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= 029607
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MKT|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
pdb|3MKT|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
pdb|3MKU|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
pdb|3MKU|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
Length = 460
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 33/153 (21%), Positives = 61/153 (39%), Gaps = 5/153 (3%)
Query: 1 MNYLNWDINAKLGLSAAASVRVSNELGAAHPRVAKXXXXXXXXXXXXXXXXXXXXXLIFR 60
+N+ + + + AA S+RV ++LG + A ++FR
Sbjct: 280 LNFSSLVFMFPMSIGAAVSIRVGHKLGEQDTKGAAIAANVGLMTGLATACITALLTVLFR 339
Query: 61 ADLSKLFTSNSEVVQAVSDLTPLLAISAFLNGIQPILSGVAIGSGWQAIVAYVNLACYYI 120
++ L+T N VV L AI ++ +Q + +G G + + Y++
Sbjct: 340 EQIALLYTENQVVVALAMQLLLFAAIYQCMDAVQVVAAGSLRGYKDMTAIFHRTFISYWV 399
Query: 121 IDLPIAYVRGF-----KTNIGVVGIWWGMITGV 148
+ LP Y+ G + +G G W G I G+
Sbjct: 400 LGLPTGYILGMTNWLTEQPLGAKGFWLGFIIGL 432
>pdb|3RMX|A Chain A, Crystal Structure Of HcrD F1240A MUTANT
pdb|3RMX|B Chain B, Crystal Structure Of HcrD F1240A MUTANT
pdb|3RMX|C Chain C, Crystal Structure Of HcrD F1240A MUTANT
pdb|3RMX|D Chain D, Crystal Structure Of HcrD F1240A MUTANT
Length = 415
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 57 LIFRADLSKLFTSNSEVVQAVSDLTPLLAISAFLNGIQPIL 97
L+ D SKL+T N +++VSD P S LNG IL
Sbjct: 259 LVQYPDRSKLYTGNPITIKSVSDKNPY---SRILNGDNIIL 296
>pdb|3N7J|A Chain A, Crystal Structure Of Botulinum Neurotoxin Serotype D
Binding Domain
Length = 415
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 57 LIFRADLSKLFTSNSEVVQAVSDLTPLLAISAFLNGIQPIL 97
L+ D SKL+T N +++VSD P S LNG IL
Sbjct: 259 LVQYPDRSKLYTGNPITIKSVSDKNPY---SRILNGDNIIL 296
>pdb|3OGG|A Chain A, Crystal Structure Of The Receptor Binding Domain Of
Botulinum Neurotoxin D
Length = 414
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 57 LIFRADLSKLFTSNSEVVQAVSDLTPLLAISAFLNGIQPIL 97
L+ D SKL+T N +++VSD P S LNG IL
Sbjct: 258 LVQYPDRSKLYTGNPITIKSVSDKNPY---SRILNGDNIIL 295
>pdb|3OBR|A Chain A, Crystal Structure Of Botulinum Neurotoxin Serotype D
Binding Domain
pdb|3OBT|A Chain A, Crystal Structure Of Botulinum Neurotoxin Serotype D
Ligand Binding Domain In Complex With N-Acetylneuraminic
Acid
Length = 434
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 57 LIFRADLSKLFTSNSEVVQAVSDLTPLLAISAFLNGIQPIL 97
L+ D SKL+T N +++VSD P S LNG IL
Sbjct: 265 LVQYPDRSKLYTGNPITIKSVSDKNPY---SRILNGDNIIL 302
>pdb|3RMY|A Chain A, Crystal Structure Of HcrD W1238A MUTANT
pdb|3RMY|B Chain B, Crystal Structure Of HcrD W1238A MUTANT
pdb|3RMY|C Chain C, Crystal Structure Of HcrD W1238A MUTANT
pdb|3RMY|D Chain D, Crystal Structure Of HcrD W1238A MUTANT
Length = 415
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 57 LIFRADLSKLFTSNSEVVQAVSDLTPLLAISAFLNGIQPIL 97
L+ D SKL+T N +++VSD P S LNG IL
Sbjct: 259 LVQYPDRSKLYTGNPITIKSVSDKNPY---SRILNGDNIIL 296
>pdb|2F2L|A Chain A, Crystal Structure Of Tracheal Cytotoxin (Tct) Bound To The
Ectodomain Complex Of Peptidoglycan Recognition Proteins
Lca (Pgrp-Lca) And Lcx (Pgrp-Lcx)
Length = 167
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 100 VAIGSGWQAIVAYVNLACYYIIDLPIAYVRGFKT 133
V +G GW + A++N Y L AY+ FKT
Sbjct: 75 VYVGRGWNKMGAHMNNINYDSQSLSFAYIGSFKT 108
>pdb|1Z6I|A Chain A, Crystal Structure Of The Ectodomain Of Drosophila
Transmembrane Receptor Pgrp-Lca
Length = 167
Score = 26.9 bits (58), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 100 VAIGSGWQAIVAYVNLACYYIIDLPIAYVRGFKT 133
V +G GW + A++N Y L AY+ FKT
Sbjct: 75 VYVGRGWNKMGAHMNNINYDSQSLSFAYIGSFKT 108
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
0.324 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,374,148
Number of Sequences: 62578
Number of extensions: 145106
Number of successful extensions: 351
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 347
Number of HSP's gapped (non-prelim): 9
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: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)