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= 033900
(109 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp
Receptor Ftsy
Length = 309
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 12/94 (12%)
Query: 26 ENLPSCIRLVP------PSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKD 73
E L +R++ P V +TI A G + S + EAVG+ ++D AK
Sbjct: 201 EELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKG 260
Query: 74 GEANAALLEYMSSLIHVSVGEFVESVQVFFLNGF 107
G + ++ + ++ VGE +E ++ F + F
Sbjct: 261 GVIFSVADQFGIPIRYIGVGERIEDLRPFKADDF 294
>pdb|2XXA|B Chain B, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
pdb|2XXA|D Chain D, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
Length = 302
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 12/94 (12%)
Query: 26 ENLPSCIRLVP------PSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKD 73
E L +R++ P V +TI A G + S + EAVG+ ++D AK
Sbjct: 200 EELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKG 259
Query: 74 GEANAALLEYMSSLIHVSVGEFVESVQVFFLNGF 107
G + ++ + ++ VGE +E ++ F + F
Sbjct: 260 GVIFSVADQFGIPIRYIGVGERIEDLRPFKADDF 293
>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli
Length = 295
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 12/94 (12%)
Query: 26 ENLPSCIRLVP------PSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKD 73
E L +R++ P V +TI A G + S + EAVG+ ++D AK
Sbjct: 195 EELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKG 254
Query: 74 GEANAALLEYMSSLIHVSVGEFVESVQVFFLNGF 107
G + ++ + ++ VGE +E ++ F + F
Sbjct: 255 GVIFSVADQFGIPIRYIGVGERIEDLRPFKADDF 288
>pdb|1N91|A Chain A, Solution Nmr Structure Of Protein Yggu From Escherichia
Coli. Northeast Structural Genomics Consortium Target
Er14.
pdb|1YH5|A Chain A, Solution Nmr Structure Of Protein Yggu From Escherichia
Coli. Northeast Structural Genomics Consortium Target
Er14
Length = 108
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 30/55 (54%)
Query: 42 ITIHAKPGSKSCSITDVSDEAVGVQIDAPAKDGEANAALLEYMSSLIHVSVGEFV 96
+ ++ +P + SI + + V V I AP DG+AN+ L++++ V+ + V
Sbjct: 17 LRLYIQPKASRDSIVGLHGDEVKVAITAPPVDGQANSHLVKFLGKQFRVAKSQVV 71
>pdb|1J8M|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens
Length = 297
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 40/83 (48%), Gaps = 6/83 (7%)
Query: 26 ENLPSCIRLVPPSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKDGEANAA 79
E + + + P V++ I A G K+ + ++A + ++D AK G A +A
Sbjct: 202 EEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKGGGALSA 261
Query: 80 LLEYMSSLIHVSVGEFVESVQVF 102
+ +++ + GE ++ ++VF
Sbjct: 262 VAATGATIKFIGTGEKIDELEVF 284
>pdb|1J8Y|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens T112a Mutant
Length = 297
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 40/83 (48%), Gaps = 6/83 (7%)
Query: 26 ENLPSCIRLVPPSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKDGEANAA 79
E + + + P V++ I A G K+ + ++A + ++D AK G A +A
Sbjct: 202 EEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKGGGALSA 261
Query: 80 LLEYMSSLIHVSVGEFVESVQVF 102
+ +++ + GE ++ ++VF
Sbjct: 262 VAATGATIKFIGTGEKIDELEVF 284
>pdb|2YHS|A Chain A, Structure Of The E. Coli Srp Receptor Ftsy
Length = 503
Score = 29.3 bits (64), Expect = 0.67, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 37 PSSVSITIHAKPGSKSCSITDVSDEAVGV------QIDAPAKDGEANAALLEYMSSLIHV 90
P V +TI A G + S + EAVG+ ++D AK G + ++ + ++
Sbjct: 412 PHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYI 471
Query: 91 SVGEFVESVQVFFLNGF 107
VGE +E ++ F + F
Sbjct: 472 GVGERIEDLRPFKADDF 488
>pdb|4FDY|A Chain A, Crystal Structure Of A Similar To Lipoprotein, NlpP60
FAMILY (Sav0400) From Staphylococcus Aureus Subsp.
Aureus Mu50 At 2.23 A Resolution
pdb|4FDY|B Chain B, Crystal Structure Of A Similar To Lipoprotein, NlpP60
FAMILY (Sav0400) From Staphylococcus Aureus Subsp.
Aureus Mu50 At 2.23 A Resolution
Length = 313
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%)
Query: 35 VPPSSVSITIHAKPGSKSCSITDVSDEAVGVQIDAPAKDGEANAALLEYMSS 86
+PP+S+S K G K S S E GV ID+ + L Y+ S
Sbjct: 73 LPPNSLSTEESIKQGVKYFSELLTSAEQQGVDIDSVIQSYNYGGGFLNYVRS 124
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
0.314 0.130 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,543,637
Number of Sequences: 62578
Number of extensions: 82169
Number of successful extensions: 163
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 161
Number of HSP's gapped (non-prelim): 9
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)