NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1278648216|gb|PJB54641|]
View 

MAG: hypothetical protein CO099_00390, partial [Bdellovibrio sp. CG_4_9_14_3_um_filter_39_7]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
GreA super family cl43269
Transcription elongation factor, GreA/GreB family [Transcription];
6-43 2.34e-10

Transcription elongation factor, GreA/GreB family [Transcription];


The actual alignment was detected with superfamily member COG0782:

Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 51.28  E-value: 2.34e-10
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1278648216   6 VISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAVQ 43
Cdd:COG0782   119 KISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEIE 156
 
Name Accession Description Interval E-value
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
6-43 2.34e-10

Transcription elongation factor, GreA/GreB family [Transcription];


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 51.28  E-value: 2.34e-10
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1278648216   6 VISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAVQ 43
Cdd:COG0782   119 KISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEIE 156
GreA_GreB pfam01272
Transcription elongation factor, GreA/GreB, C-term; This domain has an FKBP-like fold.
 6-42 2.58e-09

Transcription elongation factor, GreA/GreB, C-term; This domain has an FKBP-like fold.


Pssm-ID: 426171 [Multi-domain]  Cd Length: 77  Bit Score: 46.74  E-value: 2.58e-09
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 1278648216  6 VISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAV 42
Cdd:pfam01272 39 KISVLSPLGKALLGKKVGDTVEVTAPGGKIKYEILKI 75
greA PRK00226
transcription elongation factor GreA; Reviewed
 6-43 1.94e-08

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 46.25  E-value: 1.94e-08
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1278648216   6 VISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAVQ 43
Cdd:PRK00226  119 KISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 7-42 2.17e-06

transcription elongation factor GreA; The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreA differs functionally in that it releases smaller oligonucleotides. Because members of the family outside the Proteobacteria resemble GreA more closely than GreB, the GreB clade (TIGR01461) forms a plausible outgroup and the remainder of the GreA/B family, included in this model, is designated GreA. In the Chlamydias and some spirochetes, the region described by this model is found as the C-terminal region of a much larger protein. [Transcription, Transcription factors]


Pssm-ID: 273638 [Multi-domain]  Cd Length: 151  Bit Score: 40.68  E-value: 2.17e-06
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1278648216   7 ISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAV 42
Cdd:TIGR01462 115 ISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKI 150
 
Name Accession Description Interval E-value
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
6-43 2.34e-10

Transcription elongation factor, GreA/GreB family [Transcription];


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 51.28  E-value: 2.34e-10
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1278648216   6 VISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAVQ 43
Cdd:COG0782   119 KISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEIE 156
GreA_GreB pfam01272
Transcription elongation factor, GreA/GreB, C-term; This domain has an FKBP-like fold.
 6-42 2.58e-09

Transcription elongation factor, GreA/GreB, C-term; This domain has an FKBP-like fold.


Pssm-ID: 426171 [Multi-domain]  Cd Length: 77  Bit Score: 46.74  E-value: 2.58e-09
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 1278648216  6 VISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAV 42
Cdd:pfam01272 39 KISVLSPLGKALLGKKVGDTVEVTAPGGKIKYEILKI 75
greA PRK00226
transcription elongation factor GreA; Reviewed
 6-43 1.94e-08

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 46.25  E-value: 1.94e-08
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1278648216   6 VISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAVQ 43
Cdd:PRK00226  119 KISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 7-42 2.17e-06

transcription elongation factor GreA; The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreA differs functionally in that it releases smaller oligonucleotides. Because members of the family outside the Proteobacteria resemble GreA more closely than GreB, the GreB clade (TIGR01461) forms a plausible outgroup and the remainder of the GreA/B family, included in this model, is designated GreA. In the Chlamydias and some spirochetes, the region described by this model is found as the C-terminal region of a much larger protein. [Transcription, Transcription factors]


Pssm-ID: 273638 [Multi-domain]  Cd Length: 151  Bit Score: 40.68  E-value: 2.17e-06
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1278648216   7 ISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAV 42
Cdd:TIGR01462 115 ISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKI 150
greB PRK01885
transcription elongation factor GreB; Reviewed
 7-42 8.56e-05

transcription elongation factor GreB; Reviewed


Pssm-ID: 179345 [Multi-domain]  Cd Length: 157  Bit Score: 36.75  E-value: 8.56e-05
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1278648216   7 ISVFSPIGQAVIGLNVGNEFEVETPQETRAYEIVAV 42
Cdd:PRK01885  119 ISIDSPMARALLKKEVGDEVTVNTPAGEAEWYVNEI 154
PRK05753 PRK05753
nucleoside diphosphate kinase regulator; Provisional
 7-42 1.32e-04

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180236 [Multi-domain]  Cd Length: 137  Bit Score: 36.08  E-value: 1.32e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1278648216   7 ISVFSPIGQAVIGLNVGNEFEVETPQ-ETRAYEIVAV 42
Cdd:PRK05753   89 LSVLAPVGAALLGLSVGQSIDWPLPGgKETHLEVLEV 125
 
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