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Conserved domains on  [gi|1997475055|ref|WP_206120502|]
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transcription termination/antitermination NusG family protein [Rhizobium laguerreae]

Protein Classification

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NusG pfam02357
Transcription termination factor nusG;
10-115 4.95e-19

Transcription termination factor nusG;


:

Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 78.04  E-value: 4.95e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  10 KWYALRLKPGAgrpyrhdERitNIEWSLKREGIDYYMPMELAMKIHHRTKKTIDKrfPLIPGYAFIKAVHDEQNWAKVRE 89
Cdd:pfam02357   2 KWYVLQTYSGK-------EK--KVKENLERQGIEVFLPTEEVVEIRNGKKKVVER--PLFPGYVFVRMDMTDETWHLVRS 70

                          90       100
                  ....*....|....*....|....*.
gi 1997475055  90 CDFVASIIGIGGNPLPLPSAQVELIQ 115
Cdd:pfam02357  71 TPGVTGFVGGSGKPTPIPDEEVERIL 96
 
Name Accession Description Interval E-value
NusG pfam02357
Transcription termination factor nusG;
10-115 4.95e-19

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 78.04  E-value: 4.95e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  10 KWYALRLKPGAgrpyrhdERitNIEWSLKREGIDYYMPMELAMKIHHRTKKTIDKrfPLIPGYAFIKAVHDEQNWAKVRE 89
Cdd:pfam02357   2 KWYVLQTYSGK-------EK--KVKENLERQGIEVFLPTEEVVEIRNGKKKVVER--PLFPGYVFVRMDMTDETWHLVRS 70

                          90       100
                  ....*....|....*....|....*.
gi 1997475055  90 CDFVASIIGIGGNPLPLPSAQVELIQ 115
Cdd:pfam02357  71 TPGVTGFVGGSGKPTPIPDEEVERIL 96
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
6-203 1.91e-18

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 78.71  E-value: 1.91e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055   6 TMAAKWYALRLKPGagrpyrHDERI-TNIEwsLKREGIDYYMPMELAMKIHHRTKKTIDKrfPLIPGYAFIKAVHDEQNW 84
Cdd:COG0250     2 SMEKRWYVVHTYSG------YEKKVkENLE--RRIEGIEVFVPTEEVVEIKNGKKKTVER--PLFPGYVFVRMDLTDESW 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  85 AKVRECDFVASIIGIGGNPLPLPSAQVELIQMAESSLREVyeyqkaarayeearrlqkvtqRVAAQQFPAGGVVTISDQh 164
Cdd:COG0250    72 YLVRNTPGVTGFVGFGGKPAPLPDEEVERILARLEEGEEK---------------------PRPKVDFEVGDRVRITDG- 129

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1997475055 165 rLFAGRRATIVAA-TGRNTIKAVIEALNGLLDAEIPIEFV 203
Cdd:COG0250   130 -PFAGFEGTVEEVdPEKGRVKVLVSIFGRETPVELDFSQV 168
NGN_SP_RfaH cd09892
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; ...
 11-116 9.69e-17

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: 72.21  E-value: 9.69e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  11 WYALRLKPgagrpyRHDERItniEWSLKREGIDYYMPMELAMKIHhRTKKTIdKRFPLIPGYAFIKAVHDEQNWAKVREC 90
Cdd:cd09892     2 WYLLYTKP------RQEERA---AENLERQGFEVFLPMIRVEKRR-RGKRTV-VTEPLFPGYLFVRLDPEVQNWRPIRST 70

                          90       100
                  ....*....|....*....|....*.
gi 1997475055  91 DFVASIIGIGGNPLPLPSAQVELIQM 116
Cdd:cd09892    71 RGVSRLVRFGGEPAPVPDALIEALRA 96
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 11-203 7.96e-09

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


Pssm-ID: 468125 [Multi-domain]  Cd Length: 162  Bit Score: 52.47  E-value: 7.96e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  11 WYALRLKPGAGRPyrhderitnIEWSLKREGIDYYMPMELAMKIHHRTKKTIDKrfPLIPGYAFIKAVHDEQnWAKVREC 90
Cdd:NF033644    1 WYALYTRPRREKK---------VAELLEKKGIESFLPMQKEIRQWSDRKKRVEV--PLIPNLVFVHITEKEL-DEVLEQT 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  91 DFVASIIGIGGN---PLPLPSAQVE-LIQMAESSLREVYEYQkaarayEEARRLQKVtqRVaaqqfpAGGVvtisdqhrl 166
Cdd:NF033644   69 PGVVRYIRDDRGkskPAIIPDKQMErFRLMLDPSDEVVVYLE------APLKKGDKV--RV------IGGP--------- 125

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1997475055 167 FAGRRATIVAATGRNTIKAVIEALNGLLDAEIPIEFV 203
Cdd:NF033644  126 LKGLEGELVRVKGKKRVVVRIPGLGAVATVEVPPSYL 162
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 10-116 2.08e-08

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


Pssm-ID: 197850 [Multi-domain]  Cd Length: 106  Bit Score: 50.45  E-value: 2.08e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055   10 KWYALRLKPGagrpyrHDER-ITNIEWSLKREGI-----DYYMPMELAMKIHhRTKKTIDKRfPLIPGYAFIKAVHDEQN 83
Cdd:smart00738   1 NWYAVRTTSG------QEKRvAENLERKAEALGLedkivSILVPTEEVKEIR-RGKKKVVER-KLFPGYIFVEADLEDEV 72

                           90       100       110
                   ....*....|....*....|....*....|...
gi 1997475055   84 WAKVRECDFVASIIGIGGNPLPLPSAQVELIQM 116
Cdd:smart00738  73 WTAIRGTPGVRGFVGGGGKPTPVPDDEIEKILK 105
NusG_myco TIGR01956
NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the ...
 57-113 1.99e-03

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: 38.02  E-value: 1.99e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  57 RTKKTIDKRFPLIPGYAFIKAVHDEQNWAKVRECDFVASII---GIGGNPLPLPSAQVEL 113
Cdd:TIGR01956  74 KYKKTKISEKNKYNGYIYIKMIMTEDAWFLIRNTENVTGLVgssGKGAKPIPISADADKL 133
 
Name Accession Description Interval E-value
NusG pfam02357
Transcription termination factor nusG;
10-115 4.95e-19

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 78.04  E-value: 4.95e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  10 KWYALRLKPGAgrpyrhdERitNIEWSLKREGIDYYMPMELAMKIHHRTKKTIDKrfPLIPGYAFIKAVHDEQNWAKVRE 89
Cdd:pfam02357   2 KWYVLQTYSGK-------EK--KVKENLERQGIEVFLPTEEVVEIRNGKKKVVER--PLFPGYVFVRMDMTDETWHLVRS 70

                          90       100
                  ....*....|....*....|....*.
gi 1997475055  90 CDFVASIIGIGGNPLPLPSAQVELIQ 115
Cdd:pfam02357  71 TPGVTGFVGGSGKPTPIPDEEVERIL 96
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
6-203 1.91e-18

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 78.71  E-value: 1.91e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055   6 TMAAKWYALRLKPGagrpyrHDERI-TNIEwsLKREGIDYYMPMELAMKIHHRTKKTIDKrfPLIPGYAFIKAVHDEQNW 84
Cdd:COG0250     2 SMEKRWYVVHTYSG------YEKKVkENLE--RRIEGIEVFVPTEEVVEIKNGKKKTVER--PLFPGYVFVRMDLTDESW 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  85 AKVRECDFVASIIGIGGNPLPLPSAQVELIQMAESSLREVyeyqkaarayeearrlqkvtqRVAAQQFPAGGVVTISDQh 164
Cdd:COG0250    72 YLVRNTPGVTGFVGFGGKPAPLPDEEVERILARLEEGEEK---------------------PRPKVDFEVGDRVRITDG- 129

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1997475055 165 rLFAGRRATIVAA-TGRNTIKAVIEALNGLLDAEIPIEFV 203
Cdd:COG0250   130 -PFAGFEGTVEEVdPEKGRVKVLVSIFGRETPVELDFSQV 168
NGN_SP_RfaH cd09892
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; ...
 11-116 9.69e-17

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: 72.21  E-value: 9.69e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  11 WYALRLKPgagrpyRHDERItniEWSLKREGIDYYMPMELAMKIHhRTKKTIdKRFPLIPGYAFIKAVHDEQNWAKVREC 90
Cdd:cd09892     2 WYLLYTKP------RQEERA---AENLERQGFEVFLPMIRVEKRR-RGKRTV-VTEPLFPGYLFVRLDPEVQNWRPIRST 70

                          90       100
                  ....*....|....*....|....*.
gi 1997475055  91 DFVASIIGIGGNPLPLPSAQVELIQM 116
Cdd:cd09892    71 RGVSRLVRFGGEPAPVPDALIEALRA 96
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 10-112 3.45e-12

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: 60.07  E-value: 3.45e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  10 KWYALRLKPGagrpyrhdeRITNIEWSLKREGIDYYMPMELAMKIHHRtkKTIDKRFPLIPGYAFIKAVHDE-QNWAKVR 88
Cdd:cd09886     1 SWYALRTNPG---------CEQRAEEALEARGVEAFLPMLTEERKRRR--KKFDVERPLFPGYVFARLDRSKgQDTSTIR 69

                          90       100
                  ....*....|....*....|....
gi 1997475055  89 ECDFVASIIGIGGNPLPLPSAQVE 112
Cdd:cd09886    70 ACDGVLGVVGFDGRPAPVPEQEMR 93
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 10-114 3.64e-11

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: 57.87  E-value: 3.64e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  10 KWYALRLKPGagrpyrHDERI-TNIEWSLKREGIDYY-----MPMELAMKIHHRTKKTIDKRFplIPGYAFIKAVHDEQN 83
Cdd:cd09891     1 KWYVVHTYSG------YENKVkENLEKRIESEGLEDYigevlVPTEEVVEVKNGKKKVKERKL--FPGYVLVEMDMNDDT 72

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1997475055  84 WAKVRECDFVASIIGIGGNPLPLPSAQVELI 114
Cdd:cd09891    73 WHLVRNTPGVTGFVGSGGKPVPLSEEEVERI 103
NGN_SP_AnfA1 cd09894
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), AnFA1; ...
 9-115 1.89e-10

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: 55.75  E-value: 1.89e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055   9 AKWYALRLKPGAgrpyrhDERITNiewSLKREGIDYYMPMELamKIHHRT--KKTIDKRFPLIPGYAFIKAVHDEQNWAK 86
Cdd:cd09894     1 KRWYLLRCKSGK------IQSVIF---SLERLGVEVFCPMIR--TRRKRTdcKSYREKIEPLFPGYLFVRFDPEVVHTSK 69

                          90       100
                  ....*....|....*....|....*....
gi 1997475055  87 VRECDFVASIIGIGGNPLPLPSAQVELIQ 115
Cdd:cd09894    70 ITLASGVSGFVRFGGEPCPVPDAVIRALM 98
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 11-203 7.96e-09

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


Pssm-ID: 468125 [Multi-domain]  Cd Length: 162  Bit Score: 52.47  E-value: 7.96e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  11 WYALRLKPGAGRPyrhderitnIEWSLKREGIDYYMPMELAMKIHHRTKKTIDKrfPLIPGYAFIKAVHDEQnWAKVREC 90
Cdd:NF033644    1 WYALYTRPRREKK---------VAELLEKKGIESFLPMQKEIRQWSDRKKRVEV--PLIPNLVFVHITEKEL-DEVLEQT 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  91 DFVASIIGIGGN---PLPLPSAQVE-LIQMAESSLREVYEYQkaarayEEARRLQKVtqRVaaqqfpAGGVvtisdqhrl 166
Cdd:NF033644   69 PGVVRYIRDDRGkskPAIIPDKQMErFRLMLDPSDEVVVYLE------APLKKGDKV--RV------IGGP--------- 125

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1997475055 167 FAGRRATIVAATGRNTIKAVIEALNGLLDAEIPIEFV 203
Cdd:NF033644  126 LKGLEGELVRVKGKKRVVVRIPGLGAVATVEVPPSYL 162
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 10-116 2.08e-08

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


Pssm-ID: 197850 [Multi-domain]  Cd Length: 106  Bit Score: 50.45  E-value: 2.08e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055   10 KWYALRLKPGagrpyrHDER-ITNIEWSLKREGI-----DYYMPMELAMKIHhRTKKTIDKRfPLIPGYAFIKAVHDEQN 83
Cdd:smart00738   1 NWYAVRTTSG------QEKRvAENLERKAEALGLedkivSILVPTEEVKEIR-RGKKKVVER-KLFPGYIFVEADLEDEV 72

                           90       100       110
                   ....*....|....*....|....*....|...
gi 1997475055   84 WAKVRECDFVASIIGIGGNPLPLPSAQVELIQM 116
Cdd:smart00738  73 WTAIRGTPGVRGFVGGGGKPTPVPDDEIEKILK 105
NGN_SP_TaA cd09893
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; ...
 11-115 3.25e-07

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: 46.92  E-value: 3.25e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  11 WYALRLKPgagrpyRHDERITNIewsLKREGIDYYMPMELAMKIHHRTKKTIDkrFPLIPGYAFIKAVHDEQNWAKVREC 90
Cdd:cd09893     2 WYALYTRS------RHEKKVADR---LAKKGIESFLPLYEVLSRWKDRKKKIK--VPLFPGYLFVRFQLDPERLRILKTP 70

                          90       100
                  ....*....|....*....|....*
gi 1997475055  91 DfVASIIGIGGNPLPLPSAQVELIQ 115
Cdd:cd09893    71 G-VVRIVGNSGGPIPIPDEEIASLR 94
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 10-114 1.11e-06

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


Pssm-ID: 193574 [Multi-domain]  Cd Length: 99  Bit Score: 45.39  E-value: 1.11e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  10 KWYALRLKPGAgrpyrhdERIT--NIEWSLKREGIDYYMPMELAMKIHHRTKKTIDKrfPLIPGYAFIKAVHDEQNWAKV 87
Cdd:cd08000     1 NWYVLFVKTGR-------EEKVekLLEKRFEANDIEAFVPKKEVPERKRGKIEEVIK--PLFPGYVFVETDLSPELYELI 71

                          90       100
                  ....*....|....*....|....*..
gi 1997475055  88 RECDFVASIIGIGGNPLPLPSAQVELI 114
Cdd:cd08000    72 REVPGVIGILGNGEEPSPVSDEEIEMI 98
NGN_SP_UpxY cd09895
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; ...
 10-115 4.73e-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: 43.72  E-value: 4.73e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  10 KWYALRLKPGAGRPyrhderitnIEWSLKREGIDYYMPMELAMKIHHRTKKTIDKrfPLIPGYAFIKAVHDEQnwAKVRE 89
Cdd:cd09895     1 PWYALYTFPRREKK---------VAEYLEKKGIECFLPMQYEVRQWSGRKKRVEV--PLFPNLVFVHITREEL--DEVLE 67

                          90       100
                  ....*....|....*....|....*..
gi 1997475055  90 CDFVASIIGIGGN-PLPLPSAQVELIQ 115
Cdd:cd09895    68 TPGVVRFVRYRGKePAIIPDKQMESFR 94
NusG_myco TIGR01956
NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the ...
 57-113 1.99e-03

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: 38.02  E-value: 1.99e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1997475055  57 RTKKTIDKRFPLIPGYAFIKAVHDEQNWAKVRECDFVASII---GIGGNPLPLPSAQVEL 113
Cdd:TIGR01956  74 KYKKTKISEKNKYNGYIYIKMIMTEDAWFLIRNTENVTGLVgssGKGAKPIPISADADKL 133
 
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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