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= 029817
(187 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
Minimized Mean Structure
pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
46 Structures
Length = 70
Score = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 32/58 (55%), Positives = 43/58 (74%), Gaps = 1/58 (1%)
Query: 35 FRGVRKRRWGSYVSEIRLPGEK-TRIWLGSFGSAEKAARAYDSAAFYLKGNLATLNFP 91
+RGVR+R WG + +EIR P + R+WLG+F +AE AA AYD AAF ++G+ A LNFP
Sbjct: 6 YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 63
>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
Structure
Length = 63
Score = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 32/58 (55%), Positives = 43/58 (74%), Gaps = 1/58 (1%)
Query: 35 FRGVRKRRWGSYVSEIRLPGEK-TRIWLGSFGSAEKAARAYDSAAFYLKGNLATLNFP 91
+RGVR+R WG + +EIR P + R+WLG+F +AE AA AYD AAF ++G+ A LNFP
Sbjct: 3 YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60
>pdb|3FMW|A Chain A, The Crystal Structure Of Mtmoiv, A Baeyer-Villiger
Monooxygenase From The Mithramycin Biosynthetic Pathway
In Streptomyces Argillaceus.
pdb|3FMW|B Chain B, The Crystal Structure Of Mtmoiv, A Baeyer-Villiger
Monooxygenase From The Mithramycin Biosynthetic Pathway
In Streptomyces Argillaceus.
pdb|3FMW|C Chain C, The Crystal Structure Of Mtmoiv, A Baeyer-Villiger
Monooxygenase From The Mithramycin Biosynthetic Pathway
In Streptomyces Argillaceus
Length = 570
Score = 31.2 bits (69), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 60 WLGSFGSAEKAARAYDSAAFYLKGNLATLNFP 91
WL FG A + A+ Y S L G+ A ++FP
Sbjct: 305 WLSRFGDASRQAKRYRSGRVLLAGDAAHVHFP 336
>pdb|3IY6|A Chain A, Variable Domains Of The Computer Generated Model (Wam) Of
Fab E Fitted Into The Cryoem Reconstruction Of The
Virus- Fab E Complex
Length = 107
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 119 VEVGDRIESECSGSGGEPDCGDWWERET 146
+ VGDR+ C S DW++++T
Sbjct: 11 ISVGDRVTMNCKASQNVDSNVDWYQQKT 38
>pdb|1I19|A Chain A, Crystal Structure Of Cholesterol Oxidase From B.Sterolicum
pdb|1I19|B Chain B, Crystal Structure Of Cholesterol Oxidase From B.Sterolicum
Length = 561
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 154 VAPLPSPPRFDSDI 167
VAPLP+PP F +DI
Sbjct: 5 VAPLPTPPNFPNDI 18
>pdb|2I0K|A Chain A, Cholesterol Oxidase From Brevibacterium Sterolicum-
His121ala Mutant
Length = 561
Score = 26.6 bits (57), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 154 VAPLPSPPRFDSDI 167
VAPLP+PP F +DI
Sbjct: 5 VAPLPTPPNFPNDI 18
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
0.315 0.133 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,110,742
Number of Sequences: 62578
Number of extensions: 191548
Number of successful extensions: 431
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 422
Number of HSP's gapped (non-prelim): 10
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)