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Conserved domains on  [gi|499998596|ref|WP_011679314|]
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MULTISPECIES: transcription elongation factor GreA [Leuconostoc]

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

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List of domain hits

 Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 3-158 1.24e-73

transcription elongation factor GreA; Reviewed


:

Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 217.28  E-value: 1.24e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596   3 EEKTYPMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNA 82
Cdd:PRK00226   1 MMKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSK 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499998596  83 TAKDEVSLGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNGiSIDVEIINV 158
Cdd:PRK00226  81 LSGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGG-EYEYEILSV 155
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 3-158 1.24e-73

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 217.28  E-value: 1.24e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596   3 EEKTYPMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNA 82
Cdd:PRK00226   1 MMKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSK 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499998596  83 TAKDEVSLGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNGiSIDVEIINV 158
Cdd:PRK00226  81 LSGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGG-EYEYEILSV 155
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
3-159 4.92e-70

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 208.44  E-value: 4.92e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596   3 EEKTYPMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNA 82
Cdd:COG0782    1 MMKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSK 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499998596  83 TAKDEVSLGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNGIsIDVEIINVT 159
Cdd:COG0782   81 LDTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGE-REYEILEIE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 8-159 1.18e-63

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: 192.06  E-value: 1.18e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596    8 PMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNATAKDE 87
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTDV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 499998596   88 VSLGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNGiSIDVEIINVT 159
Cdd:TIGR01462  81 VGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKG-EKEYEILKIE 151
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 7-77 1.03e-30

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


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 105.54  E-value: 1.03e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 499998596    7 YPMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEI 77
Cdd:pfam03449   1 IPLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 3-158 1.24e-73

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 217.28  E-value: 1.24e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596   3 EEKTYPMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNA 82
Cdd:PRK00226   1 MMKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSK 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499998596  83 TAKDEVSLGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNGiSIDVEIINV 158
Cdd:PRK00226  81 LSGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGG-EYEYEILSV 155
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
3-159 4.92e-70

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 208.44  E-value: 4.92e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596   3 EEKTYPMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNA 82
Cdd:COG0782    1 MMKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSK 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499998596  83 TAKDEVSLGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNGIsIDVEIINVT 159
Cdd:COG0782   81 LDTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGE-REYEILEIE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 8-159 1.18e-63

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: 192.06  E-value: 1.18e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596    8 PMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNATAKDE 87
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTDV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 499998596   88 VSLGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNGiSIDVEIINVT 159
Cdd:TIGR01462  81 VGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKG-EKEYEILKIE 151
greB PRK01885
transcription elongation factor GreB; Reviewed
 9-149 1.29e-32

transcription elongation factor GreB; Reviewed


Pssm-ID: 179345 [Multi-domain]  Cd Length: 157  Bit Score: 113.41  E-value: 1.29e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596   9 MTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNATAKDEV 88
Cdd:PRK01885   7 ITREGYARLKQELDYLWREERPEVTQKVSWAASLGDRSENADYIYGKKRLREIDRRVRFLTKRLENLKVVDYSPQQEGKV 86

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 499998596  89 SLGKTVtfkELPNEEPE--TYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNGI 149
Cdd:PRK01885  87 FFGAWV---EIENEDGEekRFRIVGPDEIDGRKGYISIDSPMARALLKKEVGDEVTVNTPAGE 146
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 7-77 1.03e-30

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


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 105.54  E-value: 1.03e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 499998596    7 YPMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEI 77
Cdd:pfam03449   1 IPLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
PRK14720 PRK14720
transcription elongation factor GreA;
10-141 1.30e-26

transcription elongation factor GreA;


Pssm-ID: 184804 [Multi-domain]  Cd Length: 906  Bit Score: 104.47  E-value: 1.30e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596  10 TAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNATAKDEVS 89
Cdd:PRK14720 753 TRRALNKKKKELEHLKDVEMPENSKDIGEAQELGDLRENAEYKAAKEKQQQLQAALKRLEAEIDSAKILDLTDVKTSKVG 832

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 499998596  90 LGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETV 141
Cdd:PRK14720 833 FGTKVKLKNEDTGEEESYSILGPWESDPEEGIISYQSPLGKSLLGKKEGDSL 884
GreA_GreB pfam01272
Transcription elongation factor, GreA/GreB, C-term; This domain has an FKBP-like fold.
 84-160 2.03e-26

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


Pssm-ID: 426171 [Multi-domain]  Cd Length: 77  Bit Score: 94.89  E-value: 2.03e-26
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499998596   84 AKDEVSLGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNGiSIDVEIINVTK 160
Cdd:pfam01272   2 PADVVTFGSTVTLEDLDTGEEETYTIVGPDEADPSKGKISVLSPLGKALLGKKVGDTVEVTAPGG-KIKYEILKIEY 77
greB TIGR01461
transcription elongation factor GreB; The GreA and GreB transcription elongation factors ...
 5-148 1.13e-23

transcription elongation factor GreB; 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. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB. [Transcription, Transcription factors]


Pssm-ID: 130528 [Multi-domain]  Cd Length: 156  Bit Score: 90.32  E-value: 1.13e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596    5 KTYPMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNATA 84
Cdd:TIGR01461   1 KTPLITPEGYEKLKQELNYLWREERPEVTQKVTWAASLGDRSENADYQYGKKRLREIDRRVRFLTKRLENLKVVDYSPQQ 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 499998596   85 KDEVSLGKTVTFKELPNEEpETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPLPNG 148
Cdd:TIGR01461  81 EGKVFFGAWVELENDDGVT-HRFRIVGYDEIDGRKNYISIDSPLARALLKKEVGDEVVVNTPAG 143
PRK06330 PRK06330
transcript cleavage factor/unknown domain fusion protein; Validated
 3-141 4.48e-20

transcript cleavage factor/unknown domain fusion protein; Validated


Pssm-ID: 235780 [Multi-domain]  Cd Length: 718  Bit Score: 85.96  E-value: 4.48e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596   3 EEKTYPMTAEGRDKLQLELEDLIANQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIIDSNA 82
Cdd:PRK06330 563 EEEILWTTSESFTRMKNKLQSLVGKEMVENAKEIEDARALGDLRENSEYKFALEKRARLQEEIRVLSEEINRARILTKDD 642

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 499998596  83 TAKDEVSLGKTVTFKElPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETV 141
Cdd:PRK06330 643 VFTDKVGVGCKVVLED-DQGDKVCYTILGPWDADPDNKILSLKSKLAQEMLGKKVGDSV 700
PRK06342 PRK06342
transcription elongation factor GreA;
83-144 2.03e-13

transcription elongation factor GreA;


Pssm-ID: 180535 [Multi-domain]  Cd Length: 160  Bit Score: 63.96  E-value: 2.03e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 499998596  83 TAKDEVSLGKTVTFkELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVP 144
Cdd:PRK06342  90 ASTDVVAFGSTVTF-SRDDGRVQTYRIVGEDEADPKAGSISYVSPVARALMGKAVGDVVSVG 150
PRK05753 PRK05753
nucleoside diphosphate kinase regulator; Provisional
 66-159 3.21e-10

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180236 [Multi-domain]  Cd Length: 137  Bit Score: 54.95  E-value: 3.21e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596  66 QTLKNMIDNAEIIDSNATAKDEVSLGKTVTFKELPNEEPETYAIVGSVEADPLAGKISNESPMANALIGKKVGETVAVPL 145
Cdd:PRK05753  33 EALNAELDRAQVVPPAEMPADVVTMNSRVRFRDLSSGEERVRTLVYPADADDSEGQLSVLAPVGAALLGLSVGQSIDWPL 112

                         90
                 ....*....|....
gi 499998596 146 PNGISIDVEIINVT 159
Cdd:PRK05753 113 PGGKETHLEVLEVE 126
PRK05892 PRK05892
nucleoside diphosphate kinase regulator; Provisional
 5-159 3.31e-08

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180307 [Multi-domain]  Cd Length: 158  Bit Score: 49.77  E-value: 3.31e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499998596   5 KTYPMTAEGRDKLQLELEDLIAnQRPEITKRIQIARSYGDLSENSEYQSAKDEQAFVEGRIQTLKNMIDNAEIidsNATA 84
Cdd:PRK05892   4 KSKGLAPAARDHLEAELARLRA-RRDRLAVEVNDRGMIGDHGDQAEAIQRADELARLDDRINELDRRLRTGPT---PWSG 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 499998596  85 KDEVSLGKTVTFKeLPNEEPETYAIVGSVEADPL---AGKISNESPMANALIGKKVGETVAVPLPNGISiDVEIINVT 159
Cdd:PRK05892  80 SETLPGGTEVTLR-FPDGEVETMHVISVVEETPVgreAETLTADSPLGQALAGHQAGDTVTYSTPQGPA-QVELLAVK 155
 
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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