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Conserved domains on  [gi|489818189|ref|WP_003722004|]
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MULTISPECIES: transcription elongation factor GreA [Listeria]

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
 4-157 4.22e-82

transcription elongation factor GreA; Reviewed


:

Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 238.85  E-value: 4.22e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189   4 EKVFPMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAEA 83
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489818189  84 HNGLVTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKI 157
Cdd:PRK00226  82 SGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSV 155
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 4-157 4.22e-82

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 238.85  E-value: 4.22e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189   4 EKVFPMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAEA 83
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489818189  84 HNGLVTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKI 157
Cdd:PRK00226  82 SGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSV 155
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
3-158 2.72e-76

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 224.24  E-value: 2.72e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189   3 TEKVFPMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAE 82
Cdd:COG0782    1 MMKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSK 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489818189  83 AHNGLVTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKIT 158
Cdd:COG0782   81 LDTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEIE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 8-158 1.65e-69

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: 206.70  E-value: 1.65e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189    8 PMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAEAHNGL 87
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTDV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489818189   88 VTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKIT 158
Cdd:TIGR01462  81 VGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKIE 151
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 7-77 2.73e-32

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


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 109.78  E-value: 2.73e-32
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489818189    7 FPMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQI 77
Cdd:pfam03449   1 IPLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 4-157 4.22e-82

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 238.85  E-value: 4.22e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189   4 EKVFPMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAEA 83
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489818189  84 HNGLVTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKI 157
Cdd:PRK00226  82 SGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSV 155
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
3-158 2.72e-76

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 224.24  E-value: 2.72e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189   3 TEKVFPMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAE 82
Cdd:COG0782    1 MMKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSK 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489818189  83 AHNGLVTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKIT 158
Cdd:COG0782   81 LDTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEIE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 8-158 1.65e-69

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: 206.70  E-value: 1.65e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189    8 PMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAEAHNGL 87
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTDV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489818189   88 VTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKIT 158
Cdd:TIGR01462  81 VGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKIE 151
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 7-77 2.73e-32

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


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 109.78  E-value: 2.73e-32
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489818189    7 FPMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQI 77
Cdd:pfam03449   1 IPLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
greB PRK01885
transcription elongation factor GreB; Reviewed
 9-157 1.25e-31

transcription elongation factor GreB; Reviewed


Pssm-ID: 179345 [Multi-domain]  Cd Length: 157  Bit Score: 110.71  E-value: 1.25e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189   9 MTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDeqafvegRITTIENMIR-------NAQIIDAA 81
Cdd:PRK01885   7 ITREGYARLKQELDYLWREERPEVTQKVSWAASLGDRSENADYIYGKK-------RLREIDRRVRfltkrleNLKVVDYS 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489818189  82 EAHNGLVTLGNTVTfIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKI 157
Cdd:PRK01885  80 PQQEGKVFFGAWVE-IENEDGEEKRFRIVGPDEIDGRKGYISIDSPMARALLKKEVGDEVTVNTPAGEAEWYVNEI 154
PRK14720 PRK14720
transcription elongation factor GreA;
3-157 2.34e-31

transcription elongation factor GreA;


Pssm-ID: 184804 [Multi-domain]  Cd Length: 906  Bit Score: 118.33  E-value: 2.34e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189   3 TEKVFPMTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAE 82
Cdd:PRK14720 746 PEIGFLVTRRALNKKKKELEHLKDVEMPENSKDIGEAQELGDLRENAEYKAAKEKQQQLQAALKRLEAEIDSAKILDLTD 825

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 489818189  83 AHNGLVTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKI 157
Cdd:PRK14720 826 VKTSKVGFGTKVKLKNEDTGEEESYSILGPWESDPEEGIISYQSPLGKSLLGKKEGDSLEFVINDTETRYTVLKI 900
GreA_GreB pfam01272
Transcription elongation factor, GreA/GreB, C-term; This domain has an FKBP-like fold.
 85-158 8.79e-31

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


Pssm-ID: 426171 [Multi-domain]  Cd Length: 77  Bit Score: 106.06  E-value: 8.79e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489818189   85 NGLVTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKIT 158
Cdd:pfam01272   3 ADVVTFGSTVTLEDLDTGEEETYTIVGPDEADPSKGKISVLSPLGKALLGKKVGDTVEVTAPGGKIKYEILKIE 76
greB TIGR01461
transcription elongation factor GreB; The GreA and GreB transcription elongation factors ...
 9-157 1.71e-26

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: 97.64  E-value: 1.71e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189    9 MTLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAEAHNGLV 88
Cdd:TIGR01461   5 ITPEGYEKLKQELNYLWREERPEVTQKVTWAASLGDRSENADYQYGKKRLREIDRRVRFLTKRLENLKVVDYSPQQEGKV 84

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489818189   89 TLGNTVTfIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKI 157
Cdd:TIGR01461  85 FFGAWVE-LENDDGVTHRFRIVGYDEIDGRKNYISIDSPLARALLKKEVGDEVVVNTPAGEASWYVNAI 152
PRK06330 PRK06330
transcript cleavage factor/unknown domain fusion protein; Validated
 10-144 5.02e-18

transcript cleavage factor/unknown domain fusion protein; Validated


Pssm-ID: 235780 [Multi-domain]  Cd Length: 718  Bit Score: 79.79  E-value: 5.02e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189  10 TLDGKAKLENELQELKTVKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQIIDAAEAHNGLVT 89
Cdd:PRK06330 570 TSESFTRMKNKLQSLVGKEMVENAKEIEDARALGDLRENSEYKFALEKRARLQEEIRVLSEEINRARILTKDDVFTDKVG 649

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 489818189  90 LGNTVTFIElPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQ 144
Cdd:PRK06330 650 VGCKVVLED-DQGDKVCYTILGPWDADPDNKILSLKSKLAQEMLGKKVGDSVQFQ 703
PRK05892 PRK05892
nucleoside diphosphate kinase regulator; Provisional
 14-158 6.54e-15

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180307 [Multi-domain]  Cd Length: 158  Bit Score: 67.88  E-value: 6.54e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189  14 KAKLENELQELKTvKRKEVVERIKIARSFGDLSENSEYDSAKDEQAFVEGRITTIENMIRNAQiidAAEAHNGLVTLGNT 93
Cdd:PRK05892  13 RDHLEAELARLRA-RRDRLAVEVNDRGMIGDHGDQAEAIQRADELARLDDRINELDRRLRTGP---TPWSGSETLPGGTE 88

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489818189  94 VTfIELPDGEEETYTIVGSAEADPfEGK----ISNDSPIAKGLLGHKEGEEVTIQTPAGDMSVKIEKIT 158
Cdd:PRK05892  89 VT-LRFPDGEVETMHVISVVEETP-VGReaetLTADSPLGQALAGHQAGDTVTYSTPQGPAQVELLAVK 155
PRK06342 PRK06342
transcription elongation factor GreA;
72-157 4.20e-13

transcription elongation factor GreA;


Pssm-ID: 180535 [Multi-domain]  Cd Length: 160  Bit Score: 63.19  E-value: 4.20e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489818189  72 IRNAQIIdAAEAHNGLVTLGNTVTFiELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVtiqtPAGDMS 151
Cdd:PRK06342  80 RRTAQLM-PDPASTDVVAFGSTVTF-SRDDGRVQTYRIVGEDEADPKAGSISYVSPVARALMGKAVGDVV----SVGGQE 153


                 ....*.
gi 489818189 152 VKIEKI 157
Cdd:PRK06342 154 LEIIAI 159
PRK05753 PRK05753
nucleoside diphosphate kinase regulator; Provisional
 75-149 1.14e-11

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180236 [Multi-domain]  Cd Length: 137  Bit Score: 58.81  E-value: 1.14e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 489818189  75 AQIIDAAEAHNGLVTLGNTVTFIELPDGEEETYTIVGSAEADPFEGKISNDSPIAKGLLGHKEGEEVTIQTPAGD 149
Cdd:PRK05753  42 AQVVPPAEMPADVVTMNSRVRFRDLSSGEERVRTLVYPADADDSEGQLSVLAPVGAALLGLSVGQSIDWPLPGGK 116
 
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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