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Conserved domains on  [gi|112729|sp|P05078|]
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RecName: Full=Protein 2b; AltName: Full=29.1 kDa protein

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Tobravirus_2B super family cl05029
Tobravirus 2B protein; This family consists of several tobravirus 2B proteins. It is known ...
 3-120 9.51e-70

Tobravirus 2B protein; This family consists of several tobravirus 2B proteins. It is known that the 2B protein is required for transmission by both Paratrichodorus pachydermus and P. anemones nematodes.


The actual alignment was detected with superfamily member pfam05271:

Pssm-ID: 147459  Cd Length: 117  Bit Score: 210.09  E-value: 9.51e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 112729       3 NGDWSSKWPNDHLFIDDFGKLVWFDVLTDIVKISHFVSQVPTDLSPIPSSYISFIDGRIPMCINHLGWVYIRVKfESEEV 82
Cdd:pfam05271   1 NTDWATLWPNDQLFLSDTYQLVWFDILRDKVEHKHFVSQVSTDLSSIPKSFISFVDNRLPMCINHKGWVYIRVG-TGEDA 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 112729      83 FYQKFGEVDVSRFGESELPPDFEVTFSKVTTLVNKSLV 120
Cdd:pfam05271  80 YYQKFGDLDVSKFGDSFLPPDFEFTFNKVVIGDDDQLS 117
THOC7 super family cl09577
Tho complex subunit 7; The Tho complex is involved in transcription elongation and mRNA export ...
 120-160 7.62e-03

Tho complex subunit 7; The Tho complex is involved in transcription elongation and mRNA export from the nucleus.


The actual alignment was detected with superfamily member pfam05615:

Pssm-ID: 461692 [Multi-domain]  Cd Length: 135  Bit Score: 35.71  E-value: 7.62e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 112729     120 VRKSELLEKMN-------NELKQELTNKLDSLEKVNVQLKKELSQAQQ 160
Cdd:pfam05615  60 IEKSQLLAEANererenyEAEKEEIEEEIEAVREEIEELKERLEEAKR 107
 
Name Accession Description Interval E-value
Tobravirus_2B pfam05271
Tobravirus 2B protein; This family consists of several tobravirus 2B proteins. It is known ...
 3-120 9.51e-70

Tobravirus 2B protein; This family consists of several tobravirus 2B proteins. It is known that the 2B protein is required for transmission by both Paratrichodorus pachydermus and P. anemones nematodes.


Pssm-ID: 147459  Cd Length: 117  Bit Score: 210.09  E-value: 9.51e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 112729       3 NGDWSSKWPNDHLFIDDFGKLVWFDVLTDIVKISHFVSQVPTDLSPIPSSYISFIDGRIPMCINHLGWVYIRVKfESEEV 82
Cdd:pfam05271   1 NTDWATLWPNDQLFLSDTYQLVWFDILRDKVEHKHFVSQVSTDLSSIPKSFISFVDNRLPMCINHKGWVYIRVG-TGEDA 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 112729      83 FYQKFGEVDVSRFGESELPPDFEVTFSKVTTLVNKSLV 120
Cdd:pfam05271  80 YYQKFGDLDVSKFGDSFLPPDFEFTFNKVVIGDDDQLS 117
THOC7 pfam05615
Tho complex subunit 7; The Tho complex is involved in transcription elongation and mRNA export ...
 120-160 7.62e-03

Tho complex subunit 7; The Tho complex is involved in transcription elongation and mRNA export from the nucleus.


Pssm-ID: 461692 [Multi-domain]  Cd Length: 135  Bit Score: 35.71  E-value: 7.62e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 112729     120 VRKSELLEKMN-------NELKQELTNKLDSLEKVNVQLKKELSQAQQ 160
Cdd:pfam05615  60 IEKSQLLAEANererenyEAEKEEIEEEIEAVREEIEELKERLEEAKR 107
 
Name Accession Description Interval E-value
Tobravirus_2B pfam05271
Tobravirus 2B protein; This family consists of several tobravirus 2B proteins. It is known ...
 3-120 9.51e-70

Tobravirus 2B protein; This family consists of several tobravirus 2B proteins. It is known that the 2B protein is required for transmission by both Paratrichodorus pachydermus and P. anemones nematodes.


Pssm-ID: 147459  Cd Length: 117  Bit Score: 210.09  E-value: 9.51e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 112729       3 NGDWSSKWPNDHLFIDDFGKLVWFDVLTDIVKISHFVSQVPTDLSPIPSSYISFIDGRIPMCINHLGWVYIRVKfESEEV 82
Cdd:pfam05271   1 NTDWATLWPNDQLFLSDTYQLVWFDILRDKVEHKHFVSQVSTDLSSIPKSFISFVDNRLPMCINHKGWVYIRVG-TGEDA 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 112729      83 FYQKFGEVDVSRFGESELPPDFEVTFSKVTTLVNKSLV 120
Cdd:pfam05271  80 YYQKFGDLDVSKFGDSFLPPDFEFTFNKVVIGDDDQLS 117
THOC7 pfam05615
Tho complex subunit 7; The Tho complex is involved in transcription elongation and mRNA export ...
 120-160 7.62e-03

Tho complex subunit 7; The Tho complex is involved in transcription elongation and mRNA export from the nucleus.


Pssm-ID: 461692 [Multi-domain]  Cd Length: 135  Bit Score: 35.71  E-value: 7.62e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 112729     120 VRKSELLEKMN-------NELKQELTNKLDSLEKVNVQLKKELSQAQQ 160
Cdd:pfam05615  60 IEKSQLLAEANererenyEAEKEEIEEEIEAVREEIEELKERLEEAKR 107
 
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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