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= 033057
(128 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 42 ITIHAKPGSKSCSITDVSDEAVGVQIDAPAKDGEANAALLEYMSSVLGVKRRQVSIGSGS 101
+ ++ +P + SI + + V V I AP DG+AN+ L++++ V + QV I G
Sbjct: 17 LRLYIQPKASRDSIVGLHGDEVKVAITAPPVDGQANSHLVKFLGKQFRVAKSQVVIEKGE 76
Query: 102 KSRD---KIVIVEEITPE 116
R KI+ ++I PE
Sbjct: 77 LGRHKQIKIINPQQIPPE 94
>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 = 29.6 bits (65), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 26 ENLPSCIRLV------PPSSVSITIHAKPGSKSCSITDVSDEAVGVQ-IDAPAKDGEANA 78
E L +R++ P V +TI A G + S + EAVG+ I DG A
Sbjct: 200 EELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKG 259
Query: 79 ALLEYMSSVLGVKRRQVSIG 98
++ ++ G+ R + +G
Sbjct: 260 GVIFSVADQFGIPIRYIGVG 279
>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli
Length = 295
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 26 ENLPSCIRLV------PPSSVSITIHAKPGSKSCSITDVSDEAVGVQ-IDAPAKDGEANA 78
E L +R++ P V +TI A G + S + EAVG+ I DG A
Sbjct: 195 EELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKG 254
Query: 79 ALLEYMSSVLGVKRRQVSIG 98
++ ++ G+ R + +G
Sbjct: 255 GVIFSVADQFGIPIRYIGVG 274
>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp
Receptor Ftsy
Length = 309
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 26 ENLPSCIRLV------PPSSVSITIHAKPGSKSCSITDVSDEAVGVQ-IDAPAKDGEANA 78
E L +R++ P V +TI A G + S + EAVG+ I DG A
Sbjct: 201 EELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKG 260
Query: 79 ALLEYMSSVLGVKRRQVSIG 98
++ ++ G+ R + +G
Sbjct: 261 GVIFSVADQFGIPIRYIGVG 280
>pdb|3PRX|B Chain B, Structure Of Complement C5 In Complex With Cvf And Ssl7
pdb|3PRX|D Chain D, Structure Of Complement C5 In Complex With Cvf And Ssl7
pdb|3PVM|B Chain B, Structure Of Complement C5 In Complex With Cvf
pdb|3PVM|D Chain D, Structure Of Complement C5 In Complex With Cvf
Length = 1642
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 34/83 (40%), Gaps = 14/83 (16%)
Query: 50 SKSCSITDVSDEAVGVQIDAPAKDGEANAALLEYMSSVLGVK-------------RRQVS 96
+K S ++ V VQ+ P E LL Y SS L ++ R S
Sbjct: 91 AKEVSTDSRQNQYVVVQVTGPQVRLE-KVVLLSYQSSFLFIQTDKGIYTPGSPVLYRVFS 149
Query: 97 IGSGSKSRDKIVIVEEITPENVL 119
+ + +K VIVE TPE +L
Sbjct: 150 MDHNTSKMNKTVIVEFQTPEGIL 172
>pdb|2YHS|A Chain A, Structure Of The E. Coli Srp Receptor Ftsy
Length = 503
Score = 26.2 bits (56), Expect = 4.5, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 37 PSSVSITIHAKPGSKSCSITDVSDEAVGVQ-IDAPAKDGEANAALLEYMSSVLGVKRRQV 95
P V +TI A G + S + EAVG+ I DG A ++ ++ G+ R +
Sbjct: 412 PHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYI 471
Query: 96 SIG 98
+G
Sbjct: 472 GVG 474
>pdb|3FRP|A Chain A, Crystal Structure Of Cobra Venom Factor, A Co-Factor For
C3- And C5 Convertase Cvfbb
pdb|3HRZ|A Chain A, Cobra Venom Factor (Cvf) In Complex With Human Factor B
pdb|3HS0|A Chain A, Cobra Venom Factor (Cvf) In Complex With Human Factor B
pdb|3HS0|F Chain F, Cobra Venom Factor (Cvf) In Complex With Human Factor B
Length = 627
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 27/103 (26%), Positives = 42/103 (40%), Gaps = 14/103 (13%)
Query: 32 IRLVPPSSVSITIHAKPGSKSCSITDVSDEAVGVQIDAPAKDGEANAALLEYMSSVLGVK 91
+ + P + +T + +K S ++ V VQ+ P E LL Y SS L ++
Sbjct: 51 VDMNPAGGMLVTPTIEIPAKEVSTDSRQNQYVVVQVTGPQVRLE-KVVLLSYQSSFLFIQ 109
Query: 92 R-------------RQVSIGSGSKSRDKIVIVEEITPENVLNS 121
R S+ + +K VIVE TPE +L S
Sbjct: 110 TDKGIYTPGSPVLYRVFSMDHNTSKMNKTVIVEFQTPEGILVS 152
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
0.307 0.124 0.328
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,039,523
Number of Sequences: 62578
Number of extensions: 101877
Number of successful extensions: 206
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 201
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 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 45 (21.9 bits)