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Conserved domains on  [gi|357123705|ref|XP_003563548|]
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pre-mRNA-splicing factor syf2 [Brachypodium distachyon]

Protein Classification

pre-mRNA-splicing factor SYF2( domain architecture ID 17087813)

pre-mRNA-splicing factor SYF2 is involved in pre-mRNA splicing as a component of the spliceosome

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SYF2 pfam08231
SYF2 splicing factor; Proteins in this family are involved in cell cycle progression and ...
 187-334 2.27e-43

SYF2 splicing factor; Proteins in this family are involved in cell cycle progression and pre-mRNA splicing.


:

Pssm-ID: 462400 [Multi-domain]  Cd Length: 152  Bit Score: 146.59  E-value: 2.27e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 357123705  187 NGLDMSKSYMLDTQDMAEAKYKKWEKEPA---PHGWDvFNQKTLYDAYKKRTKNIEVDMESYNKAKETDPE----FYRDA 259
Cdd:pfam08231   2 AGEDYERKRALDWTAEEAEKWDKKKKKKAknpDFGFS-DYAQAAYRQYKRLLKNIKPDLEAYEKQKEKAGErveaFYRTA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 357123705  260 SSLQYGKVSKVAepnIDRMVNELKERDEKRKSFSRRRKFNEDKDIDSINDRNEHFNKKIERAFGKYTLEIKNNLE 334
Cdd:pfam08231  81 DSYADHKPSKEA---IDRMVEDLEKQEEKRLKFSRRRGHDDDADVDYINERNKKFNKKLERFYDKYTAEIRQNLE 152
EMC3_TMCO1 super family cl19818
Integral membrane protein EMC3/TMCO1-like; This entry represents a group of eukaryotic and ...
 123-170 3.70e-03

Integral membrane protein EMC3/TMCO1-like; This entry represents a group of eukaryotic and archaeal proteins. Eukaryotic members include EMC3, a subunit of the ER membrane protein complex (EMC) required for protein folding, and TMCO1, a ER calcium load-activated calcium channel. Archaeal members may function as insertases of the archaeal plasma membrane.


The actual alignment was detected with superfamily member COG1422:

Pssm-ID: 473210  Cd Length: 198  Bit Score: 37.96  E-value: 3.70e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 357123705 123 YPQMTAKQKKLFELQLKMNEARKANQQAMVA--EKKRMEPRGESRGVSKQ 170
Cdd:COG1422   66 WEKMGKYQERMKAFQKERREAQERGDDEALKklQEEQMEMMGDQMGMSKE 115
 
Name Accession Description Interval E-value
SYF2 pfam08231
SYF2 splicing factor; Proteins in this family are involved in cell cycle progression and ...
 187-334 2.27e-43

SYF2 splicing factor; Proteins in this family are involved in cell cycle progression and pre-mRNA splicing.


Pssm-ID: 462400 [Multi-domain]  Cd Length: 152  Bit Score: 146.59  E-value: 2.27e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 357123705  187 NGLDMSKSYMLDTQDMAEAKYKKWEKEPA---PHGWDvFNQKTLYDAYKKRTKNIEVDMESYNKAKETDPE----FYRDA 259
Cdd:pfam08231   2 AGEDYERKRALDWTAEEAEKWDKKKKKKAknpDFGFS-DYAQAAYRQYKRLLKNIKPDLEAYEKQKEKAGErveaFYRTA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 357123705  260 SSLQYGKVSKVAepnIDRMVNELKERDEKRKSFSRRRKFNEDKDIDSINDRNEHFNKKIERAFGKYTLEIKNNLE 334
Cdd:pfam08231  81 DSYADHKPSKEA---IDRMVEDLEKQEEKRLKFSRRRGHDDDADVDYINERNKKFNKKLERFYDKYTAEIRQNLE 152
YidC COG1422
Archaeal YidC/Oxa1-related membrane protein, DUF106 family [Cell wall/membrane/envelope ...
 123-170 3.70e-03

Archaeal YidC/Oxa1-related membrane protein, DUF106 family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 441032  Cd Length: 198  Bit Score: 37.96  E-value: 3.70e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 357123705 123 YPQMTAKQKKLFELQLKMNEARKANQQAMVA--EKKRMEPRGESRGVSKQ 170
Cdd:COG1422   66 WEKMGKYQERMKAFQKERREAQERGDDEALKklQEEQMEMMGDQMGMSKE 115
 
Name Accession Description Interval E-value
SYF2 pfam08231
SYF2 splicing factor; Proteins in this family are involved in cell cycle progression and ...
 187-334 2.27e-43

SYF2 splicing factor; Proteins in this family are involved in cell cycle progression and pre-mRNA splicing.


Pssm-ID: 462400 [Multi-domain]  Cd Length: 152  Bit Score: 146.59  E-value: 2.27e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 357123705  187 NGLDMSKSYMLDTQDMAEAKYKKWEKEPA---PHGWDvFNQKTLYDAYKKRTKNIEVDMESYNKAKETDPE----FYRDA 259
Cdd:pfam08231   2 AGEDYERKRALDWTAEEAEKWDKKKKKKAknpDFGFS-DYAQAAYRQYKRLLKNIKPDLEAYEKQKEKAGErveaFYRTA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 357123705  260 SSLQYGKVSKVAepnIDRMVNELKERDEKRKSFSRRRKFNEDKDIDSINDRNEHFNKKIERAFGKYTLEIKNNLE 334
Cdd:pfam08231  81 DSYADHKPSKEA---IDRMVEDLEKQEEKRLKFSRRRGHDDDADVDYINERNKKFNKKLERFYDKYTAEIRQNLE 152
YidC COG1422
Archaeal YidC/Oxa1-related membrane protein, DUF106 family [Cell wall/membrane/envelope ...
 123-170 3.70e-03

Archaeal YidC/Oxa1-related membrane protein, DUF106 family [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 441032  Cd Length: 198  Bit Score: 37.96  E-value: 3.70e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 357123705 123 YPQMTAKQKKLFELQLKMNEARKANQQAMVA--EKKRMEPRGESRGVSKQ 170
Cdd:COG1422   66 WEKMGKYQERMKAFQKERREAQERGDDEALKklQEEQMEMMGDQMGMSKE 115
 
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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