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Conserved domains on  [gi|1191016051|ref|XP_020875326|]
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uncharacterized protein LOC110226857 [Arabidopsis lyrata subsp. lyrata]

Protein Classification

gag-polypeptide of LTR copia-type domain-containing protein( domain architecture ID 707859)

gag-polypeptide of LTR copia-type domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Retrotran_gag_2 super family cl26047
gag-polypeptide of LTR copia-type; This family is found in Plants and fungi, and contains ...
 3-134 1.27e-11

gag-polypeptide of LTR copia-type; This family is found in Plants and fungi, and contains LTR-polyproteins, or retrotransposons of the copia-type.


The actual alignment was detected with superfamily member pfam14223:

Pssm-ID: 464108  Cd Length: 130  Bit Score: 60.33  E-value: 1.27e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191016051   3 LSVLQNSLEASILEGYSYCETPKDLWETLQNVFGNQSNLSRVFEIKKAINELTQGDMDFTQHFGKFRSLWAELEmlrpnT 82
Cdd:pfam14223   1 LALIVLSLSDSLLRLVRNADTAKEAWDKLESTYERKSPANKLTLRRQLHSLKMKEGESVLEHINKFEELVNKLS-----A 75

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1191016051  83 LDpAVINerrEQDKVFGLLFTLSPAYNDLIKHLLRADKLQNLEEVCSQIQKE 134
Cdd:pfam14223  76 LG-VEIS---DEDLVVKLLRSLPESYENFVTAIESSSDKITLEELISKLLDE 123
 
Name Accession Description Interval E-value
Retrotran_gag_2 pfam14223
gag-polypeptide of LTR copia-type; This family is found in Plants and fungi, and contains ...
 3-134 1.27e-11

gag-polypeptide of LTR copia-type; This family is found in Plants and fungi, and contains LTR-polyproteins, or retrotransposons of the copia-type.


Pssm-ID: 464108  Cd Length: 130  Bit Score: 60.33  E-value: 1.27e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191016051   3 LSVLQNSLEASILEGYSYCETPKDLWETLQNVFGNQSNLSRVFEIKKAINELTQGDMDFTQHFGKFRSLWAELEmlrpnT 82
Cdd:pfam14223   1 LALIVLSLSDSLLRLVRNADTAKEAWDKLESTYERKSPANKLTLRRQLHSLKMKEGESVLEHINKFEELVNKLS-----A 75

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1191016051  83 LDpAVINerrEQDKVFGLLFTLSPAYNDLIKHLLRADKLQNLEEVCSQIQKE 134
Cdd:pfam14223  76 LG-VEIS---DEDLVVKLLRSLPESYENFVTAIESSSDKITLEELISKLLDE 123
 
Name Accession Description Interval E-value
Retrotran_gag_2 pfam14223
gag-polypeptide of LTR copia-type; This family is found in Plants and fungi, and contains ...
 3-134 1.27e-11

gag-polypeptide of LTR copia-type; This family is found in Plants and fungi, and contains LTR-polyproteins, or retrotransposons of the copia-type.


Pssm-ID: 464108  Cd Length: 130  Bit Score: 60.33  E-value: 1.27e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191016051   3 LSVLQNSLEASILEGYSYCETPKDLWETLQNVFGNQSNLSRVFEIKKAINELTQGDMDFTQHFGKFRSLWAELEmlrpnT 82
Cdd:pfam14223   1 LALIVLSLSDSLLRLVRNADTAKEAWDKLESTYERKSPANKLTLRRQLHSLKMKEGESVLEHINKFEELVNKLS-----A 75

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1191016051  83 LDpAVINerrEQDKVFGLLFTLSPAYNDLIKHLLRADKLQNLEEVCSQIQKE 134
Cdd:pfam14223  76 LG-VEIS---DEDLVVKLLRSLPESYENFVTAIESSSDKITLEELISKLLDE 123
 
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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