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Conserved domains on  [gi|489092186|ref|WP_003002077|]
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MULTISPECIES: transcription termination/antitermination protein NusG [Streptococcus]

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

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List of domain hits

 Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-175 3.63e-61

Transcription termination/antitermination protein NusG [Transcription];


:

Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 186.95  E-value: 3.63e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   1 MDSfDKGWFVLQTYSGYENKVKENLLQRAQTynmleniLRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWF 80
Cdd:COG0250    1 MSM-EKRWYVVHTYSGYEKKVKENLERRIEG-------IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWY 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186  81 VVRNTPNVTGFVGShgnRSKPTPLLEEEIRSILLSM--GQTVQEFDLDVKVGDTVRIIDGAFTDYTGKITEID--NNKVK 156
Cdd:COG0250   73 LVRNTPGVTGFVGF---GGKPAPLPDEEVERILARLeeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDpeKGRVK 149

                        170
                 ....*....|....*....
gi 489092186 157 MVISMFGNDTVAEVNLNQI 175
Cdd:COG0250  150 VLVSIFGRETPVELDFSQV 168
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-175 3.63e-61

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 186.95  E-value: 3.63e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   1 MDSfDKGWFVLQTYSGYENKVKENLLQRAQTynmleniLRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWF 80
Cdd:COG0250    1 MSM-EKRWYVVHTYSGYEKKVKENLERRIEG-------IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWY 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186  81 VVRNTPNVTGFVGShgnRSKPTPLLEEEIRSILLSM--GQTVQEFDLDVKVGDTVRIIDGAFTDYTGKITEID--NNKVK 156
Cdd:COG0250   73 LVRNTPGVTGFVGF---GGKPAPLPDEEVERILARLeeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDpeKGRVK 149

                        170
                 ....*....|....*....
gi 489092186 157 MVISMFGNDTVAEVNLNQI 175
Cdd:COG0250  150 VLVSIFGRETPVELDFSQV 168
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 8-175 2.62e-54

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: 169.79  E-value: 2.62e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186    8 WFVLQTYSGYENKVKENLLQRAQTYNMLENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   88 VTGFVGSHGNRSKPTPLleEEIRSILLSMGQTVQEFDLDVK--VGDTVRIIDGAFTDYTGKITEID--NNKVKMVISMFG 163
Cdd:TIGR00922  81 VTGFVGSGGKPKALSED--EEVKNILNALEEGKDKPKPKIDfeVGEQVRVNDGPFANFTGTVEEVDyeKSKLKVSVSIFG 158

                         170
                  ....*....|..
gi 489092186  164 NDTVAEVNLNQI 175
Cdd:TIGR00922 159 RETPVELEFSQV 170
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 8-116 1.93e-51

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: 160.33  E-value: 1.93e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKENLLQRAQTYNMLENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:cd09891    2 WYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTPG 81

                         90       100
                 ....*....|....*....|....*....
gi 489092186  88 VTGFVGSHGnrsKPTPLLEEEIRSILLSM 116
Cdd:cd09891   82 VTGFVGSGG---KPVPLSEEEVERILGQV 107
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 8-113 5.56e-40

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: 131.34  E-value: 5.56e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186     8 WFVLQTYSGYENKVKENLLQRAQTYNMLENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:smart00738   2 WYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTPG 81

                           90       100
                   ....*....|....*....|....*.
gi 489092186    88 VTGFVGSHGnrsKPTPLLEEEIRSIL 113
Cdd:smart00738  82 VRGFVGGGG---KPTPVPDDEIEKIL 104
NusG pfam02357
Transcription termination factor nusG;
6-113 3.74e-38

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 126.19  E-value: 3.74e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186    6 KGWFVLQTYSGYENKVKENLLQRAqtynmleniLRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNT 85
Cdd:pfam02357   1 KKWYVLQTYSGKEKKVKENLERQG---------IEVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRST 71

                          90       100
                  ....*....|....*....|....*...
gi 489092186   86 PNVTGFVGSHGnrsKPTPLLEEEIRSIL 113
Cdd:pfam02357  72 PGVTGFVGGSG---KPTPIPDEEVERIL 96
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 8-175 1.79e-24

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: 93.22  E-value: 1.79e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKENLLQRAQtynmlENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:NF033641   1 WYVLFVRTGKEEKVKKLLNKLFD-----KELLRCFVPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPG 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186  88 VTGFVGSHGNRskPTPLLEEEIRSI--LLSMGQTVQEFDLdVKVGDTVRIIDGAFTDYTGKITEID--NNKVKMVISMFG 163
Cdd:NF033641  76 IIRLLGNEGDE--FSPIPEEEMEFLlkLLNDDDIIEYSKG-YIEGDKVIVISGPLKGLEGIIKKIDkrKRRAKIELNFMG 152

                        170
                 ....*....|..
gi 489092186 164 NDTVAEVNLNQI 175
Cdd:NF033641 153 EERLVDVGIEIV 164
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
26-140 6.99e-07

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 46.81  E-value: 6.99e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186  26 LQRAQTYnmLENiLRVEIPTQTVQVEK--NGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPNVTGFVGsHGNRSK--P 101
Cdd:PRK09014  14 LQRAQEH--LER-QGVECLYPMITLEKivRGKRTEVSEPLFPNYLFVEFDPEVIHTTTIRSTRGVSHFVR-FGAQPAivP 89

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 489092186 102 TPLLEEeirsilLSMGQTVQEFDLDV-KVGDTVRIIDGAF 140
Cdd:PRK09014  90 SDVIYQ------LSVYKPEKIVDPETpKPGDKVIITEGAF 123
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-175 3.63e-61

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 186.95  E-value: 3.63e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   1 MDSfDKGWFVLQTYSGYENKVKENLLQRAQTynmleniLRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWF 80
Cdd:COG0250    1 MSM-EKRWYVVHTYSGYEKKVKENLERRIEG-------IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWY 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186  81 VVRNTPNVTGFVGShgnRSKPTPLLEEEIRSILLSM--GQTVQEFDLDVKVGDTVRIIDGAFTDYTGKITEID--NNKVK 156
Cdd:COG0250   73 LVRNTPGVTGFVGF---GGKPAPLPDEEVERILARLeeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDpeKGRVK 149

                        170
                 ....*....|....*....
gi 489092186 157 MVISMFGNDTVAEVNLNQI 175
Cdd:COG0250  150 VLVSIFGRETPVELDFSQV 168
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 8-175 2.62e-54

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: 169.79  E-value: 2.62e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186    8 WFVLQTYSGYENKVKENLLQRAQTYNMLENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   88 VTGFVGSHGNRSKPTPLleEEIRSILLSMGQTVQEFDLDVK--VGDTVRIIDGAFTDYTGKITEID--NNKVKMVISMFG 163
Cdd:TIGR00922  81 VTGFVGSGGKPKALSED--EEVKNILNALEEGKDKPKPKIDfeVGEQVRVNDGPFANFTGTVEEVDyeKSKLKVSVSIFG 158

                         170
                  ....*....|..
gi 489092186  164 NDTVAEVNLNQI 175
Cdd:TIGR00922 159 RETPVELEFSQV 170
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 8-116 1.93e-51

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: 160.33  E-value: 1.93e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKENLLQRAQTYNMLENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:cd09891    2 WYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTPG 81

                         90       100
                 ....*....|....*....|....*....
gi 489092186  88 VTGFVGSHGnrsKPTPLLEEEIRSILLSM 116
Cdd:cd09891   82 VTGFVGSGG---KPVPLSEEEVERILGQV 107
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 8-113 5.56e-40

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: 131.34  E-value: 5.56e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186     8 WFVLQTYSGYENKVKENLLQRAQTYNMLENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:smart00738   2 WYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTPG 81

                           90       100
                   ....*....|....*....|....*.
gi 489092186    88 VTGFVGSHGnrsKPTPLLEEEIRSIL 113
Cdd:smart00738  82 VRGFVGGGG---KPTPVPDDEIEKIL 104
NusG pfam02357
Transcription termination factor nusG;
6-113 3.74e-38

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 126.19  E-value: 3.74e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186    6 KGWFVLQTYSGYENKVKENLLQRAqtynmleniLRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNT 85
Cdd:pfam02357   1 KKWYVLQTYSGKEKKVKENLERQG---------IEVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRST 71

                          90       100
                  ....*....|....*....|....*...
gi 489092186   86 PNVTGFVGSHGnrsKPTPLLEEEIRSIL 113
Cdd:pfam02357  72 PGVTGFVGGSG---KPTPIPDEEVERIL 96
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 8-175 1.79e-24

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: 93.22  E-value: 1.79e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKENLLQRAQtynmlENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:NF033641   1 WYVLFVRTGKEEKVKKLLNKLFD-----KELLRCFVPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPG 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186  88 VTGFVGSHGNRskPTPLLEEEIRSI--LLSMGQTVQEFDLdVKVGDTVRIIDGAFTDYTGKITEID--NNKVKMVISMFG 163
Cdd:NF033641  76 IIRLLGNEGDE--FSPIPEEEMEFLlkLLNDDDIIEYSKG-YIEGDKVIVISGPLKGLEGIIKKIDkrKRRAKIELNFMG 152

                        170
                 ....*....|..
gi 489092186 164 NDTVAEVNLNQI 175
Cdd:NF033641 153 EERLVDVGIEIV 164
NusG_myco TIGR01956
NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the ...
 8-175 1.30e-21

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: 88.10  E-value: 1.30e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186    8 WFVLQTYSGYENKVKENLLQRAQTYNMLENILRVEI----------------------------PTQTVQVEKNGKTKEI 59
Cdd:TIGR01956   2 WYIATTINGNEDEVIENIKAKVRALGLENYISDFKIlkereieekvfepkngqaprsmkntattKWETLDETKYKKTKIS 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   60 EENRFPGYVLVEMVMTDEAWFVVRNTPNVTGFVGSHGNRSKPTPLLEEEIRSILLSM----------------------- 116
Cdd:TIGR01956  82 EKNKYNGYIYIKMIMTEDAWFLIRNTENVTGLVGSSGKGAKPIPISADADKLKMLKGisentkkrvlvtntaivemeenk 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186  117 -----------------------------GQTVQEFDLD-----VKVGDTVRIIDGAFTDYTGKITEID--NNKVKMVIS 160
Cdd:TIGR01956 162 fdekcqyilkhkqvkpeaiaqvsesgeiiDEIVEEFQLVdnlskFRVGNFVKIVDGPFKGIVGKIKKIDqeKKKAIVEVE 241

                         250
                  ....*....|....*
gi 489092186  161 MFGNDTVAEVNLNQI 175
Cdd:TIGR01956 242 ILGKSVDVDLNFKHL 256
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 8-113 2.90e-21

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: 83.14  E-value: 2.90e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKENLLQRAQtynmlENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:cd08000    2 WYVLFVKTGREEKVEKLLEKRFE-----ANDIEAFVPKKEVPERKRGKIEEVIKPLFPGYVFVETDLSPELYELIREVPG 76

                         90       100
                 ....*....|....*....|....*.
gi 489092186  88 VTGFVgshGNRSKPTPLLEEEIRSIL 113
Cdd:cd08000   77 VIGIL---GNGEEPSPVSDEEIEMIL 99
KOW_NusG cd06091
NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif ...
 124-175 8.15e-17

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: 70.18  E-value: 8.15e-17
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 489092186 124 DLDVKVGDTVRIIDGAFTDYTGKITEID--NNKVKMVISMFGNDTVAEVNLNQI 175
Cdd:cd06091    1 EVDFEVGDTVRIISGPFAGFEGKVEEIDeeKGKVKVLVEMFGRETPVELDFDQV 54
NGN_SP_TaA cd09893
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; ...
 8-112 8.87e-12

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: 58.47  E-value: 8.87e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKENLLQRAqtynmLENILrveiPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRnTPN 87
Cdd:cd09893    2 WYALYTRSRHEKKVADRLAKKG-----IESFL----PLYEVLSRWKDRKKKIKVPLFPGYLFVRFQLDPERLRILK-TPG 71

                         90       100
                 ....*....|....*....|....*
gi 489092186  88 VTGFVgshGNRSKPTPLLEEEIRSI 112
Cdd:cd09893   72 VVRIV---GNSGGPIPIPDEEIASL 93
NGN_SP_RfaH cd09892
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; ...
 8-112 1.30e-10

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: 55.26  E-value: 1.30e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKENLLQRA-QTYNmlenilrveiPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTP 86
Cdd:cd09892    2 WYLLYTKPRQEERAAENLERQGfEVFL----------PMIRVEKRRRGKRTVVTEPLFPGYLFVRLDPEVQNWRPIRSTR 71

                         90       100
                 ....*....|....*....|....*.
gi 489092186  87 NVTGFVgSHGNRskPTPLLEEEIRSI 112
Cdd:cd09892   72 GVSRLV-RFGGE--PAPVPDALIEAL 94
NGN_plant cd09890
Plant N-Utilization Substance G (NusG) N-terminal (NGN) domain; The N-Utilization Substance G ...
 7-110 3.16e-09

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: 51.97  E-value: 3.16e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   7 GWFVLQTYSGYENKVKENLlqRAQTYNMLENIlRVEIPTQTVQVE---KNGKTKEIEENRFPGYVLVEMVMTDEAWFVVR 83
Cdd:cd09890    1 QWYMLRVPAGRENQAAEAL--ERALATEFPDR-EFEVWVPSIPVDrklKNGSISVKEKPLFPGYVLLRCVLNKEVYDFIR 77

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489092186  84 NTPNVTGFVGS--------HGNRSKPTPLLE-EEIR 110
Cdd:cd09890   78 DNDSVYGFVGSkvgktgkrQIEIPRPVPVEEiEAIF 113
NGN_SP_UpxY cd09895
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; ...
 8-92 9.61e-09

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: 50.27  E-value: 9.61e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKENLLQRAqtynmleniLRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEmvMTDEAWFVVRNTPN 87
Cdd:cd09895    2 WYALYTFPRREKKVAEYLEKKG---------IECFLPMQYEVRQWSGRKKRVEVPLFPNLVFVH--ITREELDEVLETPG 70


                 ....*
gi 489092186  88 VTGFV 92
Cdd:cd09895   71 VVRFV 75
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 8-112 8.81e-08

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: 47.75  E-value: 8.81e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKENLLQRAqtynmLENILrveiPTQTVQVEKNGKTKEIEENRFPGYVLVEM-VMTDEAWFVVRNTP 86
Cdd:cd09886    2 WYALRTNPGCEQRAEEALEARG-----VEAFL----PMLTEERKRRRKKFDVERPLFPGYVFARLdRSKGQDTSTIRACD 72

                         90       100
                 ....*....|....*....|....*.
gi 489092186  87 NVTGFVGSHGnrsKPTPLLEEEIRSI 112
Cdd:cd09886   73 GVLGVVGFDG---RPAPVPEQEMRDL 95
NGN_Bact_2 cd09889
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; The ...
 8-109 9.21e-08

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: 47.70  E-value: 9.21e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186   8 WFVLQTYSGYENKVKEnllqRAQTYNMLENILRVEIPTQTVQVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 87
Cdd:cd09889    2 WYVVQVRTGREKAVLE----LLEKLVGPDVLQECFIPQYERKKRSQGVWRERKYTLFPGYVFVVTDDIDELYYELKRVPG 77

                         90       100
                 ....*....|....*....|..
gi 489092186  88 VTGFVGSHGNrskPTPLLEEEI 109
Cdd:cd09889   78 FTRLLGNDGS---FFPLTPEEA 96
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
26-140 6.99e-07

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 46.81  E-value: 6.99e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489092186  26 LQRAQTYnmLENiLRVEIPTQTVQVEK--NGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPNVTGFVGsHGNRSK--P 101
Cdd:PRK09014  14 LQRAQEH--LER-QGVECLYPMITLEKivRGKRTEVSEPLFPNYLFVEFDPEVIHTTTIRSTRGVSHFVR-FGAQPAivP 89

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 489092186 102 TPLLEEeirsilLSMGQTVQEFDLDV-KVGDTVRIIDGAF 140
Cdd:PRK09014  90 SDVIYQ------LSVYKPEKIVDPETpKPGDKVIITEGAF 123
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 129-159 5.52e-05

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: 38.52  E-value: 5.52e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 489092186  129 VGDTVRIIDGAFTDYTGKITEIDNNKVKMVI 159
Cdd:pfam00467   1 KGDVVRVIAGPFKGKVGKVVEVDDKKNRVLV 31
KOW smart00739
KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
 126-151 6.95e-05

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


Pssm-ID: 128978  Cd Length: 28  Bit Score: 38.46  E-value: 6.95e-05
                           10        20
                   ....*....|....*....|....*.
gi 489092186   126 DVKVGDTVRIIDGAFTDYTGKITEID 151
Cdd:smart00739   1 KFEVGDTVRVIAGPFKGKVGKVLEVD 26
 
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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