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= psy12724
(167 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 155 bits (393), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 76/105 (72%), Positives = 86/105 (81%), Gaps = 2/105 (1%)
Query: 63 VVSQSYTVNIMDEHVLKGNSAVLKCHIPSFVADYVAVESWISDQGEELFVDMTESTDGKY 122
VV+Q Y ++ EHV++GNSAV+KC IPSFVAD+V V SW +D+ E F DGKY
Sbjct: 101 VVAQYYEADVNKEHVIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGA--EYDGKY 158
Query: 123 LVLPSGELHIRDVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI 167
LVLPSGELHIR+VGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI
Sbjct: 159 LVLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI 203
Score = 56.6 bits (135), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 25/41 (60%), Positives = 33/41 (80%)
Query: 7 AVISQYYEAQVYDVFVIKGNAAVFKCNLPSFVSDHLDVVSW 47
AV++QYYEA V VI+GN+AV KC +PSFV+D ++VVSW
Sbjct: 100 AVVAQYYEADVNKEHVIRGNSAVIKCLIPSFVADFVEVVSW 140
>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 = 155 bits (393), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 76/105 (72%), Positives = 86/105 (81%), Gaps = 2/105 (1%)
Query: 63 VVSQSYTVNIMDEHVLKGNSAVLKCHIPSFVADYVAVESWISDQGEELFVDMTESTDGKY 122
VV+Q Y ++ EHV++GNSAV+KC IPSFVAD+V V SW +D+ E F DGKY
Sbjct: 107 VVAQYYEADVNKEHVIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGA--EYDGKY 164
Query: 123 LVLPSGELHIRDVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI 167
LVLPSGELHIR+VGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI
Sbjct: 165 LVLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI 209
Score = 56.6 bits (135), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 25/41 (60%), Positives = 33/41 (80%)
Query: 7 AVISQYYEAQVYDVFVIKGNAAVFKCNLPSFVSDHLDVVSW 47
AV++QYYEA V VI+GN+AV KC +PSFV+D ++VVSW
Sbjct: 106 AVVAQYYEADVNKEHVIRGNSAVIKCLIPSFVADFVEVVSW 146
>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 = 155 bits (393), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 76/105 (72%), Positives = 86/105 (81%), Gaps = 2/105 (1%)
Query: 63 VVSQSYTVNIMDEHVLKGNSAVLKCHIPSFVADYVAVESWISDQGEELFVDMTESTDGKY 122
VV+Q Y ++ EHV++GNSAV+KC IPSFVAD+V V SW +D+ E F DGKY
Sbjct: 136 VVAQYYEADVNKEHVIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGA--EYDGKY 193
Query: 123 LVLPSGELHIRDVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI 167
LVLPSGELHIR+VGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI
Sbjct: 194 LVLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI 238
Score = 56.2 bits (134), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 25/41 (60%), Positives = 33/41 (80%)
Query: 7 AVISQYYEAQVYDVFVIKGNAAVFKCNLPSFVSDHLDVVSW 47
AV++QYYEA V VI+GN+AV KC +PSFV+D ++VVSW
Sbjct: 135 AVVAQYYEADVNKEHVIRGNSAVIKCLIPSFVADFVEVVSW 175
>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 = 155 bits (391), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 72/105 (68%), Positives = 85/105 (80%)
Query: 63 VVSQSYTVNIMDEHVLKGNSAVLKCHIPSFVADYVAVESWISDQGEELFVDMTESTDGKY 122
VV QSY +E+V++GNS V+KC IPS+VAD+V V+ W+ +G + + TDGKY
Sbjct: 101 VVIQSYESEADNEYVIRGNSVVMKCEIPSYVADFVFVDLWLDSEGRNYYPNNAAETDGKY 160
Query: 123 LVLPSGELHIRDVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI 167
LVLPSGELHIR+VGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI
Sbjct: 161 LVLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI 205
Score = 50.4 bits (119), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 36/53 (67%)
Query: 7 AVISQYYEAQVYDVFVIKGNAAVFKCNLPSFVSDHLDVVSWADTDGGQYQIDN 59
AV+ Q YE++ + +VI+GN+ V KC +PS+V+D + V W D++G Y +N
Sbjct: 100 AVVIQSYESEADNEYVIRGNSVVMKCEIPSYVADFVFVDLWLDSEGRNYYPNN 152
>pdb|2VRA|A Chain A, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|B Chain B, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|C Chain C, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|D Chain D, Drosophila Robo Ig1-2 (Monoclinic Form)
Length = 208
Score = 30.8 bits (68), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 6/89 (6%)
Query: 60 QDFVVSQSYTVNIMDEHVLKGNSAVLKCHIPSFVADYVAVESWISDQGEEL--FVDMTES 117
Q V+ + V D V KG +A+L+C P + + + WI D G L M+
Sbjct: 103 QIAVLRDDFRVEPKDTRVAKGETALLECGPPKGIPEPTLI--WIKD-GVPLDDLKAMSFG 159
Query: 118 TDGKYLVLPSGELHIRDVGPEDGYKSYQC 146
+ ++ G L I +V P D +Y+C
Sbjct: 160 ASSRVRIVDGGNLLISNVEPID-EGNYKC 187
>pdb|2VR9|A Chain A, Drosophila Robo Ig1-2 (Tetragonal Form)
pdb|2VR9|B Chain B, Drosophila Robo Ig1-2 (Tetragonal Form)
pdb|2VR9|C Chain C, Drosophila Robo Ig1-2 (Tetragonal Form)
Length = 217
Score = 30.8 bits (68), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 6/89 (6%)
Query: 60 QDFVVSQSYTVNIMDEHVLKGNSAVLKCHIPSFVADYVAVESWISDQGEEL--FVDMTES 117
Q V+ + V D V KG +A+L+C P + + + WI D G L M+
Sbjct: 103 QIAVLRDDFRVEPKDTRVAKGETALLECGPPKGIPEPTLI--WIKD-GVPLDDLKAMSFG 159
Query: 118 TDGKYLVLPSGELHIRDVGPEDGYKSYQC 146
+ ++ G L I +V P D +Y+C
Sbjct: 160 ASSRVRIVDGGNLLISNVEPID-EGNYKC 187
>pdb|3LAF|A Chain A, Structure Of Dcc, A Netrin-1 Receptor
Length = 403
Score = 30.0 bits (66), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 36/77 (46%), Gaps = 8/77 (10%)
Query: 80 GNSAVLKCHIPSFVADYVAVESWISDQGEELFVDMTESTDGKYLVLPSGELHIRDVGPED 139
G++ +LKC + + D + W +Q + + D + +VLPSG L I + P D
Sbjct: 136 GDTVLLKCEV---IGDPMPTIHWQKNQQDLNPI----PGDSRVVVLPSGALQISRLQPGD 188
Query: 140 GYKSYQCRTKHRLTGET 156
Y+C ++ + T
Sbjct: 189 S-GVYRCSARNPASTRT 204
>pdb|1J4X|A Chain A, Human Vh1-Related Dual-Specificity Phosphatase C124s
Mutant- Peptide Complex
Length = 184
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 133 RDVGPEDGYKSYQCRTKHRLTGETRL 158
R++GP DG+ + C+ RL E +L
Sbjct: 157 REIGPNDGFLAQLCQLNDRLAKEGKL 182
>pdb|1VHR|A Chain A, Human Vh1-Related Dual-Specificity Phosphatase
pdb|1VHR|B Chain B, Human Vh1-Related Dual-Specificity Phosphatase
Length = 184
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 133 RDVGPEDGYKSYQCRTKHRLTGETRL 158
R++GP DG+ + C+ RL E +L
Sbjct: 157 REIGPNDGFLAQLCQLNDRLAKEGKL 182
>pdb|3F81|A Chain A, Interaction Of Vhr With Sa3
pdb|3F81|B Chain B, Interaction Of Vhr With Sa3
Length = 183
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 133 RDVGPEDGYKSYQCRTKHRLTGETRL 158
R++GP DG+ + C+ RL E +L
Sbjct: 156 REIGPNDGFLAQLCQLNDRLAKEGKL 181
>pdb|3DRF|A Chain A, Lactococcal Oppa Complexed With An Endogenous Peptide In
The Closed Conformation
pdb|3DRG|A Chain A, Lactococcal Oppa Complexed With Bradykinin In The Closed
Conformation
pdb|3DRH|A Chain A, Crystal Structure Of Lactococcal Oppa Co-Crystallized With
Leu- Enkephalin In An Open Conformation
pdb|3DRI|A Chain A, Crystal Structure Of Lactococcal Oppa Co-Crystallized With
An Octamer Peptide In An Open Conformation
pdb|3DRJ|A Chain A, Crystal Structure Of Lactococcal Oppa Co-Crystallized With
Pth-Related Peptide In An Open Conformation
pdb|3DRK|A Chain A, Crystal Structure Of Lactococcal Oppa Co-Crystallized With
Neuropeptide S In An Open Conformation
pdb|3RYA|A Chain A, Lactococcal Oppa Complexed With Slsqlssqs
pdb|3RYB|A Chain A, Lactococcal Oppa Complexed With Slsqslsqs
Length = 590
Score = 28.1 bits (61), Expect = 2.4, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 29/52 (55%)
Query: 103 ISDQGEELFVDMTESTDGKYLVLPSGELHIRDVGPEDGYKSYQCRTKHRLTG 154
I Q +E+ MT+S +G +L + +++DV P+D S + TK +TG
Sbjct: 171 IKVQFKEMKPGMTQSGNGYFLETVAPYQYLKDVAPKDLASSPKTTTKPLVTG 222
>pdb|3RDT|A Chain A, Crystal Structure Of 809.B5 Tcr Complexed With Mhc Class
Ii I-Ab3K Peptide
Length = 205
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 40/100 (40%), Gaps = 13/100 (13%)
Query: 77 VLKGNSAVLKCHIPSFVADYVAVESWISDQGEELFVDMT----ESTDGKYLVLPSGE--- 129
V +G +A+L C + DY +G L + + + DG++ + +
Sbjct: 13 VWEGETAILNCSYENSAFDYFPWYQQFPGEGPALLIAIRSVSDKKEDGRFTIFFNKREKK 72
Query: 130 --LHIRDVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVI 167
LHI D P D +Y C G RL+ KG +I
Sbjct: 73 LSLHITDSQPGDS-ATYFCAASK---GADRLTFGKGTQLI 108
>pdb|2YR3|A Chain A, Solution Structure Of The Fourth Ig-Like Domain From
Myosin Light Chain Kinase, Smooth Muscle
Length = 99
Score = 27.3 bits (59), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 46/97 (47%), Gaps = 12/97 (12%)
Query: 64 VSQSYTVNIMDEHVLKGNSAVLKCHIPSFVADYVAVESWISDQGEELFVDMTESTDGKYL 123
V+ S++ + D V++G VL+C + + +W+ + G+ + + G
Sbjct: 10 VAPSFSSVLKDCAVIEGQDFVLQCSVRGTPVPRI---TWLLN-GQPIQYARSTCEAGV-- 63
Query: 124 VLPSGELHIRDVGPEDGYKSYQCRTKHRLTGETRLSA 160
ELHI+D PED + +Y C ++ L G+ SA
Sbjct: 64 ----AELHIQDALPED-HGTYTCLAENAL-GQVSCSA 94
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 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,388,926
Number of Sequences: 62578
Number of extensions: 229262
Number of successful extensions: 463
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 445
Number of HSP's gapped (non-prelim): 26
length of query: 167
length of database: 14,973,337
effective HSP length: 92
effective length of query: 75
effective length of database: 9,216,161
effective search space: 691212075
effective search space used: 691212075
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: 48 (23.1 bits)