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Conserved domains on  [gi|239781595|gb|ACS16041|]
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nonstructural 5A protein, partial [Hepacivirus hominis]

Protein Classification

nonstructural protein 5A( domain architecture ID 10478825)

nonstructural protein 5A (NS5A) is essential in genome replication and in the assembly of infectious virions

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 3.67e-141

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: 403.55  E-value: 3.67e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595  207 SHITAEAARRRLTRGSPPSEASSSASQLSAPSLKATCTTNHDSPDAELVEANLLWRQEMGGNITRVESENKVVILDSFDP 286
Cdd:pfam12941   1 SHITAEAAGRRLARGSPPSMASSSASQLSAPSLKATCTANHDSPDAELIEANLLWRQEMGGNITRVESENKVVILDSFDP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595  287 LVAEEDEREISVPAEILRKSRRFAQALPVWARPDYNPPLIETWKKPDYEPPVVHGCPLPPPRSPPVPPPRKKRTVVLTES 366
Cdd:pfam12941  81 LVAEEDEREVSVPAEILRKSRRFAPALPVWARPDYNPLLVETWKKPDYEPPVVHGCPLPPPRSPPVPPPRKKRTVVLTES 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595  367 TVSTALAELATKSFGSSSTSGITGDDTTTSSEPAPSGCPPDSDAESCSSMPPLEGEPGDPDLSDGSWSTVSSGAGTEDVV 446
Cdd:pfam12941 161 TLPTALAELATKSFGSSSTSGITGDNTTTSSEPAPSGCPPDSDVESYSSMPPLEGEPGDPDLSDGSWSTVSSGADTEDVV 240


                  ..
gi 239781595  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 1.30e-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: 166.77  E-value: 1.30e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595   96 GPCTPLPAPNYKFALWRVSAEEYVEIRQVGDFHYVTGMTTDNLkCPCQVPSPEFF--TELDGVRLHRFAPPCKPLLRDEV 173
Cdd:pfam08301   1 GPAVPLPPPNYGPALWRVGAEDYVEVVRVGDTHYVTATSCYNL-CPCQVPRPEFFapTEVDGVRVSWYAPPCKPLLVYEV 79

                          90       100
                  ....*....|....*....|...
gi 239781595  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 9.42e-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: 9.42e-09
                          10        20
                  ....*....|....*....|...
gi 239781595    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 3.67e-141

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: 403.55  E-value: 3.67e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595  207 SHITAEAARRRLTRGSPPSEASSSASQLSAPSLKATCTTNHDSPDAELVEANLLWRQEMGGNITRVESENKVVILDSFDP 286
Cdd:pfam12941   1 SHITAEAAGRRLARGSPPSMASSSASQLSAPSLKATCTANHDSPDAELIEANLLWRQEMGGNITRVESENKVVILDSFDP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595  287 LVAEEDEREISVPAEILRKSRRFAQALPVWARPDYNPPLIETWKKPDYEPPVVHGCPLPPPRSPPVPPPRKKRTVVLTES 366
Cdd:pfam12941  81 LVAEEDEREVSVPAEILRKSRRFAPALPVWARPDYNPLLVETWKKPDYEPPVVHGCPLPPPRSPPVPPPRKKRTVVLTES 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595  367 TVSTALAELATKSFGSSSTSGITGDDTTTSSEPAPSGCPPDSDAESCSSMPPLEGEPGDPDLSDGSWSTVSSGAGTEDVV 446
Cdd:pfam12941 161 TLPTALAELATKSFGSSSTSGITGDNTTTSSEPAPSGCPPDSDVESYSSMPPLEGEPGDPDLSDGSWSTVSSGADTEDVV 240


                  ..
gi 239781595  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 1.30e-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: 166.77  E-value: 1.30e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595   96 GPCTPLPAPNYKFALWRVSAEEYVEIRQVGDFHYVTGMTTDNLkCPCQVPSPEFF--TELDGVRLHRFAPPCKPLLRDEV 173
Cdd:pfam08301   1 GPAVPLPPPNYGPALWRVGAEDYVEVVRVGDTHYVTATSCYNL-CPCQVPRPEFFapTEVDGVRVSWYAPPCKPLLVYEV 79

                          90       100
                  ....*....|....*....|...
gi 239781595  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 9.42e-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: 9.42e-09
                          10        20
                  ....*....|....*....|...
gi 239781595    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 3.67e-141

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: 403.55  E-value: 3.67e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595  207 SHITAEAARRRLTRGSPPSEASSSASQLSAPSLKATCTTNHDSPDAELVEANLLWRQEMGGNITRVESENKVVILDSFDP 286
Cdd:pfam12941   1 SHITAEAAGRRLARGSPPSMASSSASQLSAPSLKATCTANHDSPDAELIEANLLWRQEMGGNITRVESENKVVILDSFDP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595  287 LVAEEDEREISVPAEILRKSRRFAQALPVWARPDYNPPLIETWKKPDYEPPVVHGCPLPPPRSPPVPPPRKKRTVVLTES 366
Cdd:pfam12941  81 LVAEEDEREVSVPAEILRKSRRFAPALPVWARPDYNPLLVETWKKPDYEPPVVHGCPLPPPRSPPVPPPRKKRTVVLTES 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595  367 TVSTALAELATKSFGSSSTSGITGDDTTTSSEPAPSGCPPDSDAESCSSMPPLEGEPGDPDLSDGSWSTVSSGAGTEDVV 446
Cdd:pfam12941 161 TLPTALAELATKSFGSSSTSGITGDNTTTSSEPAPSGCPPDSDVESYSSMPPLEGEPGDPDLSDGSWSTVSSGADTEDVV 240


                  ..
gi 239781595  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 1.30e-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: 166.77  E-value: 1.30e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 239781595   96 GPCTPLPAPNYKFALWRVSAEEYVEIRQVGDFHYVTGMTTDNLkCPCQVPSPEFF--TELDGVRLHRFAPPCKPLLRDEV 173
Cdd:pfam08301   1 GPAVPLPPPNYGPALWRVGAEDYVEVVRVGDTHYVTATSCYNL-CPCQVPRPEFFapTEVDGVRVSWYAPPCKPLLVYEV 79

                          90       100
                  ....*....|....*....|...
gi 239781595  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 9.42e-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: 9.42e-09
                          10        20
                  ....*....|....*....|...
gi 239781595    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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