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= 033081
(128 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JMU|A Chain A, Nmr Structure Of The Mouse Thiamine Triphosphatase
Length = 224
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 74 RFSPGCFTEEKAKQLRLMTKDTASFHDAMYHSAIASRLASDFKIR 118
+F+PG TEE+ ++L + +F D Y ++ S + SD +R
Sbjct: 11 KFAPGPDTEERLQELGATLEHRVTFRDTYYDTSELSLMLSDHWLR 55
>pdb|3O8O|B Chain B, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
pdb|3O8O|D Chain D, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
pdb|3O8O|F Chain F, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
pdb|3O8O|H Chain H, Structure Of Phosphofructokinase From Saccharomyces
Cerevisiae
Length = 766
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 21/91 (23%), Positives = 34/91 (37%), Gaps = 10/91 (10%)
Query: 34 SSNWWSPLFGWSSEADYIDSESKPENRSE-----SDLEAKSSRSSRFSPGCFTEEKAKQL 88
+ W + L G ++ ADYI KP SE D+ +K + + E A
Sbjct: 200 NCGWLALLAGIATSADYIFIPEKPATSSEWQDQMCDIVSKHRSRGKRTTIVVVAEGA--- 256
Query: 89 RLMTKDTASFHDAMYHSAIASRLASDFKIRS 119
+ D + H + RL D +I +
Sbjct: 257 --IAADLTPISPSDVHKVLVDRLGLDTRITT 285
>pdb|3N58|A Chain A, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
From Brucella Melitensis In Ternary Complex With Nad And
Adenosine, Orthorhombic Form
pdb|3N58|B Chain B, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
From Brucella Melitensis In Ternary Complex With Nad And
Adenosine, Orthorhombic Form
pdb|3N58|C Chain C, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
From Brucella Melitensis In Ternary Complex With Nad And
Adenosine, Orthorhombic Form
pdb|3N58|D Chain D, Crystal Structure Of S-Adenosyl-L-Homocysteine Hydrolase
From Brucella Melitensis In Ternary Complex With Nad And
Adenosine, Orthorhombic Form
Length = 464
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 41 LFGWSSEADYIDSESKPENRSESDLEAKSSRSSRFSPGCFTEEKAKQLRLMTKDTASFHD 100
L G +EA D S P++ E L A+ + +PG FT+++A ++ +T++T + +
Sbjct: 139 LIGARAEAGE-DVLSNPQSEEEEVLFAQIKKRMAATPGFFTKQRAA-IKGVTEETTTGVN 196
Query: 101 AMYH 104
+Y
Sbjct: 197 RLYQ 200
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 26.2 bits (56), Expect = 5.3, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 59 NRSESDLEAKSSRSSRFSPGCF 80
N S LE S++ FSPGCF
Sbjct: 170 NSSLKKLELSSNQIKEFSPGCF 191
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 26.2 bits (56), Expect = 5.7, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 59 NRSESDLEAKSSRSSRFSPGCF 80
N S LE S++ FSPGCF
Sbjct: 175 NSSLKKLELSSNQIKEFSPGCF 196
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 26.2 bits (56), Expect = 5.8, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 59 NRSESDLEAKSSRSSRFSPGCF 80
N S LE S++ FSPGCF
Sbjct: 180 NSSLKKLELSSNQIKEFSPGCF 201
>pdb|4AUI|A Chain A, Structure And Function Of The Porb Porin From
Disseminating N. Gonorrhoeae
pdb|4AUI|B Chain B, Structure And Function Of The Porb Porin From
Disseminating N. Gonorrhoeae
pdb|4AUI|C Chain C, Structure And Function Of The Porb Porin From
Disseminating N. Gonorrhoeae
Length = 327
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 48/111 (43%), Gaps = 12/111 (10%)
Query: 19 WSGHRNPDGKRRKNASSNWWSPLF-GWSSEADYIDSESKPENRSESDLEAKSSRSSRF-- 75
+SG N ++ S + SP F G+S Y+ +++ +NRSES + ++ F
Sbjct: 131 YSGLSNIAQPEERHVSVRYDSPEFAGFSGSVQYVPNDNSGKNRSESYHAGFNYKNDGFFV 190
Query: 76 -SPGC-----FTEEKAKQLRLMTKDTASFHDAMYHSAIASRLASDFKIRSD 120
G +T EK + RL+ HDA+Y S + + R D
Sbjct: 191 QYAGSYKRHNYTTEKHQVHRLV---GGYDHDALYASVAVQQQDAKLTWRDD 238
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
0.312 0.124 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,612,414
Number of Sequences: 62578
Number of extensions: 125473
Number of successful extensions: 225
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 220
Number of HSP's gapped (non-prelim): 11
length of query: 128
length of database: 14,973,337
effective HSP length: 87
effective length of query: 41
effective length of database: 9,529,051
effective search space: 390691091
effective search space used: 390691091
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)