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Conserved domains on  [gi|939657028|ref|XP_014276810|]
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cold shock domain-containing protein CG9705 isoform X1 [Halyomorpha halys]

Protein Classification

cold shock domain-containing protein( domain architecture ID 10138668)

cold shock domain-containing protein similar to mammalian calcium-regulated heat-stable protein 1, which binds mRNA and regulates the stability of target mRNA

CATH:  2.40.50.140
Gene Ontology:  GO:0003676
PubMed:  2184368|10377894|10322168
SCOP:  4001909

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CSP_CDS cd04458
Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in ...
 49-113 7.67e-18

Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.


:

Pssm-ID: 239905  Cd Length: 65  Bit Score: 71.84  E-value: 7.67e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 939657028  49 HGVVKQFSRSKGHGFIQRDSNGETLFVHISDVEGE--YVPLPGDKVTYRLCPIPpkfEKFQAVHVEI 113
Cdd:cd04458    2 TGTVKWFDDEKGFGFITPDDGGEDVFVHISALEGDgfRSLEEGDRVEFELEEGD---KGPQAVNVRL 65
 
Name Accession Description Interval E-value
CSP_CDS cd04458
Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in ...
 49-113 7.67e-18

Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.


Pssm-ID: 239905  Cd Length: 65  Bit Score: 71.84  E-value: 7.67e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 939657028  49 HGVVKQFSRSKGHGFIQRDSNGETLFVHISDVEGE--YVPLPGDKVTYRLCPIPpkfEKFQAVHVEI 113
Cdd:cd04458    2 TGTVKWFDDEKGFGFITPDDGGEDVFVHISALEGDgfRSLEEGDRVEFELEEGD---KGPQAVNVRL 65
CspC COG1278
Cold shock protein, CspA family [Transcription];
48-114 8.75e-13

Cold shock protein, CspA family [Transcription];


Pssm-ID: 440889  Cd Length: 67  Bit Score: 59.05  E-value: 8.75e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 939657028  48 EHGVVKQFSRSKGHGFIQRDSNGETLFVHISDVEGEYV--PLPGDKVTYRLCPIPpkfEKFQAVHVEIV 114
Cdd:COG1278    2 ATGTVKWFNAEKGFGFITPDDGGEDVFVHISALQRSGFrtLREGQRVEFEVEQGD---KGPQAVNVRVL 67
CSP smart00357
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ...
 50-114 3.00e-11

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: 54.91  E-value: 3.00e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 939657028    50 GVVKQFSrsKGHGFIQRDSNGETLFVHISDVE-GEYVPLPGDKVTYRLCPiPPKFEKFQAVHVEIV 114
Cdd:smart00357   2 GVVKWFN--KGFGFIRPDDGGKDVFVHPSQIQgGLKSLREGDEVEFKVVS-PEGGEKPEAENVVKL 64
CSD pfam00313
'Cold-shock' DNA-binding domain;
50-94 6.79e-09

'Cold-shock' DNA-binding domain;


Pssm-ID: 278729  Cd Length: 66  Bit Score: 48.78  E-value: 6.79e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 939657028   50 GVVKQFSRSKGHGFIQRDSNGETLFVHISDVEGE-YVPL-PGDKVTY 94
Cdd:pfam00313   3 GTVKWFNAKKGFGFITPEDGDKDVFVHFSAIQGDgFRSLqEGQKVEF 49
PRK09937 PRK09937
cold shock-like protein CspD;
48-81 1.47e-03

cold shock-like protein CspD;


Pssm-ID: 77494  Cd Length: 74  Bit Score: 35.09  E-value: 1.47e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 939657028  48 EHGVVKQFSRSKGHGFIQRDSNGETLFVHISDVE 81
Cdd:PRK09937   2 EKGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQ 35
 
Name Accession Description Interval E-value
CSP_CDS cd04458
Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in ...
 49-113 7.67e-18

Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.


Pssm-ID: 239905  Cd Length: 65  Bit Score: 71.84  E-value: 7.67e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 939657028  49 HGVVKQFSRSKGHGFIQRDSNGETLFVHISDVEGE--YVPLPGDKVTYRLCPIPpkfEKFQAVHVEI 113
Cdd:cd04458    2 TGTVKWFDDEKGFGFITPDDGGEDVFVHISALEGDgfRSLEEGDRVEFELEEGD---KGPQAVNVRL 65
CspC COG1278
Cold shock protein, CspA family [Transcription];
48-114 8.75e-13

Cold shock protein, CspA family [Transcription];


Pssm-ID: 440889  Cd Length: 67  Bit Score: 59.05  E-value: 8.75e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 939657028  48 EHGVVKQFSRSKGHGFIQRDSNGETLFVHISDVEGEYV--PLPGDKVTYRLCPIPpkfEKFQAVHVEIV 114
Cdd:COG1278    2 ATGTVKWFNAEKGFGFITPDDGGEDVFVHISALQRSGFrtLREGQRVEFEVEQGD---KGPQAVNVRVL 67
CSP smart00357
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ...
 50-114 3.00e-11

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: 54.91  E-value: 3.00e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 939657028    50 GVVKQFSrsKGHGFIQRDSNGETLFVHISDVE-GEYVPLPGDKVTYRLCPiPPKFEKFQAVHVEIV 114
Cdd:smart00357   2 GVVKWFN--KGFGFIRPDDGGKDVFVHPSQIQgGLKSLREGDEVEFKVVS-PEGGEKPEAENVVKL 64
CSD pfam00313
'Cold-shock' DNA-binding domain;
50-94 6.79e-09

'Cold-shock' DNA-binding domain;


Pssm-ID: 278729  Cd Length: 66  Bit Score: 48.78  E-value: 6.79e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 939657028   50 GVVKQFSRSKGHGFIQRDSNGETLFVHISDVEGE-YVPL-PGDKVTY 94
Cdd:pfam00313   3 GTVKWFNAKKGFGFITPEDGDKDVFVHFSAIQGDgFRSLqEGQKVEF 49
PRK09937 PRK09937
cold shock-like protein CspD;
48-81 1.47e-03

cold shock-like protein CspD;


Pssm-ID: 77494  Cd Length: 74  Bit Score: 35.09  E-value: 1.47e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 939657028  48 EHGVVKQFSRSKGHGFIQRDSNGETLFVHISDVE 81
Cdd:PRK09937   2 EKGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQ 35
PRK10354 PRK10354
RNA chaperone/antiterminator CspA;
50-94 1.95e-03

RNA chaperone/antiterminator CspA;


Pssm-ID: 182402  Cd Length: 70  Bit Score: 34.95  E-value: 1.95e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 939657028  50 GVVKQFSRSKGHGFIQRDSNGETLFVHISDVEGE-YVPL-PGDKVTY 94
Cdd:PRK10354   7 GIVKWFNADKGFGFITPDDGSKDVFVHFSAIQNDgYKSLdEGQKVSF 53
PRK10943 PRK10943
cold shock-like protein CspC; Provisional
 50-82 6.48e-03

cold shock-like protein CspC; Provisional


Pssm-ID: 170841  Cd Length: 69  Bit Score: 33.50  E-value: 6.48e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 939657028  50 GVVKQFSRSKGHGFIQRDSNGETLFVHISDVEG 82
Cdd:PRK10943   6 GQVKWFNESKGFGFITPADGSKDVFVHFSAIQG 38
 
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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