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Conserved domains on  [gi|2237054752|gb|UQJ70581|]
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outer capsid spike protein VP4, partial [Rotavirus A]

Protein Classification

outer capsid protein VP4( domain architecture ID 13205333)

rotavirus outer capsid protein VP4 is a spike-forming protein that mediates virion attachment to the host epithelial cell receptors and plays a major role in cell penetration, determination of host range restriction and virulence

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Rota_VP4_MID pfam17477
Rotavirus VP4 membrane interaction domain; This entry represents the VP4 membrane interaction ...
 249-473 2.59e-131

Rotavirus VP4 membrane interaction domain; This entry represents the VP4 membrane interaction domain.


:

Pssm-ID: 407512  Cd Length: 225  Bit Score: 389.31  E-value: 2.59e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 249 VNEDITISKTSLWKEMQYNRDIIIRFKFGNNVIKLGGLGYKWSEISYKAANYQYSYSRDGEQVTAHTTCSVNGVNNFSYN 328
Cdd:pfam17477   1 ANEDIVISKTSLWKEMQYNRDITIRFKFASEIVKSGGLGYKWSEISFKPANYQYTYTRDGEEVTAHTTCSVNGVNDFAFN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 329 GGSLPTDFSISRYEVIKENSYVYIDYWDDSKAFRNMVYVRSLAANLNSVKCVGGSYDFRLPVGEWPIMNGGAVSLHFAGV 408
Cdd:pfam17477  81 GGSLPTDFVISRFEVIKENSYVYIDYWDDSQAFRNMVYVRSLAANLNSVMCTGGSYYFQLPVGQWPVLTGGAVSLHSAGV 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2237054752 409 TLSTQFTDFVSLNSLRFRFSLTVDEPSFSIIRTRTVNLYGLPAANPNNGNEYYEVSGRFSLISLV 473
Cdd:pfam17477 161 TLSTQFTDFVSLNSLRFRFRLVVEEPWFDITRTRVARLYGLPAADPNNGKEYYETAGRFSLISLV 225
VP4_helical super family cl38751
Rotavirus VP4 helical domain;
485-775 1.81e-126

Rotavirus VP4 helical domain;


The actual alignment was detected with superfamily member pfam17478:

Pssm-ID: 465429  Cd Length: 291  Bit Score: 379.50  E-value: 1.81e-126
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 485 NSVTVRQDLERQLNDLREEFNSLSQEIAMSQLIDLALLPLDMFSMFSGIKSTIDLTKSMATSVMKKFRKSKLATSISEMT 564
Cdd:pfam17478   1 NSVTVRQDLERQLGELREEFNALSQEIAMSQLIDLALLPLDMFSMFSGIKSTIDAAKSMATSVMKKFKKSGLANSVSTLT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 565 NSLSDAASSASRSASIRSNLSTISNWSDASKSVLNVTDSVNDISTQTSTISKKLRLKEMITQTEGISFDDISAAVLKTKI 644
Cdd:pfam17478  81 DSLSDAASSISRGSSIRSIGSSASAWTDVSTQITDLSSSVSSVSTQTSTISRRLRLKEMATQTEGMNFDDISAAVLKTKI 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 645 DMSTQIGKNTLPDIVTEASEKFIPKRSYRVLKDDEVMEVNTEGKFFAYKVDTLNEIPFDINKFAELVTDSPVISAIIDFK 724
Cdd:pfam17478 161 DRSTQISPNTFPDIVTEASEKFIPNRAYRVINNDTVFEAGTDGRFFAYDVKTFQEIPFDVQKFADLVTDSPVISAIIDFK 240

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2237054752 725 TLKNLNDNYGITRIEALNLIKSNPNVLRNFINQNNPIIRNRIEQLILQCKL 775
Cdd:pfam17478 241 TLKNLNDNYGISDQQAFNLLRSDPRVLREFINQDNPIIRNRIEQLIMQCRL 291
VP4_haemagglut super family cl28744
Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain; This entry represents the ...
 65-213 1.91e-16

Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain; This entry represents the N-terminal concanavalin-like domain from the VP4 protein of rotavirus.


The actual alignment was detected with superfamily member pfam00426:

Pssm-ID: 395342  Cd Length: 193  Bit Score: 78.52  E-value: 1.91e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752  65 LDGPYQPTTFKPPNDYWLLISSNTDGVVYESTN--NSDFW-------TAVIAVEPHVSPTNRQYVLFG---ENKQFNVEN 132
Cdd:pfam00426   1 IDGPHQNTTFNPPVDYWMLLAPTTPGVIIEGSNliNTDRWllyqkplNATILIEHGPDSENRNLAAFEiwyGKEGLTISS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 133 -----SSDKWKFFEMFKG------SSQSDFSNRRTLTSN---------------NRLVGMLKYGGRIWTFHGETPRA--- 183
Cdd:pfam00426  81 vyyntINDQNKFHDANKDclilfwNEGSTQLEKQVTTANgnigqygilikpinsPKLRACMKGMEKFYTYEGQTPNAdsa 160

                         170       180       190
                  ....*....|....*....|....*....|...
gi 2237054752 184 ---TTDSSNTADLNNISIIIHSEFYIIPRSQES 213
Cdd:pfam00426 161 hweNTNHDFPRSNPGININAFCDFFIIPRSAES 193
 
Name Accession Description Interval E-value
Rota_VP4_MID pfam17477
Rotavirus VP4 membrane interaction domain; This entry represents the VP4 membrane interaction ...
 249-473 2.59e-131

Rotavirus VP4 membrane interaction domain; This entry represents the VP4 membrane interaction domain.


Pssm-ID: 407512  Cd Length: 225  Bit Score: 389.31  E-value: 2.59e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 249 VNEDITISKTSLWKEMQYNRDIIIRFKFGNNVIKLGGLGYKWSEISYKAANYQYSYSRDGEQVTAHTTCSVNGVNNFSYN 328
Cdd:pfam17477   1 ANEDIVISKTSLWKEMQYNRDITIRFKFASEIVKSGGLGYKWSEISFKPANYQYTYTRDGEEVTAHTTCSVNGVNDFAFN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 329 GGSLPTDFSISRYEVIKENSYVYIDYWDDSKAFRNMVYVRSLAANLNSVKCVGGSYDFRLPVGEWPIMNGGAVSLHFAGV 408
Cdd:pfam17477  81 GGSLPTDFVISRFEVIKENSYVYIDYWDDSQAFRNMVYVRSLAANLNSVMCTGGSYYFQLPVGQWPVLTGGAVSLHSAGV 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2237054752 409 TLSTQFTDFVSLNSLRFRFSLTVDEPSFSIIRTRTVNLYGLPAANPNNGNEYYEVSGRFSLISLV 473
Cdd:pfam17477 161 TLSTQFTDFVSLNSLRFRFRLVVEEPWFDITRTRVARLYGLPAADPNNGKEYYETAGRFSLISLV 225
VP4_helical pfam17478
Rotavirus VP4 helical domain;
485-775 1.81e-126

Rotavirus VP4 helical domain;


Pssm-ID: 465429  Cd Length: 291  Bit Score: 379.50  E-value: 1.81e-126
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 485 NSVTVRQDLERQLNDLREEFNSLSQEIAMSQLIDLALLPLDMFSMFSGIKSTIDLTKSMATSVMKKFRKSKLATSISEMT 564
Cdd:pfam17478   1 NSVTVRQDLERQLGELREEFNALSQEIAMSQLIDLALLPLDMFSMFSGIKSTIDAAKSMATSVMKKFKKSGLANSVSTLT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 565 NSLSDAASSASRSASIRSNLSTISNWSDASKSVLNVTDSVNDISTQTSTISKKLRLKEMITQTEGISFDDISAAVLKTKI 644
Cdd:pfam17478  81 DSLSDAASSISRGSSIRSIGSSASAWTDVSTQITDLSSSVSSVSTQTSTISRRLRLKEMATQTEGMNFDDISAAVLKTKI 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 645 DMSTQIGKNTLPDIVTEASEKFIPKRSYRVLKDDEVMEVNTEGKFFAYKVDTLNEIPFDINKFAELVTDSPVISAIIDFK 724
Cdd:pfam17478 161 DRSTQISPNTFPDIVTEASEKFIPNRAYRVINNDTVFEAGTDGRFFAYDVKTFQEIPFDVQKFADLVTDSPVISAIIDFK 240

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2237054752 725 TLKNLNDNYGITRIEALNLIKSNPNVLRNFINQNNPIIRNRIEQLILQCKL 775
Cdd:pfam17478 241 TLKNLNDNYGISDQQAFNLLRSDPRVLREFINQDNPIIRNRIEQLIMQCRL 291
VP4_haemagglut pfam00426
Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain; This entry represents the ...
 65-213 1.91e-16

Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain; This entry represents the N-terminal concanavalin-like domain from the VP4 protein of rotavirus.


Pssm-ID: 395342  Cd Length: 193  Bit Score: 78.52  E-value: 1.91e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752  65 LDGPYQPTTFKPPNDYWLLISSNTDGVVYESTN--NSDFW-------TAVIAVEPHVSPTNRQYVLFG---ENKQFNVEN 132
Cdd:pfam00426   1 IDGPHQNTTFNPPVDYWMLLAPTTPGVIIEGSNliNTDRWllyqkplNATILIEHGPDSENRNLAAFEiwyGKEGLTISS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 133 -----SSDKWKFFEMFKG------SSQSDFSNRRTLTSN---------------NRLVGMLKYGGRIWTFHGETPRA--- 183
Cdd:pfam00426  81 vyyntINDQNKFHDANKDclilfwNEGSTQLEKQVTTANgnigqygilikpinsPKLRACMKGMEKFYTYEGQTPNAdsa 160

                         170       180       190
                  ....*....|....*....|....*....|...
gi 2237054752 184 ---TTDSSNTADLNNISIIIHSEFYIIPRSQES 213
Cdd:pfam00426 161 hweNTNHDFPRSNPGININAFCDFFIIPRSAES 193
 
Name Accession Description Interval E-value
Rota_VP4_MID pfam17477
Rotavirus VP4 membrane interaction domain; This entry represents the VP4 membrane interaction ...
 249-473 2.59e-131

Rotavirus VP4 membrane interaction domain; This entry represents the VP4 membrane interaction domain.


Pssm-ID: 407512  Cd Length: 225  Bit Score: 389.31  E-value: 2.59e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 249 VNEDITISKTSLWKEMQYNRDIIIRFKFGNNVIKLGGLGYKWSEISYKAANYQYSYSRDGEQVTAHTTCSVNGVNNFSYN 328
Cdd:pfam17477   1 ANEDIVISKTSLWKEMQYNRDITIRFKFASEIVKSGGLGYKWSEISFKPANYQYTYTRDGEEVTAHTTCSVNGVNDFAFN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 329 GGSLPTDFSISRYEVIKENSYVYIDYWDDSKAFRNMVYVRSLAANLNSVKCVGGSYDFRLPVGEWPIMNGGAVSLHFAGV 408
Cdd:pfam17477  81 GGSLPTDFVISRFEVIKENSYVYIDYWDDSQAFRNMVYVRSLAANLNSVMCTGGSYYFQLPVGQWPVLTGGAVSLHSAGV 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2237054752 409 TLSTQFTDFVSLNSLRFRFSLTVDEPSFSIIRTRTVNLYGLPAANPNNGNEYYEVSGRFSLISLV 473
Cdd:pfam17477 161 TLSTQFTDFVSLNSLRFRFRLVVEEPWFDITRTRVARLYGLPAADPNNGKEYYETAGRFSLISLV 225
VP4_helical pfam17478
Rotavirus VP4 helical domain;
485-775 1.81e-126

Rotavirus VP4 helical domain;


Pssm-ID: 465429  Cd Length: 291  Bit Score: 379.50  E-value: 1.81e-126
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 485 NSVTVRQDLERQLNDLREEFNSLSQEIAMSQLIDLALLPLDMFSMFSGIKSTIDLTKSMATSVMKKFRKSKLATSISEMT 564
Cdd:pfam17478   1 NSVTVRQDLERQLGELREEFNALSQEIAMSQLIDLALLPLDMFSMFSGIKSTIDAAKSMATSVMKKFKKSGLANSVSTLT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 565 NSLSDAASSASRSASIRSNLSTISNWSDASKSVLNVTDSVNDISTQTSTISKKLRLKEMITQTEGISFDDISAAVLKTKI 644
Cdd:pfam17478  81 DSLSDAASSISRGSSIRSIGSSASAWTDVSTQITDLSSSVSSVSTQTSTISRRLRLKEMATQTEGMNFDDISAAVLKTKI 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 645 DMSTQIGKNTLPDIVTEASEKFIPKRSYRVLKDDEVMEVNTEGKFFAYKVDTLNEIPFDINKFAELVTDSPVISAIIDFK 724
Cdd:pfam17478 161 DRSTQISPNTFPDIVTEASEKFIPNRAYRVINNDTVFEAGTDGRFFAYDVKTFQEIPFDVQKFADLVTDSPVISAIIDFK 240

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2237054752 725 TLKNLNDNYGITRIEALNLIKSNPNVLRNFINQNNPIIRNRIEQLILQCKL 775
Cdd:pfam17478 241 TLKNLNDNYGISDQQAFNLLRSDPRVLREFINQDNPIIRNRIEQLIMQCRL 291
VP4_haemagglut pfam00426
Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain; This entry represents the ...
 65-213 1.91e-16

Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain; This entry represents the N-terminal concanavalin-like domain from the VP4 protein of rotavirus.


Pssm-ID: 395342  Cd Length: 193  Bit Score: 78.52  E-value: 1.91e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752  65 LDGPYQPTTFKPPNDYWLLISSNTDGVVYESTN--NSDFW-------TAVIAVEPHVSPTNRQYVLFG---ENKQFNVEN 132
Cdd:pfam00426   1 IDGPHQNTTFNPPVDYWMLLAPTTPGVIIEGSNliNTDRWllyqkplNATILIEHGPDSENRNLAAFEiwyGKEGLTISS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2237054752 133 -----SSDKWKFFEMFKG------SSQSDFSNRRTLTSN---------------NRLVGMLKYGGRIWTFHGETPRA--- 183
Cdd:pfam00426  81 vyyntINDQNKFHDANKDclilfwNEGSTQLEKQVTTANgnigqygilikpinsPKLRACMKGMEKFYTYEGQTPNAdsa 160

                         170       180       190
                  ....*....|....*....|....*....|...
gi 2237054752 184 ---TTDSSNTADLNNISIIIHSEFYIIPRSQES 213
Cdd:pfam00426 161 hweNTNHDFPRSNPGININAFCDFFIIPRSAES 193
 
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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