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Conserved domains on  [gi|488943503|ref|WP_002854578|]
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MULTISPECIES: transcription elongation factor GreA [Campylobacter]

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 1.72e-79

transcription elongation factor GreA; Reviewed


:

Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 232.31  E-value: 1.72e-79
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503   1 MQKEPMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSY 80
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 488943503  81 EHDSVKFGSSVVIIDLDTEKESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSINY 156
Cdd:PRK00226  82 SGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVEY 157
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 1-156 1.72e-79

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 232.31  E-value: 1.72e-79
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503   1 MQKEPMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSY 80
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 488943503  81 EHDSVKFGSSVVIIDLDTEKESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSINY 156
Cdd:PRK00226  82 SGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVEY 157
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 5-155 2.00e-74

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: 219.41  E-value: 2.00e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503    5 PMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSYEHDS 84
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTDV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488943503   85 VKFGSSVVIIDLDTEKESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSIN 155
Cdd:TIGR01462  81 VGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKIE 151
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
1-154 2.33e-72

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 214.22  E-value: 2.33e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503   1 MQKEPMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSY 80
Cdd:COG0782    2 MKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488943503  81 EHDSVKFGSSVVIIDLDTEKESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSI 154
Cdd:COG0782   82 DTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEI 155
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 5-74 2.14e-30

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


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 104.77  E-value: 2.14e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503    5 PMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQV 74
Cdd:pfam03449   2 PLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
 
Name Accession Description Interval E-value
greA PRK00226
transcription elongation factor GreA; Reviewed
 1-156 1.72e-79

transcription elongation factor GreA; Reviewed


Pssm-ID: 234693 [Multi-domain]  Cd Length: 157  Bit Score: 232.31  E-value: 1.72e-79
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503   1 MQKEPMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSY 80
Cdd:PRK00226   2 MKKIPMTQEGYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLSNAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 488943503  81 EHDSVKFGSSVVIIDLDTEKESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSINY 156
Cdd:PRK00226  82 SGGKVKFGSTVTLKDLDTDEEETYQIVGSDEADPKQGKISIESPIARALIGKKVGDTVEVTTPGGEYEYEILSVEY 157
greA TIGR01462
transcription elongation factor GreA; The GreA and GreB transcription elongation factors ...
 5-155 2.00e-74

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: 219.41  E-value: 2.00e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503    5 PMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSYEHDS 84
Cdd:TIGR01462   1 PLTQEGYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDSKLSTDV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488943503   85 VKFGSSVVIIDLDTEKESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSIN 155
Cdd:TIGR01462  81 VGFGSTVTIKDLDTGEEETYTIVGSWEADPKEGKISIDSPLGKALIGKKVGDSVEVQTPKGEKEYEILKIE 151
GreA COG0782
Transcription elongation factor, GreA/GreB family [Transcription];
1-154 2.33e-72

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


Pssm-ID: 440545 [Multi-domain]  Cd Length: 156  Bit Score: 214.22  E-value: 2.33e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503   1 MQKEPMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSY 80
Cdd:COG0782    2 MKKNYLTPEGYEKLKAELEELKTVERPEIAEAIAEARAEGDLSENAEYDAAKEEQGFIEGRIRELEKRLANAEVIDPSKL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488943503  81 EHDSVKFGSSVVIIDLDTEKESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSI 154
Cdd:COG0782   82 DTDKVFFGATVTLEDLEDGEEETYTIVGPDEADPKKGKISIESPLGRALLGKKVGDEVEVTTPGGEREYEILEI 155
greB PRK01885
transcription elongation factor GreB; Reviewed
 10-157 2.84e-39

transcription elongation factor GreB; Reviewed


Pssm-ID: 179345 [Multi-domain]  Cd Length: 157  Bit Score: 130.35  E-value: 2.84e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503  10 GYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSYEHDSVKFGS 89
Cdd:PRK01885  11 GYARLKQELDYLWREERPEVTQKVSWAASLGDRSENADYIYGKKRLREIDRRVRFLTKRLENLKVVDYSPQQEGKVFFGA 90

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 488943503  90 SVVIIDLDTEkESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSINYE 157
Cdd:PRK01885  91 WVEIENEDGE-EKRFRIVGPDEIDGRKGYISIDSPMARALLKKEVGDEVTVNTPAGEAEWYVNEIEYV 157
GreA_GreB_N pfam03449
Transcription elongation factor, N-terminal; This domain adopts a long alpha-hairpin structure.
 5-74 2.14e-30

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


Pssm-ID: 460920 [Multi-domain]  Cd Length: 71  Bit Score: 104.77  E-value: 2.14e-30
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503    5 PMSQFGYDKLAAELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQV 74
Cdd:pfam03449   2 PLTREGYEKLKEELEHLKTVERPEIAEAIAEAREHGDLSENAEYDAAKEEQAFIEARIRELEDKLANAEV 71
PRK14720 PRK14720
transcription elongation factor GreA;
17-154 4.29e-30

transcription elongation factor GreA;


Pssm-ID: 184804 [Multi-domain]  Cd Length: 906  Bit Score: 114.48  E-value: 4.29e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503  17 ELKDLKDNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSYEHDSVKFGSSVVIIDL 96
Cdd:PRK14720 763 ELEHLKDVEMPENSKDIGEAQELGDLRENAEYKAAKEKQQQLQAALKRLEAEIDSAKILDLTDVKTSKVGFGTKVKLKNE 842

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 488943503  97 DTEKESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSI 154
Cdd:PRK14720 843 DTGEEESYSILGPWESDPEEGIISYQSPLGKSLLGKKEGDSLEFVINDTETRYTVLKI 900
GreA_GreB pfam01272
Transcription elongation factor, GreA/GreB, C-term; This domain has an FKBP-like fold.
 82-156 3.38e-29

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


Pssm-ID: 426171 [Multi-domain]  Cd Length: 77  Bit Score: 102.21  E-value: 3.38e-29
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488943503   82 HDSVKFGSSVVIIDLDTEKESKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSINY 156
Cdd:pfam01272   3 ADVVTFGSTVTLEDLDTGEEETYTIVGPDEADPSKGKISVLSPLGKALLGKKVGDTVEVTAPGGKIKYEILKIEY 77
PRK06330 PRK06330
transcript cleavage factor/unknown domain fusion protein; Validated
 10-154 1.08e-20

transcript cleavage factor/unknown domain fusion protein; Validated


Pssm-ID: 235780 [Multi-domain]  Cd Length: 718  Bit Score: 87.50  E-value: 1.08e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503  10 GYDKLAAEL-----KDLKDNQRpavviEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQVIDPSSYEHDS 84
Cdd:PRK06330 573 SFTRMKNKLqslvgKEMVENAK-----EIEDARALGDLRENSEYKFALEKRARLQEEIRVLSEEINRARILTKDDVFTDK 647

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503  85 VKFGSSVVIIDLDTEKEsKYTLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVrlpKGEsEFEILSI 154
Cdd:PRK06330 648 VGVGCKVVLEDDQGDKV-CYTILGPWDADPDNKILSLKSKLAQEMLGKKVGDSVQF---QGK-KYKISRI 712
PRK05753 PRK05753
nucleoside diphosphate kinase regulator; Provisional
 26-158 1.73e-14

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180236 [Multi-domain]  Cd Length: 137  Bit Score: 66.12  E-value: 1.73e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503  26 RPAVVI-EIDTARSHGdLKENAEYHAAREKQALIesriAELSdllaRAQVIDPSSYEHDSVKFGSSVVIIDLDTEKESKY 104
Cdd:PRK05753   4 KPTIIInELDAERLDR-LLEQPAFAGPPIAEALN----AELD----RAQVVPPAEMPADVVTMNSRVRFRDLSSGEERVR 74

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 488943503 105 TLVGICEGDLDKGYISIASPIAKAMLGKKEGDDFKVRLPKGES-EFEILSINYEP 158
Cdd:PRK05753  75 TLVYPADADDSEGQLSVLAPVGAALLGLSVGQSIDWPLPGGKEtHLEVLEVEYQP 129
PRK06342 PRK06342
transcription elongation factor GreA;
34-154 2.47e-10

transcription elongation factor GreA;


Pssm-ID: 180535 [Multi-domain]  Cd Length: 160  Bit Score: 55.87  E-value: 2.47e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503  34 DTARSHGDLKEnaeyhaaREKQALIESRIAE-LSDLLARAQVI-DPSSYehDSVKFGSSVVIiDLDTEKESKYTLVGICE 111
Cdd:PRK06342  51 EAAQAIEDVNE-------RRRQMARPLRDLRyLAARRRTAQLMpDPAST--DVVAFGSTVTF-SRDDGRVQTYRIVGEDE 120

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 488943503 112 GDLDKGYISIASPIAKAMLGKKEGDDFKVrlpkGESEFEILSI 154
Cdd:PRK06342 121 ADPKAGSISYVSPVARALMGKAVGDVVSV----GGQELEIIAI 159
PRK05892 PRK05892
nucleoside diphosphate kinase regulator; Provisional
 12-154 3.80e-10

nucleoside diphosphate kinase regulator; Provisional


Pssm-ID: 180307 [Multi-domain]  Cd Length: 158  Bit Score: 55.17  E-value: 3.80e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943503  12 DKLAAELKDLKdNQRPAVVIEIDTARSHGDLKENAEYHAAREKQALIESRIAELSDLLARAQvidPSSYEHDSVKFGSSV 91
Cdd:PRK05892  14 DHLEAELARLR-ARRDRLAVEVNDRGMIGDHGDQAEAIQRADELARLDDRINELDRRLRTGP---TPWSGSETLPGGTEV 89

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488943503  92 VIIDLDTEKESkYTLVGICE----GDlDKGYISIASPIAKAMLGKKEGDDFKVRLPKGESEFEILSI 154
Cdd:PRK05892  90 TLRFPDGEVET-MHVISVVEetpvGR-EAETLTADSPLGQALAGHQAGDTVTYSTPQGPAQVELLAV 154
 
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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