BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 047239
(180 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VOK|A Chain A, Arabidopsis Thaliana Tbp (Dimer)
pdb|1VOK|B Chain B, Arabidopsis Thaliana Tbp (Dimer)
pdb|1VOL|B Chain B, Tfiib (Human Core Domain)TBP (A.THALIANA)TATA ELEMENT
Ternary Complex
pdb|1QN5|A Chain A, Crystal Structure Of The G(-26) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN5|B Chain B, Crystal Structure Of The G(-26) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN6|A Chain A, Crystal Structure Of The T(-26) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN6|B Chain B, Crystal Structure Of The T(-26) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN7|A Chain A, Crystal Structure Of The T(-27) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN7|B Chain B, Crystal Structure Of The T(-27) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN8|A Chain A, Crystal Structure Of The T(-28) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN8|B Chain B, Crystal Structure Of The T(-28) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN9|A Chain A, Crystal Structure Of The C(-29) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN9|B Chain B, Crystal Structure Of The C(-29) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QNA|A Chain A, Crystal Structure Of The T(-30) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QNA|B Chain B, Crystal Structure Of The T(-30) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QNB|A Chain A, Crystal Structure Of The T(-25) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QNB|B Chain B, Crystal Structure Of The T(-25) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QNC|A Chain A, Crystal Structure Of The A(-31) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QNC|B Chain B, Crystal Structure Of The A(-31) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QNE|A Chain A, Crystal Structure Of The Adenovirus Major Late Promoter
Tata Box Bound To Wild-Type Tbp (Arabidopsis Thaliana
Tbp Isoform 2).
pdb|1QNE|B Chain B, Crystal Structure Of The Adenovirus Major Late Promoter
Tata Box Bound To Wild-Type Tbp (Arabidopsis Thaliana
Tbp Isoform 2).
pdb|1QN3|A Chain A, Crystal Structure Of The C(-25) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN3|B Chain B, Crystal Structure Of The C(-25) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN4|A Chain A, Crystal Structure Of The T(-24) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution.
pdb|1QN4|B Chain B, Crystal Structure Of The T(-24) Adenovirus Major Late
Promoter Tata Box Variant Bound To Wild-Type Tbp
(Arabidopsis Thaliana Tbp Isoform 2). Tata Element
Recognition By The Tata Box-Binding Protein Has Been
Conserved Throughout Evolution
Length = 200
Score = 278 bits (711), Expect = 1e-75, Method: Compositional matrix adjust.
Identities = 130/180 (72%), Positives = 154/180 (85%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIV+T+NL+CKLDLK IAL ARNAEYNP RF+AV MRI+EPKTTALIF+SGK+V
Sbjct: 21 IVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMV 80
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
CTGAKSE +K+AARKYARIVQK+GFP +FKDFKIQNIVGSCDV+FPI+LE L HA F
Sbjct: 81 CTGAKSEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAF 140
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVYVTYDQ 180
S+YEPELFPGLIYRMK P + +LIF+SGK+VITGAK R++ Y AF NIYPVL+ + Q
Sbjct: 141 SSYEPELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRKIQQ 200
>pdb|1VTL|E Chain E, Co-Crystal Structure Of Tbp Recognizing The Minor Groove
Of A Tata Element
pdb|1VTL|F Chain F, Co-Crystal Structure Of Tbp Recognizing The Minor Groove
Of A Tata Element
Length = 186
Score = 278 bits (710), Expect = 1e-75, Method: Compositional matrix adjust.
Identities = 129/175 (73%), Positives = 153/175 (87%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIV+T+NL+CKLDLK IAL ARNAEYNP RF+AV MRI+EPKTTALIF+SGK+V
Sbjct: 9 IVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMV 68
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
CTGAKSE +K+AARKYARIVQK+GFP +FKDFKIQNIVGSCDV+FPI+LE L HA F
Sbjct: 69 CTGAKSEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAF 128
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVY 175
S+YEPELFPGLIYRMK P + +LIF+SGK+VITGAK R++ Y AF NIYPVL+ +
Sbjct: 129 SSYEPELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEF 183
>pdb|1VTO|A Chain A, 1.9 A Resolution Refined Structure Of Tbp Recognizing The
Minor Groove Of Tataaaag
pdb|1VTO|B Chain B, 1.9 A Resolution Refined Structure Of Tbp Recognizing The
Minor Groove Of Tataaaag
Length = 190
Score = 278 bits (710), Expect = 1e-75, Method: Compositional matrix adjust.
Identities = 130/180 (72%), Positives = 154/180 (85%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIV+T+NL+CKLDLK IAL ARNAEYNP RF+AV MRI+EPKTTALIF+SGK+V
Sbjct: 11 IVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMV 70
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
CTGAKSE +K+AARKYARIVQK+GFP +FKDFKIQNIVGSCDV+FPI+LE L HA F
Sbjct: 71 CTGAKSEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAF 130
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVYVTYDQ 180
S+YEPELFPGLIYRMK P + +LIF+SGK+VITGAK R++ Y AF NIYPVL+ + Q
Sbjct: 131 SSYEPELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRKIQQ 190
>pdb|1JFI|C Chain C, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 185
Score = 272 bits (696), Expect = 7e-74, Method: Compositional matrix adjust.
Identities = 126/175 (72%), Positives = 150/175 (85%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIV+T+NL CKLDLK IAL ARNAEYNP RF+AV MRI+EP+TTALIFSSGK+V
Sbjct: 7 IVPQLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMV 66
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
CTGAKSE Q++LAARKYAR+VQK+GFP +F DFKIQN+VGSCDV+FPI+LE L H F
Sbjct: 67 CTGAKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQF 126
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVY 175
S+YEPELFPGLIYRM KP + +LIF+SGKVV+TGAK R +IY AF NIYP+L +
Sbjct: 127 SSYEPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGF 181
>pdb|1TGH|A Chain A, Tata Binding Protein (Tbp)DNA COMPLEX
Length = 185
Score = 272 bits (695), Expect = 8e-74, Method: Compositional matrix adjust.
Identities = 126/175 (72%), Positives = 150/175 (85%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIV+T+NL CKLDLK IAL ARNAEYNP RF+AV MRI+EP+TTALIFSSGK+V
Sbjct: 7 IVPQLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMV 66
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
CTGAKSE Q++LAARKYAR+VQK+GFP +F DFKIQN+VGSCDV+FPI+LE L H F
Sbjct: 67 CTGAKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQF 126
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVY 175
S+YEPELFPGLIYRM KP + +LIF+SGKVV+TGAK R +IY AF NIYP+L +
Sbjct: 127 SSYEPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGF 181
>pdb|1NVP|A Chain A, Human TfiiaTBPDNA COMPLEX
Length = 181
Score = 272 bits (695), Expect = 8e-74, Method: Compositional matrix adjust.
Identities = 126/172 (73%), Positives = 149/172 (86%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIV+T+NL CKLDLK IAL ARNAEYNP RF+AV MRI+EP+TTALIFSSGK+V
Sbjct: 3 IVPQLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMV 62
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
CTGAKSE Q++LAARKYAR+VQK+GFP +F DFKIQN+VGSCDV+FPI+LE L H F
Sbjct: 63 CTGAKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQF 122
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVL 172
S+YEPELFPGLIYRM KP + +LIF+SGKVV+TGAK R +IY AF NIYP+L
Sbjct: 123 SSYEPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPIL 174
>pdb|1C9B|B Chain B, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
pdb|1C9B|F Chain F, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
pdb|1C9B|J Chain J, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
pdb|1C9B|N Chain N, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
pdb|1C9B|R Chain R, Crystal Structure Of A Human Tbp Core Domain-Human Tfiib
Core Domain Complex Bound To An Extended, Modified
Adenoviral Major Late Promoter (Admlp)
Length = 180
Score = 272 bits (695), Expect = 1e-73, Method: Compositional matrix adjust.
Identities = 126/175 (72%), Positives = 150/175 (85%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIV+T+NL CKLDLK IAL ARNAEYNP RF+AV MRI+EP+TTALIFSSGK+V
Sbjct: 4 IVPQLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMV 63
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
CTGAKSE Q++LAARKYAR+VQK+GFP +F DFKIQN+VGSCDV+FPI+LE L H F
Sbjct: 64 CTGAKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQF 123
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVY 175
S+YEPELFPGLIYRM KP + +LIF+SGKVV+TGAK R +IY AF NIYP+L +
Sbjct: 124 SSYEPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGF 178
>pdb|1CDW|A Chain A, Human Tbp Core Domain Complexed With Dna
Length = 179
Score = 269 bits (688), Expect = 5e-73, Method: Compositional matrix adjust.
Identities = 125/172 (72%), Positives = 148/172 (86%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIV+T+NL CKLDLK IAL ARNAEYNP RF+AV MRI+EP+TTALIFSSGK+V
Sbjct: 3 IVPQLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMV 62
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
CTGAKSE ++LAARKYAR+VQK+GFP +F DFKIQN+VGSCDV+FPI+LE L H F
Sbjct: 63 CTGAKSEENSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQF 122
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVL 172
S+YEPELFPGLIYRM KP + +LIF+SGKVV+TGAK R +IY AF NIYP+L
Sbjct: 123 SSYEPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPIL 174
>pdb|1RM1|A Chain A, Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex
Length = 240
Score = 269 bits (688), Expect = 5e-73, Method: Compositional matrix adjust.
Identities = 124/175 (70%), Positives = 148/175 (84%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIVAT+ L C+LDLK +ALHARNAEYNP RF+AV MRI+EPKTTALIF+SGK+V
Sbjct: 63 IVPTLQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMV 122
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
TGAKSE +KLA+RKYARI+QKIGF +F DFKIQNIVGSCDV+FPI+LE L H F
Sbjct: 123 VTGAKSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTF 182
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVY 175
S+YEPELFPGLIYRM KP + +LIF+SGK+V+TGAK RE+IY AF IYPVL+ +
Sbjct: 183 SSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEF 237
>pdb|1YTB|A Chain A, Crystal Structure Of A Yeast TbpTATA-Box Complex
pdb|1YTB|B Chain B, Crystal Structure Of A Yeast TbpTATA-Box Complex
pdb|1YTF|A Chain A, Yeast TfiiaTBPDNA COMPLEX
pdb|1TBA|B Chain B, Solution Structure Of A Tbp-Tafii230 Complex: Protein
Mimicry Of The Minor Groove Surface Of The Tata Box
Unwound By Tbp, Nmr, 25 Structures
pdb|1NGM|A Chain A, Crystal Structure Of A Yeast Brf1-Tbp-Dna Ternary Complex
pdb|1NGM|E Chain E, Crystal Structure Of A Yeast Brf1-Tbp-Dna Ternary Complex
pdb|1NGM|I Chain I, Crystal Structure Of A Yeast Brf1-Tbp-Dna Ternary Complex
pdb|1NGM|M Chain M, Crystal Structure Of A Yeast Brf1-Tbp-Dna Ternary Complex
pdb|1NH2|A Chain A, Crystal Structure Of A Yeast TfiiaTBPDNA COMPLEX
Length = 180
Score = 268 bits (686), Expect = 9e-73, Method: Compositional matrix adjust.
Identities = 124/175 (70%), Positives = 148/175 (84%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIVAT+ L C+LDLK +ALHARNAEYNP RF+AV MRI+EPKTTALIF+SGK+V
Sbjct: 3 IVPTLQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMV 62
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
TGAKSE +KLA+RKYARI+QKIGF +F DFKIQNIVGSCDV+FPI+LE L H F
Sbjct: 63 VTGAKSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTF 122
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVY 175
S+YEPELFPGLIYRM KP + +LIF+SGK+V+TGAK RE+IY AF IYPVL+ +
Sbjct: 123 SSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEF 177
>pdb|1TBP|A Chain A, Crystal Structure Of Yeast Tata-Binding Protein And Model
For Interaction With Dna
pdb|1TBP|B Chain B, Crystal Structure Of Yeast Tata-Binding Protein And Model
For Interaction With Dna
Length = 180
Score = 268 bits (686), Expect = 9e-73, Method: Compositional matrix adjust.
Identities = 124/175 (70%), Positives = 148/175 (84%)
Query: 1 MAPVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIV 60
+ P +QNIVAT+ L C+LDLK +ALHARNAEYNP RF+AV MRI+EPKTTALIF+SGK+V
Sbjct: 3 IVPTLQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMV 62
Query: 61 CTGAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMF 120
TGAKSE +KLA+RKYARI+QKIGF +F DFKIQNIVGSCDV+FPI+LE L H F
Sbjct: 63 VTGAKSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTF 122
Query: 121 STYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVY 175
S+YEPELFPGLIYRM KP + +LIF+SGK+V+TGAK RE+IY AF IYPVL+ +
Sbjct: 123 SSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEF 177
>pdb|3OC3|C Chain C, Crystal Structure Of The Mot1 N-Terminal Domain In Complex
With Tbp
pdb|3OC3|D Chain D, Crystal Structure Of The Mot1 N-Terminal Domain In Complex
With Tbp
pdb|3OCI|A Chain A, Crystal Structure Of Tbp (Tata Box Binding Protein)
pdb|3OCI|B Chain B, Crystal Structure Of Tbp (Tata Box Binding Protein)
Length = 218
Score = 252 bits (643), Expect = 9e-68, Method: Compositional matrix adjust.
Identities = 115/170 (67%), Positives = 142/170 (83%)
Query: 3 PVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIVCT 62
P +QN+VAT+NL CKLDLK IAL ARNAEYNP RF+AV MRI+EPKTTALIF+SGK+V T
Sbjct: 43 PTLQNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVIT 102
Query: 63 GAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMFST 122
GAKSE +++AA++YA+I+ K+GF F DFKIQNIV SCD++F I+LE L H+ + +
Sbjct: 103 GAKSEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCS 162
Query: 123 YEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVL 172
YEPELFPGLIYRM KP + +LIF+SGK+V+TGAK R+ IY AFNNIYPVL
Sbjct: 163 YEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVL 212
>pdb|3EIK|A Chain A, Double Stranded Dna Binding Protein
pdb|3EIK|B Chain B, Double Stranded Dna Binding Protein
Length = 218
Score = 252 bits (643), Expect = 9e-68, Method: Compositional matrix adjust.
Identities = 115/170 (67%), Positives = 142/170 (83%)
Query: 3 PVIQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIVCT 62
P +QN+VAT+NL CKLDLK IAL ARNAEYNP RF+AV MRI+EPKTTALIF+SGK+V T
Sbjct: 43 PTLQNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVIT 102
Query: 63 GAKSESQAKLAARKYARIVQKIGFPVQFKDFKIQNIVGSCDVEFPIKLERLNGFHAMFST 122
GAKSE +++AA++YA+I+ K+GF F DFKIQNIV SCD++F I+LE L H+ + +
Sbjct: 103 GAKSEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCS 162
Query: 123 YEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVL 172
YEPELFPGLIYRM KP + +LIF+SGK+V+TGAK R+ IY AFNNIYPVL
Sbjct: 163 YEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVL 212
>pdb|1MP9|A Chain A, Tbp From A Mesothermophilic Archaeon, Sulfolobus
Acidocaldarius
pdb|1MP9|B Chain B, Tbp From A Mesothermophilic Archaeon, Sulfolobus
Acidocaldarius
Length = 198
Score = 134 bits (338), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 71/166 (42%), Positives = 104/166 (62%), Gaps = 2/166 (1%)
Query: 5 IQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIVCTGA 64
I+NIVAT+ L+ LDL + N EY+P +F + R++ PK T+LIF SGK+V TGA
Sbjct: 15 IENIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVTGA 74
Query: 65 KSESQAKLAARKYARIVQKIGFPVQFK-DFKIQNIVGSCDVEFPIKLERLNGFHAMFSTY 123
KS + A ++ + ++K G + K +IQNIV S ++ + L++ F + Y
Sbjct: 75 KSTDELIKAVKRIIKTLKKYGMQLTGKPKIQIQNIVASANLHVIVNLDK-AAFLLENNMY 133
Query: 124 EPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIY 169
EPE FPGLIYRM +P V +LIF SGK+VITGAK ++++ A I+
Sbjct: 134 EPEQFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEVHKAVKKIF 179
Score = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 51/86 (59%), Gaps = 11/86 (12%)
Query: 95 IQNIVGSCDVEFPIKLERLNGFHAMFST-----YEPELFPGLIYRMKKPNVTMLIFLSGK 149
I+NIV + + L++ +AM + Y+P+ FPGLI+R++ P +T LIF SGK
Sbjct: 15 IENIVAT------VTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGK 68
Query: 150 VVITGAKAREQIYAAFNNIYPVLNVY 175
+V+TGAK+ +++ A I L Y
Sbjct: 69 MVVTGAKSTDELIKAVKRIIKTLKKY 94
>pdb|2Z8U|A Chain A, Methanococcus Jannaschii Tbp
pdb|2Z8U|B Chain B, Methanococcus Jannaschii Tbp
pdb|2Z8U|P Chain P, Methanococcus Jannaschii Tbp
pdb|2Z8U|Q Chain Q, Methanococcus Jannaschii Tbp
Length = 188
Score = 125 bits (315), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 68/171 (39%), Positives = 101/171 (59%), Gaps = 4/171 (2%)
Query: 1 MAPVIQ--NIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGK 58
M P I+ N+V + + +DL+++A+ NAEY P +F + R+ PK LIF SGK
Sbjct: 9 MEPEIKIVNVVVSTKIGDNIDLEEVAMILENAEYEPEQFPGLVCRLSVPKVALLIFRSGK 68
Query: 59 IVCTGAKSESQAKLAARKYARIVQKIGFPV-QFKDFKIQNIVGSCDVEFPIKLERLNGFH 117
+ CTGAKS+ +A++A +K + ++ G V + + KIQN+V + D+ L+ +
Sbjct: 69 VNCTGAKSKEEAEIAIKKIIKELKDAGIDVIENPEIKIQNMVATADLGIEPNLDDI-ALM 127
Query: 118 AMFSTYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNI 168
+ YEPE FPGL+YR+ P V +LIF SGKVVITG K+ E A I
Sbjct: 128 VEGTEYEPEQFPGLVYRLDDPKVVVLIFGSGKVVITGLKSEEDAKRALKKI 178
Score = 70.9 bits (172), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 34/80 (42%), Positives = 48/80 (60%)
Query: 5 IQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIVCTGA 64
IQN+VAT +L + +L IAL EY P +F + R+ +PK LIF SGK+V TG
Sbjct: 106 IQNMVATADLGIEPNLDDIALMVEGTEYEPEQFPGLVYRLDDPKVVVLIFGSGKVVITGL 165
Query: 65 KSESQAKLAARKYARIVQKI 84
KSE AK A +K ++++
Sbjct: 166 KSEEDAKRALKKILDTIKEV 185
>pdb|1AIS|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box
Complex From Pyrococcus Woesei
Length = 182
Score = 118 bits (296), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 70/177 (39%), Positives = 106/177 (59%), Gaps = 10/177 (5%)
Query: 5 IQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIVCTGA 64
I+NIVA+++L +LDL+K+ N++YNP F + + +PK LIFSSGK+V TGA
Sbjct: 11 IENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGA 70
Query: 65 KSESQAKLAARKYARIVQKIGFPVQFK---DFKIQNIVGSCDV--EFPIKLERLNGFHAM 119
KS + A K A+ ++ IG V+FK +QN+V S D+ EF + + L +
Sbjct: 71 KSVQDIERAVAKLAQKLKSIG--VKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPNC- 127
Query: 120 FSTYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVYV 176
YEPE FPG+IYR+K+P +L+F SGK+V +GAK+ + A + L+ Y+
Sbjct: 128 --EYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELDKYL 182
>pdb|1D3U|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA-
Box Complex From Pyrococcus Woesei
Length = 181
Score = 118 bits (295), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 70/176 (39%), Positives = 105/176 (59%), Gaps = 10/176 (5%)
Query: 5 IQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIVCTGA 64
I+NIVA+++L +LDL+K+ N++YNP F + + +PK LIFSSGK+V TGA
Sbjct: 11 IENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGA 70
Query: 65 KSESQAKLAARKYARIVQKIGFPVQFK---DFKIQNIVGSCDV--EFPIKLERLNGFHAM 119
KS + A K A+ ++ IG V+FK +QN+V S D+ EF + + L +
Sbjct: 71 KSVQDIERAVAKLAQKLKSIG--VKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPNC- 127
Query: 120 FSTYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVY 175
YEPE FPG+IYR+K+P +L+F SGK+V +GAK+ + A + L+ Y
Sbjct: 128 --EYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELDKY 181
>pdb|1PCZ|A Chain A, Structure Of Tata-Binding Protein
pdb|1PCZ|B Chain B, Structure Of Tata-Binding Protein
Length = 191
Score = 118 bits (295), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 70/176 (39%), Positives = 105/176 (59%), Gaps = 10/176 (5%)
Query: 5 IQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIVCTGA 64
I+NIVA+++L +LDL+K+ N++YNP F + + +PK LIFSSGK+V TGA
Sbjct: 11 IENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGA 70
Query: 65 KSESQAKLAARKYARIVQKIGFPVQFK---DFKIQNIVGSCDV--EFPIKLERLNGFHAM 119
KS + A K A+ ++ IG V+FK +QN+V S D+ EF + + L +
Sbjct: 71 KSVQDIERAVAKLAQKLKSIG--VKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPNC- 127
Query: 120 FSTYEPELFPGLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAFNNIYPVLNVY 175
YEPE FPG+IYR+K+P +L+F SGK+V +GAK+ + A + L+ Y
Sbjct: 128 --EYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELDKY 181
Score = 76.6 bits (187), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 38/81 (46%), Positives = 53/81 (65%)
Query: 5 IQNIVATINLECKLDLKKIALHARNAEYNPSRFSAVTMRIKEPKTTALIFSSGKIVCTGA 64
+QN+V + ++ + +L +AL N EY P +F V R+KEPK+ L+FSSGKIVC+GA
Sbjct: 102 VQNMVFSGDIGREFNLDVVALTLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGA 161
Query: 65 KSESQAKLAARKYARIVQKIG 85
KSE+ A A RK R + K G
Sbjct: 162 KSEADAWEAVRKLLRELDKYG 182
>pdb|3ASM|A Chain A, Crystal Structure Of Q54a Mutant Protein Of Bst-Rnase Hiii
Length = 310
Score = 30.0 bits (66), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 113 LNGFHAMFSTYEPELFP-GLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAF 165
L+ A + + P G ++ +K+P+V + + SGKV+ G KA EQ A +
Sbjct: 13 LDALRAHYEGALSDRLPAGALFAVKRPDVVITAYRSGKVLFAG-KAAEQEAAKW 65
>pdb|2D0A|A Chain A, Crystal Structure Of Bst-Rnase Hiii
pdb|2D0B|A Chain A, Crystal Structure Of Bst-Rnase Hiii In Complex With Mg2+
pdb|2D0C|A Chain A, Crystal Structure Of Bst-Rnase Hiii In Complex With Mn2+
Length = 310
Score = 29.6 bits (65), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 113 LNGFHAMFSTYEPELFP-GLIYRMKKPNVTMLIFLSGKVVITGAKAREQIYAAF 165
L+ A + + P G ++ +K+P+V + + SGKV+ G KA EQ A +
Sbjct: 13 LDALRAHYEGALSDRLPAGALFAVKRPDVVITAYRSGKVLFQG-KAAEQEAAKW 65
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.137 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,866,026
Number of Sequences: 62578
Number of extensions: 177049
Number of successful extensions: 331
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 268
Number of HSP's gapped (non-prelim): 27
length of query: 180
length of database: 14,973,337
effective HSP length: 93
effective length of query: 87
effective length of database: 9,153,583
effective search space: 796361721
effective search space used: 796361721
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)