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= psy5694
(129 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 = 103 bits (258), Expect = 2e-23, Method: Composition-based stats.
Identities = 51/110 (46%), Positives = 76/110 (69%), Gaps = 2/110 (1%)
Query: 16 VVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQDDV-NIYLNTDTGGKYV 74
VV Q YE +VN EH VI GN+AV++C IPS++++++ V SW D+ N + + GKY+
Sbjct: 107 VVAQYYEADVNKEH-VIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGAEYDGKYL 165
Query: 75 VLSSGDLYVFNATPNDGYKSYRCRTVNKITGESQASVFQTRLSITGKLKS 124
VL SG+L++ P DGYKSY+CRT +++TGE++ S + RL IT + S
Sbjct: 166 VLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVITEPISS 215
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 103 bits (258), Expect = 2e-23, Method: Composition-based stats.
Identities = 51/110 (46%), Positives = 76/110 (69%), Gaps = 2/110 (1%)
Query: 16 VVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQDDV-NIYLNTDTGGKYV 74
VV Q YE +VN EH VI GN+AV++C IPS++++++ V SW D+ N + + GKY+
Sbjct: 101 VVAQYYEADVNKEH-VIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGAEYDGKYL 159
Query: 75 VLSSGDLYVFNATPNDGYKSYRCRTVNKITGESQASVFQTRLSITGKLKS 124
VL SG+L++ P DGYKSY+CRT +++TGE++ S + RL IT + S
Sbjct: 160 VLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVITEPISS 209
>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 = 103 bits (257), Expect = 2e-23, Method: Composition-based stats.
Identities = 51/110 (46%), Positives = 76/110 (69%), Gaps = 2/110 (1%)
Query: 16 VVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQDDV-NIYLNTDTGGKYV 74
VV Q YE +VN EH VI GN+AV++C IPS++++++ V SW D+ N + + GKY+
Sbjct: 136 VVAQYYEADVNKEH-VIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGAEYDGKYL 194
Query: 75 VLSSGDLYVFNATPNDGYKSYRCRTVNKITGESQASVFQTRLSITGKLKS 124
VL SG+L++ P DGYKSY+CRT +++TGE++ S + RL IT + S
Sbjct: 195 VLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVITEPISS 244
>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 = 95.9 bits (237), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 49/113 (43%), Positives = 76/113 (67%), Gaps = 4/113 (3%)
Query: 16 VVKQKYEINVNYEHNVILGNTAVLRCQIPSYMSEYIIVTSWIQDD-VNIYLN--TDTGGK 72
VV Q YE + E+ VI GN+ V++C+IPSY+++++ V W+ + N Y N +T GK
Sbjct: 101 VVIQSYESEADNEY-VIRGNSVVMKCEIPSYVADFVFVDLWLDSEGRNYYPNNAAETDGK 159
Query: 73 YVVLSSGDLYVFNATPNDGYKSYRCRTVNKITGESQASVFQTRLSITGKLKSL 125
Y+VL SG+L++ P DGYKSY+CRT +++TGE++ S + RL IT + S+
Sbjct: 160 YLVLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVITEPVGSV 212
>pdb|3AML|A Chain A, Structure Of The Starch Branching Enzyme I (Bei) From
Oryza Sativa L
Length = 755
Score = 29.6 bits (65), Expect = 0.42, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 55 SWIQDDVNIYLNTDTGGKYVVLSSGDL-YVFNATPNDGYKSYR 96
S++ I + + K +V GDL +VFN PN YK Y+
Sbjct: 582 SFLSSSKQIVSDMNEKDKVIVFERGDLVFVFNFHPNKTYKGYK 624
>pdb|3AMK|A Chain A, Structure Of The Starch Branching Enzyme I (Bei) From
Oryza Sativa L
Length = 702
Score = 29.6 bits (65), Expect = 0.44, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 55 SWIQDDVNIYLNTDTGGKYVVLSSGDL-YVFNATPNDGYKSYR 96
S++ I + + K +V GDL +VFN PN YK Y+
Sbjct: 582 SFLSSSKQIVSDMNEKDKVIVFERGDLVFVFNFHPNKTYKGYK 624
>pdb|3F1R|A Chain A, Crystal Structure Of Fgf20 Dimer
pdb|3F1R|B Chain B, Crystal Structure Of Fgf20 Dimer
Length = 211
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 5/35 (14%)
Query: 62 NIYLNTDTGGKYVVLSSGDLYVFNATPNDGYKSYR 96
NIY + DTG +Y V + D TP DG +S R
Sbjct: 154 NIYKHGDTGRRYFVALNKD-----GTPRDGARSKR 183
>pdb|3OQ3|B Chain B, Structural Basis Of Type-I Interferon Sequestration By A
Poxvirus Decoy Receptor
Length = 329
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 76 LSSGDLYVFNATPNDGYKSYRCRTVNKITGESQASVFQTRL 116
+ +GDL++ N T ND ++ Y C TV G+ + ++ +
Sbjct: 86 VKNGDLWIANYTSNDSHRRYLC-TVTTKNGDCVQGIVRSHI 125
>pdb|2L15|A Chain A, Solution Structure Of Cold Shock Protein Cspa Using
Combined Nmr And Cs-Rosetta Method
Length = 70
Score = 25.4 bits (54), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 64 YLNTDTGGKYVVLSSG--DLYV-FNATPNDGYKS 94
+ N D G ++ G D++V F+A NDGYKS
Sbjct: 11 WFNADKGFGFITPDDGSKDVFVHFSAIQNDGYKS 44
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 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,884,094
Number of Sequences: 62578
Number of extensions: 153263
Number of successful extensions: 689
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 675
Number of HSP's gapped (non-prelim): 13
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
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: 45 (21.9 bits)