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Conserved domains on  [gi|297822507|ref|XP_002879136|]
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uncharacterized protein LOC9317037 [Arabidopsis lyrata subsp. lyrata]

Protein Classification

TFIIS N-terminal domain-containing protein( domain architecture ID 10649812)

TFIIS (transcription elongation factor S-II) N-terminal domain-containing protein contains structural motifs that are responsible for interacting with RNA polymerase II (RNAPII) and mediating its catalytic activities

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TFS2N smart00509
Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);
25-96 2.30e-18

Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);


:

Pssm-ID: 197766 [Multi-domain]  Cd Length: 75  Bit Score: 78.12  E-value: 2.30e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 297822507    25 AAAIKATYNTRNPCEVERCIDVLKHLKSLSLSAKDIELSESIVKLETLRSHRNPRIRKEAQALFHSWLKTFY 96
Cdd:smart00509   3 RAAKKLDKVANNGKEVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY 74
TFS2N smart00509
Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);
225-305 1.74e-17

Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);


:

Pssm-ID: 197766 [Multi-domain]  Cd Length: 75  Bit Score: 75.81  E-value: 1.74e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297822507   225 LFEAAKKAADVANAKgvlsgkAEASRCVDALSLLMEINITPKPKEPRRMMDKLEGLTKHKDRKICHAASALLHLWRQRIR 304
Cdd:smart00509   1 LLRAAKKLDKVANNG------KEVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY 74


                   .
gi 297822507   305 E 305
Cdd:smart00509  75 S 75
 
Name Accession Description Interval E-value
TFS2N smart00509
Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);
25-96 2.30e-18

Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);


Pssm-ID: 197766 [Multi-domain]  Cd Length: 75  Bit Score: 78.12  E-value: 2.30e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 297822507    25 AAAIKATYNTRNPCEVERCIDVLKHLKSLSLSAKDIELSESIVKLETLRSHRNPRIRKEAQALFHSWLKTFY 96
Cdd:smart00509   3 RAAKKLDKVANNGKEVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY 74
TFS2N smart00509
Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);
225-305 1.74e-17

Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);


Pssm-ID: 197766 [Multi-domain]  Cd Length: 75  Bit Score: 75.81  E-value: 1.74e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297822507   225 LFEAAKKAADVANAKgvlsgkAEASRCVDALSLLMEINITPKPKEPRRMMDKLEGLTKHKDRKICHAASALLHLWRQRIR 304
Cdd:smart00509   1 LLRAAKKLDKVANNG------KEVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY 74


                   .
gi 297822507   305 E 305
Cdd:smart00509  75 S 75
TFIIS_I cd00183
N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a ...
 36-96 8.90e-15

N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme


Pssm-ID: 238107  Cd Length: 76  Bit Score: 68.10  E-value: 8.90e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 297822507  36 NPCEVERCIDVLKHLKSLSLSAKDIELSESIVKLETLRSHRNPRIRKEAQALFHSWLKTFY 96
Cdd:cd00183   16 SNEEVSRLLDLLRLLKKLPLTVEILKETRIGKKVNSLRKHSNEKIRKLAKALIKSWKKLVD 76
TFIIS_I cd00183
N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a ...
 232-304 1.84e-14

N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme


Pssm-ID: 238107  Cd Length: 76  Bit Score: 67.33  E-value: 1.84e-14
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 297822507 232 AADVANAKGVLSGKA---EASRCVDALSLLMEINITPKPKEPRRMMDKLEGLTKHKDRKICHAASALLHLWRQRIR 304
Cdd:cd00183    1 SEEVLRAKKKLEKKDsneEVSRLLDLLRLLKKLPLTVEILKETRIGKKVNSLRKHSNEKIRKLAKALIKSWKKLVD 76
 
Name Accession Description Interval E-value
TFS2N smart00509
Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);
25-96 2.30e-18

Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);


Pssm-ID: 197766 [Multi-domain]  Cd Length: 75  Bit Score: 78.12  E-value: 2.30e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 297822507    25 AAAIKATYNTRNPCEVERCIDVLKHLKSLSLSAKDIELSESIVKLETLRSHRNPRIRKEAQALFHSWLKTFY 96
Cdd:smart00509   3 RAAKKLDKVANNGKEVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY 74
TFS2N smart00509
Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);
225-305 1.74e-17

Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);


Pssm-ID: 197766 [Multi-domain]  Cd Length: 75  Bit Score: 75.81  E-value: 1.74e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297822507   225 LFEAAKKAADVANAKgvlsgkAEASRCVDALSLLMEINITPKPKEPRRMMDKLEGLTKHKDRKICHAASALLHLWRQRIR 304
Cdd:smart00509   1 LLRAAKKLDKVANNG------KEVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY 74


                   .
gi 297822507   305 E 305
Cdd:smart00509  75 S 75
TFIIS_I cd00183
N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a ...
 36-96 8.90e-15

N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme


Pssm-ID: 238107  Cd Length: 76  Bit Score: 68.10  E-value: 8.90e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 297822507  36 NPCEVERCIDVLKHLKSLSLSAKDIELSESIVKLETLRSHRNPRIRKEAQALFHSWLKTFY 96
Cdd:cd00183   16 SNEEVSRLLDLLRLLKKLPLTVEILKETRIGKKVNSLRKHSNEKIRKLAKALIKSWKKLVD 76
TFIIS_I cd00183
N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a ...
 232-304 1.84e-14

N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme


Pssm-ID: 238107  Cd Length: 76  Bit Score: 67.33  E-value: 1.84e-14
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 297822507 232 AADVANAKGVLSGKA---EASRCVDALSLLMEINITPKPKEPRRMMDKLEGLTKHKDRKICHAASALLHLWRQRIR 304
Cdd:cd00183    1 SEEVLRAKKKLEKKDsneEVSRLLDLLRLLKKLPLTVEILKETRIGKKVNSLRKHSNEKIRKLAKALIKSWKKLVD 76
 
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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