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= 040978
(104 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRV 44
FN ++LE+L M+ N +P ++ LR L LDLS+
Sbjct: 146 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 185
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRV 44
FN ++LE+L M+ N +P ++ LR L LDLS+
Sbjct: 465 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 504
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRV 44
FN ++LE+L M+ N +P ++ LR L LDLS+
Sbjct: 441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 480
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRV 44
FN ++LE+L M+ N +P ++ LR L LDLS+
Sbjct: 441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 480
>pdb|2A9F|A Chain A, Crystal Structure Of A Putative Malic Enzyme ((S)-
Malate:nad+ Oxidoreductase (Decarboxylating))
pdb|2A9F|B Chain B, Crystal Structure Of A Putative Malic Enzyme ((S)-
Malate:nad+ Oxidoreductase (Decarboxylating))
Length = 398
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 27/44 (61%), Gaps = 3/44 (6%)
Query: 8 FNNLELLDMSFNEINNLVVPQGYSGL---RKLKSLDLSRVGVRD 48
FN+L+LL S +E++ +V G +GL RKL + ++V V D
Sbjct: 176 FNSLKLLKKSLDEVSIVVNGGGSAGLSITRKLLAAGATKVTVVD 219
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKL 52
NL+ LD+SFN + L + + + + +LK L LS + S L
Sbjct: 91 NLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVL 133
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDL 41
F + + LE+LD+S+N I L Q + GL LK L L
Sbjct: 343 FENLDKLEVLDLSYNHIRAL-GDQSFLGLPNLKELAL 378
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLS 42
F + L LD+S N+I +L + + L LKS+D S
Sbjct: 119 FRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFS 156
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 0.136 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,527,383
Number of Sequences: 62578
Number of extensions: 71707
Number of successful extensions: 219
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 181
Number of HSP's gapped (non-prelim): 44
length of query: 104
length of database: 14,973,337
effective HSP length: 69
effective length of query: 35
effective length of database: 10,655,455
effective search space: 372940925
effective search space used: 372940925
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)