|....*..
gi 1330010723  84 GVTGFVgsaGAGSKPTALLPEEVTFIL 110
Cdd:cd09889    77 GFTRLL---GNDGSFFPLTPEEADFIR 100
NGN_plant cd09890
Plant N-Utilization Substance G (NusG) N-terminal (NGN) domain; The N-Utilization Substance G ...
 5-106 5.57e-10

Plant N-Utilization Substance G (NusG) N-terminal (NGN) domain; The N-Utilization Substance G (NusG) protein and its eukaryotic homolog, Spt5, are involved in transcription elongation and termination. NusG contains a 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 comprising an acidic N-terminus, an NGN domain, and multiple KOW motifs at its C-terminus. Spt5 forms an Spt4-Spt5 complex that is an essential RNA polymerase II elongation factor. The bacterial infected plants contain bacterial DNA, such as NGN sequences, that can be used to clone the DNA of uncultured organisms.


Pssm-ID: 193579  Cd Length: 113  Bit Score: 54.28  E-value: 5.57e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   5 WYVVHTYSGYENKVKTNLEKRVETMGMQDKiFRVIVPEEEETDF-KNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRNTP 83
Cdd:cd09890     2 WYMLRVPAGRENQAAEALERALATEFPDRE-FEVWVPSIPVDRKlKNGSISVKEKPLFPGYVLLRCVLNKEVYDFIRDND 80

                          90       100
                  ....*....|....*....|....
gi 1330010723  84 GVTGFVGSA-GAGSKPTALLPEEV 106
Cdd:cd09890    81 SVYGFVGSKvGKTGKRQIEIPRPV 104
NGN_SP_TaA cd09893
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; ...
 4-106 3.17e-09

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: 51.54  E-value: 3.17e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   4 NWYVVHTYSGYENKVKTNLEKR-VETMgmqdkifrviVPEEEETDFKNGKKKVVKRKTFPGYVLVELVMTDDSWYVVRnT 82
Cdd:cd09893     1 SWYALYTRSRHEKKVADRLAKKgIESF----------LPLYEVLSRWKDRKKKIKVPLFPGYLFVRFQLDPERLRILK-T 69

                          90       100
                  ....*....|....*....|....
gi 1330010723  83 PGVTGFVGSAGAgskPTALLPEEV 106
Cdd:cd09893    70 PGVVRIVGNSGG---PIPIPDEEI 90
NGN_SP_UpxY cd09895
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; ...
 4-89 3.67e-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: 43.34  E-value: 3.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330010723   4 NWYVVHTYSGYENKVKTNLEKRvetmGmqdkiFRVIVPEEEETDFKNGKKKVVKRKTFPGYVLVELvmTDDSWYVVRNTP 83
Cdd:cd09895     1 PWYALYTFPRREKKVAEYLEKK----G-----IECFLPMQYEVRQWSGRKKRVEVPLFPNLVFVHI--TREELDEVLETP 69


                  ....*.
gi 1330010723  84 GVTGFV 89
Cdd:cd09895    70 GVVRFV 75
KOW cd00380
KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); KOW domain is known ...
 127-175 5.91e-04

KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); 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 KOW motif contains an invariants glycine residue and comprises alternating blocks of hydrophilic and hydrophobic residues.


Pssm-ID: 240504  Cd Length: 49  Bit Score: 36.43  E-value: 5.91e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1330010723 127 GETVQVSEGPFANFTGTIEEIDKDKAKLKVLVNMFGRDTPVELEFSQIE 175
Cdd:cd00380     1 GDVVRVLRGPYKGREGVVVDIDPRFGIVTVKGATGSKGAELKVRFDDVD 49
KOW smart00739
KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
 123-150 9.33e-04

KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.


Pssm-ID: 128978  Cd Length: 28  Bit Score: 35.38  E-value: 9.33e-04
                           10        20
                   ....*....|....*....|....*...
gi 1330010723  123 NFELGETVQVSEGPFANFTGTIEEIDKD 150
Cdd:smart00739   1 KFEVGDTVRVIAGPFKGKVGKVLEVDGE 28
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 127-156 3.89e-03

KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG.


Pssm-ID: 425698 [Multi-domain]  Cd Length: 32  Bit Score: 33.51  E-value: 3.89e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1330010723 127 GETVQVSEGPFANFTGTIEEIDKDKAKLKV 156
Cdd:pfam00467   2 GDVVRVIAGPFKGKVGKVVEVDDKKNRVLV 31
 
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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