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Conserved domains on  [gi|1839131185|gb|QJQ38146|]
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homeobox protein luminidependens, partial [Synthlipsis greggii]

Protein Classification

TFIIS N-terminal domain-containing protein( domain architecture ID 2257)

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

PubMed:  17913884

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TFIIS_I super family cl00146
N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a ...
 36-101 5.14e-04

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


The actual alignment was detected with superfamily member smart00509:

Pssm-ID: 469629 [Multi-domain]  Cd Length: 75  Bit Score: 36.13  E-value: 5.14e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1839131185   36 QAANEEQTSVLLLILKVLCHLPLhkaSPENMSA--ILQSVNALRFYKTSDISNRAKGLLSRWTKLFAK 101
Cdd:smart00509  11 VANNGKEVSRCLDILKKLKKLPI---TVDLLEEtrIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVYS 75
 
Name Accession Description Interval E-value
TFS2N smart00509
Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);
36-101 5.14e-04

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


Pssm-ID: 197766 [Multi-domain]  Cd Length: 75  Bit Score: 36.13  E-value: 5.14e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1839131185   36 QAANEEQTSVLLLILKVLCHLPLhkaSPENMSA--ILQSVNALRFYKTSDISNRAKGLLSRWTKLFAK 101
Cdd:smart00509  11 VANNGKEVSRCLDILKKLKKLPI---TVDLLEEtrIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVYS 75
TFIIS_I cd00183
N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a ...
 34-99 6.37e-03

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: 33.44  E-value: 6.37e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1839131185  34 LSQAANEEQTSVLLLILKVLCHLPLhkaSPENMSA--ILQSVNALRFYKTSDISNRAKGLLSRWTKLF 99
Cdd:cd00183    11 LEKKDSNEEVSRLLDLLRLLKKLPL---TVEILKEtrIGKKVNSLRKHSNEKIRKLAKALIKSWKKLV 75
 
Name Accession Description Interval E-value
TFS2N smart00509
Domain in the N-terminus of transcription elongation factor S-II (and elsewhere);
36-101 5.14e-04

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


Pssm-ID: 197766 [Multi-domain]  Cd Length: 75  Bit Score: 36.13  E-value: 5.14e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1839131185   36 QAANEEQTSVLLLILKVLCHLPLhkaSPENMSA--ILQSVNALRFYKTSDISNRAKGLLSRWTKLFAK 101
Cdd:smart00509  11 VANNGKEVSRCLDILKKLKKLPI---TVDLLEEtrIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVYS 75
TFIIS_I cd00183
N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a ...
 34-99 6.37e-03

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: 33.44  E-value: 6.37e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1839131185  34 LSQAANEEQTSVLLLILKVLCHLPLhkaSPENMSA--ILQSVNALRFYKTSDISNRAKGLLSRWTKLF 99
Cdd:cd00183    11 LEKKDSNEEVSRLLDLLRLLKKLPL---TVEILKEtrIGKKVNSLRKHSNEKIRKLAKALIKSWKKLV 75
 
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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