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= psy5697
(145 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 60.8 bits (146), Expect = 3e-10, Method: Composition-based stats.
Identities = 29/63 (46%), Positives = 39/63 (61%)
Query: 77 WRFSNNTVIAYVKDLRIALSNGSLMFPPFPETGFRPDVHSTVYRCRASNEAGVILSRFVH 136
W S+ T + V LR S+G L+FPPF +R +VH+ VY C A N+ G I+SR VH
Sbjct: 73 WIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYACLARNQFGSIISRDVH 132
Query: 137 VKA 139
V+A
Sbjct: 133 VRA 135
>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 = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 29/66 (43%), Positives = 41/66 (62%)
Query: 74 QLGWRFSNNTVIAYVKDLRIALSNGSLMFPPFPETGFRPDVHSTVYRCRASNEAGVILSR 133
++ W S+ T + V LR S+G L+FPPF +R +VH+ VY C A N+ G I+SR
Sbjct: 35 EIIWIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYACLARNQFGSIISR 94
Query: 134 FVHVKA 139
VHV+A
Sbjct: 95 DVHVRA 100
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 60.1 bits (144), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 29/66 (43%), Positives = 41/66 (62%)
Query: 74 QLGWRFSNNTVIAYVKDLRIALSNGSLMFPPFPETGFRPDVHSTVYRCRASNEAGVILSR 133
++ W S+ T + V LR S+G L+FPPF +R +VH+ VY C A N+ G I+SR
Sbjct: 35 EIIWIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYACLARNQFGSIISR 94
Query: 134 FVHVKA 139
VHV+A
Sbjct: 95 DVHVRA 100
>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 = 60.1 bits (144), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 29/66 (43%), Positives = 41/66 (62%)
Query: 74 QLGWRFSNNTVIAYVKDLRIALSNGSLMFPPFPETGFRPDVHSTVYRCRASNEAGVILSR 133
++ W S+ T + V LR S+G L+FPPF +R +VH+ VY C A N+ G I+SR
Sbjct: 41 EIIWIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYACLARNQFGSIISR 100
Query: 134 FVHVKA 139
VHV+A
Sbjct: 101 DVHVRA 106
>pdb|3LRK|A Chain A, Structure Of Alfa-Galactosidase (Mel1) From Saccharomyces
Cerevisiae
pdb|3LRL|A Chain A, Structure Of Alfa-Galactosidase (Mel1) From Saccharomyces
Cerevisiae With Melibiose
Length = 479
Score = 26.6 bits (57), Expect = 4.8, Method: Composition-based stats.
Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 12 DADTYIIADRSLFPRPLGYLVGNIVYSSRSENEHYPFRIKSAPGGNRTRGLELTRQTRYE 71
D+D +++AD FP +G++ ++ N + F + S+ G G + E
Sbjct: 80 DSDGFLVADEQKFPNGMGHVADHL------HNNSFLFGMYSSAGEYTCAGYPGSLGREEE 133
Query: 72 PSQLGWRFSNNTV 84
+Q F+NN V
Sbjct: 134 DAQF---FANNRV 143
>pdb|3LRM|A Chain A, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
pdb|3LRM|B Chain B, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
pdb|3LRM|C Chain C, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
pdb|3LRM|D Chain D, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
Length = 479
Score = 26.6 bits (57), Expect = 4.9, Method: Composition-based stats.
Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 12 DADTYIIADRSLFPRPLGYLVGNIVYSSRSENEHYPFRIKSAPGGNRTRGLELTRQTRYE 71
D+D +++AD FP +G++ ++ N + F + S+ G G + E
Sbjct: 80 DSDGFLVADEQKFPNGMGHVADHL------HNNSFLFGMYSSAGEYTCAGYPGSLGREEE 133
Query: 72 PSQLGWRFSNNTV 84
+Q F+NN V
Sbjct: 134 DAQF---FANNRV 143
>pdb|3JPZ|A Chain A, Crystal Structure Of Lombricine Kinase
pdb|3JPZ|B Chain B, Crystal Structure Of Lombricine Kinase
pdb|3JQ3|A Chain A, Crystal Structure Of Lombricine Kinase, Complexed With
Substrate Adp
Length = 366
Score = 25.8 bits (55), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 6 ISTLLADADTYIIADRSLFPRPLGYLVGN 34
+S + + + +IAD LF +P G+L+ N
Sbjct: 163 LSKMTPEQENQLIADHFLFQKPTGHLMVN 191
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
0.322 0.138 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,377,954
Number of Sequences: 62578
Number of extensions: 170079
Number of successful extensions: 275
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 269
Number of HSP's gapped (non-prelim): 9
length of query: 145
length of database: 14,973,337
effective HSP length: 89
effective length of query: 56
effective length of database: 9,403,895
effective search space: 526618120
effective search space used: 526618120
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)