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= psy5692
(98 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V5S|A Chain A, Structural Basis For Dscam Isoform Specificity
pdb|2V5S|B Chain B, Structural Basis For Dscam Isoform Specificity
Length = 394
Score = 65.9 bits (159), Expect = 6e-12, Method: Composition-based stats.
Identities = 32/70 (45%), Positives = 50/70 (71%), Gaps = 2/70 (2%)
Query: 4 VVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQD-DVNIYLNTDTGGKYV 62
VV Q YE +VN EH VI GN+AV++C IPS++++++ V SW D + N + + GKY+
Sbjct: 107 VVAQYYEADVNKEH-VIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGAEYDGKYL 165
Query: 63 VLSSGDLYVQ 72
VL SG+L+++
Sbjct: 166 VLPSGELHIR 175
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 65.9 bits (159), Expect = 6e-12, Method: Composition-based stats.
Identities = 32/70 (45%), Positives = 50/70 (71%), Gaps = 2/70 (2%)
Query: 4 VVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQD-DVNIYLNTDTGGKYV 62
VV Q YE +VN EH VI GN+AV++C IPS++++++ V SW D + N + + GKY+
Sbjct: 101 VVAQYYEADVNKEH-VIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGAEYDGKYL 159
Query: 63 VLSSGDLYVQ 72
VL SG+L+++
Sbjct: 160 VLPSGELHIR 169
>pdb|3DMK|A Chain A, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
pdb|3DMK|B Chain B, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
pdb|3DMK|C Chain C, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
Length = 816
Score = 65.1 bits (157), Expect = 8e-12, Method: Composition-based stats.
Identities = 32/70 (45%), Positives = 50/70 (71%), Gaps = 2/70 (2%)
Query: 4 VVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQD-DVNIYLNTDTGGKYV 62
VV Q YE +VN EH VI GN+AV++C IPS++++++ V SW D + N + + GKY+
Sbjct: 136 VVAQYYEADVNKEH-VIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGAEYDGKYL 194
Query: 63 VLSSGDLYVQ 72
VL SG+L+++
Sbjct: 195 VLPSGELHIR 204
>pdb|2V5R|A Chain A, Structural Basis For Dscam Isoform Specificity
pdb|2V5R|B Chain B, Structural Basis For Dscam Isoform Specificity
Length = 391
Score = 58.9 bits (141), Expect = 8e-10, Method: Composition-based stats.
Identities = 30/72 (41%), Positives = 49/72 (68%), Gaps = 4/72 (5%)
Query: 4 VVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQDD-VNIYLN--TDTGGK 60
VV Q YE + E+ VI GN+ V++C+IPSY+++++ V W+ + N Y N +T GK
Sbjct: 101 VVIQSYESEADNEY-VIRGNSVVMKCEIPSYVADFVFVDLWLDSEGRNYYPNNAAETDGK 159
Query: 61 YVVLSSGDLYVQ 72
Y+VL SG+L+++
Sbjct: 160 YLVLPSGELHIR 171
>pdb|4F7Z|A Chain A, Conformational Dynamics Of Exchange Protein Directly
Activated By Camp
Length = 999
Score = 26.6 bits (57), Expect = 4.2, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 51 IYLNTDTGGKYVVLSSGDLYVQIRLSITGNL 81
I + ++GG+ VVL S D+ V L+I G L
Sbjct: 698 IIVKMNSGGEKVVLKSNDVSVFTTLTINGRL 728
>pdb|3CF6|E Chain E, Structure Of Epac2 In Complex With Cyclic-Amp And Rap
Length = 694
Score = 26.6 bits (57), Expect = 4.2, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 51 IYLNTDTGGKYVVLSSGDLYVQIRLSITGNL 81
I + ++GG+ VVL S D+ V L+I G L
Sbjct: 393 IIVKMNSGGEKVVLKSNDVSVFTTLTINGRL 423
>pdb|2BYV|E Chain E, Structure Of The Camp Responsive Exchange Factor Epac2 In
Its Auto-Inhibited State
Length = 999
Score = 26.6 bits (57), Expect = 4.2, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 51 IYLNTDTGGKYVVLSSGDLYVQIRLSITGNL 81
I + ++GG+ VVL S D+ V L+I G L
Sbjct: 698 IIVKMNSGGEKVVLKSNDVSVFTTLTINGRL 728
>pdb|1HL6|B Chain B, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|D Chain D, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
Length = 149
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 3 PVVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQDDVNIYLNTDT-GGKY 61
P K +Y N NY+++ ++ A + + + II + +Q+D + D G +
Sbjct: 29 PDGKLRYANNSNYKNDTMIRKEAFVHQSVMEELKRIIIDSEIMQEDDLPWPPPDRVGRQE 88
Query: 62 VVLSSGDLYVQIRLSITGNL 81
+ + GD ++ S TG+L
Sbjct: 89 LEIVIGDEHISFTTSKTGSL 108
>pdb|1OO0|A Chain A, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
pdb|1RK8|B Chain B, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|B Chain B, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|D Chain D, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 147
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 3 PVVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQDDVNIYLNTDT-GGKY 61
P K +Y N NY+++ ++ A + + + II + +Q+D + D G +
Sbjct: 29 PDGKLRYANNSNYKNDTMIRKEAFVHQSVMEELKRIIIDSEIMQEDDLPWPPPDRVGRQE 88
Query: 62 VVLSSGDLYVQIRLSITGNL 81
+ + GD ++ S TG+L
Sbjct: 89 LEIVIGDEHISFTTSKTGSL 108
>pdb|2L6L|A Chain A, Solution Structure Of Human J-Protein Co-Chaperone, Dph4
Length = 155
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 38 YIIVTSWIQDDVNIYLNTDTGGKYVV 63
Y+ SW + D + YL+ GGKY V
Sbjct: 98 YLEEMSWNEGDHSFYLSCRCGGKYSV 123
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
0.318 0.136 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,608,998
Number of Sequences: 62578
Number of extensions: 93414
Number of successful extensions: 484
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 469
Number of HSP's gapped (non-prelim): 10
length of query: 98
length of database: 14,973,337
effective HSP length: 64
effective length of query: 34
effective length of database: 10,968,345
effective search space: 372923730
effective search space used: 372923730
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)