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= psy16701
(272 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RM1|A Chain A, Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex
Length = 240
Score = 186 bits (472), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 81/146 (55%), Positives = 111/146 (76%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GA
Sbjct: 67 LQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGA 126
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E D KLASRK+A+I++++G K+ FKI NIV +CDV+FP++L+ L H FSSYE
Sbjct: 127 KSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYE 186
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRMVKP++VLLIFV+G+I
Sbjct: 187 PELFPGLIYRMVKPKIVLLIFVSGKI 212
Score = 127 bits (318), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 65/169 (38%), Positives = 101/169 (59%), Gaps = 2/169 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GAK
Sbjct: 69 NIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKS 128
Query: 100 EHDCKLASRKFAKILKQLG-HPEIIFFFFRNMVGTISVGCPLDLNQIN-SRVRYSEYNPG 157
E D KLASRK+A+I++++G + F +N+VG+ V P+ L + S +S Y P
Sbjct: 129 EDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPE 188
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
F GLI +++ P+ L F SGK+++ GAK + A +L +
Sbjct: 189 LFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEF 237
>pdb|1CDW|A Chain A, Human Tbp Core Domain Complexed With Dna
Length = 179
Score = 186 bits (471), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 81/146 (55%), Positives = 113/146 (77%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GA
Sbjct: 7 LQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGA 66
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E + +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSYE
Sbjct: 67 KSEENSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYE 126
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRM+KPR+VLLIFV+G++
Sbjct: 127 PELFPGLIYRMIKPRIVLLIFVSGKV 152
Score = 131 bits (330), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 69/167 (41%), Positives = 104/167 (62%), Gaps = 2/167 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GAK
Sbjct: 9 NIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKS 68
Query: 100 EHDCKLASRKFAKILKQLGHP-EIIFFFFRNMVGTISVGCPLDLN-QINSRVRYSEYNPG 157
E + +LA+RK+A+++++LG P + + F +NMVG+ V P+ L + + ++S Y P
Sbjct: 69 EENSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEPE 128
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK 204
F GLI +++ PR L F SGK+++ GAK + A ILK
Sbjct: 129 LFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILK 175
>pdb|1TGH|A Chain A, Tata Binding Protein (Tbp)DNA COMPLEX
Length = 185
Score = 185 bits (470), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 81/146 (55%), Positives = 112/146 (76%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GA
Sbjct: 11 LQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGA 70
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSYE
Sbjct: 71 KSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYE 130
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRM+KPR+VLLIFV+G++
Sbjct: 131 PELFPGLIYRMIKPRIVLLIFVSGKV 156
Score = 131 bits (329), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 69/167 (41%), Positives = 103/167 (61%), Gaps = 2/167 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GAK
Sbjct: 13 NIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKS 72
Query: 100 EHDCKLASRKFAKILKQLGHP-EIIFFFFRNMVGTISVGCPLDLNQ-INSRVRYSEYNPG 157
E +LA+RK+A+++++LG P + + F +NMVG+ V P+ L + + ++S Y P
Sbjct: 73 EEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEPE 132
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK 204
F GLI +++ PR L F SGK+++ GAK + A ILK
Sbjct: 133 LFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILK 179
>pdb|1NVP|A Chain A, Human TfiiaTBPDNA COMPLEX
Length = 181
Score = 185 bits (470), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 81/146 (55%), Positives = 112/146 (76%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GA
Sbjct: 7 LQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGA 66
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSYE
Sbjct: 67 KSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYE 126
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRM+KPR+VLLIFV+G++
Sbjct: 127 PELFPGLIYRMIKPRIVLLIFVSGKV 152
Score = 131 bits (329), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 69/167 (41%), Positives = 103/167 (61%), Gaps = 2/167 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GAK
Sbjct: 9 NIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKS 68
Query: 100 EHDCKLASRKFAKILKQLGHP-EIIFFFFRNMVGTISVGCPLDLN-QINSRVRYSEYNPG 157
E +LA+RK+A+++++LG P + + F +NMVG+ V P+ L + + ++S Y P
Sbjct: 69 EEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEPE 128
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK 204
F GLI +++ PR L F SGK+++ GAK + A ILK
Sbjct: 129 LFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILK 175
>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 = 185 bits (469), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 81/146 (55%), Positives = 112/146 (76%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GA
Sbjct: 8 LQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGA 67
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSYE
Sbjct: 68 KSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYE 127
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRM+KPR+VLLIFV+G++
Sbjct: 128 PELFPGLIYRMIKPRIVLLIFVSGKV 153
Score = 131 bits (329), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 69/167 (41%), Positives = 103/167 (61%), Gaps = 2/167 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GAK
Sbjct: 10 NIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKS 69
Query: 100 EHDCKLASRKFAKILKQLGHP-EIIFFFFRNMVGTISVGCPLDLN-QINSRVRYSEYNPG 157
E +LA+RK+A+++++LG P + + F +NMVG+ V P+ L + + ++S Y P
Sbjct: 70 EEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEPE 129
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK 204
F GLI +++ PR L F SGK+++ GAK + A ILK
Sbjct: 130 LFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILK 176
>pdb|1JFI|C Chain C, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 185
Score = 185 bits (469), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 81/146 (55%), Positives = 112/146 (76%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GA
Sbjct: 11 LQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGA 70
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSYE
Sbjct: 71 KSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYE 130
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRM+KPR+VLLIFV+G++
Sbjct: 131 PELFPGLIYRMIKPRIVLLIFVSGKV 156
Score = 130 bits (328), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 69/167 (41%), Positives = 103/167 (61%), Gaps = 2/167 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ GAK
Sbjct: 13 NIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTGAKS 72
Query: 100 EHDCKLASRKFAKILKQLGHP-EIIFFFFRNMVGTISVGCPLDLN-QINSRVRYSEYNPG 157
E +LA+RK+A+++++LG P + + F +NMVG+ V P+ L + + ++S Y P
Sbjct: 73 EEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSYEPE 132
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILK 204
F GLI +++ PR L F SGK+++ GAK + A ILK
Sbjct: 133 LFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILK 179
>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 = 184 bits (468), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 81/146 (55%), Positives = 111/146 (76%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GA
Sbjct: 7 LQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGA 66
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E D KLASRK+A+I++++G K+ FKI NIV +CDV+FP++L+ L H FSSYE
Sbjct: 67 KSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYE 126
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRMVKP++VLLIFV+G+I
Sbjct: 127 PELFPGLIYRMVKPKIVLLIFVSGKI 152
Score = 127 bits (319), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 65/169 (38%), Positives = 101/169 (59%), Gaps = 2/169 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GAK
Sbjct: 9 NIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKS 68
Query: 100 EHDCKLASRKFAKILKQLG-HPEIIFFFFRNMVGTISVGCPLDLNQIN-SRVRYSEYNPG 157
E D KLASRK+A+I++++G + F +N+VG+ V P+ L + S +S Y P
Sbjct: 69 EDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPE 128
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
F GLI +++ P+ L F SGK+++ GAK + A +L +
Sbjct: 129 LFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEF 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 = 184 bits (468), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 81/146 (55%), Positives = 111/146 (76%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GA
Sbjct: 7 LQNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGA 66
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E D KLASRK+A+I++++G K+ FKI NIV +CDV+FP++L+ L H FSSYE
Sbjct: 67 KSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYE 126
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRMVKP++VLLIFV+G+I
Sbjct: 127 PELFPGLIYRMVKPKIVLLIFVSGKI 152
Score = 127 bits (318), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 65/169 (38%), Positives = 101/169 (59%), Gaps = 2/169 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GAK
Sbjct: 9 NIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKS 68
Query: 100 EHDCKLASRKFAKILKQLG-HPEIIFFFFRNMVGTISVGCPLDLNQIN-SRVRYSEYNPG 157
E D KLASRK+A+I++++G + F +N+VG+ V P+ L + S +S Y P
Sbjct: 69 EDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPE 128
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
F GLI +++ P+ L F SGK+++ GAK + A +L +
Sbjct: 129 LFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEF 177
>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 = 179 bits (453), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 81/154 (52%), Positives = 114/154 (74%)
Query: 119 HPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQS 178
HP I +N+V T+++ C LDL I + R +EYNP +F +IM+I P+TT L F S
Sbjct: 17 HPSGIVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFAS 76
Query: 179 GKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHV 238
GK++ GAK E K+A+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L +
Sbjct: 77 GKMVCTGAKSEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYS 136
Query: 239 HSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI 272
H+ FSSYEPELFPGLIYRM P++VLLIFV+G+I
Sbjct: 137 HAAFSSYEPELFPGLIYRMKVPKIVLLIFVSGKI 170
Score = 119 bits (297), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 65/169 (38%), Positives = 99/169 (58%), Gaps = 2/169 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++ C LDL I + R +EYNP +F +IM+I P+TT L F SGK++ GAK
Sbjct: 27 NIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKS 86
Query: 100 EHDCKLASRKFAKILKQLGHP-EIIFFFFRNMVGTISVGCPLDLNQIN-SRVRYSEYNPG 157
E K+A+RK+A+I+++LG P + F +N+VG+ V P+ L + S +S Y P
Sbjct: 87 EDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEPE 146
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
F GLI ++ P+ L F SGK++I GAK + A +L +
Sbjct: 147 LFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEF 195
>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 = 178 bits (452), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 81/154 (52%), Positives = 114/154 (74%)
Query: 119 HPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQS 178
HP I +N+V T+++ C LDL I + R +EYNP +F +IM+I P+TT L F S
Sbjct: 5 HPSGIVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFAS 64
Query: 179 GKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHV 238
GK++ GAK E K+A+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L +
Sbjct: 65 GKMVCTGAKSEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYS 124
Query: 239 HSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI 272
H+ FSSYEPELFPGLIYRM P++VLLIFV+G+I
Sbjct: 125 HAAFSSYEPELFPGLIYRMKVPKIVLLIFVSGKI 158
Score = 119 bits (298), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 65/169 (38%), Positives = 99/169 (58%), Gaps = 2/169 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++ C LDL I + R +EYNP +F +IM+I P+TT L F SGK++ GAK
Sbjct: 15 NIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKS 74
Query: 100 EHDCKLASRKFAKILKQLGHP-EIIFFFFRNMVGTISVGCPLDLNQIN-SRVRYSEYNPG 157
E K+A+RK+A+I+++LG P + F +N+VG+ V P+ L + S +S Y P
Sbjct: 75 EDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEPE 134
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
F GLI ++ P+ L F SGK++I GAK + A +L +
Sbjct: 135 LFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEF 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 = 178 bits (451), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 81/154 (52%), Positives = 114/154 (74%)
Query: 119 HPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQS 178
HP I +N+V T+++ C LDL I + R +EYNP +F +IM+I P+TT L F S
Sbjct: 7 HPSGIVPTLQNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFAS 66
Query: 179 GKLLILGAKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHV 238
GK++ GAK E K+A+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L +
Sbjct: 67 GKMVCTGAKSEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYS 126
Query: 239 HSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI 272
H+ FSSYEPELFPGLIYRM P++VLLIFV+G+I
Sbjct: 127 HAAFSSYEPELFPGLIYRMKVPKIVLLIFVSGKI 160
Score = 119 bits (298), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 65/169 (38%), Positives = 99/169 (58%), Gaps = 2/169 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++ C LDL I + R +EYNP +F +IM+I P+TT L F SGK++ GAK
Sbjct: 17 NIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAKS 76
Query: 100 EHDCKLASRKFAKILKQLGHP-EIIFFFFRNMVGTISVGCPLDLNQIN-SRVRYSEYNPG 157
E K+A+RK+A+I+++LG P + F +N+VG+ V P+ L + S +S Y P
Sbjct: 77 EDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEPE 136
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
F GLI ++ P+ L F SGK++I GAK + A +L +
Sbjct: 137 LFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEF 185
>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 = 171 bits (434), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 75/146 (51%), Positives = 108/146 (73%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++ C LDL I R R +EYNP +F +IM+I P+TT L F SGK++I GA
Sbjct: 45 LQNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGA 104
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E ++A++++AKI+ +LG + FKI NIV +CD++F ++L+ L + HS + SYE
Sbjct: 105 KSEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYE 164
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRMVKP++VLLIFV+G+I
Sbjct: 165 PELFPGLIYRMVKPKIVLLIFVSGKI 190
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 100/178 (56%), Gaps = 5/178 (2%)
Query: 33 NRRG---TNLNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQS 89
NR G T N+V T+++ C LDL I R R +EYNP +F +IM+I P+TT L F S
Sbjct: 37 NRSGIIPTLQNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFAS 96
Query: 90 GKLLILGAKHEHDCKLASRKFAKILKQLG-HPEIIFFFFRNMVGTISVGCPLDLNQIN-S 147
GK++I GAK E ++A++++AKI+ +LG + F +N+V + + + L + +
Sbjct: 97 GKMVITGAKSEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYA 156
Query: 148 RVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQ 205
Y Y P F GLI +++ P+ L F SGK+++ GAK D A +L Q
Sbjct: 157 HSNYCSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVLIQ 214
>pdb|3EIK|A Chain A, Double Stranded Dna Binding Protein
pdb|3EIK|B Chain B, Double Stranded Dna Binding Protein
Length = 218
Score = 171 bits (434), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 75/146 (51%), Positives = 108/146 (73%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
+N+V T+++ C LDL I R R +EYNP +F +IM+I P+TT L F SGK++I GA
Sbjct: 45 LQNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGA 104
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
K E ++A++++AKI+ +LG + FKI NIV +CD++F ++L+ L + HS + SYE
Sbjct: 105 KSEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYE 164
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PELFPGLIYRMVKP++VLLIFV+G+I
Sbjct: 165 PELFPGLIYRMVKPKIVLLIFVSGKI 190
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 100/178 (56%), Gaps = 5/178 (2%)
Query: 33 NRRG---TNLNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQS 89
NR G T N+V T+++ C LDL I R R +EYNP +F +IM+I P+TT L F S
Sbjct: 37 NRSGIIPTLQNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFAS 96
Query: 90 GKLLILGAKHEHDCKLASRKFAKILKQLG-HPEIIFFFFRNMVGTISVGCPLDLNQIN-S 147
GK++I GAK E ++A++++AKI+ +LG + F +N+V + + + L + +
Sbjct: 97 GKMVITGAKSEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYA 156
Query: 148 RVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQ 205
Y Y P F GLI +++ P+ L F SGK+++ GAK D A +L Q
Sbjct: 157 HSNYCSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVLIQ 214
>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 = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 58/175 (33%), Positives = 97/175 (55%), Gaps = 8/175 (4%)
Query: 39 LNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 98
+N+V + +G +DL ++ + +EY P +F GL+ ++ P+ L F+SGK+ GAK
Sbjct: 16 VNVVVSTKIGDNIDLEEVAMILENAEYEPEQFPGLVCRLSVPKVALLIFRSGKVNCTGAK 75
Query: 99 HEHDCKLASRKFAKILKQLG-----HPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSE 153
+ + ++A +K K LK G +PEI +NMV T +G +L+ I V +E
Sbjct: 76 SKEEAEIAIKKIIKELKDAGIDVIENPEI---KIQNMVATADLGIEPNLDDIALMVEGTE 132
Query: 154 YNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGH 208
Y P +F GL+ ++ +P+ L F SGK++I G K E D K A +K +K++
Sbjct: 133 YEPEQFPGLVYRLDDPKVVVLIFGSGKVVITGLKSEEDAKRALKKILDTIKEVQE 187
Score = 99.0 bits (245), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 55/155 (35%), Positives = 89/155 (57%), Gaps = 5/155 (3%)
Query: 119 HPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQS 178
PEI N+V + +G +DL ++ + +EY P +F GL+ ++ P+ L F+S
Sbjct: 10 EPEIKIV---NVVVSTKIGDNIDLEEVAMILENAEYEPEQFPGLVCRLSVPKVALLIFRS 66
Query: 179 GKLLILGAKHEHDCKLASRKFAKILKQLG-HPIKYQGFKIHNIVCTCDVRFPVKLDALHH 237
GK+ GAK + + ++A +K K LK G I+ KI N+V T D+ LD +
Sbjct: 67 GKVNCTGAKSKEEAEIAIKKIIKELKDAGIDVIENPEIKIQNMVATADLGIEPNLDDI-A 125
Query: 238 VHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI 272
+ + + YEPE FPGL+YR+ P+VV+LIF +G++
Sbjct: 126 LMVEGTEYEPEQFPGLVYRLDDPKVVVLIFGSGKV 160
>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 = 105 bits (261), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 57/147 (38%), Positives = 88/147 (59%), Gaps = 2/147 (1%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
N+V T+++ LDL + V EY+P +F GLI ++ +P+ T L F+SGK+++ GA
Sbjct: 15 IENIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVTGA 74
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 245
K + A ++ K LK+ G + + +I NIV + ++ V LD + + Y
Sbjct: 75 KSTDELIKAVKRIIKTLKKYGMQLTGKPKIQIQNIVASANLHVIVNLDKAAFLLEN-NMY 133
Query: 246 EPELFPGLIYRMVKPRVVLLIFVNGRI 272
EPE FPGLIYRM +PRVVLLIF +G++
Sbjct: 134 EPEQFPGLIYRMDEPRVVLLIFSSGKM 160
Score = 96.7 bits (239), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 56/173 (32%), Positives = 95/173 (54%), Gaps = 8/173 (4%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++ LDL + V EY+P +F GLI ++ +P+ T L F+SGK+++ GAK
Sbjct: 17 NIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVTGAKS 76
Query: 100 EHDCKLASRKFAKILKQ-----LGHPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEY 154
+ A ++ K LK+ G P+I +N+V + ++ ++L++ + + Y
Sbjct: 77 TDELIKAVKRIIKTLKKYGMQLTGKPKI---QIQNIVASANLHVIVNLDKAAFLLENNMY 133
Query: 155 NPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLG 207
P +F GLI ++ PR L F SGK++I GAK E + A +K L +L
Sbjct: 134 EPEQFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEVHKAVKKIFDKLVELD 186
>pdb|1PCZ|A Chain A, Structure Of Tata-Binding Protein
pdb|1PCZ|B Chain B, Structure Of Tata-Binding Protein
Length = 191
Score = 98.2 bits (243), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 58/173 (33%), Positives = 93/173 (53%), Gaps = 8/173 (4%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++ GAK
Sbjct: 13 NIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAKS 72
Query: 100 EHDCKLASRKFAKILKQLG-----HPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEY 154
D + A K A+ LK +G P+I +NMV + +G +L+ + + EY
Sbjct: 73 VQDIERAVAKLAQKLKSIGVKFKRAPQI---DVQNMVFSGDIGREFNLDVVALTLPNCEY 129
Query: 155 NPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLG 207
P +F G+I ++ P++ L F SGK++ GAK E D A RK + L + G
Sbjct: 130 EPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELDKYG 182
Score = 90.9 bits (224), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 51/147 (34%), Positives = 81/147 (55%), Gaps = 2/147 (1%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++ GA
Sbjct: 11 IENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGA 70
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 245
K D + A K A+ LK +G K + N+V + D+ LD + Y
Sbjct: 71 KSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPN-CEY 129
Query: 246 EPELFPGLIYRMVKPRVVLLIFVNGRI 272
EPE FPG+IYR+ +P+ V+L+F +G+I
Sbjct: 130 EPEQFPGVIYRVKEPKSVILLFSSGKI 156
>pdb|1D3U|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA-
Box Complex From Pyrococcus Woesei
Length = 181
Score = 96.3 bits (238), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 57/171 (33%), Positives = 92/171 (53%), Gaps = 8/171 (4%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++ GAK
Sbjct: 13 NIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAKS 72
Query: 100 EHDCKLASRKFAKILKQLG-----HPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEY 154
D + A K A+ LK +G P+I +NMV + +G +L+ + + EY
Sbjct: 73 VQDIERAVAKLAQKLKSIGVKFKRAPQI---DVQNMVFSGDIGREFNLDVVALTLPNCEY 129
Query: 155 NPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQ 205
P +F G+I ++ P++ L F SGK++ GAK E D A RK + L +
Sbjct: 130 EPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELDK 180
Score = 90.9 bits (224), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 51/147 (34%), Positives = 81/147 (55%), Gaps = 2/147 (1%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++ GA
Sbjct: 11 IENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGA 70
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 245
K D + A K A+ LK +G K + N+V + D+ LD + Y
Sbjct: 71 KSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPN-CEY 129
Query: 246 EPELFPGLIYRMVKPRVVLLIFVNGRI 272
EPE FPG+IYR+ +P+ V+L+F +G+I
Sbjct: 130 EPEQFPGVIYRVKEPKSVILLFSSGKI 156
>pdb|1AIS|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box
Complex From Pyrococcus Woesei
Length = 182
Score = 96.3 bits (238), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 57/171 (33%), Positives = 92/171 (53%), Gaps = 8/171 (4%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++ GAK
Sbjct: 13 NIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAKS 72
Query: 100 EHDCKLASRKFAKILKQLG-----HPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEY 154
D + A K A+ LK +G P+I +NMV + +G +L+ + + EY
Sbjct: 73 VQDIERAVAKLAQKLKSIGVKFKRAPQI---DVQNMVFSGDIGREFNLDVVALTLPNCEY 129
Query: 155 NPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQ 205
P +F G+I ++ P++ L F SGK++ GAK E D A RK + L +
Sbjct: 130 EPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELDK 180
Score = 90.9 bits (224), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 51/147 (34%), Positives = 81/147 (55%), Gaps = 2/147 (1%)
Query: 127 FRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGA 186
N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++ GA
Sbjct: 11 IENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGA 70
Query: 187 KHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 245
K D + A K A+ LK +G K + N+V + D+ LD + Y
Sbjct: 71 KSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPN-CEY 129
Query: 246 EPELFPGLIYRMVKPRVVLLIFVNGRI 272
EPE FPG+IYR+ +P+ V+L+F +G+I
Sbjct: 130 EPEQFPGVIYRVKEPKSVILLFSSGKI 156
>pdb|3I79|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1)
pdb|3I7B|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Bumped Kinase Inhibitor Nm-Pp1
pdb|3N51|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Bumped Kinase Inhibitor
Rm-1-95
pdb|3SX9|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Bumped Kinase Inhibitor,
Rm-1-132
pdb|3SXF|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Bumped Kinase Inhibitor,
Rm-1-89
pdb|3T3U|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Bumped Kinase Inhibitor,
Rm-1-130
pdb|3T3V|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Bumped Kinase Inhibitor,
Rm-1-87
pdb|3UPX|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Inhibitor Uw1300
pdb|3UPZ|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Bumpless Bki Analog Uw1243
pdb|3V51|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Inhibitor Rm-1-176
pdb|3V5P|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Inhibitor Uw1288
pdb|3V5T|A Chain A, Calcium-Dependent Protein Kinase 1 From Toxoplasma Gondii
(Tgcdpk1) In Complex With Inhibitor Uw1299
Length = 484
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 8/54 (14%)
Query: 112 KILKQLGHPEI--IFFFFRN-----MVGTISVGCPLDLNQINSRVRYSEYNPGK 158
++LKQL HP I ++ FF + +VG + G L ++I SR R+SE + +
Sbjct: 78 QLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGEL-FDEIISRKRFSEVDAAR 130
>pdb|3KU2|A Chain A, Crystal Structure Of Inactivated Form Of Cdpk1 From
Toxoplasma Gondii, Tgme49.101440
Length = 507
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 8/54 (14%)
Query: 112 KILKQLGHPEI--IFFFFRN-----MVGTISVGCPLDLNQINSRVRYSEYNPGK 158
++LKQL HP I ++ FF + +VG + G L ++I SR R+SE + +
Sbjct: 101 QLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGEL-FDEIISRKRFSEVDAAR 153
>pdb|3HX4|A Chain A, Crystal Structure Of Cdpk1 Of Toxoplasma Gondii,
Tgme49_101440, In Presence Of Calcium
Length = 508
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 8/54 (14%)
Query: 112 KILKQLGHPEI--IFFFFRN-----MVGTISVGCPLDLNQINSRVRYSEYNPGK 158
++LKQL HP I ++ FF + +VG + G L ++I SR R+SE + +
Sbjct: 102 QLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGEL-FDEIISRKRFSEVDAAR 154
>pdb|3MA6|A Chain A, Crystal Structure Of Kinase Domain Of Tgcdpk1 In Presence
Of 3brb-Pp1
pdb|3MA6|B Chain B, Crystal Structure Of Kinase Domain Of Tgcdpk1 In Presence
Of 3brb-Pp1
Length = 298
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 8/55 (14%)
Query: 111 AKILKQLGHPEI--IFFFFRN-----MVGTISVGCPLDLNQINSRVRYSEYNPGK 158
++LKQL HP I ++ FF + +VG + G L ++I SR R+SE + +
Sbjct: 83 VQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGEL-FDEIISRKRFSEVDAAR 136
>pdb|3ZR5|A Chain A, Structure Of Galactocerebrosidase From Mouse
pdb|3ZR6|A Chain A, Structure Of Galactocerebrosidase From Mouse In Complex
With Galactose
Length = 656
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 7/57 (12%)
Query: 182 LILGAKHEHDCKLA------SRKF-AKILKQLGHPIKYQGFKIHNIVCTCDVRFPVK 231
ILGAKH HD + R F A +K+L + YQG + I+ + ++ P+
Sbjct: 150 WILGAKHYHDLDIDYIGIWNERPFDANYIKELRKMLDYQGLQRVRIIASDNLWEPIS 206
>pdb|3K1Q|A Chain A, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3IYL|W Chain W, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests How
Penetration Protein Is Primed For Cell Entry
Length = 1299
Score = 28.5 bits (62), Expect = 4.2, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 45 ISVGCPLDLNQINSRVRYSEYNP 67
I VG PL+L+ IN+ + YS P
Sbjct: 1002 IGVGSPLNLSDINTAISYSRLTP 1024
Score = 28.5 bits (62), Expect = 4.2, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 134 ISVGCPLDLNQINSRVRYSEYNP 156
I VG PL+L+ IN+ + YS P
Sbjct: 1002 IGVGSPLNLSDINTAISYSRLTP 1024
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
0.327 0.144 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,405,533
Number of Sequences: 62578
Number of extensions: 339456
Number of successful extensions: 796
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 693
Number of HSP's gapped (non-prelim): 50
length of query: 272
length of database: 14,973,337
effective HSP length: 97
effective length of query: 175
effective length of database: 8,903,271
effective search space: 1558072425
effective search space used: 1558072425
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.3 bits)