BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15644803|ref|NP_206973.1| hypothetical protein
[Helicobacter pylori 26695]
(258 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1YTB|A Chain A, Tata-Box Binding Protein (Ytbp) Complex... 30 0.36
pdb|1TBP|A Chain A, Tata-Binding Protein (Tbp, C-Terminal 1... 30 0.36
pdb|1VOK|A Chain A, Arabidopsis Thaliana Tbp (Dimer) >gi|72... 27 2.3
pdb|1KB9|C Chain C, Yeast Cytochrome Bc1 Complex >gi|142777... 27 3.1
pdb|1QM9|A Chain A, Nmr, Representative Structure 25 6.8
>pdb|1YTB|A Chain A, Tata-Box Binding Protein (Ytbp) Complexed With Dna
Containing Tata-Box
pdb|1YTB|B Chain B, Tata-Box Binding Protein (Ytbp) Complexed With Dna
Containing Tata-Box
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
Length = 180
Score = 29.6 bits (65), Expect = 0.36
Identities = 16/50 (32%), Positives = 24/50 (48%)
Query: 61 NIVGYCQTLLPQSLNDYSHSQGFFAGVFAWVFKALVYFLIFWIVILLSLV 110
NIVG C P L + S G F+ +F L+Y ++ ++LL V
Sbjct: 99 NIVGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGLIYRMVKPKIVLLIFV 148
>pdb|1TBP|A Chain A, Tata-Binding Protein (Tbp, C-Terminal 179 Amino Acids)
pdb|1TBP|B Chain B, Tata-Binding Protein (Tbp, C-Terminal 179 Amino Acids)
Length = 180
Score = 29.6 bits (65), Expect = 0.36
Identities = 16/50 (32%), Positives = 24/50 (48%)
Query: 61 NIVGYCQTLLPQSLNDYSHSQGFFAGVFAWVFKALVYFLIFWIVILLSLV 110
NIVG C P L + S G F+ +F L+Y ++ ++LL V
Sbjct: 99 NIVGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGLIYRMVKPKIVLLIFV 148
>pdb|1VOK|A Chain A, Arabidopsis Thaliana Tbp (Dimer)
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|1VOK|B Chain B, Arabidopsis Thaliana Tbp (Dimer)
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|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|1VOL|B Chain B, Tfiib (Human Core Domain)TBP (A.THALIANA)TATA ELEMENT
Ternary Complex
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|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|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|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|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|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.
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|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|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|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|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|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|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|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|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|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|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|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
Length = 200
Score = 26.9 bits (58), Expect = 2.3
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 61 NIVGYCQTLLPQSLNDYSHSQGFFAGVFAWVFKALVYFLIFWIVILLSLV 110
NIVG C P L ++S F+ +F L+Y + ++LL V
Sbjct: 117 NIVGSCDVKFPIRLEGLAYSHAAFSSYEPELFPGLIYRMKVPKIVLLIFV 166
>pdb|1KB9|C Chain C, Yeast Cytochrome Bc1 Complex
pdb|1EZV|C Chain C, Structure Of The Yeast Cytochrome Bc1 Complex Co-
Crystallized With An Antibody Fv-Fragment
pdb|1KYO|C Chain C, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
pdb|1KYO|N Chain N, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
Length = 385
Score = 26.6 bits (57), Expect = 3.1
Identities = 37/174 (21%), Positives = 64/174 (36%), Gaps = 34/174 (19%)
Query: 14 FQVMVLSLSILKKSF-NDFLSTRMLLINLGPILLSLAFFGAVFYYNGGNIVGYCQTLLPQ 72
F MV+ + + K + + S R+ L N+G I+ +L A +GYC
Sbjct: 88 FFFMVMFMHMAKGLYYGSYRSPRVTLWNVGVIIFTLTIATA--------FLGYCCV---- 135
Query: 73 SLNDYSHSQGFFAGVFAWVFKALVYF---LIFWI--------------VILLSLVINIFA 115
Y + A V +F A+ + ++ W+ L LV I A
Sbjct: 136 ----YGQMSHWGATVITNLFSAIPFVGNDIVSWLWGGFSVSNPTIQRFFALHYLVPFIIA 191
Query: 116 SIFYTPLVVSYLHQKYYPHVVLEEFGSILFSIKYFLKSLAFMLLFLAVLTPFYF 169
++ L+ ++H P + I + K L + LF+ +L F F
Sbjct: 192 AMVIMHLMALHIHGSSNPLGITGNLDRIPMHSYFIFKDLVTVFLFMLILALFVF 245
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 25.4 bits (54), Expect = 6.8
Identities = 16/42 (38%), Positives = 21/42 (49%), Gaps = 1/42 (2%)
Query: 4 NYPSKVSEEGFQVMVLSLSILKKSFNDFLSTR-MLLINLGPI 44
N P VSEE +V+ S + K F F R M LI +G +
Sbjct: 127 NIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSV 168
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.337 0.150 0.466
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,330,767
Number of Sequences: 13198
Number of extensions: 49172
Number of successful extensions: 119
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 116
Number of HSP's gapped (non-prelim): 5
length of query: 258
length of database: 2,899,336
effective HSP length: 86
effective length of query: 172
effective length of database: 1,764,308
effective search space: 303460976
effective search space used: 303460976
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 53 (25.0 bits)