NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1199603883|ref|WP_087338083|]
View 

MULTISPECIES: transcription termination/antitermination protein NusG [unclassified Flavonifractor]

Protein Classification

transcription termination/antitermination protein NusG( domain architecture ID 11415705)

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

CATH:  2.30.30.30|3.30.70.940
Gene Ontology:  GO:0006353|GO:0032784|GO:0031564|GO:0006354
PubMed:  12198166
SCOP:  4002609

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-172 8.53e-69

Transcription termination/antitermination protein NusG [Transcription];


:

Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 206.21  E-value: 8.53e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   1 MAENAKWYVVHTYSGYENTVAASIEKAVENrglrdliFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHL 80
Cdd:COG0250     1 MSMEKRWYVVHTYSGYEKKVKENLERRIEG-------IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYL 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  81 VRNVRGVTGFVGSGNKAIPLTDEEIAAL------GVEKREVVVNYQVGDNVKIINGALESFLGTVEEIDLDHSKVRVVVS 154
Cdd:COG0250    74 VRNTPGVTGFVGFGGKPAPLPDEEVERIlarleeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPEKGRVKVLVS 153

                         170
                  ....*....|....*...
gi 1199603883 155 MFGRETPVELELDEIEPV 172
Cdd:COG0250   154 IFGRETPVELDFSQVEKI 171
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-172 8.53e-69

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 206.21  E-value: 8.53e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   1 MAENAKWYVVHTYSGYENTVAASIEKAVENrglrdliFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHL 80
Cdd:COG0250     1 MSMEKRWYVVHTYSGYEKKVKENLERRIEG-------IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYL 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  81 VRNVRGVTGFVGSGNKAIPLTDEEIAAL------GVEKREVVVNYQVGDNVKIINGALESFLGTVEEIDLDHSKVRVVVS 154
Cdd:COG0250    74 VRNTPGVTGFVGFGGKPAPLPDEEVERIlarleeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPEKGRVKVLVS 153

                         170
                  ....*....|....*...
gi 1199603883 155 MFGRETPVELELDEIEPV 172
Cdd:COG0250   154 IFGRETPVELDFSQVEKI 171
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 7-170 5.10e-63

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: 191.75  E-value: 5.10e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYENTVAASIEKAVENRGLRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVRG 86
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  87 VTGFVGSGNKAIPLTDEE-----IAALGVEKREVV--VNYQVGDNVKIINGALESFLGTVEEIDLDHSKVRVVVSMFGRE 159
Cdd:TIGR00922  81 VTGFVGSGGKPKALSEDEevkniLNALEEGKDKPKpkIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGRE 160

                         170
                  ....*....|.
gi 1199603883 160 TPVELELDEIE 170
Cdd:TIGR00922 161 TPVELEFSQVE 171
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 6-108 1.24e-51

Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination in bacteria. NusG is essential in Escherichia coli and associates with RNA polymerase elongation and Rho-termination. Homologs of the NusG gene exist in all bacteria. The NusG N-terminal domain (NGN) is similar in all NusG homologs, but its C-terminal domain and the linker that separates these two domains are different. The domain organization of NusG suggests that the common properties of NusG and its homologs are due to their similar NGN domains.


Pssm-ID: 193580 [Multi-domain]  Cd Length: 107  Bit Score: 160.33  E-value: 1.24e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   6 KWYVVHTYSGYENTVAASIEKAVENRGLRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVR 85
Cdd:cd09891     1 KWYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTP 80

                          90       100
                  ....*....|....*....|...
gi 1199603883  86 GVTGFVGSGNKAIPLTDEEIAAL 108
Cdd:cd09891    81 GVTGFVGSGGKPVPLSEEEVERI 103
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 6-108 5.21e-38

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: 125.95  E-value: 5.21e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883    6 KWYVVHTYSGYENTVAASIEKAVENRGLRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVR 85
Cdd:smart00738   1 NWYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTP 80

                           90       100
                   ....*....|....*....|...
gi 1199603883   86 GVTGFVGSGNKAIPLTDEEIAAL 108
Cdd:smart00738  81 GVRGFVGGGGKPTPVPDDEIEKI 103
NusG pfam02357
Transcription termination factor nusG;
6-108 8.08e-35

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 117.33  E-value: 8.08e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   6 KWYVVHTYSGYENTVAASIEKavenrglrdLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVR 85
Cdd:pfam02357   2 KWYVLQTYSGKEKKVKENLER---------QGIEVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRSTP 72

                          90       100
                  ....*....|....*....|...
gi 1199603883  86 GVTGFVGSGNKAIPLTDEEIAAL 108
Cdd:pfam02357  73 GVTGFVGGSGKPTPIPDEEVERI 95
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 7-171 6.02e-20

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: 81.28  E-value: 6.02e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYENTVAASIEKAVENRGLRdlIFevsIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVRG 86
Cdd:NF033641    1 WYVLFVRTGKEEKVKKLLNKLFDKELLR--CF---VPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  87 VTGFVGSGNKAI-PLTDEEIAALG--VEKREVV---VNYQVGDNVKIINGALESFLGTVEEIDLDHSKVRVVVSMFGRET 160
Cdd:NF033641   76 IIRLLGNEGDEFsPIPEEEMEFLLklLNDDDIIeysKGYIEGDKVIVISGPLKGLEGIIKKIDKRKRRAKIELNFMGEER 155

                         170
                  ....*....|.
gi 1199603883 161 PVELELDEIEP 171
Cdd:NF033641  156 LVDVGIEIVSK 166
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 7-153 4.90e-10

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: 55.17  E-value: 4.90e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYENTVAASIEKavenRGLrdlifEVSIPLETVTEITDNGPKTVERKVFPGYVLVKmvLTDET-WHLVRNVR 85
Cdd:NF033644    1 WYALYTRPRREKKVAELLEK----KGI-----ESFLPMQKEIRQWSDRKKRVEVPLIPNLVFVH--ITEKElDEVLEQTP 69

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1199603883  86 GVTGFVG-SGNKAIPLT--DEEIAAL------GVEKREVV-VNYQVGDNVKIINGALESFLGTVEEIDldhSKVRVVV 153
Cdd:NF033644   70 GVVRYIRdDRGKSKPAIipDKQMERFrlmldpSDEVVVYLeAPLKKGDKVRVIGGPLKGLEGELVRVK---GKKRVVV 144
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
43-133 1.28e-03

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 37.56  E-value: 1.28e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  43 PLETVTEITDNGPKTVERKVFPGYVLVKMvltD-ETWHL--VRNVRGVTGFVGSGN--KAIPltDEEIAALGVEKREVVV 117
Cdd:PRK09014   31 PMITLEKIVRGKRTEVSEPLFPNYLFVEF---DpEVIHTttIRSTRGVSHFVRFGAqpAIVP--SDVIYQLSVYKPEKIV 105

                          90
                  ....*....|....*....
gi 1199603883 118 NYQV---GDNVKIINGALE 133
Cdd:PRK09014  106 DPETpkpGDKVIITEGAFE 124
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
1-172 8.53e-69

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 206.21  E-value: 8.53e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   1 MAENAKWYVVHTYSGYENTVAASIEKAVENrglrdliFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHL 80
Cdd:COG0250     1 MSMEKRWYVVHTYSGYEKKVKENLERRIEG-------IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYL 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  81 VRNVRGVTGFVGSGNKAIPLTDEEIAAL------GVEKREVVVNYQVGDNVKIINGALESFLGTVEEIDLDHSKVRVVVS 154
Cdd:COG0250    74 VRNTPGVTGFVGFGGKPAPLPDEEVERIlarleeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVDPEKGRVKVLVS 153

                         170
                  ....*....|....*...
gi 1199603883 155 MFGRETPVELELDEIEPV 172
Cdd:COG0250   154 IFGRETPVELDFSQVEKI 171
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 7-170 5.10e-63

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: 191.75  E-value: 5.10e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYENTVAASIEKAVENRGLRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVRG 86
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  87 VTGFVGSGNKAIPLTDEE-----IAALGVEKREVV--VNYQVGDNVKIINGALESFLGTVEEIDLDHSKVRVVVSMFGRE 159
Cdd:TIGR00922  81 VTGFVGSGGKPKALSEDEevkniLNALEEGKDKPKpkIDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGRE 160

                         170
                  ....*....|.
gi 1199603883 160 TPVELELDEIE 170
Cdd:TIGR00922 161 TPVELEFSQVE 171
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 6-108 1.24e-51

Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination in bacteria. NusG is essential in Escherichia coli and associates with RNA polymerase elongation and Rho-termination. Homologs of the NusG gene exist in all bacteria. The NusG N-terminal domain (NGN) is similar in all NusG homologs, but its C-terminal domain and the linker that separates these two domains are different. The domain organization of NusG suggests that the common properties of NusG and its homologs are due to their similar NGN domains.


Pssm-ID: 193580 [Multi-domain]  Cd Length: 107  Bit Score: 160.33  E-value: 1.24e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   6 KWYVVHTYSGYENTVAASIEKAVENRGLRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVR 85
Cdd:cd09891     1 KWYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTP 80

                          90       100
                  ....*....|....*....|...
gi 1199603883  86 GVTGFVGSGNKAIPLTDEEIAAL 108
Cdd:cd09891    81 GVTGFVGSGGKPVPLSEEEVERI 103
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 6-108 5.21e-38

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: 125.95  E-value: 5.21e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883    6 KWYVVHTYSGYENTVAASIEKAVENRGLRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVR 85
Cdd:smart00738   1 NWYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTP 80

                           90       100
                   ....*....|....*....|...
gi 1199603883   86 GVTGFVGSGNKAIPLTDEEIAAL 108
Cdd:smart00738  81 GVRGFVGGGGKPTPVPDDEIEKI 103
NusG pfam02357
Transcription termination factor nusG;
6-108 8.08e-35

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 117.33  E-value: 8.08e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   6 KWYVVHTYSGYENTVAASIEKavenrglrdLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVR 85
Cdd:pfam02357   2 KWYVLQTYSGKEKKVKENLER---------QGIEVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRSTP 72

                          90       100
                  ....*....|....*....|...
gi 1199603883  86 GVTGFVGSGNKAIPLTDEEIAAL 108
Cdd:pfam02357  73 GVTGFVGGSGKPTPIPDEEVERI 95
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 6-108 4.20e-23

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: 87.76  E-value: 4.20e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   6 KWYVVHTYSGYENTVAASIEKAVEnrglrDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVR 85
Cdd:cd08000     1 NWYVLFVKTGREEKVEKLLEKRFE-----ANDIEAFVPKKEVPERKRGKIEEVIKPLFPGYVFVETDLSPELYELIREVP 75

                          90       100
                  ....*....|....*....|...
gi 1199603883  86 GVTGFVGSGNKAIPLTDEEIAAL 108
Cdd:cd08000    76 GVIGILGNGEEPSPVSDEEIEMI 98
KOW_NusG cd06091
NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif ...
 116-171 8.22e-21

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: 80.58  E-value: 8.22e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1199603883 116 VVNYQVGDNVKIINGALESFLGTVEEIDLDHSKVRVVVSMFGRETPVELELDEIEP 171
Cdd:cd06091     1 EVDFEVGDTVRIISGPFAGFEGKVEEIDEEKGKVKVLVEMFGRETPVELDFDQVEK 56
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 7-171 6.02e-20

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: 81.28  E-value: 6.02e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYENTVAASIEKAVENRGLRdlIFevsIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVRG 86
Cdd:NF033641    1 WYVLFVRTGKEEKVKKLLNKLFDKELLR--CF---VPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  87 VTGFVGSGNKAI-PLTDEEIAALG--VEKREVV---VNYQVGDNVKIINGALESFLGTVEEIDLDHSKVRVVVSMFGRET 160
Cdd:NF033641   76 IIRLLGNEGDEFsPIPEEEMEFLLklLNDDDIIeysKGYIEGDKVIVISGPLKGLEGIIKKIDKRKRRAKIELNFMGEER 155

                         170
                  ....*....|.
gi 1199603883 161 PVELELDEIEP 171
Cdd:NF033641  156 LVDVGIEIVSK 166
NGN_SP_RfaH cd09892
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; ...
 7-108 3.36e-15

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: 67.20  E-value: 3.36e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYEntvaasiEKAVENrgLRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVRG 86
Cdd:cd09892     2 WYLLYTKPRQE-------ERAAEN--LERQGFEVFLPMIRVEKRRRGKRTVVTEPLFPGYLFVRLDPEVQNWRPIRSTRG 72

                          90       100
                  ....*....|....*....|..
gi 1199603883  87 VTGFVGSGNKAIPLTDEEIAAL 108
Cdd:cd09892    73 VSRLVRFGGEPAPVPDALIEAL 94
RfaH TIGR01955
transcription elongation factor/antiterminator RfaH; This model represents the transcription ...
 7-170 5.91e-14

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


Pssm-ID: 131010 [Multi-domain]  Cd Length: 159  Bit Score: 65.56  E-value: 5.91e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYEntvaasiEKAVENrgLRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVRG 86
Cdd:TIGR01955   1 WYLLYCKPRQE-------QRAQEH--LERQAVECYLPMITVEKIVRGKRQAVSEPLFPNYLFIEFDPEVDSWTTIRSTRG 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  87 VTGFVGSGNKAIPLTDEEIAALGVEKREVVVN-----YQVGDNVKIINGALESFLGTVEEIDLDhSKVRVVVSMFGRETP 161
Cdd:TIGR01955  72 VSRFVRFGGHPAPVPDDLIHQLRQYEPKDSVPpattlPYKGDKVRITDGAFAGFEAIFLEPDGE-KRSMLLLNMIGKQIK 150


                  ....*....
gi 1199603883 162 VELELDEIE 170
Cdd:TIGR01955 151 VSVPNTSVE 159
NusG_myco TIGR01956
NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the ...
 6-169 1.07e-12

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: 63.83  E-value: 1.07e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   6 KWYVVHTYSGYENTVAASIEKAVENRGLRDLIFEVSIPLETVTEITDNGPK---------------------TVERKV-- 62
Cdd:TIGR01956   1 QWYIATTINGNEDEVIENIKAKVRALGLENYISDFKILKEREIEEKVFEPKngqaprsmkntattkwetldeTKYKKTki 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  63 -----FPGYVLVKMVLTDETWHLVRNVRGVTGFVGS---GNKAIPLTDEEI---------------------------AA 107
Cdd:TIGR01956  81 seknkYNGYIYIKMIMTEDAWFLIRNTENVTGLVGSsgkGAKPIPISADADklkmlkgisentkkrvlvtntaivemeEN 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883 108 LGVEKREVVV----------------------------------NYQVGDNVKIINGALESFLGTVEEIDLDHSKVRVVV 153
Cdd:TIGR01956 161 KFDEKCQYILkhkqvkpeaiaqvsesgeiideiveefqlvdnlsKFRVGNFVKIVDGPFKGIVGKIKKIDQEKKKAIVEV 240

                         250
                  ....*....|....*.
gi 1199603883 154 SMFGRETPVELELDEI 169
Cdd:TIGR01956 241 EILGKSVDVDLNFKHL 256
NGN_plant cd09890
Plant N-Utilization Substance G (NusG) N-terminal (NGN) domain; The N-Utilization Substance G ...
 7-94 4.15e-12

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: 59.67  E-value: 4.15e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYENTVAASIEKAVEnRGLRDLIFEVSIPLETVTEITDNGPKTVERK-VFPGYVLVKMVLTDETWHLVRNVR 85
Cdd:cd09890     2 WYMLRVPAGRENQAAEALERALA-TEFPDREFEVWVPSIPVDRKLKNGSISVKEKpLFPGYVLLRCVLNKEVYDFIRDND 80


                  ....*....
gi 1199603883  86 GVTGFVGSG 94
Cdd:cd09890    81 SVYGFVGSK 89
NGN_SP_TaA cd09893
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; ...
 7-108 3.80e-11

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: 56.55  E-value: 3.80e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYENTVAasiekavenRGLRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVrG 86
Cdd:cd09893     2 WYALYTRSRHEKKVA---------DRLAKKGIESFLPLYEVLSRWKDRKKKIKVPLFPGYLFVRFQLDPERLRILKTP-G 71

                          90       100
                  ....*....|....*....|..
gi 1199603883  87 VTGFVGSGNKAIPLTDEEIAAL 108
Cdd:cd09893    72 VVRIVGNSGGPIPIPDEEIASL 93
antiterm_UpxY NF033644
UpxY family transcription antiterminator; The UpxY family of NusG-related transcription ...
 7-153 4.90e-10

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: 55.17  E-value: 4.90e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   7 WYVVHTYSGYENTVAASIEKavenRGLrdlifEVSIPLETVTEITDNGPKTVERKVFPGYVLVKmvLTDET-WHLVRNVR 85
Cdd:NF033644    1 WYALYTRPRREKKVAELLEK----KGI-----ESFLPMQKEIRQWSDRKKRVEVPLIPNLVFVH--ITEKElDEVLEQTP 69

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1199603883  86 GVTGFVG-SGNKAIPLT--DEEIAAL------GVEKREVV-VNYQVGDNVKIINGALESFLGTVEEIDldhSKVRVVV 153
Cdd:NF033644   70 GVVRYIRdDRGKSKPAIipDKQMERFrlmldpSDEVVVYLeAPLKKGDKVRVIGGPLKGLEGELVRVK---GKKRVVV 144
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 6-108 3.96e-09

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: 51.21  E-value: 3.96e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   6 KWYVVHTYSGYENTVaasiEKAVENRGLrdlifEVSIPLETVTEITDNGPKTVERKVFPGYVLVKM-VLTDETWHLVRNV 84
Cdd:cd09886     1 SWYALRTNPGCEQRA----EEALEARGV-----EAFLPMLTEERKRRRKKFDVERPLFPGYVFARLdRSKGQDTSTIRAC 71

                          90       100
                  ....*....|....*....|....
gi 1199603883  85 RGVTGFVGSGNKAIPLTDEEIAAL 108
Cdd:cd09886    72 DGVLGVVGFDGRPAPVPEQEMRDL 95
NGN_Bact_2 cd09889
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; The ...
 6-106 5.50e-09

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: 51.17  E-value: 5.50e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   6 KWYVVHTYSGYENTVAASIEKAVEnrglRDLIFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETWHLVRNVR 85
Cdd:cd09889     1 MWYVVQVRTGREKAVLELLEKLVG----PDVLQECFIPQYERKKRSQGVWRERKYTLFPGYVFVVTDDIDELYYELKRVP 76

                          90       100
                  ....*....|....*....|.
gi 1199603883  86 GVTGFVGSGNKAIPLTDEEIA 106
Cdd:cd09889    77 GFTRLLGNDGSFFPLTPEEAD 97
NGN_SP_UpxY cd09895
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; ...
 6-108 2.81e-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: 2.81e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   6 KWYVVHTYSGYENTVAASIEKavenRGlrdliFEVSIPLETVTEITDNGPKTVERKVFPGYVLVKMVLTDETwhLVRNVR 85
Cdd:cd09895     1 PWYALYTFPRREKKVAEYLEK----KG-----IECFLPMQYEVRQWSGRKKRVEVPLFPNLVFVHITREELD--EVLETP 69

                          90       100
                  ....*....|....*....|....*.
gi 1199603883  86 GVTGFVGSGNKA---IPltDEEIAAL 108
Cdd:cd09895    70 GVVRFVRYRGKEpaiIP--DKQMESF 93
NGN_SP_AnfA1 cd09894
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), AnFA1; ...
 5-108 5.58e-06

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: 43.04  E-value: 5.58e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883   5 AKWYVVHTYSGYENTVAASIEkavenrglrDLIFEVSIPLE-TVTEITDNGPK-TVERKVFPGYVLVKMVLTDETWHLVR 82
Cdd:cd09894     1 KRWYLLRCKSGKIQSVIFSLE---------RLGVEVFCPMIrTRRKRTDCKSYrEKIEPLFPGYLFVRFDPEVVHTSKIT 71

                          90       100
                  ....*....|....*....|....*.
gi 1199603883  83 NVRGVTGFVGSGNKAIPLTDEEIAAL 108
Cdd:cd09894    72 LASGVSGFVRFGGEPCPVPDAVIRAL 97
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
43-133 1.28e-03

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 37.56  E-value: 1.28e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1199603883  43 PLETVTEITDNGPKTVERKVFPGYVLVKMvltD-ETWHL--VRNVRGVTGFVGSGN--KAIPltDEEIAALGVEKREVVV 117
Cdd:PRK09014   31 PMITLEKIVRGKRTEVSEPLFPNYLFVEF---DpEVIHTttIRSTRGVSHFVRFGAqpAIVP--SDVIYQLSVYKPEKIV 105

                          90
                  ....*....|....*....
gi 1199603883 118 NYQV---GDNVKIINGALE 133
Cdd:PRK09014  106 DPETpkpGDKVIITEGAFE 124
KOW cd00380
KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); KOW domain is known ...
 122-170 5.89e-03

KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. The KOW motif contains an invariants glycine residue and comprises alternating blocks of hydrophilic and hydrophobic residues.


Pssm-ID: 240504  Cd Length: 49  Bit Score: 33.35  E-value: 5.89e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1199603883 122 GDNVKIINGALESFLGTVEEIDLDHSKVRVVVSMFGRETPVELELDEIE 170
Cdd:cd00380     1 GDVVRVLRGPYKGREGVVVDIDPRFGIVTVKGATGSKGAELKVRFDDVD 49
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH