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= psy8623
(68 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MVS|A Chain A, Structure Of The N-Terminus Of Cadherin 23
Length = 210
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 1 MLRVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICIAQDLDFESRSSYEFPVVA 60
+ V+A+DPD G V Y+ + PS F + S G + + Q+LD+E +Y+ V A
Sbjct: 128 IFIVNATDPDLGAGGSVLYSF-QPPSP--FFAIDSARGIVTVIQELDYEVTQAYQLTVNA 184
Query: 61 TDRGK 65
TD+ K
Sbjct: 185 TDQDK 189
>pdb|2WD0|A Chain A, Crystal Structure Of Nonsyndromic Deafness (Dfnb12)
Associated Mutant D124g Of Mouse Cadherin-23 Ec1-2
pdb|2WD0|C Chain C, Crystal Structure Of Nonsyndromic Deafness (Dfnb12)
Associated Mutant D124g Of Mouse Cadherin-23 Ec1-2
pdb|4AQA|A Chain A, Crystal Structure Of Deafness Associated Mutant Mouse
Cadherin-23 Ec1-2d124g And Protocadherin-15 Ec1-2 Form I
Length = 214
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 1 MLRVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICIAQDLDFESRSSYEFPVVA 60
+ V+A+DPD G V Y+ + PS F + S G + + Q+LD+E +Y+ V A
Sbjct: 129 IFIVNATDPDLGAGGSVLYSF-QPPSP--FFAIDSARGIVTVIQELDYEVTQAYQLTVNA 185
Query: 61 TDRGK 65
TD+ K
Sbjct: 186 TDQDK 190
>pdb|4AQE|A Chain A, Crystal Structure Of Deafness Associated Mutant Mouse
Cadherin-23 Ec1-2s70p And Protocadherin-15 Ec1-2 Form I
Length = 214
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 1 MLRVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICIAQDLDFESRSSYEFPVVA 60
+ V+A+DPD G V Y+ + PS F + S G + + Q+LD+E +Y+ V A
Sbjct: 129 IFIVNATDPDLGAGGSVLYSF-QPPSP--FFAIDSARGIVTVIQELDYEVTQAYQLTVNA 185
Query: 61 TDRGK 65
TD+ K
Sbjct: 186 TDQDK 190
>pdb|2WCP|A Chain A, Crystal Structure Of Mouse Cadherin-23 Ec1-2
pdb|2WHV|A Chain A, Crystal Structure Of Mouse Cadherin-23 Ec1-2 (all Cation
Binding Sites Occupied By Calcium)
pdb|4APX|A Chain A, Crystal Structure Of Mouse Cadherin-23 Ec1-2 And
Protocadherin-15 Ec1-2 Form I
pdb|4AQ8|A Chain A, Crystal Structure Of Mouse Cadherin-23 Ec1-2 And
Protocadherin-15 Ec1-2 Form Ii
pdb|4AQ8|B Chain B, Crystal Structure Of Mouse Cadherin-23 Ec1-2 And
Protocadherin-15 Ec1-2 Form Ii
pdb|4AXW|A Chain A, Crystal Structure Of Mouse Cadherin-23 Ec1-2 And
Protocadherin-15 Ec1-2, Form I 2.2a
Length = 214
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 1 MLRVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICIAQDLDFESRSSYEFPVVA 60
+ V+A+DPD G V Y+ + PS F + S G + + Q+LD+E +Y+ V A
Sbjct: 129 IFIVNATDPDLGAGGSVLYSF-QPPSP--FFAIDSARGIVTVIQELDYEVTQAYQLTVNA 185
Query: 61 TDRGK 65
TD+ K
Sbjct: 186 TDQDK 190
>pdb|2YST|A Chain A, Solution Structure Of The Third Cadherin Domain From
Human Protocadherin 7
Length = 119
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 1 MLRVSASDPDCGVNAMVNYTLGESPSRTNHFY-MKSVSGEICIAQDLDFESRSSYEFPVV 59
+L++ A+D D GVN + Y G + + SG + + +D E + F V+
Sbjct: 33 ILQLRAADLDVGVNGQIEYVFGAATESVRRLLRLDETSGWLSVLHRIDREEVNQLRFTVM 92
Query: 60 ATDRGK 65
A DRG+
Sbjct: 93 ARDRGQ 98
>pdb|2EE0|A Chain A, Solution Structures Of The Ca Domain Of Human
Protocadherin 9
Length = 114
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 1 MLRVSASDPDCGVNAMVNYTLGE--SPSRTNHFYMKSVSGEICIAQDLDFESRSSYEFPV 58
++++ A+D D G NA + Y G +P+ F + + +G I + + LD E + ++ V
Sbjct: 33 VIQLHATDADIGSNAEIRYIFGAQVAPATKRLFALNNTTGLITVQRSLDREETAIHKVTV 92
Query: 59 VATD 62
+A+D
Sbjct: 93 LASD 96
>pdb|3UBH|A Chain A, Crystal Structure Of Drosophila N-Cadherin Ec1-4
Length = 419
Score = 34.3 bits (77), Expect = 0.017, Method: Composition-based stats.
Identities = 24/66 (36%), Positives = 38/66 (57%), Gaps = 7/66 (10%)
Query: 1 MLRVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICIAQDLDFESRSS-YEFPVV 59
+LRV A D D G NA + Y + + +HF + S +G I + LD ++ ++ YEF V
Sbjct: 344 ILRVKAMDSDSGSNAEIEYLVSD-----DHFAVDS-NGIIVNNKQLDADNNNAYYEFIVT 397
Query: 60 ATDRGK 65
A D+G+
Sbjct: 398 AKDKGE 403
>pdb|3PPE|A Chain A, Crystal Structure Of Chicken Ve-Cadherin Ec1-2
pdb|3PPE|B Chain B, Crystal Structure Of Chicken Ve-Cadherin Ec1-2
Length = 203
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 30/58 (51%), Gaps = 5/58 (8%)
Query: 6 ASDPDCGVNAMVNYTLGESPSRTNHFYMKSVSGEICIAQ-DLDFESRSSYEFPVVATD 62
A DP +A V Y + + N ++ SG I A+ DLD ES+S+YE V A D
Sbjct: 131 ADDPTVAGHATVTYQI----IKGNEYFTVDDSGVIFTARADLDRESQSAYEIIVKAKD 184
>pdb|2A62|A Chain A, Crystal Structure Of Mouse Cadherin-8 Ec1-3
Length = 322
Score = 28.9 bits (63), Expect = 0.75, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 5/64 (7%)
Query: 3 RVSASDPDCGVNAMVNYTLGESPSRTNHFYMKSVS----GEICIAQDLDFESRSSYEFPV 58
RV A+D D G NA +Y + + T F + S + G I + + LDFE++ SY V
Sbjct: 236 RVKANDQDIGENAQSSYDIIDGDG-TALFEITSDAQAQDGVIRLRKPLDFETKKSYTLKV 294
Query: 59 VATD 62
A +
Sbjct: 295 EAAN 298
>pdb|3K6I|A Chain A, Crystal Structure Of Chicken T-Cadherin Ec1
Length = 99
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 31 FYMKSVSGEICIAQDLDFESRSSYEFPVVATD 62
F + +SG++ + + LD E+ ++YE V TD
Sbjct: 50 FRINEISGDVSVTRPLDREAIANYELEVEVTD 81
>pdb|3K6D|A Chain A, Crystal Structure Of Xenopus Laevis T-Cadherin Ec1
Length = 99
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 31 FYMKSVSGEICIAQDLDFESRSSYEFPVVATDRGKET 67
F + SGE+ + + LD E+ SY+ V TD +T
Sbjct: 50 FKINENSGEVSVTKALDREAIPSYQLQVETTDENGKT 86
>pdb|3K5S|A Chain A, Crystal Structure Of Chicken T-Cadherin Ec1 Ec2
pdb|3K5S|B Chain B, Crystal Structure Of Chicken T-Cadherin Ec1 Ec2
Length = 217
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 20/32 (62%)
Query: 31 FYMKSVSGEICIAQDLDFESRSSYEFPVVATD 62
F + +SG++ + + LD E+ ++Y+ V TD
Sbjct: 50 FRINEISGDVSVTRPLDREAIANYQLEVEVTD 81
>pdb|1ZVN|A Chain A, Crystal Structure Of Chick Mn-Cadherin Ec1
pdb|1ZVN|B Chain B, Crystal Structure Of Chick Mn-Cadherin Ec1
Length = 99
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 26/58 (44%), Gaps = 4/58 (6%)
Query: 7 SDPDCGVNAMVNYTL-GESPSRTNHFYMKSVSGEICIAQDLDFESRSSYEFPVVATDR 63
SD D G + + Y L GE F + +G+I Q LD E RS Y A DR
Sbjct: 27 SDMDRG-DGSIKYILSGEGAGIV--FTIDDTTGDIHAIQRLDREERSQYTLRAQALDR 81
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
0.315 0.129 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,882,789
Number of Sequences: 62578
Number of extensions: 54107
Number of successful extensions: 93
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: 80
Number of HSP's gapped (non-prelim): 15
length of query: 68
length of database: 14,973,337
effective HSP length: 38
effective length of query: 30
effective length of database: 12,595,373
effective search space: 377861190
effective search space used: 377861190
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)