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Conserved domains on  [gi|239781579|gb|ACS16033|]
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nonstructural 5A protein, partial [Hepacivirus hominis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HCV_NS5a_C super family cl15181
HCV NS5a protein C-terminal region; This is a family of proteins found in the hepatitis C ...
 207-448 1.22e-139

HCV NS5a protein C-terminal region; This is a family of proteins found in the hepatitis C virus. This family contains the C-terminal region of the NS5A protein. CC The molecular function of the non-structural 5a protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR.


The actual alignment was detected with superfamily member pfam12941:

Pssm-ID: 289693  Cd Length: 242  Bit Score: 399.70  E-value: 1.22e-139
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579  207 SHITAEVAGRRLARGSPPSVASSSASQLSAPPLKATCTTNHDSPDAELIEANLLWKQEMGGNITRVESENKVVILDSFDP 286
Cdd:pfam12941   1 SHITAEAAGRRLARGSPPSMASSSASQLSAPSLKATCTANHDSPDAELIEANLLWRQEMGGNITRVESENKVVILDSFDP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579  287 LVAEEDEREISVPAEILRKSRRFAQALPVWARPDYNPPLVETWKKPDYEPPVVHGCPLPPPQSPPVPPPRKKRMVVLTES 366
Cdd:pfam12941  81 LVAEEDEREVSVPAEILRKSRRFAPALPVWARPDYNPLLVETWKKPDYEPPVVHGCPLPPPRSPPVPPPRKKRTVVLTES 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579  367 TVSTALAELATKSFGSSSTSGITGDNTTTPSEPTSSGCPPDSDAESYSSMPPLEGEPGDPDLSDGSWSTVSSEASTEDVV 446
Cdd:pfam12941 161 TLPTALAELATKSFGSSSTSGITGDNTTTSSEPAPSGCPPDSDVESYSSMPPLEGEPGDPDLSDGSWSTVSSGADTEDVV 240


                  ..
gi 239781579  447 CC 448
Cdd:pfam12941 241 CC 242
HCV_NS5a_1b pfam08301
Hepatitis C virus non-structural 5a domain 1b; The molecular function of the non-structural 5a ...
 96-196 2.03e-50

Hepatitis C virus non-structural 5a domain 1b; The molecular function of the non-structural 5a protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR. This region corresponds to the 1b domain.


:

Pssm-ID: 149382  Cd Length: 102  Bit Score: 166.00  E-value: 2.03e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579   96 GPCTPLPAPNYTFALWRVSAEDYVEIRQVGDFHYVTGMTTDNLkCPCQVPSPEFF--TELDGVRLHRFAPPCKPLLREEV 173
Cdd:pfam08301   1 GPAVPLPPPNYGPALWRVGAEDYVEVVRVGDTHYVTATSCYNL-CPCQVPRPEFFapTEVDGVRVSWYAPPCKPLLVYEV 79

                          90       100
                  ....*....|....*....|...
gi 239781579  174 SFRVGLHEYPVGSQLPCEPEPDV 196
Cdd:pfam08301  80 GQSVGLDGYGVRSQLPCELEPDV 102
HCV_NS5a pfam01506
Hepatitis C virus non-structural 5a protein membrane anchor; The molecular function of the ...
 2-24 8.06e-09

Hepatitis C virus non-structural 5a protein membrane anchor; The molecular function of the non-structural 5a protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR. The N-terminal region of the NS5a protein has been used in the construction of the alignment for this family. The C-terminal region has not been included because it is too heterogeneous.


:

Pssm-ID: 366682  Cd Length: 23  Bit Score: 50.66  E-value: 8.06e-09
                          10        20
                  ....*....|....*....|...
gi 239781579    2 GSWLRDIWDWICEVLSDFKTWLK 24
Cdd:pfam01506   1 SSWLWDIWDWVCRVLRDFKNWLK 23
 
Name Accession Description Interval E-value
HCV_NS5a_C pfam12941
HCV NS5a protein C-terminal region; This is a family of proteins found in the hepatitis C ...
 207-448 1.22e-139

HCV NS5a protein C-terminal region; This is a family of proteins found in the hepatitis C virus. This family contains the C-terminal region of the NS5A protein. CC The molecular function of the non-structural 5a protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR.


Pssm-ID: 289693  Cd Length: 242  Bit Score: 399.70  E-value: 1.22e-139
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579  207 SHITAEVAGRRLARGSPPSVASSSASQLSAPPLKATCTTNHDSPDAELIEANLLWKQEMGGNITRVESENKVVILDSFDP 286
Cdd:pfam12941   1 SHITAEAAGRRLARGSPPSMASSSASQLSAPSLKATCTANHDSPDAELIEANLLWRQEMGGNITRVESENKVVILDSFDP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579  287 LVAEEDEREISVPAEILRKSRRFAQALPVWARPDYNPPLVETWKKPDYEPPVVHGCPLPPPQSPPVPPPRKKRMVVLTES 366
Cdd:pfam12941  81 LVAEEDEREVSVPAEILRKSRRFAPALPVWARPDYNPLLVETWKKPDYEPPVVHGCPLPPPRSPPVPPPRKKRTVVLTES 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579  367 TVSTALAELATKSFGSSSTSGITGDNTTTPSEPTSSGCPPDSDAESYSSMPPLEGEPGDPDLSDGSWSTVSSEASTEDVV 446
Cdd:pfam12941 161 TLPTALAELATKSFGSSSTSGITGDNTTTSSEPAPSGCPPDSDVESYSSMPPLEGEPGDPDLSDGSWSTVSSGADTEDVV 240


                  ..
gi 239781579  447 CC 448
Cdd:pfam12941 241 CC 242
HCV_NS5a_1b pfam08301
Hepatitis C virus non-structural 5a domain 1b; The molecular function of the non-structural 5a ...
 96-196 2.03e-50

Hepatitis C virus non-structural 5a domain 1b; The molecular function of the non-structural 5a protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR. This region corresponds to the 1b domain.


Pssm-ID: 149382  Cd Length: 102  Bit Score: 166.00  E-value: 2.03e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579   96 GPCTPLPAPNYTFALWRVSAEDYVEIRQVGDFHYVTGMTTDNLkCPCQVPSPEFF--TELDGVRLHRFAPPCKPLLREEV 173
Cdd:pfam08301   1 GPAVPLPPPNYGPALWRVGAEDYVEVVRVGDTHYVTATSCYNL-CPCQVPRPEFFapTEVDGVRVSWYAPPCKPLLVYEV 79

                          90       100
                  ....*....|....*....|...
gi 239781579  174 SFRVGLHEYPVGSQLPCEPEPDV 196
Cdd:pfam08301  80 GQSVGLDGYGVRSQLPCELEPDV 102
HCV_NS5a pfam01506
Hepatitis C virus non-structural 5a protein membrane anchor; The molecular function of the ...
 2-24 8.06e-09

Hepatitis C virus non-structural 5a protein membrane anchor; The molecular function of the non-structural 5a protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR. The N-terminal region of the NS5a protein has been used in the construction of the alignment for this family. The C-terminal region has not been included because it is too heterogeneous.


Pssm-ID: 366682  Cd Length: 23  Bit Score: 50.66  E-value: 8.06e-09
                          10        20
                  ....*....|....*....|...
gi 239781579    2 GSWLRDIWDWICEVLSDFKTWLK 24
Cdd:pfam01506   1 SSWLWDIWDWVCRVLRDFKNWLK 23
 
Name Accession Description Interval E-value
HCV_NS5a_C pfam12941
HCV NS5a protein C-terminal region; This is a family of proteins found in the hepatitis C ...
 207-448 1.22e-139

HCV NS5a protein C-terminal region; This is a family of proteins found in the hepatitis C virus. This family contains the C-terminal region of the NS5A protein. CC The molecular function of the non-structural 5a protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR.


Pssm-ID: 289693  Cd Length: 242  Bit Score: 399.70  E-value: 1.22e-139
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579  207 SHITAEVAGRRLARGSPPSVASSSASQLSAPPLKATCTTNHDSPDAELIEANLLWKQEMGGNITRVESENKVVILDSFDP 286
Cdd:pfam12941   1 SHITAEAAGRRLARGSPPSMASSSASQLSAPSLKATCTANHDSPDAELIEANLLWRQEMGGNITRVESENKVVILDSFDP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579  287 LVAEEDEREISVPAEILRKSRRFAQALPVWARPDYNPPLVETWKKPDYEPPVVHGCPLPPPQSPPVPPPRKKRMVVLTES 366
Cdd:pfam12941  81 LVAEEDEREVSVPAEILRKSRRFAPALPVWARPDYNPLLVETWKKPDYEPPVVHGCPLPPPRSPPVPPPRKKRTVVLTES 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579  367 TVSTALAELATKSFGSSSTSGITGDNTTTPSEPTSSGCPPDSDAESYSSMPPLEGEPGDPDLSDGSWSTVSSEASTEDVV 446
Cdd:pfam12941 161 TLPTALAELATKSFGSSSTSGITGDNTTTSSEPAPSGCPPDSDVESYSSMPPLEGEPGDPDLSDGSWSTVSSGADTEDVV 240


                  ..
gi 239781579  447 CC 448
Cdd:pfam12941 241 CC 242
HCV_NS5a_1b pfam08301
Hepatitis C virus non-structural 5a domain 1b; The molecular function of the non-structural 5a ...
 96-196 2.03e-50

Hepatitis C virus non-structural 5a domain 1b; The molecular function of the non-structural 5a protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR. This region corresponds to the 1b domain.


Pssm-ID: 149382  Cd Length: 102  Bit Score: 166.00  E-value: 2.03e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781579   96 GPCTPLPAPNYTFALWRVSAEDYVEIRQVGDFHYVTGMTTDNLkCPCQVPSPEFF--TELDGVRLHRFAPPCKPLLREEV 173
Cdd:pfam08301   1 GPAVPLPPPNYGPALWRVGAEDYVEVVRVGDTHYVTATSCYNL-CPCQVPRPEFFapTEVDGVRVSWYAPPCKPLLVYEV 79

                          90       100
                  ....*....|....*....|...
gi 239781579  174 SFRVGLHEYPVGSQLPCEPEPDV 196
Cdd:pfam08301  80 GQSVGLDGYGVRSQLPCELEPDV 102
HCV_NS5a pfam01506
Hepatitis C virus non-structural 5a protein membrane anchor; The molecular function of the ...
 2-24 8.06e-09

Hepatitis C virus non-structural 5a protein membrane anchor; The molecular function of the non-structural 5a protein is uncertain. The NS5a protein is phosphorylated when expressed in mammalian cells. It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR. The N-terminal region of the NS5a protein has been used in the construction of the alignment for this family. The C-terminal region has not been included because it is too heterogeneous.


Pssm-ID: 366682  Cd Length: 23  Bit Score: 50.66  E-value: 8.06e-09
                          10        20
                  ....*....|....*....|...
gi 239781579    2 GSWLRDIWDWICEVLSDFKTWLK 24
Cdd:pfam01506   1 SSWLWDIWDWVCRVLRDFKNWLK 23
 
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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