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= 029664
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FSI|A Chain A, Crystal Structure Of Cyclic Nucleotide Phosphodiesterase
Of Appr>p From Arabidopsis Thaliana
pdb|1FSI|B Chain B, Crystal Structure Of Cyclic Nucleotide Phosphodiesterase
Of Appr>p From Arabidopsis Thaliana
pdb|1FSI|C Chain C, Crystal Structure Of Cyclic Nucleotide Phosphodiesterase
Of Appr>p From Arabidopsis Thaliana
pdb|1JH6|A Chain A, Semi-Reduced Cyclic Nucleotide Phosphodiesterase From
Arabidopsis Thaliana
pdb|1JH6|B Chain B, Semi-Reduced Cyclic Nucleotide Phosphodiesterase From
Arabidopsis Thaliana
pdb|1JH7|A Chain A, Semi-Reduced Inhibitor-Bound Cyclic Nucleotide
Phosphodiesterase From Arabidopsis Thaliana
Length = 189
Score = 235 bits (600), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 113/181 (62%), Positives = 138/181 (76%)
Query: 9 VDKNKKGFYSVWAIPPDEVRARVKKLMEGLRSEFGGPQFDPHVTVVGAMSLTADDALEKF 68
+++ KK YSVWA+P +E R KKLME LRSEF GP+F PHVTV + LTAD+A + F
Sbjct: 1 MEEVKKDVYSVWALPDEESEPRFKKLMEALRSEFTGPRFVPHVTVAVSAYLTADEAKKMF 60
Query: 69 KSACNGLKAYNCTVNRVATGTFFYQCVFLLLHPTPEVAEPSSHCCGHFGYKSSTPYMPHL 128
+SAC+GLKAY TV+RV+TGTFF+QCVFLLL TPEV E HC HF ++TPYMPHL
Sbjct: 61 ESACDGLKAYTATVDRVSTGTFFFQCVFLLLQTTPEVMEAGEHCKNHFNCSTTTPYMPHL 120
Query: 129 SLLYGDLTDDEKKIAQEKAHKLDESIGSLSFPITRLQLWKTDTEDTTLKSWEMVAECNLS 188
SLLY +LT++EKK AQEKA+ LD S+ LSF + RL L KTDTED TL++WE VA CNL+
Sbjct: 121 SLLYAELTEEEKKNAQEKAYTLDSSLDGLSFRLNRLALCKTDTEDKTLETWETVAVCNLN 180
Query: 189 P 189
P
Sbjct: 181 P 181
>pdb|1X1N|A Chain A, Structure Determination And Refinement At 1.8 A Resolution
Of Disproportionating Enzyme From Potato
Length = 524
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 14 KGFYSVWAIPPDEVRARVKKLMEGLRSEFGGPQFDPHVTVVGAMSLTADD 63
+GF WA+P +E A + + G G P FD + VG +++ A+D
Sbjct: 324 RGFAGFWAVPSEEKIAILGRWKVGP----GKPLFDAILQAVGKINIIAED 369
>pdb|2FEZ|A Chain A, Mycobacterium Tuberculosis Embr
pdb|2FF4|A Chain A, Mycobacterium Tuberculosis Embr In Complex With Low
Affinity Phosphopeptide
pdb|2FF4|B Chain B, Mycobacterium Tuberculosis Embr In Complex With Low
Affinity Phosphopeptide
Length = 388
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 2/50 (4%)
Query: 7 VVVDKNKKGFYSVWAIPPDEVRARVKKLMEGLRSEFGGPQFDPHVTVVGA 56
V VD + W PP RA + + LR GG DP V + A
Sbjct: 50 VGVDALITALWEEW--PPSGARASIHSYVSNLRKLLGGAGIDPRVVLAAA 97
>pdb|2JGT|A Chain A, Low Resolution Structure Of Spt
pdb|2JGT|B Chain B, Low Resolution Structure Of Spt
Length = 422
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 12/68 (17%)
Query: 20 WAIPPDEVRARVKKLMEGLRS------EFGGPQFDPHVTVVGAMSLTADDALEKFKSACN 73
+AI ++V++ + ++ G + + G FDP V G +ALEKF S N
Sbjct: 47 FAIVMEQVKSPTEAVIRGKDTILLGTYNYMGMTFDPDVIAAG------KEALEKFGSGTN 100
Query: 74 GLKAYNCT 81
G + N T
Sbjct: 101 GSRMLNGT 108
>pdb|2W8J|A Chain A, Spt With Plp-Ser
pdb|2XBN|A Chain A, Inhibition Of The Plp-Dependent Enzyme Serine
Palmitoyltransferase By Cycloserine: Evidence For A
Novel Decarboxylative Mechanism Of Inactivation
Length = 427
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 12/68 (17%)
Query: 20 WAIPPDEVRARVKKLMEGLRS------EFGGPQFDPHVTVVGAMSLTADDALEKFKSACN 73
+AI ++V++ + ++ G + + G FDP V G +ALEKF S N
Sbjct: 46 FAIVMEQVKSPTEAVIRGKDTILLGTYNYMGMTFDPDVIAAG------KEALEKFGSGTN 99
Query: 74 GLKAYNCT 81
G + N T
Sbjct: 100 GSRMLNGT 107
>pdb|2JG2|A Chain A, High Resolution Structure Of Spt With Plp Internal
Aldimine
Length = 422
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 12/68 (17%)
Query: 20 WAIPPDEVRARVKKLMEGLRS------EFGGPQFDPHVTVVGAMSLTADDALEKFKSACN 73
+AI ++V++ + ++ G + + G FDP V G +ALEKF S N
Sbjct: 47 FAIVMEQVKSPTEAVIRGKDTILLGTYNYMGMTFDPDVIAAG------KEALEKFGSGTN 100
Query: 74 GLKAYNCT 81
G + N T
Sbjct: 101 GSRMLNGT 108
>pdb|4A1R|A Chain A, The Structure Of Serratia Marcescens Lip, A Membrane Bound
Component Of The Type Vi Secretion System.
pdb|4A1R|B Chain B, The Structure Of Serratia Marcescens Lip, A Membrane Bound
Component Of The Type Vi Secretion System.
pdb|4A1R|C Chain C, The Structure Of Serratia Marcescens Lip, A Membrane Bound
Component Of The Type Vi Secretion System.
pdb|4A1R|D Chain D, The Structure Of Serratia Marcescens Lip, A Membrane Bound
Component Of The Type Vi Secretion System
Length = 149
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 16 FYSVWAIPPDEVRARVKKLMEGLR 39
FY VW PDE+ A + + GLR
Sbjct: 120 FYKVWQFSPDELEAHIVAGVSGLR 143
>pdb|2CQ8|A Chain A, Solution Structure Of Rsgi Ruh-033, A Pp-Binding Domain Of
10-Fthfdh From Human Cdna
Length = 110
Score = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%)
Query: 55 GAMSLTADDALEKFKSACNGLKAYNCTVNRVATGTFFYQCVFLLLHPTPEVAEPSS 110
GA S+ +E+ K C+GL+ N V +T F Q + L E + PSS
Sbjct: 54 GAASVDVVRLVEEVKELCDGLELENEDVYMASTFGDFIQLLVRKLRGDDEESGPSS 109
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
0.317 0.133 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,146,055
Number of Sequences: 62578
Number of extensions: 241420
Number of successful extensions: 535
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 530
Number of HSP's gapped (non-prelim): 11
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
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: 48 (23.1 bits)