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= psy2814
(176 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NVP|A Chain A, Human TfiiaTBPDNA COMPLEX
Length = 181
Score = 229 bits (585), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 100/174 (57%), Positives = 137/174 (78%)
Query: 2 HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
QN+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ G
Sbjct: 6 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 65
Query: 62 AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
AK E +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSY
Sbjct: 66 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 125
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 126 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 179
>pdb|1TGH|A Chain A, Tata Binding Protein (Tbp)DNA COMPLEX
Length = 185
Score = 229 bits (585), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 100/174 (57%), Positives = 137/174 (78%)
Query: 2 HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
QN+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ G
Sbjct: 10 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 69
Query: 62 AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
AK E +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSY
Sbjct: 70 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 129
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 130 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 183
>pdb|1CDW|A Chain A, Human Tbp Core Domain Complexed With Dna
Length = 179
Score = 229 bits (585), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 100/174 (57%), Positives = 138/174 (79%)
Query: 2 HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
QN+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ G
Sbjct: 6 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 65
Query: 62 AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
AK E + +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSY
Sbjct: 66 AKSEENSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 125
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 126 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 179
>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 = 229 bits (584), Expect = 7e-61, Method: Compositional matrix adjust.
Identities = 100/174 (57%), Positives = 137/174 (78%)
Query: 2 HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
QN+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ G
Sbjct: 7 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 66
Query: 62 AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
AK E +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSY
Sbjct: 67 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 126
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 127 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 180
>pdb|1JFI|C Chain C, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 185
Score = 229 bits (583), Expect = 7e-61, Method: Compositional matrix adjust.
Identities = 100/174 (57%), Positives = 137/174 (78%)
Query: 2 HYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILG 61
QN+V T+++GC LDL I R R +EYNP +F +IM+I PRTT L F SGK++ G
Sbjct: 10 QLQNIVSTVNLGCKLDLKTIALRARNAEYNPKRFAAVIMRIREPRTTALIFSSGKMVCTG 69
Query: 62 AKHEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSY 121
AK E +LA+RK+A+++++LG P K+ FKI N+V +CDV+FP++L+ L H QFSSY
Sbjct: 70 AKSEEQSRLAARKYARVVQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEGLVLTHQQFSSY 129
Query: 122 EPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
EPELFPGLIYRM+KPR+VLLIFV+G++V+TGAK R+E++EAF+NIYP+LK F+K
Sbjct: 130 EPELFPGLIYRMIKPRIVLLIFVSGKVVLTGAKVRAEIYEAFENIYPILKGFRK 183
>pdb|1RM1|A Chain A, Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex
Length = 240
Score = 224 bits (571), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 98/172 (56%), Positives = 133/172 (77%)
Query: 4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
QN+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GAK
Sbjct: 68 QNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAK 127
Query: 64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
E D KLASRK+A+I++++G K+ FKI NIV +CDV+FP++L+ L H FSSYEP
Sbjct: 128 SEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEP 187
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R E+++AF+ IYPVL F+K
Sbjct: 188 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRK 239
>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 = 223 bits (568), Expect = 5e-59, Method: Compositional matrix adjust.
Identities = 98/172 (56%), Positives = 133/172 (77%)
Query: 4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
QN+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GAK
Sbjct: 8 QNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAK 67
Query: 64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
E D KLASRK+A+I++++G K+ FKI NIV +CDV+FP++L+ L H FSSYEP
Sbjct: 68 SEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEP 127
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R E+++AF+ IYPVL F+K
Sbjct: 128 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRK 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 = 223 bits (567), Expect = 5e-59, Method: Compositional matrix adjust.
Identities = 98/172 (56%), Positives = 133/172 (77%)
Query: 4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
QN+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GAK
Sbjct: 8 QNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAK 67
Query: 64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
E D KLASRK+A+I++++G K+ FKI NIV +CDV+FP++L+ L H FSSYEP
Sbjct: 68 SEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEP 127
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R E+++AF+ IYPVL F+K
Sbjct: 128 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRK 179
>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 = 215 bits (548), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 97/172 (56%), Positives = 133/172 (77%)
Query: 4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
QN+V T+++ C LDL I + R +EYNP +F +IM+I P+TT L F SGK++ GAK
Sbjct: 14 QNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAK 73
Query: 64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
E K+A+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L + H+ FSSYEP
Sbjct: 74 SEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEP 133
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
ELFPGLIYRM P++VLLIFV+G+IVITGAK R E ++AF+NIYPVL F+K
Sbjct: 134 ELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRK 185
>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 = 215 bits (548), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 97/172 (56%), Positives = 133/172 (77%)
Query: 4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
QN+V T+++ C LDL I + R +EYNP +F +IM+I P+TT L F SGK++ GAK
Sbjct: 26 QNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAK 85
Query: 64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
E K+A+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L + H+ FSSYEP
Sbjct: 86 SEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEP 145
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
ELFPGLIYRM P++VLLIFV+G+IVITGAK R E ++AF+NIYPVL F+K
Sbjct: 146 ELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRK 197
>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 = 215 bits (547), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 97/172 (56%), Positives = 133/172 (77%)
Query: 4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
QN+V T+++ C LDL I + R +EYNP +F +IM+I P+TT L F SGK++ GAK
Sbjct: 16 QNIVSTVNLDCKLDLKAIALQARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVCTGAK 75
Query: 64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
E K+A+RK+A+I+++LG P K++ FKI NIV +CDV+FP++L+ L + H+ FSSYEP
Sbjct: 76 SEDFSKMAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYSHAAFSSYEP 135
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
ELFPGLIYRM P++VLLIFV+G+IVITGAK R E ++AF+NIYPVL F+K
Sbjct: 136 ELFPGLIYRMKVPKIVLLIFVSGKIVITGAKMRDETYKAFENIYPVLSEFRK 187
>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 = 205 bits (522), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 91/172 (52%), Positives = 130/172 (75%)
Query: 4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
QN+V T+++ C LDL I R R +EYNP +F +IM+I P+TT L F SGK++I GAK
Sbjct: 46 QNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGAK 105
Query: 64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
E ++A++++AKI+ +LG + FKI NIV +CD++F ++L+ L + HS + SYEP
Sbjct: 106 SEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYEP 165
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R ++++AF+NIYPVL +K
Sbjct: 166 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVLIQHRK 217
>pdb|3EIK|A Chain A, Double Stranded Dna Binding Protein
pdb|3EIK|B Chain B, Double Stranded Dna Binding Protein
Length = 218
Score = 205 bits (522), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 91/172 (52%), Positives = 130/172 (75%)
Query: 4 QNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 63
QN+V T+++ C LDL I R R +EYNP +F +IM+I P+TT L F SGK++I GAK
Sbjct: 46 QNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGAK 105
Query: 64 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
E ++A++++AKI+ +LG + FKI NIV +CD++F ++L+ L + HS + SYEP
Sbjct: 106 SEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYEP 165
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
ELFPGLIYRMVKP++VLLIFV+G+IV+TGAK R ++++AF+NIYPVL +K
Sbjct: 166 ELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVLIQHRK 217
>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 = 127 bits (318), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 67/168 (39%), Positives = 104/168 (61%), Gaps = 2/168 (1%)
Query: 1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
++ +N+V T+++ LDL + V EY+P +F GLI ++ +P+ T L F+SGK+++
Sbjct: 13 VNIENIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVT 72
Query: 61 GAKHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFS 119
GAK + A ++ K LK+ G + + +I NIV + ++ V LD + +
Sbjct: 73 GAKSTDELIKAVKRIIKTLKKYGMQLTGKPKIQIQNIVASANLHVIVNLDKAAFLLEN-N 131
Query: 120 SYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIY 167
YEPE FPGLIYRM +PRVVLLIF +G++VITGAK E+H+A I+
Sbjct: 132 MYEPEQFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEVHKAVKKIF 179
Score = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 48/84 (57%), Gaps = 1/84 (1%)
Query: 93 IHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVITG 152
I NIV T + + L A+ Y+P+ FPGLI+R+ P++ LIF +G++V+TG
Sbjct: 15 IENIVATVTLDQTLDLYAMERSVPNVE-YDPDQFPGLIFRLESPKITSLIFKSGKMVVTG 73
Query: 153 AKSRSELHEAFDNIYPVLKSFKKQ 176
AKS EL +A I LK + Q
Sbjct: 74 AKSTDELIKAVKRIIKTLKKYGMQ 97
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 45/82 (54%)
Query: 1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
+ QN+V + ++ ++L++ + + Y P +F GLI ++ PR L F SGK++I
Sbjct: 104 IQIQNIVASANLHVIVNLDKAAFLLENNMYEPEQFPGLIYRMDEPRVVLLIFSSGKMVIT 163
Query: 61 GAKHEHDCKLASRKFAKILKQL 82
GAK E + A +K L +L
Sbjct: 164 GAKREDEVHKAVKKIFDKLVEL 185
>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 = 114 bits (285), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 61/172 (35%), Positives = 99/172 (57%), Gaps = 2/172 (1%)
Query: 5 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 64
N+V + +G +DL ++ + +EY P +F GL+ ++ P+ L F+SGK+ GAK
Sbjct: 17 NVVVSTKIGDNIDLEEVAMILENAEYEPEQFPGLVCRLSVPKVALLIFRSGKVNCTGAKS 76
Query: 65 EHDCKLASRKFAKILKQLG-HPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 123
+ + ++A +K K LK G I+ KI N+V T D+ LD + + + + YEP
Sbjct: 77 KEEAEIAIKKIIKELKDAGIDVIENPEIKIQNMVATADLGIEPNLDDIA-LMVEGTEYEP 135
Query: 124 ELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEAFDNIYPVLKSFKK 175
E FPGL+YR+ P+VV+LIF +G++VITG KS + A I +K ++
Sbjct: 136 EQFPGLVYRLDDPKVVVLIFGSGKVVITGLKSEEDAKRALKKILDTIKEVQE 187
Score = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 47/82 (57%)
Query: 1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
+ QNMV T +G +L+ I V +EY P +F GL+ ++ +P+ L F SGK++I
Sbjct: 104 IKIQNMVATADLGIEPNLDDIALMVEGTEYEPEQFPGLVYRLDDPKVVVLIFGSGKVVIT 163
Query: 61 GAKHEHDCKLASRKFAKILKQL 82
G K E D K A +K +K++
Sbjct: 164 GLKSEEDAKRALKKILDTIKEV 185
>pdb|1PCZ|A Chain A, Structure Of Tata-Binding Protein
pdb|1PCZ|B Chain B, Structure Of Tata-Binding Protein
Length = 191
Score = 105 bits (263), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 58/163 (35%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
+ +N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++
Sbjct: 9 LRIENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVT 68
Query: 61 GAKHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFS 119
GAK D + A K A+ LK +G K + N+V + D+ LD +
Sbjct: 69 GAKSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPN-C 127
Query: 120 SYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEA 162
YEPE FPG+IYR+ +P+ V+L+F +G+IV +GAKS ++ EA
Sbjct: 128 EYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEA 170
Score = 57.0 bits (136), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 1/83 (1%)
Query: 91 FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
+I NIV + D+ + L+ + + S Y PE FPG+I + P+V LLIF +G++V+
Sbjct: 9 LRIENIVASVDLFAQLDLEKVLDLCPN-SKYNPEEFPGIICHLDDPKVALLIFSSGKLVV 67
Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
TGAKS ++ A + LKS
Sbjct: 68 TGAKSVQDIERAVAKLAQKLKSI 90
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 45/83 (54%)
Query: 1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
+ QNMV + +G +L+ + + EY P +F G+I ++ P++ L F SGK++
Sbjct: 100 IDVQNMVFSGDIGREFNLDVVALTLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCS 159
Query: 61 GAKHEHDCKLASRKFAKILKQLG 83
GAK E D A RK + L + G
Sbjct: 160 GAKSEADAWEAVRKLLRELDKYG 182
>pdb|1AIS|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BTATA-Box
Complex From Pyrococcus Woesei
Length = 182
Score = 105 bits (263), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 58/163 (35%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
+ +N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++
Sbjct: 9 LRIENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVT 68
Query: 61 GAKHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFS 119
GAK D + A K A+ LK +G K + N+V + D+ LD +
Sbjct: 69 GAKSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPN-C 127
Query: 120 SYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEA 162
YEPE FPG+IYR+ +P+ V+L+F +G+IV +GAKS ++ EA
Sbjct: 128 EYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEA 170
Score = 57.0 bits (136), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 1/83 (1%)
Query: 91 FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
+I NIV + D+ + L+ + + S Y PE FPG+I + P+V LLIF +G++V+
Sbjct: 9 LRIENIVASVDLFAQLDLEKVLDLCPN-SKYNPEEFPGIICHLDDPKVALLIFSSGKLVV 67
Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
TGAKS ++ A + LKS
Sbjct: 68 TGAKSVQDIERAVAKLAQKLKSI 90
Score = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 44/81 (54%)
Query: 1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
+ QNMV + +G +L+ + + EY P +F G+I ++ P++ L F SGK++
Sbjct: 100 IDVQNMVFSGDIGREFNLDVVALTLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCS 159
Query: 61 GAKHEHDCKLASRKFAKILKQ 81
GAK E D A RK + L +
Sbjct: 160 GAKSEADAWEAVRKLLRELDK 180
>pdb|1D3U|A Chain A, Tata-Binding ProteinTRANSCRIPTION FACTOR (II)BBRE+TATA-
Box Complex From Pyrococcus Woesei
Length = 181
Score = 105 bits (263), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 58/163 (35%), Positives = 93/163 (57%), Gaps = 2/163 (1%)
Query: 1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
+ +N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++
Sbjct: 9 LRIENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVT 68
Query: 61 GAKHEHDCKLASRKFAKILKQLGHPIKYQ-GFKIHNIVCTCDVRFPVKLDALHHVHSQFS 119
GAK D + A K A+ LK +G K + N+V + D+ LD +
Sbjct: 69 GAKSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPN-C 127
Query: 120 SYEPELFPGLIYRMVKPRVVLLIFVNGRIVITGAKSRSELHEA 162
YEPE FPG+IYR+ +P+ V+L+F +G+IV +GAKS ++ EA
Sbjct: 128 EYEPEQFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEA 170
Score = 57.0 bits (136), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 1/83 (1%)
Query: 91 FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRIVI 150
+I NIV + D+ + L+ + + S Y PE FPG+I + P+V LLIF +G++V+
Sbjct: 9 LRIENIVASVDLFAQLDLEKVLDLCPN-SKYNPEEFPGIICHLDDPKVALLIFSSGKLVV 67
Query: 151 TGAKSRSELHEAFDNIYPVLKSF 173
TGAKS ++ A + LKS
Sbjct: 68 TGAKSVQDIERAVAKLAQKLKSI 90
Score = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 44/81 (54%)
Query: 1 MHYQNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLIL 60
+ QNMV + +G +L+ + + EY P +F G+I ++ P++ L F SGK++
Sbjct: 100 IDVQNMVFSGDIGREFNLDVVALTLPNCEYEPEQFPGVIYRVKEPKSVILLFSSGKIVCS 159
Query: 61 GAKHEHDCKLASRKFAKILKQ 81
GAK E D A RK + L +
Sbjct: 160 GAKSEADAWEAVRKLLRELDK 180
>pdb|2H19|A Chain A, Crystal Structure Of Resa Cys77ala Variant
pdb|2H19|B Chain B, Crystal Structure Of Resa Cys77ala Variant
Length = 143
Score = 30.8 bits (68), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 46/115 (40%), Gaps = 28/115 (24%)
Query: 68 CKLASRKFAKILKQLGHPIKYQGFKI------------HNIVCTCDVRFPVKLDALHHVH 115
C+ A ++F + Q H K QG +I HN + + V FPV LD V
Sbjct: 38 CEPAKKEFPYMANQYKH-FKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQV- 95
Query: 116 SQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI--VITGAKSRSELHEAFDNIYP 168
+Y+ P LI G++ V+TG + S +H+ + I P
Sbjct: 96 --LDAYDVSPLP----------TTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 138
>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 = 2.1, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 10 ISVGCPLDLNQINSRVRYSEYNP 32
I VG PL+L+ IN+ + YS P
Sbjct: 1002 IGVGSPLNLSDINTAISYSRLTP 1024
>pdb|2H1B|A Chain A, Resa E80q
pdb|2H1B|B Chain B, Resa E80q
pdb|2H1B|C Chain C, Resa E80q
pdb|2H1B|D Chain D, Resa E80q
Length = 143
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 45/115 (39%), Gaps = 28/115 (24%)
Query: 68 CKLASRKFAKILKQLGHPIKYQGFKI------------HNIVCTCDVRFPVKLDALHHVH 115
C+ ++F + Q H K QG +I HN + + V FPV LD V
Sbjct: 38 CEPCKKQFPYMANQYKH-FKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQV- 95
Query: 116 SQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI--VITGAKSRSELHEAFDNIYP 168
+Y+ P LI G++ V+TG + S +H+ + I P
Sbjct: 96 --LDAYDVSPLP----------TTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 138
>pdb|1ST9|A Chain A, Crystal Structure Of A Soluble Domain Of Resa In The
Oxidised Form
pdb|1ST9|B Chain B, Crystal Structure Of A Soluble Domain Of Resa In The
Oxidised Form
pdb|1SU9|A Chain A, Reduced Structure Of The Soluble Domain Of Resa
pdb|1SU9|B Chain B, Reduced Structure Of The Soluble Domain Of Resa
pdb|2H1D|A Chain A, Resa Ph 9.25
pdb|2H1D|B Chain B, Resa Ph 9.25
Length = 143
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 45/115 (39%), Gaps = 28/115 (24%)
Query: 68 CKLASRKFAKILKQLGHPIKYQGFKI------------HNIVCTCDVRFPVKLDALHHVH 115
C+ ++F + Q H K QG +I HN + + V FPV LD V
Sbjct: 38 CEPCKKEFPYMANQYKH-FKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQV- 95
Query: 116 SQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI--VITGAKSRSELHEAFDNIYP 168
+Y+ P LI G++ V+TG + S +H+ + I P
Sbjct: 96 --LDAYDVSPLP----------TTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 138
>pdb|3C73|A Chain A, Structure Of Cehc Variant Resa
pdb|3C73|B Chain B, Structure Of Cehc Variant Resa
Length = 140
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 45/115 (39%), Gaps = 28/115 (24%)
Query: 68 CKLASRKFAKILKQLGHPIKYQGFKI------------HNIVCTCDVRFPVKLDALHHVH 115
C+ ++F + Q H K QG +I HN + + V FPV LD V
Sbjct: 35 CEHCKKEFPYMANQYKH-FKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQV- 92
Query: 116 SQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI--VITGAKSRSELHEAFDNIYP 168
+Y+ P LI G++ V+TG + S +H+ + I P
Sbjct: 93 --LDAYDVSPLP----------TTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 135
>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 = 27.7 bits (60), Expect = 3.9, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 7/55 (12%)
Query: 59 ILGAKHEHDCKL------ASRKF-AKILKQLGHPIKYQGFKIHNIVCTCDVRFPV 106
ILGAKH HD + R F A +K+L + YQG + I+ + ++ P+
Sbjct: 151 ILGAKHYHDLDIDYIGIWNERPFDANYIKELRKMLDYQGLQRVRIIASDNLWEPI 205
>pdb|2H1G|A Chain A, Resa C74aC77A
pdb|2H1G|B Chain B, Resa C74aC77A
Length = 143
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 44/112 (39%), Gaps = 28/112 (25%)
Query: 71 ASRKFAKILKQLGHPIKYQGFKI------------HNIVCTCDVRFPVKLDALHHVHSQF 118
A ++F + Q H K QG +I HN + + V FPV LD V
Sbjct: 41 AKKEFPYMANQYKH-FKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQV---L 96
Query: 119 SSYEPELFPGLIYRMVKPRVVLLIFVNGRI--VITGAKSRSELHEAFDNIYP 168
+Y+ P LI G++ V+TG + S +H+ + I P
Sbjct: 97 DAYDVSPLP----------TTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 138
>pdb|3C71|A Chain A, Struture Of A Resa Variant With A Dsba-Like Active Site
Motif (Cphc)
Length = 143
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 44/115 (38%), Gaps = 28/115 (24%)
Query: 68 CKLASRKFAKILKQLGHPIKYQGFKI------------HNIVCTCDVRFPVKLDALHHVH 115
C ++F + Q H K QG +I HN + + V FPV LD V
Sbjct: 38 CPHCKKEFPYMANQYKH-FKSQGVEIVAVNVGESKIAVHNFMKSYGVNFPVVLDTDRQV- 95
Query: 116 SQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI--VITGAKSRSELHEAFDNIYP 168
+Y+ P LI G++ V+TG + S +H+ + I P
Sbjct: 96 --LDAYDVSPLP----------TTFLINPEGKVVKVVTGTMTESMIHDYMNLIKP 138
>pdb|2H1A|A Chain A, Resa C74a Variant
pdb|2H1A|B Chain B, Resa C74a Variant
Length = 143
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 33/78 (42%), Gaps = 15/78 (19%)
Query: 93 IHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI--VI 150
+HN + + V FPV LD V +Y+ P LI G++ V+
Sbjct: 74 VHNFMKSYGVNFPVVLDTDRQV---LDAYDVSPLP----------TTFLINPEGKVVKVV 120
Query: 151 TGAKSRSELHEAFDNIYP 168
TG + S +H+ + I P
Sbjct: 121 TGTMTESMIHDYMNLIKP 138
>pdb|3DAF|A Chain A, The Crystal Structure Of [fe]-Hydrogenase Holoenzyme (Hmd)
From Methanocaldococcus Jannaschii Cocrystallized With
Cyanide
pdb|3DAG|A Chain A, The Crystal Structure Of [fe]-Hydrogenase Holoenzyme (Hmd)
From Methanocaldococcus Jannaschii
Length = 358
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 61 GAKHEHDCKLASRKFAKILKQLG 83
GA H C + + KFAKI K LG
Sbjct: 169 GAIVTHACTIPTTKFAKIFKDLG 191
>pdb|2B0J|A Chain A, The Crystal Structure Of The Apoenzyme Of The
Iron-Sulfur-Cluster-Free Hydrogenase (Hmd)
pdb|3F47|A Chain A, The Crystal Structure Of [fe]-Hydrogenase (Hmd) Holoenzyme
From Methanocaldococcus Jannaschii
Length = 358
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 61 GAKHEHDCKLASRKFAKILKQLG 83
GA H C + + KFAKI K LG
Sbjct: 169 GAIVTHACTIPTTKFAKIFKDLG 191
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
0.326 0.142 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,373,074
Number of Sequences: 62578
Number of extensions: 206048
Number of successful extensions: 552
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 490
Number of HSP's gapped (non-prelim): 38
length of query: 176
length of database: 14,973,337
effective HSP length: 92
effective length of query: 84
effective length of database: 9,216,161
effective search space: 774157524
effective search space used: 774157524
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: 48 (23.1 bits)