NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|501084823|ref|WP_012135312|]
View 

MULTISPECIES: transcription elongation factor GreA [Citrobacter]

Protein Classification

transcription elongation factor GreA( domain architecture ID 11478349)

transcription elongation factor GreA induces cleavage of the nascent transcript to allow the resumption of elongation from the new 3' terminus; releases sequences of 2 to 3 nucleotides

Gene Symbol:  greA
Gene Ontology:  GO:0006354|GO:0070063|GO:0003677
PubMed:  23251328|31103420
SCOP:  4000597|4001068

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 PRK00226
transcription elongation factor GreA; Reviewed
 1-157 4.79e-93

transcription elongation factor GreA; Reviewed


:

Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 266.59  E-value: 4.79e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823   1 MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKM 80
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 501084823  81 PnNGRVVFGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVEY 157
Cdd:PRK00226  82 S-GGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVEY 157
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 1-157 4.79e-93

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 266.59  E-value: 4.79e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823   1 MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKM 80
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 501084823  81 PnNGRVVFGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVEY 157
Cdd:PRK00226  82 S-GGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVEY 157
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
1-156 3.15e-80

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 233.87  E-value: 3.15e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823   1 MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKM 80
Cdd:COG0782    2 MKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 501084823  81 pNNGRVVFGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVE 156
Cdd:COG0782   82 -DTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEIE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 5-156 8.42e-75

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: 220.18  E-value: 8.42e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823    5 PMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKMPNNg 84
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTD- 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 501084823   85 RVVFGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVE 156
Cdd:TIGR01462  80 VVGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKIE 151
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 4-74 1.40e-35

Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 117.86  E-value: 1.40e-35
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 501084823    4 IPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQV 74
Cdd:pfam03449   1 IPLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 1-157 4.79e-93

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 266.59  E-value: 4.79e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823   1 MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKM 80
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 501084823  81 PnNGRVVFGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVEY 157
Cdd:PRK00226  82 S-GGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVEY 157
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
1-156 3.15e-80

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 233.87  E-value: 3.15e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823   1 MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKM 80
Cdd:COG0782    2 MKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 501084823  81 pNNGRVVFGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVE 156
Cdd:COG0782   82 -DTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEIE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 5-156 8.42e-75

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: 220.18  E-value: 8.42e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823    5 PMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKMPNNg 84
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTD- 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 501084823   85 RVVFGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVE 156
Cdd:TIGR01462  80 VVGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKIE 151
greB PRK01885
transcription elongation factor GreB; Reviewed
 6-157 4.00e-43

transcription elongation factor GreB; Reviewed


Pssm-ID: 179345 [Multi-domain]  Cd Length: 157  Bit Score: 139.98  E-value: 4.00e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823   6 MTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDvTKMPNNGR 85
Cdd:PRK01885   7 ITREGYARLKQELDYLWREERPEVTQKVSWAASLGDRSENADYIYGKKRLREIDRRVRFLTKRLENLKVVD-YSPQQEGK 85

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 501084823  86 VVFGATVTVLNlDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVEY 157
Cdd:PRK01885  86 VFFGAWVEIEN-EDGEEKRFRIVGPDEIDGRKGYISIDSPMARALLKKEVGDEVTVNTPAGEAEWYVNEIEY 156
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 4-74 1.40e-35

Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 117.86  E-value: 1.40e-35
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 501084823    4 IPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQV 74
Cdd:pfam03449   1 IPLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
GreA_GreB pfam01272
Transcription elongation factor, GreA/GreB, C-term; This domain has an FKBP-like fold.
 83-157 3.93e-33

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


Pssm-ID: 426171 [Multi-domain]  Cd Length: 77  Bit Score: 111.84  E-value: 3.93e-33
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 501084823   83 NGRVVFGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVEY 157
Cdd:pfam01272   3 ADVVTFGSTVTLEDLDTGEEETYTIVGPDEADPSKGKISVLSPLGKALLGKKVGDTVEVTAPGGKIKYEILKIEY 77
PRK14720 PRK14720
transcription elongation factor GreA;
7-156 4.25e-31

transcription elongation factor GreA;


Pssm-ID: 184804 [Multi-domain]  Cd Length: 906  Bit Score: 117.18  E-value: 4.25e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823   7 TLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKMpNNGRV 86
Cdd:PRK14720 753 TRRALNKKKKELEHLKDVEMPENSKDIGEAQELGDLRENAEYKAAKEKQQQLQAALKRLEAEIDSAKILDLTDV-KTSKV 831

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823  87 VFGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKVE 156
Cdd:PRK14720 832 GFGTKVKLKNEDTGEEESYSILGPWESDPEEGIISYQSPLGKSLLGKKEGDSLEFVINDTETRYTVLKIE 901
PRK06342 PRK06342
transcription elongation factor GreA;
31-153 4.68e-16

transcription elongation factor GreA;


Pssm-ID: 180535 [Multi-domain]  Cd Length: 160  Bit Score: 70.90  E-value: 4.68e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823  31 AAIAEAREHGDLKENAEYHAAREQQGfcEGRIKDI---EAKLSNAQVIDVTkmPNNGRVVFGATVTvLNLDNDEEQTWRI 107
Cdd:PRK06342  41 DQLAQARAAYEAAQAIEDVNERRRQM--ARPLRDLrylAARRRTAQLMPDP--ASTDVVAFGSTVT-FSRDDGRVQTYRI 115

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 501084823 108 VGDDEADFKQNLISVNSPIARGLVGKEQDDVVTikTPGGEVEYEVI 153
Cdd:PRK06342 116 VGEDEADPKAGSISYVSPVARALMGKAVGDVVS--VGGQELEIIAI 159
PRK06330 PRK06330
transcript cleavage factor/unknown domain fusion protein; Validated
 7-142 4.72e-10

transcript cleavage factor/unknown domain fusion protein; Validated


Pssm-ID: 235780 [Multi-domain]  Cd Length: 718  Bit Score: 56.68  E-value: 4.72e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823   7 TLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIdvTKmpnngRV 86
Cdd:PRK06330 570 TSESFTRMKNKLQSLVGKEMVENAKEIEDARALGDLRENSEYKFALEKRARLQEEIRVLSEEINRARIL--TK-----DD 642

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 501084823  87 VFGATVTV-----LNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIK 142
Cdd:PRK06330 643 VFTDKVGVgckvvLEDDQGDKVCYTILGPWDADPDNKILSLKSKLAQEMLGKKVGDSVQFQ 703
PRK05892 PRK05892
nucleoside diphosphate kinase regulator; Provisional
 14-155 7.82e-08

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180307 [Multi-domain]  Cd Length: 158  Bit Score: 49.00  E-value: 7.82e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823  14 LREELDFLKSvRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQvidvTKMPNNGRVVFGATVT 93
Cdd:PRK05892  16 LEAELARLRA-RRDRLAVEVNDRGMIGDHGDQAEAIQRADELARLDDRINELDRRLRTGP----TPWSGSETLPGGTEVT 90

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 501084823  94 vLNLDNDEEQTWRIVG-DDEADF--KQNLISVNSPIARGLVGKEQDDVVTIKTPGGEVEYEVIKV 155
Cdd:PRK05892  91 -LRFPDGEVETMHVISvVEETPVgrEAETLTADSPLGQALAGHQAGDTVTYSTPQGPAQVELLAV 154
PRK05753 PRK05753
nucleoside diphosphate kinase regulator; Provisional
 66-157 8.44e-08

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180236 [Multi-domain]  Cd Length: 137  Bit Score: 48.41  E-value: 8.44e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084823  66 EAKLSNAQVIDVTKMPNNgrVV-FGATVTVLNLDNDEEQTWRIVGDDEADFKQNLISVNSPIARGLVGKEQDDVVTIKTP 144
Cdd:PRK05753  36 NAELDRAQVVPPAEMPAD--VVtMNSRVRFRDLSSGEERVRTLVYPADADDSEGQLSVLAPVGAALLGLSVGQSIDWPLP 113

                         90
                 ....*....|....
gi 501084823 145 GGEV-EYEVIKVEY 157
Cdd:PRK05753 114 GGKEtHLEVLEVEY 127
 
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