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= psy12816
(1453 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VJ5|A Chain A, Shigella Flexneri Mxic
pdb|2VJ5|B Chain B, Shigella Flexneri Mxic
Length = 294
Score = 37.7 bits (86), Expect = 0.053, Method: Composition-based stats.
Identities = 30/110 (27%), Positives = 56/110 (50%), Gaps = 10/110 (9%)
Query: 559 EYGFVLNKPIVVDDVRVRG---LATLETSTQPRDKSLTLESVGVSSTY-FQHNGQCQAMS 614
E+GFVL+K I + +R + LE+S+ +D SL+ E + ++ Y FQ+ + + +
Sbjct: 176 EFGFVLSKLIAIKMIRTSDVIFMKKLESSSLLKDGSLSAEQLLLTLLYIFQYPSESEQIL 235
Query: 615 TNIYDYSSLQQGDKIVGPAIIMNELSTILVEPNCEAIINVTGDIEIAVDI 664
T++ + S D +V LS++ P+ I + EIA++I
Sbjct: 236 TSVIEVSRASHEDSVV----YQTYLSSVNESPH--DIFKSESEREIAINI 279
Score = 35.4 bits (80), Expect = 0.21, Method: Composition-based stats.
Identities = 30/110 (27%), Positives = 54/110 (49%), Gaps = 12/110 (10%)
Query: 1099 EYGFVLNKPIVVDDVRVRG---LATLETSTQPRDKSLTLESVSSTY---FQHNGQCQAMS 1152
E+GFVL+K I + +R + LE+S+ +D SL+ E + T FQ+ + + +
Sbjct: 176 EFGFVLSKLIAIKMIRTSDVIFMKKLESSSLLKDGSLSAEQLLLTLLYIFQYPSESEQIL 235
Query: 1153 TNIYDYSSLQQGDKIVGPAIIMNELSTILVEPNCEAIINVTGDIEIAVDI 1202
T++ + S D +V LS++ P+ I + EIA++I
Sbjct: 236 TSVIEVSRASHEDSVV----YQTYLSSVNESPH--DIFKSESEREIAINI 279
>pdb|2QJ4|A Chain A, A Mechanistic Basis For Converting A Receptor Tyrosine
Kinase Agonist To An Antagonist
pdb|2QJ4|B Chain B, A Mechanistic Basis For Converting A Receptor Tyrosine
Kinase Agonist To An Antagonist
Length = 184
Score = 34.3 bits (77), Expect = 0.46, Method: Composition-based stats.
Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 27/101 (26%)
Query: 338 LDNTRPNSFFYP--SQARG-----------YDTQDHILACFGGAGGQHACSVARSLGISS 384
D +R ++YP S + G Y+ +D+I C G GG + +V+
Sbjct: 64 FDKSRKRCYWYPFNSMSSGVKKGFGHEFDLYENKDYIRNCIIGKGGSYKGTVSI------ 117
Query: 385 VGTPNQVACQVYLRVSIWITLGLHNSFFYPSQARGYDTQDH 425
T + + CQ W ++ H F PS RG D Q++
Sbjct: 118 --TKSGIKCQP------WNSMIPHEHSFLPSSYRGKDLQEN 150
>pdb|4IUA|A Chain A, Crystal Structure Of The Nk2 Fragment (31-290) Of The
Mouse Hepatocyte Growth Factor/scatter Factor
pdb|4IUA|B Chain B, Crystal Structure Of The Nk2 Fragment (31-290) Of The
Mouse Hepatocyte Growth Factor/scatter Factor
pdb|4IUA|C Chain C, Crystal Structure Of The Nk2 Fragment (31-290) Of The
Mouse Hepatocyte Growth Factor/scatter Factor
pdb|4IUA|D Chain D, Crystal Structure Of The Nk2 Fragment (31-290) Of The
Mouse Hepatocyte Growth Factor/scatter Factor
pdb|4IUA|E Chain E, Crystal Structure Of The Nk2 Fragment (31-290) Of The
Mouse Hepatocyte Growth Factor/scatter Factor
pdb|4IUA|F Chain F, Crystal Structure Of The Nk2 Fragment (31-290) Of The
Mouse Hepatocyte Growth Factor/scatter Factor
pdb|4IUA|G Chain G, Crystal Structure Of The Nk2 Fragment (31-290) Of The
Mouse Hepatocyte Growth Factor/scatter Factor
pdb|4IUA|H Chain H, Crystal Structure Of The Nk2 Fragment (31-290) Of The
Mouse Hepatocyte Growth Factor/scatter Factor
Length = 262
Score = 34.3 bits (77), Expect = 0.53, Method: Composition-based stats.
Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 27/101 (26%)
Query: 338 LDNTRPNSFFYP--SQARG-----------YDTQDHILACFGGAGGQHACSVARSLGISS 384
D +R ++YP S + G Y+ +D+I C G GG + +V+
Sbjct: 62 FDKSRKRCYWYPFNSMSSGVKKGFGHEFDLYENKDYIRNCIIGKGGSYKGTVSI------ 115
Query: 385 VGTPNQVACQVYLRVSIWITLGLHNSFFYPSQARGYDTQDH 425
T + + CQ W ++ H F PS RG D Q++
Sbjct: 116 --TKSGIKCQP------WNSMIPHEHSFLPSSYRGKDLQEN 148
>pdb|3FE4|A Chain A, Crystal Structure Of Human Carbonic Anhydrase Vi
pdb|3FE4|B Chain B, Crystal Structure Of Human Carbonic Anhydrase Vi
Length = 278
Score = 31.6 bits (70), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 1372 DGEFQEAAVTAQLMEPAKYPGCSGTRNLPDNLADLKAQIAANQKGISLVQDVIQLYGLPV 1431
D + E A+ + P YP C G R P NL K + + KG+++ Q P+
Sbjct: 3 DWTYSEGALD-EAHWPQHYPACGGQRQSPINLQRTKVRYNPSLKGLNMTGYETQAGEFPM 61
Query: 1432 V 1432
V
Sbjct: 62 V 62
>pdb|2Y5Y|A Chain A, Crystal Structure Of Lacy In Complex With An Affinity
Inactivator
pdb|2Y5Y|B Chain B, Crystal Structure Of Lacy In Complex With An Affinity
Inactivator
Length = 423
Score = 30.8 bits (68), Expect = 5.6, Method: Composition-based stats.
Identities = 24/76 (31%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 581 LETSTQPRDKSLTLESVGVSSTYFQHNGQCQAMSTNIYDYSSLQQGDKIVGPAIIMNELS 640
LE QP+ L+L +GVSSTY + Q T+ +++ +QG ++ G M EL
Sbjct: 214 LELFRQPKLWFLSLYVIGVSSTYDVFDQQFANFFTSF--FATGEQGTRVFGYVTTMGELL 271
Query: 641 TILVEPNCEAIINVTG 656
+ IIN G
Sbjct: 272 NASIMFFAPLIINRIG 287
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
0.320 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 44,580,259
Number of Sequences: 62578
Number of extensions: 1933572
Number of successful extensions: 4080
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 4071
Number of HSP's gapped (non-prelim): 21
length of query: 1453
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1342
effective length of database: 8,027,179
effective search space: 10772474218
effective search space used: 10772474218
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.9 bits)