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= psy57
(135 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Y38|A Chain A, Laminin Alpha5 Chain N-Terminal Fragment
Length = 403
Score = 164 bits (416), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 74/132 (56%), Positives = 96/132 (72%)
Query: 4 EENKITISLLDHRPSMKNFFNSTRLQEWTRATNVRLRLLRTKNLLGHLMSMADQDPTTTR 63
E +I +SL++ RP NF S L+++T+ATN+RLR LRT LLGHLM A +DPT TR
Sbjct: 192 ENGEIVVSLVNGRPGALNFSYSPLLRDFTKATNIRLRFLRTNTLLGHLMGKALRDPTVTR 251
Query: 64 RYFYSIKDISIGGRCRCNGHADVCDILDPEDPYHRICRCQHNTCGHNCEVCCPGYEQKAW 123
RY+YSIKDISIGGRC C+GHADVCD DP DP+ C CQHNTCG +C+ CCPG+ Q+ W
Sbjct: 252 RYYYSIKDISIGGRCVCHGHADVCDAKDPLDPFRLQCACQHNTCGGSCDRCCPGFNQQPW 311
Query: 124 RQSQSNKPFSCE 135
+ + ++ C+
Sbjct: 312 KPATTDSANECQ 323
>pdb|4AQT|A Chain A, Laminin Gamma1 Ln-Le1-2 Structure
Length = 375
Score = 95.5 bits (236), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 47/127 (37%), Positives = 71/127 (55%), Gaps = 7/127 (5%)
Query: 8 ITISLLDHRPSMKNFFNSTRLQEWTRATNVRLRLLRTKNLLGHLMSMADQDPTTTRRYFY 67
+ S L+ RPS NF NS LQEW AT++R+ L R + + +P + Y+Y
Sbjct: 189 VAFSTLEGRPSAYNFDNSPVLQEWVTATDIRVTLNRLNTFGDEVFN----EPKVLKSYYY 244
Query: 68 SIKDISIGGRCRCNGHADVCDILDPEDPYHRICRCQHNTCGHNCEVCCPGYEQKAWRQSQ 127
+I D ++GGRC+CNGHA C + + D +C C+HNT G +CE C P + + WR++
Sbjct: 245 AISDFAVGGRCKCNGHASEC-VKNEFD--KLMCNCKHNTYGVDCEKCLPFFNDRPWRRAT 301
Query: 128 SNKPFSC 134
+ C
Sbjct: 302 AESASEC 308
>pdb|4AQS|A Chain A, Laminin Beta1 Ln-Le1-4 Structure
Length = 525
Score = 66.2 bits (160), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 39/136 (28%), Positives = 67/136 (49%), Gaps = 9/136 (6%)
Query: 5 ENKITISLLDHRPSMKNFFNSTRLQEWTRATNVRLRLLRTKNLLGHLMSMADQDPTTTRR 64
E ++ LD +++ + S R+Q + TN+R++ ++ L +L+ D +
Sbjct: 185 EGEVIFRALDPAFKIEDPY-SPRIQNLLKITNLRIKFVKLHTLGDNLL---DSRMEIREK 240
Query: 65 YFYSIKDISIGGRCRCNGHADVCDILDP-----EDPYHRICRCQHNTCGHNCEVCCPGYE 119
Y+Y++ D+ + G C C GHA C +D E H C C+HNT G NCE+C Y
Sbjct: 241 YYYAVYDMVVRGNCFCYGHASECAPVDGVNEEVEGMVHGHCMCRHNTKGLNCELCMDFYH 300
Query: 120 QKAWRQSQSNKPFSCE 135
WR ++ +C+
Sbjct: 301 DLPWRPAEGRNSNACK 316
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 25/54 (46%), Gaps = 6/54 (11%)
Query: 77 RCRCNGHADVCDI-----LDPEDPYHRIC-RCQHNTCGHNCEVCCPGYEQKAWR 124
+C CN H+ C L + +C CQHNT G NCE C P Y Q R
Sbjct: 317 KCNCNEHSSSCHFDMAVFLATGNVSGGVCDNCQHNTMGRNCEQCKPFYFQHPER 370
>pdb|3ZYJ|B Chain B, Netring1 In Complex With Ngl1
pdb|3ZYJ|D Chain D, Netring1 In Complex With Ngl1
Length = 426
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 36/100 (36%), Positives = 53/100 (53%), Gaps = 10/100 (10%)
Query: 24 NSTRLQEWTRATNVRLRLLRTKNLLGHLMSMADQDPTTTRRYFYSIKDISIGGRCRCNGH 83
+ +L+++ T++R+RLLR +G + D RYFY+I DI + GRC+CN H
Sbjct: 249 TTKKLRDFFTVTDLRIRLLRPA--VGEIFV----DELHLARYFYAISDIKVRGRCKCNLH 302
Query: 84 ADVCDILDPEDPYHRICRCQHNTCGHNCEVCCPGYEQKAW 123
A VC D C C+HNT G +C C Y+ + W
Sbjct: 303 ATVCVY----DNSKLTCECEHNTTGPDCGKCKKNYQGRPW 338
>pdb|3ZYG|A Chain A, Netring2 Lam And Egf1 Domains
pdb|3ZYG|B Chain B, Netring2 Lam And Egf1 Domains
pdb|3ZYI|B Chain B, Netring2 In Complex With Ngl2
Length = 353
Score = 59.3 bits (142), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 33/97 (34%), Positives = 53/97 (54%), Gaps = 10/97 (10%)
Query: 28 LQEWTRATNVRLRLLRTKNLLGHLMSMADQDPTTTRRYFYSIKDISIGGRCRCNGHADVC 87
L+E+ T++R+RLLR LG + +YFY+I +I + GRC+CN HA++C
Sbjct: 243 LKEFFTLTDLRMRLLRPA--LGGTYVQREN----LYKYFYAISNIEVIGRCKCNLHANLC 296
Query: 88 DILDPEDPYHRICRCQHNTCGHNCEVCCPGYEQKAWR 124
+ + C C+HNT G +C C + ++WR
Sbjct: 297 SMREGS----LQCECEHNTTGPDCGKCKKNFRTRSWR 329
>pdb|3TBD|A Chain A, Crystal Structure Of Domain Vi And Le1 Of Human Netrin-G2
Length = 338
Score = 59.3 bits (142), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 33/97 (34%), Positives = 53/97 (54%), Gaps = 10/97 (10%)
Query: 28 LQEWTRATNVRLRLLRTKNLLGHLMSMADQDPTTTRRYFYSIKDISIGGRCRCNGHADVC 87
L+E+ T++R+RLLR LG + +YFY+I +I + GRC+CN HA++C
Sbjct: 226 LKEFFTLTDLRMRLLRPA--LGGTYVQREN----LYKYFYAISNIEVIGRCKCNLHANLC 279
Query: 88 DILDPEDPYHRICRCQHNTCGHNCEVCCPGYEQKAWR 124
+ + C C+HNT G +C C + ++WR
Sbjct: 280 SMREGS----LQCECEHNTTGPDCGKCKKNFRTRSWR 312
>pdb|3C5I|A Chain A, Crystal Structure Of Plasmodium Knowlesi Choline Kinase,
Pkh_134520
pdb|3C5I|B Chain B, Crystal Structure Of Plasmodium Knowlesi Choline Kinase,
Pkh_134520
pdb|3C5I|C Chain C, Crystal Structure Of Plasmodium Knowlesi Choline Kinase,
Pkh_134520
pdb|3C5I|D Chain D, Crystal Structure Of Plasmodium Knowlesi Choline Kinase,
Pkh_134520
Length = 369
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 28/56 (50%)
Query: 9 TISLLDHRPSMKNFFNSTRLQEWTRATNVRLRLLRTKNLLGHLMSMADQDPTTTRR 64
T+S P + N FN R++EW +R+ L+ +L + ++ + T +R+
Sbjct: 93 TMSKYKIAPQLLNTFNGGRIEEWLYGDPLRIDDLKNPTILIGIANVLGKFHTLSRK 148
>pdb|3M1C|B Chain B, Crystal Structure Of The Conserved Herpesvirus Fusion
Regulator Complex Gh-Gl
Length = 204
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 19/39 (48%)
Query: 48 LGHLMSMADQDPTTTRRYFYSIKDISIGGRCRCNGHADV 86
L H + AD TTTRR Y ++G R + HA V
Sbjct: 87 LSHSVFPADTQETTTRRALYKEIRDALGSRKQAVSHAPV 125
>pdb|1T3Q|A Chain A, Crystal Structure Of Quinoline 2-Oxidoreductase From
Pseudomonas Putida 86
pdb|1T3Q|D Chain D, Crystal Structure Of Quinoline 2-Oxidoreductase From
Pseudomonas Putida 86
Length = 168
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 44 TKNLLGHLMSMADQDPTTTRRYFYSIKDISIGGRCRCNGHADVCD-ILDP 92
T +L S+ ++P +R ++++ G CRC G+ + D I DP
Sbjct: 111 TAGMLATARSILAENPAPSRD---EVREVMSGNLCRCTGYETIIDAITDP 157
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
0.323 0.135 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,245,822
Number of Sequences: 62578
Number of extensions: 152439
Number of successful extensions: 255
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 226
Number of HSP's gapped (non-prelim): 25
length of query: 135
length of database: 14,973,337
effective HSP length: 88
effective length of query: 47
effective length of database: 9,466,473
effective search space: 444924231
effective search space used: 444924231
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)