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= psy4697
(383 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3UBH|A Chain A, Crystal Structure Of Drosophila N-Cadherin Ec1-4
Length = 419
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 52/200 (26%), Positives = 84/200 (42%), Gaps = 18/200 (9%)
Query: 41 RELQFSKNEYSVSALENLPVNYVLLTVTTNKPRDLRVKYWLS--NDYGERFSIS-RQGDI 97
R QF Y EN + ++++ D ++Y L F+I G +
Sbjct: 215 RAPQFYMPSYEAEIPENQKKDSDIISIKAKSFADREIRYTLKAQGQGAGTFNIGPTSGIV 274
Query: 98 SLMQCLDYE---TEDSYRFTVYATDTL--MTTSATVNISVVNVNDWDPRFRYPQYELFLP 152
L + LD+E Y V AT+ +TS + I V +VND P+F P Y+
Sbjct: 275 KLAKELDFEDLRQPHVYSLIVTATEDSGGFSTSVDLTIRVTDVNDNAPKFELPDYQA--- 331
Query: 153 HIPLADLTPGSVIGKVEAADGDKGDRVTLSLRGPYEKMFSINDSGHISIVDLSAL----N 208
H D+ G+ I +V+A D D G + + F+++ +G IV+ L N
Sbjct: 332 HNVDEDIPLGTSILRVKAMDSDSGSNAEIEYLVS-DDHFAVDSNG--IIVNNKQLDADNN 388
Query: 209 TSTIQLVVVATDTGNPPRQA 228
+ + +V A D G PP+
Sbjct: 389 NAYYEFIVTAKDKGEPPKSG 408
>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 = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 42/131 (32%), Positives = 61/131 (46%), Gaps = 11/131 (8%)
Query: 95 GDISLMQCLDYETEDSYRFTVYATDTLMTTSATVNISVVNVNDWDPRFRYPQYELFLPHI 154
G + L Q LD ET+ + +D + VNI V +VND P F Y + +P
Sbjct: 63 GVVWLRQPLDRETKSEFTVEFSVSDHQGVITRKVNIQVGDVNDNAPTFHNQPYSVRIP-- 120
Query: 155 PLADLTP-GSVIGKVEAADGD--KGDRVTLSLRGPYEKMFSINDS-GHISIV-DLSALNT 209
+ TP G+ I V A D D G V S + P F+I+ + G ++++ +L T
Sbjct: 121 ---ENTPVGTPIFIVNATDPDLGAGGSVLYSFQPP-SPFFAIDSARGIVTVIQELDYEVT 176
Query: 210 STIQLVVVATD 220
QL V ATD
Sbjct: 177 QAYQLTVNATD 187
Score = 34.7 bits (78), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 45 FSKNEYSVSALENLPVNYVLLTVTTNKPRDLRVKYWLSNDY---GERFSI-SRQGDISLM 100
F YSV EN PV + V P DL + + F+I S +G ++++
Sbjct: 110 FHNQPYSVRIPENTPVGTPIFIVNATDP-DLGAGGSVLYSFQPPSPFFAIDSARGIVTVI 168
Query: 101 QCLDYETEDSYRFTVYATD 119
Q LDYE +Y+ TV ATD
Sbjct: 169 QELDYEVTQAYQLTVNATD 187
>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 = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 42/131 (32%), Positives = 61/131 (46%), Gaps = 11/131 (8%)
Query: 95 GDISLMQCLDYETEDSYRFTVYATDTLMTTSATVNISVVNVNDWDPRFRYPQYELFLPHI 154
G + L Q LD ET+ + +D + VNI V +VND P F Y + +P
Sbjct: 63 GVVWLRQPLDRETKSEFTVEFSVSDHQGVITRKVNIQVGDVNDNAPTFHNQPYSVRIP-- 120
Query: 155 PLADLTP-GSVIGKVEAADGD--KGDRVTLSLRGPYEKMFSINDS-GHISIV-DLSALNT 209
+ TP G+ I V A D D G V S + P F+I+ + G ++++ +L T
Sbjct: 121 ---ENTPVGTPIFIVNATDPDLGAGGSVLYSFQPP-SPFFAIDSARGIVTVIQELDYEVT 176
Query: 210 STIQLVVVATD 220
QL V ATD
Sbjct: 177 QAYQLTVNATD 187
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 45 FSKNEYSVSALENLPVNYVLLTVTTNKPRDLRVKYWLSNDY---GERFSI-SRQGDISLM 100
F YSV EN PV + V P DL + + F+I S +G ++++
Sbjct: 110 FHNQPYSVRIPENTPVGTPIFIVNATDP-DLGAGGSVLYSFQPPSPFFAIDSARGIVTVI 168
Query: 101 QCLDYETEDSYRFTVYATD 119
Q LDYE +Y+ TV ATD
Sbjct: 169 QELDYEVTQAYQLTVNATD 187
>pdb|3MVS|A Chain A, Structure Of The N-Terminus Of Cadherin 23
Length = 210
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 42/131 (32%), Positives = 61/131 (46%), Gaps = 11/131 (8%)
Query: 95 GDISLMQCLDYETEDSYRFTVYATDTLMTTSATVNISVVNVNDWDPRFRYPQYELFLPHI 154
G + L Q LD ET+ + +D + VNI V +VND P F Y + +P
Sbjct: 62 GVVWLRQPLDRETKSEFTVEFSVSDHQGVITRKVNIQVGDVNDNAPTFHNQPYSVRIP-- 119
Query: 155 PLADLTP-GSVIGKVEAADGD--KGDRVTLSLRGPYEKMFSINDS-GHISIV-DLSALNT 209
+ TP G+ I V A D D G V S + P F+I+ + G ++++ +L T
Sbjct: 120 ---ENTPVGTPIFIVNATDPDLGAGGSVLYSFQPP-SPFFAIDSARGIVTVIQELDYEVT 175
Query: 210 STIQLVVVATD 220
QL V ATD
Sbjct: 176 QAYQLTVNATD 186
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 49/103 (47%), Gaps = 9/103 (8%)
Query: 45 FSKNEYSVSALENLPVNYVLLTVTTNKPRDLRVKYWLSNDY---GERFSI-SRQGDISLM 100
F YSV EN PV + V P DL + + F+I S +G ++++
Sbjct: 109 FHNQPYSVRIPENTPVGTPIFIVNATDP-DLGAGGSVLYSFQPPSPFFAIDSARGIVTVI 167
Query: 101 QCLDYETEDSYRFTVYATDT----LMTTSATVNISVVNVNDWD 139
Q LDYE +Y+ TV ATD ++T A + I + ++ D D
Sbjct: 168 QELDYEVTQAYQLTVNATDQDKTRPLSTLANLAIIITDMQDMD 210
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 42/131 (32%), Positives = 60/131 (45%), Gaps = 11/131 (8%)
Query: 95 GDISLMQCLDYETEDSYRFTVYATDTLMTTSATVNISVVNVNDWDPRFRYPQYELFLPHI 154
G + L Q LD ET+ + +D + VNI V VND P F Y + +P
Sbjct: 63 GVVWLRQPLDRETKSEFTVEFSVSDHQGVITRKVNIQVGGVNDNAPTFHNQPYSVRIP-- 120
Query: 155 PLADLTP-GSVIGKVEAADGD--KGDRVTLSLRGPYEKMFSINDS-GHISIV-DLSALNT 209
+ TP G+ I V A D D G V S + P F+I+ + G ++++ +L T
Sbjct: 121 ---ENTPVGTPIFIVNATDPDLGAGGSVLYSFQPP-SPFFAIDSARGIVTVIQELDYEVT 176
Query: 210 STIQLVVVATD 220
QL V ATD
Sbjct: 177 QAYQLTVNATD 187
Score = 34.7 bits (78), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 45 FSKNEYSVSALENLPVNYVLLTVTTNKPRDLRVKYWLSNDY---GERFSI-SRQGDISLM 100
F YSV EN PV + V P DL + + F+I S +G ++++
Sbjct: 110 FHNQPYSVRIPENTPVGTPIFIVNATDP-DLGAGGSVLYSFQPPSPFFAIDSARGIVTVI 168
Query: 101 QCLDYETEDSYRFTVYATD 119
Q LDYE +Y+ TV ATD
Sbjct: 169 QELDYEVTQAYQLTVNATD 187
>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 = 34.7 bits (78), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 40/148 (27%), Positives = 63/148 (42%), Gaps = 23/148 (15%)
Query: 95 GDISLMQCLDYETEDSYRFTVYATD---TLMTTSATVNISVVNVNDWDPRFRYPQYELFL 151
GD+S+ + LD E +Y+ V TD ++ ++ISV++ ND P F+ Y +
Sbjct: 57 GDVSVTRPLDREAIANYQLEVEVTDLSGKIIDGPVRLDISVIDQNDNRPMFKEGPY---V 113
Query: 152 PHIPLADLTPGSVIGKVEAADGDKGDRVTLSLR---------GPYEKMFSIN-DSGHISI 201
H+ T G+ + ++ A D D LR P MF I+ + G I
Sbjct: 114 GHVMEGSPT-GTTVMRMTAFDADDPSTDNALLRYNILKQTPTKPSPNMFYIDPEKGDIVT 172
Query: 202 V------DLSALNTSTIQLVVVATDTGN 223
V D + T +LV+ A D G
Sbjct: 173 VVSPVLLDRETMETPKYELVIEAKDMGG 200
>pdb|2A62|A Chain A, Crystal Structure Of Mouse Cadherin-8 Ec1-3
Length = 322
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 48/96 (50%), Gaps = 11/96 (11%)
Query: 89 FSISRQGDI--SLMQCLDYETEDSYRFTVYATDTL-----MTTSATVNISVVNVNDWDPR 141
FSI + I + + +D E ++ Y + A D ++ + T+ +++ +VND P+
Sbjct: 155 FSIEPETAIIKTALPNMDREAKEEYLVVIQAKDMGGHSGGLSGTTTLTVTLTDVNDNPPK 214
Query: 142 FRYPQYELFLPHIPLADLTPGSVIGKVEAADGDKGD 177
F Y +P D+ G+ IG+V+A D D G+
Sbjct: 215 FAQSLYHFSVPE----DVVLGTAIGRVKANDQDIGE 246
>pdb|2UY6|B Chain B, Crystal Structure Of The P Pilus Rod Subunit Papa
pdb|2UY6|C Chain C, Crystal Structure Of The P Pilus Rod Subunit Papa
Length = 163
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 314 VAIPKIQENPVFNGSQEELQTQRGGTNSSIYTATVKKT 351
+ + +N VF+GS+ + T + G N YTA VKK+
Sbjct: 103 IVVQGAGKNVVFDGSEGDANTLKDGENVLHYTAVVKKS 140
>pdb|1YA5|A Chain A, Crystal Structure Of The Titin Domains Z1z2 In Complex
With Telethonin
pdb|1YA5|B Chain B, Crystal Structure Of The Titin Domains Z1z2 In Complex
With Telethonin
pdb|2F8V|A Chain A, Structure Of Full Length Telethonin In Complex With The
N-Terminus Of Titin
pdb|2F8V|B Chain B, Structure Of Full Length Telethonin In Complex With The
N-Terminus Of Titin
pdb|2F8V|C Chain C, Structure Of Full Length Telethonin In Complex With The
N-Terminus Of Titin
pdb|2F8V|D Chain D, Structure Of Full Length Telethonin In Complex With The
N-Terminus Of Titin
Length = 201
Score = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 59/137 (43%), Gaps = 25/137 (18%)
Query: 13 LVVRAIQYDNQDRYALATLIVSKAGTSLRELQFSKNEYSVSALENLPVNYV--LLTVTTN 70
L + A+ N RY+L S TS EL + E P N+V L ++T
Sbjct: 65 LTIPAVTKANSGRYSLKATNGSGQATSTAEL--------LVKAETAPPNFVQRLQSMTVR 116
Query: 71 KPRDLRVKYWLSN----------DYGE-----RFSISRQGDISLMQCLDYETEDSYRFTV 115
+ +R++ ++ D E F IS++GD+ + + EDS ++V
Sbjct: 117 QGSQVRLQVRVTGIPTPVVKFYRDGAEIQSSLDFQISQEGDLYSLLIAEAYPEDSGTYSV 176
Query: 116 YATDTLMTTSATVNISV 132
AT+++ ++T + V
Sbjct: 177 NATNSVGRATSTAELLV 193
>pdb|2UY7|B Chain B, Crystal Structure Of The P Pilus Rod Subunit Papa
pdb|2UY7|D Chain D, Crystal Structure Of The P Pilus Rod Subunit Papa
pdb|2UY7|F Chain F, Crystal Structure Of The P Pilus Rod Subunit Papa
pdb|2UY7|H Chain H, Crystal Structure Of The P Pilus Rod Subunit Papa
Length = 163
Score = 28.1 bits (61), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 314 VAIPKIQENPVFNGSQEELQTQRGGTNSSIYTATVKKT 351
+ + +N VF+GS+ + T + G N YTA VKK+
Sbjct: 103 IVVQGAGKNVVFDGSEGDANTLKDGENVLHYTAVVKKS 140
>pdb|2A38|A Chain A, Crystal Structure Of The N-Terminus Of Titin
pdb|2A38|B Chain B, Crystal Structure Of The N-Terminus Of Titin
pdb|2A38|C Chain C, Crystal Structure Of The N-Terminus Of Titin
Length = 194
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 59/137 (43%), Gaps = 25/137 (18%)
Query: 13 LVVRAIQYDNQDRYALATLIVSKAGTSLRELQFSKNEYSVSALENLPVNYV--LLTVTTN 70
L + A+ N RY+L S TS EL + E P N+V L ++T
Sbjct: 65 LTIPAVTKANSGRYSLKATNGSGQATSTAEL--------LVKAETAPPNFVQRLQSMTVR 116
Query: 71 KPRDLRVKYWLSN----------DYGE-----RFSISRQGDISLMQCLDYETEDSYRFTV 115
+ +R++ ++ D E F IS++GD+ + + EDS ++V
Sbjct: 117 QGSQVRLQVRVTGIPTPVVKFYRDGAEIQSSLDFQISQEGDLYSLLIAEAYPEDSGTYSV 176
Query: 116 YATDTLMTTSATVNISV 132
AT+++ ++T + V
Sbjct: 177 NATNSVGRATSTAELLV 193
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
0.313 0.130 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,690,363
Number of Sequences: 62578
Number of extensions: 413184
Number of successful extensions: 703
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 686
Number of HSP's gapped (non-prelim): 18
length of query: 383
length of database: 14,973,337
effective HSP length: 101
effective length of query: 282
effective length of database: 8,652,959
effective search space: 2440134438
effective search space used: 2440134438
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)