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Conserved domains on  [gi|922889989|gb|KOO55072|]
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cold-shock protein [Edwardsiella ictaluri]

Protein Classification

cold-shock protein( domain architecture ID 10003418)

cold-shock protein (Csp) such as bacterial CspA and CspB involved in cold stress response

CATH:  2.40.50.140
Gene Ontology:  GO:0003676
PubMed:  9371456|12530521

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CspC COG1278
Cold shock protein, CspA family [Transcription];
6-68 1.19e-18

Cold shock protein, CspA family [Transcription];


:

Pssm-ID: 440889  Cd Length: 67  Bit Score: 71.38  E-value: 1.19e-18
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 922889989  6 GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVIA 68
Cdd:COG1278   4 GTVKWFNAEKGFGFITPDDGGEDVFVHISALQRSGFRTLREGQRVEFEVEQGDKGPQAVNVRV 66
 
Name Accession Description Interval E-value
CspC COG1278
Cold shock protein, CspA family [Transcription];
6-68 1.19e-18

Cold shock protein, CspA family [Transcription];


Pssm-ID: 440889  Cd Length: 67  Bit Score: 71.38  E-value: 1.19e-18
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 922889989  6 GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVIA 68
Cdd:COG1278   4 GTVKWFNAEKGFGFITPDDGGEDVFVHISALQRSGFRTLREGQRVEFEVEQGDKGPQAVNVRV 66
cspE PRK09507
cold shock-like protein CspE;
6-68 3.73e-13

cold shock-like protein CspE;


Pssm-ID: 169931  Cd Length: 69  Bit Score: 57.74  E-value: 3.73e-13
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 922889989  6 GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVIA 68
Cdd:PRK09507  6 GNVKWFNESKGFGFITPEDGSKDVFVHFSAIQTNGFKTLAEGQRVEFEITNGAKGPSAANVIA 68
CSD pfam00313
'Cold-shock' DNA-binding domain;
6-67 6.95e-10

'Cold-shock' DNA-binding domain;


Pssm-ID: 278729  Cd Length: 66  Bit Score: 49.16  E-value: 6.95e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 922889989   6 GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVI 67
Cdd:pfam00313  3 GTVKWFNAKKGFGFITPEDGDKDVFVHFSAIQGDGFRSLQEGQKVEFEVVEGTKGPQAANVT 64
CSP smart00357
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ...
 5-53 2.40e-06

Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.


Pssm-ID: 214633 [Multi-domain]  Cd Length: 64  Bit Score: 40.27  E-value: 2.40e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 922889989    5 MGFVKWYDptAGLGVISPLDGGDDLYVSRTGIASAHNKLlREGQRVEFS 53
Cdd:smart00357  1 TGVVKWFN--KGFGFIRPDDGGKDVFVHPSQIQGGLKSL-REGDEVEFK 46
 
Name Accession Description Interval E-value
CspC COG1278
Cold shock protein, CspA family [Transcription];
6-68 1.19e-18

Cold shock protein, CspA family [Transcription];


Pssm-ID: 440889  Cd Length: 67  Bit Score: 71.38  E-value: 1.19e-18
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 922889989  6 GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVIA 68
Cdd:COG1278   4 GTVKWFNAEKGFGFITPDDGGEDVFVHISALQRSGFRTLREGQRVEFEVEQGDKGPQAVNVRV 66
cspE PRK09507
cold shock-like protein CspE;
6-68 3.73e-13

cold shock-like protein CspE;


Pssm-ID: 169931  Cd Length: 69  Bit Score: 57.74  E-value: 3.73e-13
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 922889989  6 GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVIA 68
Cdd:PRK09507  6 GNVKWFNESKGFGFITPEDGSKDVFVHFSAIQTNGFKTLAEGQRVEFEITNGAKGPSAANVIA 68
PRK10354 PRK10354
RNA chaperone/antiterminator CspA;
1-68 4.12e-11

RNA chaperone/antiterminator CspA;


Pssm-ID: 182402  Cd Length: 70  Bit Score: 52.67  E-value: 4.12e-11
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 922889989  1 MILKM-GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVIA 68
Cdd:PRK10354  1 MSGKMtGIVKWFNADKGFGFITPDDGSKDVFVHFSAIQNDGYKSLDEGQKVSFTIESGAKGPAAGNVTS 69
PRK10943 PRK10943
cold shock-like protein CspC; Provisional
 6-68 3.04e-10

cold shock-like protein CspC; Provisional


Pssm-ID: 170841  Cd Length: 69  Bit Score: 50.45  E-value: 3.04e-10
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 922889989  6 GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVIA 68
Cdd:PRK10943  6 GQVKWFNESKGFGFITPADGSKDVFVHFSAIQGNGFKTLAEGQNVEFEIQDGQKGPAAVNVTA 68
CSD pfam00313
'Cold-shock' DNA-binding domain;
6-67 6.95e-10

'Cold-shock' DNA-binding domain;


Pssm-ID: 278729  Cd Length: 66  Bit Score: 49.16  E-value: 6.95e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 922889989   6 GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVI 67
Cdd:pfam00313  3 GTVKWFNAKKGFGFITPEDGDKDVFVHFSAIQGDGFRSLQEGQKVEFEVVEGTKGPQAANVT 64
PRK09937 PRK09937
cold shock-like protein CspD;
3-67 7.48e-07

cold shock-like protein CspD;


Pssm-ID: 77494  Cd Length: 74  Bit Score: 42.03  E-value: 7.48e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 922889989  3 LKMGFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDVI 67
Cdd:PRK09937  1 MEKGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVQFDVHQGPKGNHASVIV 65
CSP smart00357
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ...
 5-53 2.40e-06

Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.


Pssm-ID: 214633 [Multi-domain]  Cd Length: 64  Bit Score: 40.27  E-value: 2.40e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 922889989    5 MGFVKWYDptAGLGVISPLDGGDDLYVSRTGIASAHNKLlREGQRVEFS 53
Cdd:smart00357  1 TGVVKWFN--KGFGFIRPDDGGKDVFVHPSQIQGGLKSL-REGDEVEFK 46
PRK15463 PRK15463
cold shock-like protein CspF; Provisional
 1-66 1.48e-05

cold shock-like protein CspF; Provisional


Pssm-ID: 185360  Cd Length: 70  Bit Score: 38.34  E-value: 1.48e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 922889989  1 MILKM-GFVKWYDPTAGLGVISPLDGGDDLYVSRTGIASAHNKLLREGQRVEFSTPCGRRSQMAEDV 66
Cdd:PRK15463  1 MSRKMtGIVKTFDGKSGKGLITPSDGRKDVQVHISALNLRDAEELTTGLRVEFCRINGLRGPTAANV 67
 
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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