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Conserved domains on  [gi|801667185|emb|CFL20726|]
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transcription antitermination protein NusG [Burkholderia pseudomallei]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 13-248 1.03e-73

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: 221.79  E-value: 1.03e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   13 WYVVHAYSGMEKSVQRALQERIERAGMQDKFGQILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAK 92
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   93 VTGFVGGArnrpdkfgqilvpteevvevkgghkavterrffpgyvlvememtdetwhlvkntakvtgfvggarNRPSPIS 172
Cdd:TIGR00922  81 VTGFVGSG-----------------------------------------------------------------GKPKALS 95

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 801667185  173 PR-EVEKIMSQMQEGVEKPRPKTLFEVGEMVRVKEGPFTDFNGTVEEVNYEKSRVRVSVTIFGRATPVELEFGQVEK 248
Cdd:TIGR00922  96 EDeEVKNILNALEEGKDKPKPKIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGRETPVELEFSQVEK 172
NusG pfam02357
Transcription termination factor nusG;
109-180 3.91e-26

Transcription termination factor nusG;


:

Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 97.68  E-value: 3.91e-26
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 801667185  109 QILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGArNRPSPISPREVEKIM 180
Cdd:pfam02357  26 EVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRSTPGVTGFVGGS-GKPTPIPDEEVERIL 96
 
Name Accession Description Interval E-value
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 13-248 1.03e-73

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: 221.79  E-value: 1.03e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   13 WYVVHAYSGMEKSVQRALQERIERAGMQDKFGQILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAK 92
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   93 VTGFVGGArnrpdkfgqilvpteevvevkgghkavterrffpgyvlvememtdetwhlvkntakvtgfvggarNRPSPIS 172
Cdd:TIGR00922  81 VTGFVGSG-----------------------------------------------------------------GKPKALS 95

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 801667185  173 PR-EVEKIMSQMQEGVEKPRPKTLFEVGEMVRVKEGPFTDFNGTVEEVNYEKSRVRVSVTIFGRATPVELEFGQVEK 248
Cdd:TIGR00922  96 EDeEVKNILNALEEGKDKPKPKIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGRETPVELEFSQVEK 172
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
11-249 2.35e-69

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 210.84  E-value: 2.35e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  11 KRWYVVHAYSGMEKSVQRALQERIEraGMQdkfgqilvpteevvevkgghkavterrffpgyvlvememtdetwhlvknt 90
Cdd:COG0250    5 KRWYVVHTYSGYEKKVKENLERRIE--GIE-------------------------------------------------- 32

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  91 akvtgfvggarnrpdkfgqILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGArNRPSP 170
Cdd:COG0250   33 -------------------VFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYLVRNTPGVTGFVGFG-GKPAP 92

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 801667185 171 ISPREVEKIMSQMQEGVEKPRPKTLFEVGEMVRVKEGPFTDFNGTVEEVNYEKSRVRVSVTIFGRATPVELEFGQVEKV 249
Cdd:COG0250   93 LPDEEVERILARLEEGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPEKGRVKVLVSIFGRETPVELDFSQVEKI 171
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 12-99 1.68e-47

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: 153.02  E-value: 1.68e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  12 RWYVVHAYSGMEKSVQRALQERIERAGMQDKFGQILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTA 91
Cdd:cd09891    1 KWYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTP 80


                 ....*...
gi 801667185  92 KVTGFVGG 99
Cdd:cd09891   81 GVTGFVGS 88
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 12-117 1.68e-31

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: 112.08  E-value: 1.68e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185    12 RWYVVHAYSGMEKSVQRALQERIERAGMQDKFGQILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTA 91
Cdd:smart00738   1 NWYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTP 80

                           90       100
                   ....*....|....*....|....*.
gi 801667185    92 KVTGFVGGArNRPdkfgqILVPTEEV 117
Cdd:smart00738  81 GVRGFVGGG-GKP-----TPVPDDEI 100
NusG pfam02357
Transcription termination factor nusG;
11-117 4.63e-30

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 107.70  E-value: 4.63e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   11 KRWYVVHAYSGMEKSVQRALqeriERAGMQdkfgqILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNT 90
Cdd:pfam02357   1 KKWYVLQTYSGKEKKVKENL----ERQGIE-----VFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRST 71

                          90       100
                  ....*....|....*....|....*..
gi 801667185   91 AKVTGFVGGArNRPdkfgqILVPTEEV 117
Cdd:pfam02357  72 PGVTGFVGGS-GKP-----TPIPDEEV 92
NusG pfam02357
Transcription termination factor nusG;
109-180 3.91e-26

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 97.68  E-value: 3.91e-26
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 801667185  109 QILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGArNRPSPISPREVEKIM 180
Cdd:pfam02357  26 EVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRSTPGVTGFVGGS-GKPTPIPDEEVERIL 96
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 109-248 3.22e-18

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: 78.97  E-value: 3.22e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185 109 QILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGARNRPSPISPREVEKIMSQMQEG-- 186
Cdd:NF033641  28 RCFVPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPGIIRLLGNEGDEFSPIPEEEMEFLLKLLNDDdi 107

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 801667185 187 VEkprPKTLFEVGEMVRVKEGPFTDFNGTVEEVNYEKSRVRVSVTIFGRATPVELEFGQVEK 248
Cdd:NF033641 108 IE---YSKGYIEGDKVIVISGPLKGLEGIIKKIDKRKRRAKIELNFMGEERLVDVGIEIVSK 166
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 109-179 8.82e-13

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: 62.72  E-value: 8.82e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 801667185 109 QILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGArNRPSPISPREVEKI 179
Cdd:cd08000   29 EAFVPKKEVPERKRGKIEEVIKPLFPGYVFVETDLSPELYELIREVPGVIGILGNG-EEPSPVSDEEIEMI 98
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 112-230 1.76e-07

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: 49.39  E-value: 1.76e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185 112 VPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDEtWHLVKNTAKVTGFV--GGARNRPSPISPREVEKIM---SQMQEG 186
Cdd:NF033644  27 LPMQKEIRQWSDRKKRVEVPLIPNLVFVHITEKEL-DEVLEQTPGVVRYIrdDRGKSKPAIIPDKQMERFRlmlDPSDEV 105

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 801667185 187 VEKPRPKtlFEVGEMVRVKEGPFTDFNGTVEEVNyEKSRVRVSV 230
Cdd:NF033644 106 VVYLEAP--LKKGDKVRVIGGPLKGLEGELVRVK-GKKRVVVRI 146
 
Name Accession Description Interval E-value
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 13-248 1.03e-73

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: 221.79  E-value: 1.03e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   13 WYVVHAYSGMEKSVQRALQERIERAGMQDKFGQILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAK 92
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   93 VTGFVGGArnrpdkfgqilvpteevvevkgghkavterrffpgyvlvememtdetwhlvkntakvtgfvggarNRPSPIS 172
Cdd:TIGR00922  81 VTGFVGSG-----------------------------------------------------------------GKPKALS 95

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 801667185  173 PR-EVEKIMSQMQEGVEKPRPKTLFEVGEMVRVKEGPFTDFNGTVEEVNYEKSRVRVSVTIFGRATPVELEFGQVEK 248
Cdd:TIGR00922  96 EDeEVKNILNALEEGKDKPKPKIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGRETPVELEFSQVEK 172
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
11-249 2.35e-69

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 210.84  E-value: 2.35e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  11 KRWYVVHAYSGMEKSVQRALQERIEraGMQdkfgqilvpteevvevkgghkavterrffpgyvlvememtdetwhlvknt 90
Cdd:COG0250    5 KRWYVVHTYSGYEKKVKENLERRIE--GIE-------------------------------------------------- 32

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  91 akvtgfvggarnrpdkfgqILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGArNRPSP 170
Cdd:COG0250   33 -------------------VFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYLVRNTPGVTGFVGFG-GKPAP 92

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 801667185 171 ISPREVEKIMSQMQEGVEKPRPKTLFEVGEMVRVKEGPFTDFNGTVEEVNYEKSRVRVSVTIFGRATPVELEFGQVEKV 249
Cdd:COG0250   93 LPDEEVERILARLEEGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPEKGRVKVLVSIFGRETPVELDFSQVEKI 171
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 12-99 1.68e-47

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: 153.02  E-value: 1.68e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  12 RWYVVHAYSGMEKSVQRALQERIERAGMQDKFGQILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTA 91
Cdd:cd09891    1 KWYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTP 80


                 ....*...
gi 801667185  92 KVTGFVGG 99
Cdd:cd09891   81 GVTGFVGS 88
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 12-117 1.68e-31

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: 112.08  E-value: 1.68e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185    12 RWYVVHAYSGMEKSVQRALQERIERAGMQDKFGQILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTA 91
Cdd:smart00738   1 NWYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTP 80

                           90       100
                   ....*....|....*....|....*.
gi 801667185    92 KVTGFVGGArNRPdkfgqILVPTEEV 117
Cdd:smart00738  81 GVRGFVGGG-GKP-----TPVPDDEI 100
NusG pfam02357
Transcription termination factor nusG;
11-117 4.63e-30

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 107.70  E-value: 4.63e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   11 KRWYVVHAYSGMEKSVQRALqeriERAGMQdkfgqILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNT 90
Cdd:pfam02357   1 KKWYVLQTYSGKEKKVKENL----ERQGIE-----VFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRST 71

                          90       100
                  ....*....|....*....|....*..
gi 801667185   91 AKVTGFVGGArNRPdkfgqILVPTEEV 117
Cdd:pfam02357  72 PGVTGFVGGS-GKP-----TPIPDEEV 92
NusG pfam02357
Transcription termination factor nusG;
109-180 3.91e-26

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 97.68  E-value: 3.91e-26
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 801667185  109 QILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGArNRPSPISPREVEKIM 180
Cdd:pfam02357  26 EVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRSTPGVTGFVGGS-GKPTPIPDEEVERIL 96
KOW_NusG cd06091
NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif ...
 193-248 1.71e-23

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: 89.44  E-value: 1.71e-23
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 801667185 193 KTLFEVGEMVRVKEGPFTDFNGTVEEVNYEKSRVRVSVTIFGRATPVELEFGQVEK 248
Cdd:cd06091    1 EVDFEVGDTVRIISGPFAGFEGKVEEIDEEKGKVKVLVEMFGRETPVELDFDQVEK 56
NusG_myco TIGR01956
NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the ...
 12-248 2.46e-19

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: 84.24  E-value: 2.46e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   12 RWYVVHAYSGMEKSVQRALQERIERAGMQDKFGQILVPTEEVVEVK----GGHKA------------------------V 63
Cdd:TIGR01956   1 QWYIATTINGNEDEVIENIKAKVRALGLENYISDFKILKEREIEEKvfepKNGQAprsmkntattkwetldetkykktkI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185   64 TERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVG----GARNRPdkfgqILVPTEEVVEVKGGHKAVTERRFFPGYVLV 139
Cdd:TIGR01956  81 SEKNKYNGYIYIKMIMTEDAWFLIRNTENVTGLVGssgkGAKPIP-----ISADADKLKMLKGISENTKKRVLVTNTAIV 155

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  140 EME--MTDETWHLVKNTAKVTGFVGGARNrpspisprEVEKIMSQMQEGVEKPRPKTLFEVGEMVRVKEGPFTDFNGTVE 217
Cdd:TIGR01956 156 EMEenKFDEKCQYILKHKQVKPEAIAQVS--------ESGEIIDEIVEEFQLVDNLSKFRVGNFVKIVDGPFKGIVGKIK 227

                         250       260       270
                  ....*....|....*....|....*....|.
gi 801667185  218 EVNYEKSRVRVSVTIFGRATPVELEFGQVEK 248
Cdd:TIGR01956 228 KIDQEKKKAIVEVEILGKSVDVDLNFKHLKL 258
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 109-248 3.22e-18

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: 78.97  E-value: 3.22e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185 109 QILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGARNRPSPISPREVEKIMSQMQEG-- 186
Cdd:NF033641  28 RCFVPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPGIIRLLGNEGDEFSPIPEEEMEFLLKLLNDDdi 107

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 801667185 187 VEkprPKTLFEVGEMVRVKEGPFTDFNGTVEEVNYEKSRVRVSVTIFGRATPVELEFGQVEK 248
Cdd:NF033641 108 IE---YSKGYIEGDKVIVISGPLKGLEGIIKKIDKRKRRAKIELNFMGEERLVDVGIEIVSK 166
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 13-100 3.36e-15

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: 68.88  E-value: 3.36e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  13 WYVVHAYSGMEKSVQRALQERIERAGMQdkfgqILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAK 92
Cdd:cd08000    2 WYVLFVKTGREEKVEKLLEKRFEANDIE-----AFVPKKEVPERKRGKIEEVIKPLFPGYVFVETDLSPELYELIREVPG 76


                 ....*...
gi 801667185  93 VTGFVGGA 100
Cdd:cd08000   77 VIGILGNG 84
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 109-179 8.82e-13

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: 62.72  E-value: 8.82e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 801667185 109 QILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGArNRPSPISPREVEKI 179
Cdd:cd08000   29 EAFVPKKEVPERKRGKIEEVIKPLFPGYVFVETDLSPELYELIREVPGVIGILGNG-EEPSPVSDEEIEMI 98
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 112-230 1.76e-07

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: 49.39  E-value: 1.76e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185 112 VPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDEtWHLVKNTAKVTGFV--GGARNRPSPISPREVEKIM---SQMQEG 186
Cdd:NF033644  27 LPMQKEIRQWSDRKKRVEVPLIPNLVFVHITEKEL-DEVLEQTPGVVRYIrdDRGKSKPAIIPDKQMERFRlmlDPSDEV 105

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 801667185 187 VEKPRPKtlFEVGEMVRVKEGPFTDFNGTVEEVNyEKSRVRVSV 230
Cdd:NF033644 106 VVYLEAP--LKKGDKVRVIGGPLKGLEGELVRVK-GKKRVVVRI 146
NGN_plant cd09890
Plant N-Utilization Substance G (NusG) N-terminal (NGN) domain; The N-Utilization Substance G ...
 99-180 1.76e-07

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: 48.50  E-value: 1.76e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  99 GARNRPDKFGQILVPTEEV-VEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGA--------RNRPS 169
Cdd:cd09890   23 LATEFPDREFEVWVPSIPVdRKLKNGSISVKEKPLFPGYVLLRCVLNKEVYDFIRDNDSVYGFVGSKvgktgkrqIEIPR 102

                         90
                 ....*....|.
gi 801667185 170 PISPREVEKIM 180
Cdd:cd09890  103 PVPVEEIEAIF 113
NGN_plant cd09890
Plant N-Utilization Substance G (NusG) N-terminal (NGN) domain; The N-Utilization Substance G ...
 13-103 9.48e-07

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: 46.58  E-value: 9.48e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  13 WYVVHAYSGMEKSVQRALQERIERAGMQDKFgQILVPTEEV-VEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTA 91
Cdd:cd09890    2 WYMLRVPAGRENQAAEALERALATEFPDREF-EVWVPSIPVdRKLKNGSISVKEKPLFPGYVLLRCVLNKEVYDFIRDND 80

                         90
                 ....*....|..
gi 801667185  92 KVTGFVGGARNR 103
Cdd:cd09890   81 SVYGFVGSKVGK 92
NGN_SP_RfaH cd09892
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; ...
 113-180 2.69e-05

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: 41.78  E-value: 2.69e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 801667185 113 PTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTAKVTGFVGGArNRPSPISPREVEKIM 180
Cdd:cd09892   29 PMIRVEKRRRGKRTVVTEPLFPGYLFVRLDPEVQNWRPIRSTRGVSRLVRFG-GEPAPVPDALIEALR 95
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 198-228 2.44e-04

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: 37.37  E-value: 2.44e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 801667185  198 VGEMVRVKEGPFTDFNGTVEEVNYEKSRVRV 228
Cdd:pfam00467   1 KGDVVRVIAGPFKGKVGKVVEVDDKKNRVLV 31
NGN_Bact_2 cd09889
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; The ...
 12-97 2.98e-04

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: 38.84  E-value: 2.98e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  12 RWYVVHAYSGMEKSVQRALQERIERAGMQDKFgqilVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKnta 91
Cdd:cd09889    1 MWYVVQVRTGREKAVLELLEKLVGPDVLQECF----IPQYERKKRSQGVWRERKYTLFPGYVFVVTDDIDELYYELK--- 73


                 ....*.
gi 801667185  92 KVTGFV 97
Cdd:cd09889   74 RVPGFT 79
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 12-117 8.14e-04

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: 37.73  E-value: 8.14e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  12 RWYVVHAYSGMEKSVQRALQERIERAgmqdkfgqiLVPTEEVVEVKGGHKAVTERRFFPGYVLVEM-EMTDETWHLVKNT 90
Cdd:cd09886    1 SWYALRTNPGCEQRAEEALEARGVEA---------FLPMLTEERKRRRKKFDVERPLFPGYVFARLdRSKGQDTSTIRAC 71

                         90       100
                 ....*....|....*....|....*..
gi 801667185  91 AKVTGFVGGARnRPdkfgqILVPTEEV 117
Cdd:cd09886   72 DGVLGVVGFDG-RP-----APVPEQEM 92
KOW smart00739
KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
 195-222 1.36e-03

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: 1.36e-03
                           10        20
                   ....*....|....*....|....*...
gi 801667185   195 LFEVGEMVRVKEGPFTDFNGTVEEVNYE 222
Cdd:smart00739   1 KFEVGDTVRVIAGPFKGKVGKVLEVDGE 28
NGN_SP_RfaH cd09892
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; ...
 12-121 1.46e-03

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: 36.77  E-value: 1.46e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  12 RWYVVHAYSGMEKsvqRAlQERIERAGMQdkfgqILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETWHLVKNTA 91
Cdd:cd09892    1 AWYLLYTKPRQEE---RA-AENLERQGFE-----VFLPMIRVEKRRRGKRTVVTEPLFPGYLFVRLDPEVQNWRPIRSTR 71

                         90       100       110
                 ....*....|....*....|....*....|
gi 801667185  92 KVTGFVGGArNRPDKfgqilVPTEEVVEVK 121
Cdd:cd09892   72 GVSRLVRFG-GEPAP-----VPDALIEALR 95
NGN_SP_UpxY cd09895
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; ...
 12-97 2.72e-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: 36.02  E-value: 2.72e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 801667185  12 RWYVVHAYSGMEKSVQRALQER-IEragmqdkfgqILVPTEEVVEVKGGHKAVTERRFFPGYVLVEMEMTDETwhLVKNT 90
Cdd:cd09895    1 PWYALYTFPRREKKVAEYLEKKgIE----------CFLPMQYEVRQWSGRKKRVEVPLFPNLVFVHITREELD--EVLET 68


                 ....*..
gi 801667185  91 AKVTGFV 97
Cdd:cd09895   69 PGVVRFV 75
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 111-180 6.04e-03

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: 35.42  E-value: 6.04e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 801667185 111 LVPTEEVVEVKGGHKAVTERRFFPGYVLVEM-EMTDETWHLVKNTAKVTGFVGGARnRPSPISPREVEKIM 180
Cdd:cd09886   27 FLPMLTEERKRRRKKFDVERPLFPGYVFARLdRSKGQDTSTIRACDGVLGVVGFDG-RPAPVPEQEMRDLR 96
 
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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