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= 038066
(97 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GR0|A Chain A, Periplasmic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-362)
pdb|3GR0|B Chain B, Periplasmic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-362)
pdb|3GR0|C Chain C, Periplasmic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-362)
pdb|3GR0|D Chain D, Periplasmic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-362)
Length = 197
Score = 28.9 bits (63), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 42 LDSYSIILPVPQQPVFFIVERRGASQQKKFECSNKSMSKSMPWSVDETSIT 92
L Y I P++PVF++ +R +K+ E ++ + MP++ D +IT
Sbjct: 78 LAYYRIHFDEPRKPVFWLSRQRNTMSKKELEVLSQKLRALMPYA-DSVNIT 127
>pdb|2Y9J|A Chain A, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|B Chain B, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|C Chain C, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|D Chain D, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|E Chain E, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|F Chain F, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|G Chain G, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|H Chain H, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|I Chain I, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|J Chain J, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|K Chain K, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|L Chain L, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|M Chain M, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|N Chain N, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|O Chain O, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|P Chain P, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|Q Chain Q, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|R Chain R, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|S Chain S, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|T Chain T, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|U Chain U, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|V Chain V, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|W Chain W, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
pdb|2Y9J|X Chain X, Three-Dimensional Model Of Salmonella's Needle Complex At
Subnanometer Resolution
Length = 186
Score = 28.9 bits (63), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 42 LDSYSIILPVPQQPVFFIVERRGASQQKKFECSNKSMSKSMPWSVDETSIT 92
L Y I P++PVF++ +R +K+ E ++ + MP++ D +IT
Sbjct: 67 LAYYRIHFDEPRKPVFWLSRQRNTMSKKELEVLSQKLRALMPYA-DSVNIT 116
>pdb|3GR1|A Chain A, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|B Chain B, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|C Chain C, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|D Chain D, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|E Chain E, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|F Chain F, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|G Chain G, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
pdb|3GR1|H Chain H, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
From S.Typhimurium (Fragment 170-392)
Length = 227
Score = 28.5 bits (62), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 42 LDSYSIILPVPQQPVFFIVERRGASQQKKFECSNKSMSKSMPWSVDETSIT 92
L Y I P++PVF++ +R +K+ E ++ + MP++ D +IT
Sbjct: 78 LAYYRIHFDEPRKPVFWLSRQRNTMSKKELEVLSQKLRALMPYA-DSVNIT 127
>pdb|3I9W|A Chain A, Crystal Structure Of The E. Coli Histidine Kinase Sensor
Tors Sensor Domain
Length = 290
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 12 NEVIRCMHMRLLRVRKDPADRPLMATIVLVLDSYSIILPVPQQ 54
N ++ + R +R+ +DP R +AT + + YS +L + QQ
Sbjct: 207 NNAVKILQRRQIRI-EDPGVRAQVATTLTTVSQYSDLLALYQQ 248
>pdb|3A9G|A Chain A, Crystal Structure Of Pqq-Dependent Sugar Dehydrogenase
Apo-Form
pdb|3A9H|A Chain A, Crystal Structure Of Pqq-Dependent Sugar Dehydrogenase
Holo-Form
Length = 354
Score = 25.8 bits (55), Expect = 6.7, Method: Composition-based stats.
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 62 RRGASQQKKFECSNKSMSKSMPWSV 86
R+G S++ KF+ S + +PWS+
Sbjct: 10 RKGPSEEWKFKISEVASDLEVPWSI 34
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 0.134 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,430,742
Number of Sequences: 62578
Number of extensions: 73085
Number of successful extensions: 199
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 194
Number of HSP's gapped (non-prelim): 6
length of query: 97
length of database: 14,973,337
effective HSP length: 63
effective length of query: 34
effective length of database: 11,030,923
effective search space: 375051382
effective search space used: 375051382
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: 45 (21.9 bits)