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Conserved domains on  [gi|489516360|ref|WP_003421190|]
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MULTISPECIES: transcription termination/antitermination protein NusG [Clostridioides]

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 Symbol:  nusG
Gene Ontology:  GO:0006353|GO:0032784|GO:0031564|GO:0006354
PubMed:  12198166|27899640|29887376
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];
1-180 1.39e-54

Transcription termination/antitermination protein NusG [Transcription];


:

Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 170.39  E-value: 1.39e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   1 MSElqEASWYVVHTYSGHENKVKATIEKAVKtrGME------DCIRQvvvpteevvettKTGKEKTRQRKVYPSYVLVKM 74
Cdd:COG0250    1 MSM--EKRWYVVHTYSGYEKKVKENLERRIE--GIEvfvpteEVVEI------------KNGKKKTVERPLFPGYVFVRM 64

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360  75 IITDESWYVVRNTKGVTGFVGPGSKPVPLSEDEVKAM-GIDTTDPKVVNSDIDFEIGDTVKVSQGPFSGQIGNIEEIDLE 153
Cdd:COG0250   65 DLTDESWYLVRNTPGVTGFVGFGGKPAPLPDEEVERIlARLEEGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPE 144

                        170       180
                 ....*....|....*....|....*..
gi 489516360 154 NREVKVCINAFGKRTLFVIELEGIEKI 180
Cdd:COG0250  145 KGRVKVLVSIFGRETPVELDFSQVEKI 171
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-180 1.39e-54

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 170.39  E-value: 1.39e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   1 MSElqEASWYVVHTYSGHENKVKATIEKAVKtrGME------DCIRQvvvpteevvettKTGKEKTRQRKVYPSYVLVKM 74
Cdd:COG0250    1 MSM--EKRWYVVHTYSGYEKKVKENLERRIE--GIEvfvpteEVVEI------------KNGKKKTVERPLFPGYVFVRM 64

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360  75 IITDESWYVVRNTKGVTGFVGPGSKPVPLSEDEVKAM-GIDTTDPKVVNSDIDFEIGDTVKVSQGPFSGQIGNIEEIDLE 153
Cdd:COG0250   65 DLTDESWYLVRNTPGVTGFVGFGGKPAPLPDEEVERIlARLEEGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPE 144

                        170       180
                 ....*....|....*....|....*..
gi 489516360 154 NREVKVCINAFGKRTLFVIELEGIEKI 180
Cdd:COG0250  145 KGRVKVLVSIFGRETPVELDFSQVEKI 171
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 9-179 2.18e-47

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: 152.46  E-value: 2.18e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360    9 WYVVHTYSGHENKVKATIEKAVKTRGMEDCIRQVVVPTEEVVETTKtGKEKTRQRKVYPSYVLVKMIITDESWYVVRNTK 88
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKK-GKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTP 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   89 GVTGFVGPGSKPVPLSE-DEVKAMGIDT-TDPKVVNSDIDFEIGDTVKVSQGPFSGQIGNIEEIDLENREVKVCINAFGK 166
Cdd:TIGR00922  80 GVTGFVGSGGKPKALSEdEEVKNILNALeEGKDKPKPKIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGR 159

                         170
                  ....*....|...
gi 489516360  167 RTLFVIELEGIEK 179
Cdd:TIGR00922 160 ETPVELEFSQVEK 172
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 9-111 1.27e-43

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: 140.30  E-value: 1.27e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   9 WYVVHTYSGHENKVKATIEKAVKTRGMEDCIRQVVVPTEEVVETtKTGKEKTRQRKVYPSYVLVKMIITDESWYVVRNTK 88
Cdd:cd09891    2 WYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEV-KNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTP 80

                         90       100
                 ....*....|....*....|...
gi 489516360  89 GVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:cd09891   81 GVTGFVGSGGKPVPLSEEEVERI 103
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 8-111 1.63e-30

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: 107.07  E-value: 1.63e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360     8 SWYVVHTYSGHENKVKATIEKAVKTRGMEDCIRQVVVPTEEVVETtKTGKEKTRQRKVYPSYVLVKMIITDESWYVVRNT 87
Cdd:smart00738   1 NWYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEI-RRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGT 79

                           90       100
                   ....*....|....*....|....
gi 489516360    88 KGVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:smart00738  80 PGVRGFVGGGGKPTPVPDDEIEKI 103
NusG pfam02357
Transcription termination factor nusG;
9-111 4.98e-30

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 105.39  E-value: 4.98e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360    9 WYVVHTYSGHENKVKATIEKavktRGMEdcirqvVVPTEEVVETTKTGKEKTRQRKVYPSYVLVKMIITDESWYVVRNTK 88
Cdd:pfam02357   3 WYVLQTYSGKEKKVKENLER----QGIE------VFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRSTP 72

                          90       100
                  ....*....|....*....|...
gi 489516360   89 GVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:pfam02357  73 GVTGFVGGSGKPTPIPDEEVERI 95
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
56-166 4.84e-07

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 47.19  E-value: 4.84e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360  56 GKEKTRQRKVYPSYVLVKMIITDESWYVVRNTKGVTGFVGPGSKPVPLSEDEVKAMGIDTTDpKVVNSDIdFEIGDTVKV 135
Cdd:PRK09014  41 GKRTEVSEPLFPNYLFVEFDPEVIHTTTIRSTRGVSHFVRFGAQPAIVPSDVIYQLSVYKPE-KIVDPET-PKPGDKVII 118

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 489516360 136 SQGPFSGqignIEEIDLE--------------NREVKVCIN--AFGK 166
Cdd:PRK09014 119 TEGAFEG----LQAIYTEpdgearsilllnllNKQVKHSVDntQFRK 161
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-180 1.39e-54

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 170.39  E-value: 1.39e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   1 MSElqEASWYVVHTYSGHENKVKATIEKAVKtrGME------DCIRQvvvpteevvettKTGKEKTRQRKVYPSYVLVKM 74
Cdd:COG0250    1 MSM--EKRWYVVHTYSGYEKKVKENLERRIE--GIEvfvpteEVVEI------------KNGKKKTVERPLFPGYVFVRM 64

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360  75 IITDESWYVVRNTKGVTGFVGPGSKPVPLSEDEVKAM-GIDTTDPKVVNSDIDFEIGDTVKVSQGPFSGQIGNIEEIDLE 153
Cdd:COG0250   65 DLTDESWYLVRNTPGVTGFVGFGGKPAPLPDEEVERIlARLEEGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPE 144

                        170       180
                 ....*....|....*....|....*..
gi 489516360 154 NREVKVCINAFGKRTLFVIELEGIEKI 180
Cdd:COG0250  145 KGRVKVLVSIFGRETPVELDFSQVEKI 171
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 9-179 2.18e-47

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: 152.46  E-value: 2.18e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360    9 WYVVHTYSGHENKVKATIEKAVKTRGMEDCIRQVVVPTEEVVETTKtGKEKTRQRKVYPSYVLVKMIITDESWYVVRNTK 88
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKK-GKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTP 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   89 GVTGFVGPGSKPVPLSE-DEVKAMGIDT-TDPKVVNSDIDFEIGDTVKVSQGPFSGQIGNIEEIDLENREVKVCINAFGK 166
Cdd:TIGR00922  80 GVTGFVGSGGKPKALSEdEEVKNILNALeEGKDKPKPKIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGR 159

                         170
                  ....*....|...
gi 489516360  167 RTLFVIELEGIEK 179
Cdd:TIGR00922 160 ETPVELEFSQVEK 172
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 9-111 1.27e-43

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: 140.30  E-value: 1.27e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   9 WYVVHTYSGHENKVKATIEKAVKTRGMEDCIRQVVVPTEEVVETtKTGKEKTRQRKVYPSYVLVKMIITDESWYVVRNTK 88
Cdd:cd09891    2 WYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEV-KNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTP 80

                         90       100
                 ....*....|....*....|...
gi 489516360  89 GVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:cd09891   81 GVTGFVGSGGKPVPLSEEEVERI 103
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 8-111 1.63e-30

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: 107.07  E-value: 1.63e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360     8 SWYVVHTYSGHENKVKATIEKAVKTRGMEDCIRQVVVPTEEVVETtKTGKEKTRQRKVYPSYVLVKMIITDESWYVVRNT 87
Cdd:smart00738   1 NWYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEI-RRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGT 79

                           90       100
                   ....*....|....*....|....
gi 489516360    88 KGVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:smart00738  80 PGVRGFVGGGGKPTPVPDDEIEKI 103
NusG pfam02357
Transcription termination factor nusG;
9-111 4.98e-30

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 105.39  E-value: 4.98e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360    9 WYVVHTYSGHENKVKATIEKavktRGMEdcirqvVVPTEEVVETTKTGKEKTRQRKVYPSYVLVKMIITDESWYVVRNTK 88
Cdd:pfam02357   3 WYVLQTYSGKEKKVKENLER----QGIE------VFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRSTP 72

                          90       100
                  ....*....|....*....|...
gi 489516360   89 GVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:pfam02357  73 GVTGFVGGSGKPTPIPDEEVERI 95
NusG_myco TIGR01956
NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the ...
 9-179 3.30e-17

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: 76.54  E-value: 3.30e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360    9 WYVVHTYSGHENKVKATIEKAVKTRGMEDCI---------------------------RQVVVPTEEVVETTKTGKEKTR 61
Cdd:TIGR01956   2 WYIATTINGNEDEVIENIKAKVRALGLENYIsdfkilkereieekvfepkngqaprsmKNTATTKWETLDETKYKKTKIS 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   62 QRKVYPSYVLVKMIITDESWYVVRNTKGVTGFVGP---GSKPVPLS----EDEVKAMGIDTTDPKVVNSD---------- 124
Cdd:TIGR01956  82 EKNKYNGYIYIKMIMTEDAWFLIRNTENVTGLVGSsgkGAKPIPISadadKLKMLKGISENTKKRVLVTNtaivemeenk 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360  125 ------------------------------------------IDFEIGDTVKVSQGPFSGQIGNIEEIDLENREVKVCIN 162
Cdd:TIGR01956 162 fdekcqyilkhkqvkpeaiaqvsesgeiideiveefqlvdnlSKFRVGNFVKIVDGPFKGIVGKIKKIDQEKKKAIVEVE 241

                         250
                  ....*....|....*..
gi 489516360  163 AFGKRTLFVIELEGIEK 179
Cdd:TIGR01956 242 ILGKSVDVDLNFKHLKL 258
KOW_NusG cd06091
NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif ...
 124-179 2.29e-15

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: 66.71  E-value: 2.29e-15
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 489516360 124 DIDFEIGDTVKVSQGPFSGQIGNIEEIDLENREVKVCINAFGKRTLFVIELEGIEK 179
Cdd:cd06091    1 EVDFEVGDTVRIISGPFAGFEGKVEEIDEEKGKVKVLVEMFGRETPVELDFDQVEK 56
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 8-111 2.22e-11

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: 57.33  E-value: 2.22e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   8 SWYVVHTYSGHENKVKATIEKavktRGMEDCIRQVVVPTEEVVETTKTGKEKTRqrKVYPSYVLVKMIITDESWYVVRNT 87
Cdd:cd08000    1 NWYVLFVKTGREEKVEKLLEK----RFEANDIEAFVPKKEVPERKRGKIEEVIK--PLFPGYVFVETDLSPELYELIREV 74

                         90       100
                 ....*....|....*....|....
gi 489516360  88 KGVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:cd08000   75 PGVIGILGNGEEPSPVSDEEIEMI 98
NGN_Bact_2 cd09889
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; The ...
 8-109 1.45e-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: 50.01  E-value: 1.45e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   8 SWYVVHTYSGHENKVKATIEKAVKTRGMEDC-----IRQvvvpteevveTTKTGKEKTRQRKVYPSYVLVKMIITDESWY 82
Cdd:cd09889    1 MWYVVQVRTGREKAVLELLEKLVGPDVLQECfipqyERK----------KRSQGVWRERKYTLFPGYVFVVTDDIDELYY 70

                         90       100
                 ....*....|....*....|....*..
gi 489516360  83 VVRNTKGVTGFVGPGSKPVPLSEDEVK 109
Cdd:cd09889   71 ELKRVPGFTRLLGNDGSFFPLTPEEAD 97
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 8-111 2.58e-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: 49.29  E-value: 2.58e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   8 SWYVVHTYSGHENKVKATIEKavktRGMEdcirqvVVPTEEVVETTKTGKEKTRQRKVYPSYVLVKM-IITDESWYVVRN 86
Cdd:cd09886    1 SWYALRTNPGCEQRAEEALEA----RGVE------AFLPMLTEERKRRRKKFDVERPLFPGYVFARLdRSKGQDTSTIRA 70

                         90       100
                 ....*....|....*....|....*
gi 489516360  87 TKGVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:cd09886   71 CDGVLGVVGFDGRPAPVPEQEMRDL 95
NGN_SP_RfaH cd09892
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; ...
 8-111 2.71e-07

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: 46.40  E-value: 2.71e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   8 SWYVVHTYSGHENKVKA------------TIEKAVKTRGmedcirqvvvpteevvettktgKEKTRQRKVYPSYVLVKMI 75
Cdd:cd09892    1 AWYLLYTKPRQEERAAEnlerqgfevflpMIRVEKRRRG----------------------KRTVVTEPLFPGYLFVRLD 58

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489516360  76 ITDESWYVVRNTKGVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:cd09892   59 PEVQNWRPIRSTRGVSRLVRFGGEPAPVPDALIEAL 94
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
56-166 4.84e-07

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 47.19  E-value: 4.84e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360  56 GKEKTRQRKVYPSYVLVKMIITDESWYVVRNTKGVTGFVGPGSKPVPLSEDEVKAMGIDTTDpKVVNSDIdFEIGDTVKV 135
Cdd:PRK09014  41 GKRTEVSEPLFPNYLFVEFDPEVIHTTTIRSTRGVSHFVRFGAQPAIVPSDVIYQLSVYKPE-KIVDPET-PKPGDKVII 118

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 489516360 136 SQGPFSGqignIEEIDLE--------------NREVKVCIN--AFGK 166
Cdd:PRK09014 119 TEGAFEG----LQAIYTEpdgearsilllnllNKQVKHSVDntQFRK 161
NGN_SP_TaA cd09893
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; ...
 8-111 1.03e-06

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: 44.99  E-value: 1.03e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   8 SWYVVHTYSGHENKVKATIEKavktRGMEDCIRQVvvpteevvettktgkEKTRQRK---------VYPSYVLVKMIITD 78
Cdd:cd09893    1 SWYALYTRSRHEKKVADRLAK----KGIESFLPLY---------------EVLSRWKdrkkkikvpLFPGYLFVRFQLDP 61

                         90       100       110
                 ....*....|....*....|....*....|...
gi 489516360  79 ESWYVVRnTKGVTGFVGPGSKPVPLSEDEVKAM 111
Cdd:cd09893   62 ERLRILK-TPGVVRIVGNSGGPIPIPDEEIASL 93
NGN_plant cd09890
Plant N-Utilization Substance G (NusG) N-terminal (NGN) domain; The N-Utilization Substance G ...
 9-111 1.07e-05

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: 42.73  E-value: 1.07e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   9 WYVVHTYSGHENKVKATIEKAVKTRGMEDCIrQVVVPTEEVVETTKTGKEKTRQRKVYPSYVLVKMIITDESWYVVRNTK 88
Cdd:cd09890    2 WYMLRVPAGRENQAAEALERALATEFPDREF-EVWVPSIPVDRKLKNGSISVKEKPLFPGYVLLRCVLNKEVYDFIRDND 80

                         90       100       110
                 ....*....|....*....|....*....|..
gi 489516360  89 GVTGFVG---------PGSKPVPLSEDEVKAM 111
Cdd:cd09890   81 SVYGFVGskvgktgkrQIEIPRPVPVEEIEAI 112
KOW smart00739
KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
 126-151 7.30e-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: 7.30e-04
                           10        20
                   ....*....|....*....|....*.
gi 489516360   126 DFEIGDTVKVSQGPFSGQIGNIEEID 151
Cdd:smart00739   1 KFEVGDTVRVIAGPFKGKVGKVLEVD 26
NGN_SP_AnfA1 cd09894
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), AnFA1; ...
 7-110 1.52e-03

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), AnFA1; Regulation of the afp, antifeeding prophage, gene cluster is mediated by AnFA1, a RfaH-like transcriptional antiterminator. RfaH is an operon-specific virulence regulator, thought to arisen from an early duplication of N-Utilization Substance G (NusG). 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. Orthologs of the NusG gene exist in all bacteria, but their functions and requirements are different. The NusG N-terminal domain (NGN) 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: 193583 [Multi-domain]  Cd Length: 99  Bit Score: 36.49  E-value: 1.52e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   7 ASWYVVHTYSGHENKVKATIEkavkTRGME---DCIRQVVVPTEEvvettktGKEKTRQRKVYPSYVLVKMIITDESWYV 83
Cdd:cd09894    1 KRWYLLRCKSGKIQSVIFSLE----RLGVEvfcPMIRTRRKRTDC-------KSYREKIEPLFPGYLFVRFDPEVVHTSK 69

                         90       100
                 ....*....|....*....|....*..
gi 489516360  84 VRNTKGVTGFVGPGSKPVPLSEDEVKA 110
Cdd:cd09894   70 ITLASGVSGFVRFGGEPCPVPDAVIRA 96
NGN_SP_UpxY cd09895
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; ...
 9-100 2.34e-03

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: 35.63  E-value: 2.34e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489516360   9 WYVVHTYSGHENKVKATIEKavktRG------MEDCIRQvvvpteevvettKTGKEKTRQRKVYPSYVLVKmiITDESWY 82
Cdd:cd09895    2 WYALYTFPRREKKVAEYLEK----KGiecflpMQYEVRQ------------WSGRKKRVEVPLFPNLVFVH--ITREELD 63

                         90
                 ....*....|....*...
gi 489516360  83 VVRNTKGVTGFVGPGSKP 100
Cdd:cd09895   64 EVLETPGVVRFVRYRGKE 81
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 129-159 9.26e-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: 32.74  E-value: 9.26e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 489516360  129 IGDTVKVSQGPFSGQIGNIEEIDLENREVKV 159
Cdd:pfam00467   1 KGDVVRVIAGPFKGKVGKVVEVDDKKNRVLV 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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