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Conserved domains on  [gi|54037214|sp|P64272|]
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RecName: Full=Transcription elongation factor GreA; AltName: Full=Transcript cleavage factor GreA

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
 1-156 1.17e-87

transcription elongation factor GreA; Reviewed


:

Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 252.72  E-value: 1.17e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214    1 MEKFPMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKL 80
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 54037214   81 TGDRIKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALKF 156
Cdd:PRK00226  82 SGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVEY 157
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 1-156 1.17e-87

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 252.72  E-value: 1.17e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214    1 MEKFPMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKL 80
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 54037214   81 TGDRIKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALKF 156
Cdd:PRK00226  82 SGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVEY 157
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
1-155 8.09e-77

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 225.39  E-value: 8.09e-77
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214   1 MEKFPMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKL 80
Cdd:COG0782   2 MKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSKL 81

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 54037214  81 TGDRIKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALK 155
Cdd:COG0782  82 DTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEIE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 5-155 2.81e-72

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: 213.63  E-value: 2.81e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214     5 PMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKLTGDR 84
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTDV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 54037214    85 IKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALK 155
Cdd:TIGR01462  81 VGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKIE 151
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 4-74 2.87e-31

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


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 107.08  E-value: 2.87e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 54037214     4 FPMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEV 74
Cdd:pfam03449   1 IPLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 1-156 1.17e-87

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 252.72  E-value: 1.17e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214    1 MEKFPMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKL 80
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 54037214   81 TGDRIKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALKF 156
Cdd:PRK00226  82 SGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVEY 157
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
1-155 8.09e-77

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 225.39  E-value: 8.09e-77
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214   1 MEKFPMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKL 80
Cdd:COG0782   2 MKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSKL 81

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 54037214  81 TGDRIKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALK 155
Cdd:COG0782  82 DTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEIE 156
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 5-155 2.81e-72

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: 213.63  E-value: 2.81e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214     5 PMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKLTGDR 84
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTDV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 54037214    85 IKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALK 155
Cdd:TIGR01462  81 VGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKIE 151
greB PRK01885
transcription elongation factor GreB; Reviewed
 6-157 6.48e-39

transcription elongation factor GreB; Reviewed


Pssm-ID: 179345 [Multi-domain]  Cd Length: 157  Bit Score: 129.20  E-value: 6.48e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214    6 MTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKeaQSLNE--GRINELEDLVARAEVIDVSKLTGD 83
Cdd:PRK01885   7 ITREGYARLKQELDYLWREERPEVTQKVSWAASLGDRSENADYIYGK--KRLREidRRVRFLTKRLENLKVVDYSPQQEG 84

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 54037214   84 RIKFGATVTMIDEDtEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALKFV 157
Cdd:PRK01885  85 KVFFGAWVEIENED-GEEKRFRIVGPDEIDGRKGYISIDSPMARALLKKEVGDEVTVNTPAGEAEWYVNEIEYV 157
greB TIGR01461
transcription elongation factor GreB; The GreA and GreB transcription elongation factors ...
 6-157 1.33e-31

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: 110.74  E-value: 1.33e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214     6 MTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKLTGDRI 85
Cdd:TIGR01461   5 ITPEGYEKLKQELNYLWREERPEVTQKVTWAASLGDRSENADYQYGKKRLREIDRRVRFLTKRLENLKVVDYSPQQEGKV 84

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 54037214    86 KFGATVTMIDEDTEEEKiYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALKFV 157
Cdd:TIGR01461  85 FFGAWVELENDDGVTHR-FRIVGYDEIDGRKNYISIDSPLARALLKKEVGDEVVVNTPAGEASWYVNAIEYV 155
PRK14720 PRK14720
transcription elongation factor GreA;
4-152 2.76e-31

transcription elongation factor GreA;


Pssm-ID: 184804 [Multi-domain]  Cd Length: 906  Bit Score: 117.95  E-value: 2.76e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214    4 FPMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKLTGD 83
Cdd:PRK14720 750 FLVTRRALNKKKKELEHLKDVEMPENSKDIGEAQELGDLRENAEYKAAKEKQQQLQAALKRLEAEIDSAKILDLTDVKTS 829

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 54037214   84 RIKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEII 152
Cdd:PRK14720 830 KVGFGTKVKLKNEDTGEEESYSILGPWESDPEEGIISYQSPLGKSLLGKKEGDSLEFVINDTETRYTVL 898
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 4-74 2.87e-31

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


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 107.08  E-value: 2.87e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 54037214     4 FPMTPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEV 74
Cdd:pfam03449   1 IPLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
GreA_GreB pfam01272
Transcription elongation factor, GreA/GreB, C-term; This domain has an FKBP-like fold.
 80-156 1.04e-30

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


Pssm-ID: 426171 [Multi-domain]  Cd Length: 77  Bit Score: 105.68  E-value: 1.04e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 54037214    80 LTGDRIKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGGSRSYEIIALKF 156
Cdd:pfam01272   1 LPADVVTFGSTVTLEDLDTGEEETYTIVGPDEADPSKGKISVLSPLGKALLGKKVGDTVEVTAPGGKIKYEILKIEY 77
PRK06342 PRK06342
transcription elongation factor GreA;
32-154 1.75e-15

transcription elongation factor GreA;


Pssm-ID: 180535 [Multi-domain]  Cd Length: 160  Bit Score: 69.36  E-value: 1.75e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214   32 AIAEARAhgdlsenaEYHAAKEAQSLNEGRINE---LEDL------VARAEVIDVSKlTGDRIKFGATVTMIDEDTEEEK 102
Cdd:PRK06342  42 QLAQARA--------AYEAAQAIEDVNERRRQMarpLRDLrylaarRRTAQLMPDPA-STDVVAFGSTVTFSRDDGRVQT 112

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 54037214  103 iYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVnapgGSRSYEIIAL 154
Cdd:PRK06342 113 -YRIVGEDEADPKAGSISYVSPVARALMGKAVGDVVSV----GGQELEIIAI 159
PRK06330 PRK06330
transcript cleavage factor/unknown domain fusion protein; Validated
 7-138 2.17e-15

transcript cleavage factor/unknown domain fusion protein; Validated


Pssm-ID: 235780 [Multi-domain]  Cd Length: 718  Bit Score: 72.09  E-value: 2.17e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214    7 TPRGFEKLKEELRWRQQSERPRIIEAIAEARAHGDLSENAEYHAAKEAQSLNEGRINELEDLVARAEVIDVSKLTGDRIK 86
Cdd:PRK06330 570 TSESFTRMKNKLQSLVGKEMVENAKEIEDARALGDLRENSEYKFALEKRARLQEEIRVLSEEINRARILTKDDVFTDKVG 649

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 54037214   87 FGATVTMIDEDTEEEKiYQIVGDQEADVKEGRISISSPIARALIGKGEGDTI 138
Cdd:PRK06330 650 VGCKVVLEDDQGDKVC-YTILGPWDADPDNKILSLKSKLAQEMLGKKVGDSV 700
PRK05753 PRK05753
nucleoside diphosphate kinase regulator; Provisional
 24-154 4.03e-12

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180236 [Multi-domain]  Cd Length: 137  Bit Score: 59.96  E-value: 4.03e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214   24 SERPRIIeaIAE---ARAHGdLSENAEYHAAKEAQSLNEgrinELEdlvaRAEVIDVSKLTGDRIKFGATVTMIDEDTEE 100
Cdd:PRK05753   2 MTKPTII--INEldaERLDR-LLEQPAFAGPPIAEALNA----ELD----RAQVVPPAEMPADVVTMNSRVRFRDLSSGE 70

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 54037214  101 EKIYQIVGDQEADVKEGRISISSPIARALIGKGEGDTIEVNAPGG-SRSYEIIAL 154
Cdd:PRK05753  71 ERVRTLVYPADADDSEGQLSVLAPVGAALLGLSVGQSIDWPLPGGkETHLEVLEV 125
PRK05892 PRK05892
nucleoside diphosphate kinase regulator; Provisional
 5-155 3.57e-07

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180307 [Multi-domain]  Cd Length: 158  Bit Score: 47.08  E-value: 3.57e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 54037214    5 PMTPRGFEKLKEELRwRQQSERPRIIEAIAEARAHGDLSENAE-YHAAKEAQSLNEgRINELEDLVARAEVidvSKLTGD 83
Cdd:PRK05892   7 GLAPAARDHLEAELA-RLRARRDRLAVEVNDRGMIGDHGDQAEaIQRADELARLDD-RINELDRRLRTGPT---PWSGSE 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 54037214   84 RIKFGATVTMIDEDTEEEKIYQIVGDQEADVKEGRISIS--SPIARALIGKGEGDTIEVNAPGGSRSYEIIALK 155
Cdd:PRK05892  82 TLPGGTEVTLRFPDGEVETMHVISVVEETPVGREAETLTadSPLGQALAGHQAGDTVTYSTPQGPAQVELLAVK 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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