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= 036056
(146 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4I6K|A Chain A, Crystal Structure Of Probable 2-Pyrone-4,6-Dicarboxylic
Acid Hydrolase Abaye1769 (Target Efi-505029) From
Acinetobacter Baumannii With Citric Acid Bound
Length = 294
Score = 26.9 bits (58), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 30 VDGFLKIGAVAATRAVAEDTYNIVKGGNF 58
V GF ++GA + +A+ YNI K F
Sbjct: 211 VSGFYRLGATPSNINIAQQAYNIFKEKGF 239
>pdb|1H2S|A Chain A, Molecular Basis Of Transmenbrane Signalling By Sensory
Rhodopsin Ii-Transducer Complex
Length = 225
Score = 26.2 bits (56), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 9 ALTTPRVDVGIDTGNDFLNHTVDGFLKIGAVAATRA 44
AL TP VDV + D + GF+ + A A RA
Sbjct: 186 ALLTPTVDVALIVYLDLVTKVGFGFIALDAAATLRA 221
>pdb|1GU8|A Chain A, Sensory Rhodopsin Ii
pdb|1GUE|A Chain A, Sensory Rhodopsin Ii
pdb|1H68|A Chain A, Sensory Rhodopsin Ii
pdb|3QAP|A Chain A, Crystal Structure Of Natronomonas Pharaonis Sensory
Rhodopsin Ii In The Ground State
pdb|3QDC|A Chain A, Crystal Structure Of Natronomonas Pharaonis Sensory
Rhodopsin Ii In The Active State
Length = 239
Score = 26.2 bits (56), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 9 ALTTPRVDVGIDTGNDFLNHTVDGFLKIGAVAATRA 44
AL TP VDV + D + GF+ + A A RA
Sbjct: 186 ALLTPTVDVALIVYLDLVTKVGFGFIALDAAATLRA 221
>pdb|2F93|A Chain A, K Intermediate Structure Of Sensory Rhodopsin IiTRANSDUCER
COMPLEX IN Combination With The Ground State Structure
pdb|2F95|A Chain A, M Intermediate Structure Of Sensory Rhodopsin IiTRANSDUCER
COMPLEX IN Combination With The Ground State Structure
Length = 248
Score = 26.2 bits (56), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 9 ALTTPRVDVGIDTGNDFLNHTVDGFLKIGAVAATRA 44
AL TP VDV + D + GF+ + A A RA
Sbjct: 185 ALLTPTVDVALIVYLDLVTKVGFGFIALDAAATLRA 220
>pdb|4DIB|A Chain A, The Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase From Bacillus Anthracis Str. Sterne
pdb|4DIB|B Chain B, The Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase From Bacillus Anthracis Str. Sterne
pdb|4DIB|C Chain C, The Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase From Bacillus Anthracis Str. Sterne
pdb|4DIB|D Chain D, The Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase From Bacillus Anthracis Str. Sterne
pdb|4DIB|E Chain E, The Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase From Bacillus Anthracis Str. Sterne
pdb|4DIB|F Chain F, The Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase From Bacillus Anthracis Str. Sterne
pdb|4DIB|G Chain G, The Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase From Bacillus Anthracis Str. Sterne
pdb|4DIB|H Chain H, The Crystal Structure Of Glyceraldehyde-3-Phosphate
Dehydrogenase From Bacillus Anthracis Str. Sterne
Length = 345
Score = 25.8 bits (55), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 23/108 (21%), Positives = 49/108 (45%), Gaps = 4/108 (3%)
Query: 30 VDGFLKIGAVAATRAVAEDTYNIVK-GGNFSRHHLEHALKKMCKEGAYWGTVAGV--YVG 86
++GF +IG + +A+ E + IV ++ L H +K G + GTV ++
Sbjct: 9 INGFGRIGRMVFRQAIKESAFEIVAINASYPSETLAHLIKYDTVHGKFDGTVEAFEDHLL 68
Query: 87 MEYGVEKVRGTKDWKNAMIGGAFTGALVSAVGK-NNRDKVVMDALTGG 133
++ + ++ +D K ++ A GK N+++K ++ G
Sbjct: 69 VDGKMIRLLNNRDPKELPWTDLGVEVVIEATGKFNSKEKAILHVEAGA 116
>pdb|2KSY|A Chain A, Solution Nmr Structure Of Sensory Rhodopsin Ii
Length = 247
Score = 25.8 bits (55), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 9 ALTTPRVDVGIDTGNDFLNHTVDGFLKIGAVAATRA 44
AL TP VDV + D + GF+ + A A RA
Sbjct: 186 ALLTPTVDVALIVYLDLVTXVGFGFIALDAAATLRA 221
>pdb|4AC6|A Chain A, Corynebacterium Glutamicum Acnr Au Derivative Structure
pdb|4ACI|A Chain A, Structure Of The C. Glutamicum Acnr Crystal Form Ii
pdb|4ACI|B Chain B, Structure Of The C. Glutamicum Acnr Crystal Form Ii
Length = 191
Score = 25.8 bits (55), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 14 RVDVGIDTGNDFLNHTVDGFLKIGAVAATRAVAEDTYNIVKG 55
R DV I+ + FL +DGF+ A A+ + ++V+G
Sbjct: 144 RTDVPIEVLHTFLETVLDGFISRLATGASTEGLSEVLDLVEG 185
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
0.318 0.135 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,601,340
Number of Sequences: 62578
Number of extensions: 186626
Number of successful extensions: 354
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 345
Number of HSP's gapped (non-prelim): 14
length of query: 146
length of database: 14,973,337
effective HSP length: 90
effective length of query: 56
effective length of database: 9,341,317
effective search space: 523113752
effective search space used: 523113752
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)