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= psy5886
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A62|A Chain A, Crystal Structure Of Mouse Cadherin-8 Ec1-3
Length = 322
Score = 60.1 bits (144), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 59/185 (31%), Positives = 86/185 (46%), Gaps = 31/185 (16%)
Query: 19 YGAMARDKHELGVTLMQVKATDKDSGKFGLVEYRLLDNNTDAASYFNLDPAT-------- 70
Y A + LG ++ V ATD D +G +L+ + + YF+++P T
Sbjct: 111 YHATVPEMSILGTSVTNVTATDADDPVYG-NSAKLVYSILEGQPYFSIEPETAIIKTALP 169
Query: 71 --------EHQGPIQDE------GGLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQD 116
E+ IQ + GGLS T T+ + +TD+ND P+F Y FSVPE
Sbjct: 170 NMDREAKEEYLVVIQAKDMGGHSGGLSGTTTLTVTLTDVNDNPPKFAQSLYHFSVPEDVV 229
Query: 117 -GLAVGRVHATDADEGQNAVVYYSVPE-------DIPFVVDANTGDIRTNKALDYEKQQL 168
G A+GRV A D D G+NA Y + + +I A G IR K LD+E ++
Sbjct: 230 LGTAIGRVKANDQDIGENAQSSYDIIDGDGTALFEITSDAQAQDGVIRLRKPLDFETKKS 289
Query: 169 YLERV 173
Y +V
Sbjct: 290 YTLKV 294
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 50/87 (57%), Gaps = 6/87 (6%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQD-GLAVGRVHATDADE---GQNAVVYYSVPEDIP 145
I+V DIND PEF + PY +VPE G +V V ATDAD+ G +A + YS+ E P
Sbjct: 94 IKVQDINDNAPEFLNGPYHATVPEMSILGTSVTNVTATDADDPVYGNSAKLVYSILEGQP 153
Query: 146 -FVVDANTGDIRTN-KALDYEKQQLYL 170
F ++ T I+T +D E ++ YL
Sbjct: 154 YFSIEPETAIIKTALPNMDREAKEEYL 180
>pdb|3UBH|A Chain A, Crystal Structure Of Drosophila N-Cadherin Ec1-4
Length = 419
Score = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 41/103 (39%), Positives = 60/103 (58%), Gaps = 6/103 (5%)
Query: 77 QDEGGLSSTATVNIRVTDINDKNPEFQSLPYE-FSVPEGQD-GLAVGRVHATDADEGQNA 134
+D GG S++ + IRVTD+ND P+F+ Y+ +V E G ++ RV A D+D G NA
Sbjct: 299 EDSGGFSTSVDLTIRVTDVNDNAPKFELPDYQAHNVDEDIPLGTSILRVKAMDSDSGSNA 358
Query: 135 VVYYSVPEDIPFVVDANTGDIRTNKALDYEKQQLYLERVFLIS 177
+ Y V +D F VD+N G I NK LD + Y E F+++
Sbjct: 359 EIEYLVSDD-HFAVDSN-GIIVNNKQLDADNNNAYYE--FIVT 397
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 29 LGVTLMQVKATDKDSGKFGLVEYRLLDNN 57
LG ++++VKA D DSG +EY + D++
Sbjct: 340 LGTSILRVKAMDSDSGSNAEIEYLVSDDH 368
>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 = 57.8 bits (138), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 52/164 (31%), Positives = 73/164 (44%), Gaps = 22/164 (13%)
Query: 9 ALEMTSDSLFYGAMARDKHELGVTLMQVKATDKDSGKFGLVEYRLLDNNTDAASYFNLD- 67
A +M +D L +G + A + D+G L + LD T S F ++
Sbjct: 35 ARDMDNDPLVFGVSGEEASRF-------FAVEPDTGVVWL--RQPLDRET--KSEFTVEF 83
Query: 68 PATEHQGPIQDEGGLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQD-GLAVGRVHAT 126
++HQG I T VNI+V D+ND P F + PY +PE G + V+AT
Sbjct: 84 SVSDHQGVI--------TRKVNIQVGDVNDNAPTFHNQPYSVRIPENTPVGTPIFIVNAT 135
Query: 127 DADEGQNAVVYYSVPEDIP-FVVDANTGDIRTNKALDYEKQQLY 169
D D G V YS P F +D+ G + + LDYE Q Y
Sbjct: 136 DPDLGAGGSVLYSFQPPSPFFAIDSARGIVTVIQELDYEVTQAY 179
>pdb|3MVS|A Chain A, Structure Of The N-Terminus Of Cadherin 23
Length = 210
Score = 57.8 bits (138), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 52/164 (31%), Positives = 73/164 (44%), Gaps = 22/164 (13%)
Query: 9 ALEMTSDSLFYGAMARDKHELGVTLMQVKATDKDSGKFGLVEYRLLDNNTDAASYFNLD- 67
A +M +D L +G + A + D+G L + LD T S F ++
Sbjct: 34 ARDMDNDPLVFGVSGEEASRF-------FAVEPDTGVVWL--RQPLDRET--KSEFTVEF 82
Query: 68 PATEHQGPIQDEGGLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQD-GLAVGRVHAT 126
++HQG I T VNI+V D+ND P F + PY +PE G + V+AT
Sbjct: 83 SVSDHQGVI--------TRKVNIQVGDVNDNAPTFHNQPYSVRIPENTPVGTPIFIVNAT 134
Query: 127 DADEGQNAVVYYSVPEDIP-FVVDANTGDIRTNKALDYEKQQLY 169
D D G V YS P F +D+ G + + LDYE Q Y
Sbjct: 135 DPDLGAGGSVLYSFQPPSPFFAIDSARGIVTVIQELDYEVTQAY 178
>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 = 57.8 bits (138), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 52/164 (31%), Positives = 73/164 (44%), Gaps = 22/164 (13%)
Query: 9 ALEMTSDSLFYGAMARDKHELGVTLMQVKATDKDSGKFGLVEYRLLDNNTDAASYFNLD- 67
A +M +D L +G + A + D+G L + LD T S F ++
Sbjct: 35 ARDMDNDPLVFGVPGEEASRF-------FAVEPDTGVVWL--RQPLDRET--KSEFTVEF 83
Query: 68 PATEHQGPIQDEGGLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQD-GLAVGRVHAT 126
++HQG I T VNI+V D+ND P F + PY +PE G + V+AT
Sbjct: 84 SVSDHQGVI--------TRKVNIQVGDVNDNAPTFHNQPYSVRIPENTPVGTPIFIVNAT 135
Query: 127 DADEGQNAVVYYSVPEDIP-FVVDANTGDIRTNKALDYEKQQLY 169
D D G V YS P F +D+ G + + LDYE Q Y
Sbjct: 136 DPDLGAGGSVLYSFQPPSPFFAIDSARGIVTVIQELDYEVTQAY 179
>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 = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 51/164 (31%), Positives = 72/164 (43%), Gaps = 22/164 (13%)
Query: 9 ALEMTSDSLFYGAMARDKHELGVTLMQVKATDKDSGKFGLVEYRLLDNNTDAASYFNLD- 67
A +M +D L +G + A + D+G L + LD T S F ++
Sbjct: 35 ARDMDNDPLVFGVSGEEASRF-------FAVEPDTGVVWL--RQPLDRET--KSEFTVEF 83
Query: 68 PATEHQGPIQDEGGLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQD-GLAVGRVHAT 126
++HQG I T VNI+V +ND P F + PY +PE G + V+AT
Sbjct: 84 SVSDHQGVI--------TRKVNIQVGGVNDNAPTFHNQPYSVRIPENTPVGTPIFIVNAT 135
Query: 127 DADEGQNAVVYYSVPEDIP-FVVDANTGDIRTNKALDYEKQQLY 169
D D G V YS P F +D+ G + + LDYE Q Y
Sbjct: 136 DPDLGAGGSVLYSFQPPSPFFAIDSARGIVTVIQELDYEVTQAY 179
>pdb|3Q2V|A Chain A, Crystal Structure Of Mouse E-Cadherin Ectodomain
pdb|3Q2V|B Chain B, Crystal Structure Of Mouse E-Cadherin Ectodomain
Length = 550
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 36/102 (35%), Positives = 49/102 (48%), Gaps = 10/102 (9%)
Query: 81 GLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQDGLAVGRVHATDADEGQNAVVYYSV 140
GLS+TA I V DIND P F Y+ VPE + + + TD D+ N + +V
Sbjct: 200 GLSTTAKAVITVKDINDNAPVFNPSTYQGQVPENEVNARIATLKVTD-DDAPNTPAWKAV 258
Query: 141 -----PEDIPFVV----DANTGDIRTNKALDYEKQQLYLERV 173
D FVV N G ++T K LD+E +Q Y+ V
Sbjct: 259 YTVVNDPDQQFVVVTDPTTNDGILKTAKGLDFEAKQQYILHV 300
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 155
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 156 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 187
>pdb|2A4E|A Chain A, Crystal Structure Of Mouse Cadherin-11 Ec1-2
Length = 215
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 36/86 (41%), Positives = 51/86 (59%), Gaps = 6/86 (6%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQD-GLAVGRVHATDADE---GQNAVVYYSVPEDIP 145
++V DIND PEF Y +VPE + G +V +V A+DAD+ G +A + YS+ E P
Sbjct: 95 VKVQDINDNPPEFLHEIYHANVPERSNVGTSVIQVTASDADDPTYGNSAKLVYSILEGQP 154
Query: 146 -FVVDANTGDIRTN-KALDYEKQQLY 169
F V+A TG IRT +D E ++ Y
Sbjct: 155 YFSVEAQTGIIRTALPNMDREAKEEY 180
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 114 GQDGLAVGRVHATDADEGQNAVVYYSVPEDIP--FVVDANTGDIRTNKALDYEKQQLY 169
G D + VGR+H+ D D G + Y E FV+D +G+I K LD E++ Y
Sbjct: 16 GPDPVLVGRLHS-DIDSGDGNIKYILSGEGAGTIFVIDDKSGNIHATKTLDREERAQY 72
>pdb|3Q2W|A Chain A, Crystal Structure Of Mouse N-Cadherin Ectodomain
Length = 559
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 50/102 (49%), Gaps = 9/102 (8%)
Query: 81 GLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQDGLAVGRVHATDADEGQNAV--VYY 138
GLS+TAT I VTD+ND PEF ++ + VPE + + V + TD D+ Y
Sbjct: 202 GLSNTATAVITVTDVNDNPPEFTAMTFYGEVPENRVDVIVANLTVTDKDQPHTPAWNAAY 261
Query: 139 SVPEDIP-----FVVDANTGD--IRTNKALDYEKQQLYLERV 173
+ P + D N+ D + K +D+E ++++ V
Sbjct: 262 RISGGDPTGRFAILTDPNSNDGLVTVVKPIDFETNRMFVLTV 303
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 36/91 (39%), Positives = 45/91 (49%), Gaps = 11/91 (12%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEG-QDGLAVGRVHATDADEGQ--NAVVYYSVPEDIP- 145
I V D+ND PEF + SVPEG + G V V A DAD+ N ++ Y + P
Sbjct: 96 INVIDMNDNRPEFLHQVWNGSVPEGSKPGTYVMTVTAIDADDPNALNGMLRYRILSQAPS 155
Query: 146 ------FVVDANTGDIRTNKA-LDYEKQQLY 169
F ++ TGDI T A LD EK Q Y
Sbjct: 156 TPSPNMFTINNETGDIITVAAGLDREKVQQY 186
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 33/110 (30%), Positives = 46/110 (41%), Gaps = 6/110 (5%)
Query: 64 FNLDPATEHQGPIQD--EGGLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEG-QDGLAV 120
F L A E+Q P+ + STATV++ V D+N+ NP F P EG G +
Sbjct: 299 FVLTVAAENQVPLAKGIQHPPQSTATVSVTVIDVNE-NPYFAPNPKIIRQEEGLHAGTML 357
Query: 121 GRVHATDADEGQNAVVYYSVPEDIP--FVVDANTGDIRTNKALDYEKQQL 168
+ A D D + Y+ D +D G I T LD E +
Sbjct: 358 TTLTAQDPDRYMQQNIRYTKLSDPANWLKIDPVNGQITTIAVLDRESPNV 407
>pdb|3LND|A Chain A, Crystal Structure Of Cadherin-6 Ec12 W4a
pdb|3LND|B Chain B, Crystal Structure Of Cadherin-6 Ec12 W4a
pdb|3LND|C Chain C, Crystal Structure Of Cadherin-6 Ec12 W4a
pdb|3LND|D Chain D, Crystal Structure Of Cadherin-6 Ec12 W4a
Length = 207
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 49/86 (56%), Gaps = 6/86 (6%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQD-GLAVGRVHATDADE---GQNAVVYYSVPEDIP 145
I++ DIND P F Y +VPE D G V +V ATDAD+ G +A V YS+ + P
Sbjct: 94 IKIHDINDNEPIFTKDVYTATVPEMADVGTFVVQVTATDADDPTYGNSAKVVYSILQGQP 153
Query: 146 -FVVDANTGDIRTNKA-LDYEKQQLY 169
F V++ TG I+T +D E ++ Y
Sbjct: 154 YFSVESETGIIKTALLNMDRENREQY 179
Score = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 38/67 (56%), Gaps = 3/67 (4%)
Query: 114 GQDGLAVGRVHATDADEGQNAVVYYSVPEDIP--FVVDANTGDIRTNKALDYEKQQLYLE 171
G D VG++H+ D D G ++ Y + F+++ NTGDI+ K LD E++ +Y+
Sbjct: 15 GSDYQYVGKLHS-DQDRGDGSLKYILSGDGAGDLFIINENTGDIQATKRLDREEKPVYIL 73
Query: 172 RVFLISK 178
R +++
Sbjct: 74 RAQAVNR 80
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 30/101 (29%), Positives = 44/101 (43%), Gaps = 29/101 (28%)
Query: 19 YGAMARDKHELGVTLMQVKATDKDSGKFG---LVEYRLLDNNTDAASYFNLDPAT----- 70
Y A + ++G ++QV ATD D +G V Y +L YF+++ T
Sbjct: 111 YTATVPEMADVGTFVVQVTATDADDPTYGNSAKVVYSILQ----GQPYFSVESETGIIKT 166
Query: 71 -----------EHQGPIQDE------GGLSSTATVNIRVTD 94
++Q IQ + GGLS T TVNI +TD
Sbjct: 167 ALLNMDRENREQYQVVIQAKDMGGQMGGLSGTTTVNITLTD 207
>pdb|1NCJ|A Chain A, N-Cadherin, Two-Domain Fragment
Length = 215
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 36/91 (39%), Positives = 45/91 (49%), Gaps = 11/91 (12%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEG-QDGLAVGRVHATDADE--GQNAVVYYSVPEDIP- 145
I V D+ND PEF + SVPEG + G V V A DAD+ N ++ Y + P
Sbjct: 96 INVIDMNDNRPEFLHQVWNGSVPEGSKPGTYVMTVTAIDADDPNALNGMLRYRIVSQAPS 155
Query: 146 ------FVVDANTGDIRTNKA-LDYEKQQLY 169
F ++ TGDI T A LD EK Q Y
Sbjct: 156 TPSPNMFTINNETGDIITVAAGLDREKVQQY 186
>pdb|2QVI|A Chain A, Crystal Structure Of N-Cadherin Domains Ec12
Length = 215
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 36/91 (39%), Positives = 45/91 (49%), Gaps = 11/91 (12%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEG-QDGLAVGRVHATDADE--GQNAVVYYSVPEDIP- 145
I V D+ND PEF + SVPEG + G V V A DAD+ N ++ Y + P
Sbjct: 96 INVIDMNDNRPEFLHQVWNGSVPEGSKPGTYVMTVTAIDADDPNALNGMLRYRILSQAPS 155
Query: 146 ------FVVDANTGDIRTNKA-LDYEKQQLY 169
F ++ TGDI T A LD EK Q Y
Sbjct: 156 TPSPNMFTINNETGDIITVAAGLDREKVQQY 186
>pdb|1L3W|A Chain A, C-Cadherin Ectodomain
Length = 546
Score = 43.1 bits (100), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 50/190 (26%), Positives = 82/190 (43%), Gaps = 34/190 (17%)
Query: 17 LFYGAMARDKHELGVTLMQVKATDKDS---GKFGLVEYRLLDNNTDAA--SYFNLDPAT- 70
+F G++ R+ + G +M V ATD+D G++ Y +L + + + F ++ T
Sbjct: 118 VFRGSV-REGVQPGTQVMAVSATDEDDNIDSLNGVLSYSILKQDPEEPIPNLFTINRETG 176
Query: 71 ---------------EHQGPIQ----DEGGLSSTATVNIRVTDINDKNPEFQSLPYEFSV 111
E+ +Q + GLS I++TD ND P F Y V
Sbjct: 177 VISLIGTGLDREKFPEYTLTVQATDLEGAGLSVEGKAIIQITDANDNAPIFDPKTYTALV 236
Query: 112 PEGQDGLAVGRVHATDAD----EGQNAVVYYSVPEDIPFVV----DANTGDIRTNKALDY 163
PE + G V R+ TD D AV V E F + ++N G + T K LD+
Sbjct: 237 PENEIGFEVQRLSVTDLDMPGTPAWQAVYKIRVNEGGFFNITTDPESNQGILTTAKGLDF 296
Query: 164 EKQQLYLERV 173
E ++ Y+ ++
Sbjct: 297 ELRKQYVLQI 306
Score = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 35/90 (38%), Positives = 44/90 (48%), Gaps = 12/90 (13%)
Query: 88 VNIRVTDINDKNPEFQSLPYEFSVPEG-QDGLAVGRVHATDAD---EGQNAVVYYSV--- 140
+ I V D ND P+F + SV EG Q G V V ATD D + N V+ YS+
Sbjct: 100 ITINVIDQNDNRPKFTQDVFRGSVREGVQPGTQVMAVSATDEDDNIDSLNGVLSYSILKQ 159
Query: 141 -PED-IP--FVVDANTGDIR-TNKALDYEK 165
PE+ IP F ++ TG I LD EK
Sbjct: 160 DPEEPIPNLFTINRETGVISLIGTGLDREK 189
>pdb|1Q55|A Chain A, W-Shaped Trans Interactions Of Cadherins Model Based On
Fitting C- Cadherin (1l3w) To 3d Map Of Desmosomes
Obtained By Electron Tomography
pdb|1Q55|B Chain B, W-Shaped Trans Interactions Of Cadherins Model Based On
Fitting C- Cadherin (1l3w) To 3d Map Of Desmosomes
Obtained By Electron Tomography
pdb|1Q55|C Chain C, W-Shaped Trans Interactions Of Cadherins Model Based On
Fitting C- Cadherin (1l3w) To 3d Map Of Desmosomes
Obtained By Electron Tomography
pdb|1Q55|D Chain D, W-Shaped Trans Interactions Of Cadherins Model Based On
Fitting C- Cadherin (1l3w) To 3d Map Of Desmosomes
Obtained By Electron Tomography
pdb|1Q5A|A Chain A, S-Shaped Trans Interactions Of Cadherins Model Based On
Fitting C- Cadherin (1l3w) To 3d Map Of Desmosomes
Obtained By Electron Tomography
pdb|1Q5A|B Chain B, S-Shaped Trans Interactions Of Cadherins Model Based On
Fitting C- Cadherin (1l3w) To 3d Map Of Desmosomes
Obtained By Electron Tomography
pdb|1Q5B|A Chain A, Lambda-Shaped Trans And Cis Interactions Of Cadherins
Model Based On Fitting C-Cadherin (1l3w) To 3d Map Of
Desmosomes Obtained By Electron Tomography
pdb|1Q5B|B Chain B, Lambda-Shaped Trans And Cis Interactions Of Cadherins
Model Based On Fitting C-Cadherin (1l3w) To 3d Map Of
Desmosomes Obtained By Electron Tomography
pdb|1Q5B|C Chain C, Lambda-Shaped Trans And Cis Interactions Of Cadherins
Model Based On Fitting C-Cadherin (1l3w) To 3d Map Of
Desmosomes Obtained By Electron Tomography
pdb|1Q5C|A Chain A, S-S-Lambda-Shaped Trans And Cis Interactions Of Cadherins
Model Based On Fitting C-Cadherin (1l3w) To 3d Map Of
Desmosomes Obtained By Electron Tomography
pdb|1Q5C|B Chain B, S-S-Lambda-Shaped Trans And Cis Interactions Of Cadherins
Model Based On Fitting C-Cadherin (1l3w) To 3d Map Of
Desmosomes Obtained By Electron Tomography
pdb|1Q5C|C Chain C, S-S-Lambda-Shaped Trans And Cis Interactions Of Cadherins
Model Based On Fitting C-Cadherin (1l3w) To 3d Map Of
Desmosomes Obtained By Electron Tomography
pdb|1Q5C|D Chain D, S-S-Lambda-Shaped Trans And Cis Interactions Of Cadherins
Model Based On Fitting C-Cadherin (1l3w) To 3d Map Of
Desmosomes Obtained By Electron Tomography
Length = 880
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 47/102 (46%), Gaps = 8/102 (7%)
Query: 80 GGLSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQDGLAVGRVHATDAD----EGQNAV 135
GLS I++TD ND P F Y VPE + G V R+ TD D AV
Sbjct: 354 AGLSVEGKAIIQITDANDNAPIFDPKTYTALVPENEIGFEVQRLSVTDLDMPGTPAWQAV 413
Query: 136 VYYSVPEDIPFVV----DANTGDIRTNKALDYEKQQLYLERV 173
V E F + ++N G + T K LD+E ++ Y+ ++
Sbjct: 414 YKIRVNEGGFFNITTDPESNQGILTTAKGLDFELRKQYVLQI 455
Score = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 35/90 (38%), Positives = 44/90 (48%), Gaps = 12/90 (13%)
Query: 88 VNIRVTDINDKNPEFQSLPYEFSVPEG-QDGLAVGRVHATDAD---EGQNAVVYYSV--- 140
+ I V D ND P+F + SV EG Q G V V ATD D + N V+ YS+
Sbjct: 249 ITINVIDQNDNRPKFTQDVFRGSVREGVQPGTQVMAVSATDEDDNIDSLNGVLSYSILKQ 308
Query: 141 -PED-IP--FVVDANTGDIR-TNKALDYEK 165
PE+ IP F ++ TG I LD EK
Sbjct: 309 DPEEPIPNLFTINRETGVISLIGTGLDREK 338
>pdb|3Q2N|A Chain A, Mouse E-Cadherin Ec1-2 L175d Mutant
pdb|3Q2N|B Chain B, Mouse E-Cadherin Ec1-2 L175d Mutant
Length = 213
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 48/92 (52%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 155
Query: 144 -IP----FVVDANTGDIRTNKA-LDYEKQQLY 169
+P F V+ +TG I + + LD E Y
Sbjct: 156 ELPHKNMFTVNRDTGVISVDTSGLDRESYPTY 187
>pdb|3QRB|A Chain A, Crystal Structure Of E-Cadherin Ec1-2 P5a P6a
pdb|3QRB|B Chain B, Crystal Structure Of E-Cadherin Ec1-2 P5a P6a
Length = 213
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 155
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 156 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 187
>pdb|2EE0|A Chain A, Solution Structures Of The Ca Domain Of Human
Protocadherin 9
Length = 114
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 40/81 (49%), Gaps = 7/81 (8%)
Query: 96 NDKNPEFQSLPYEFSVPEGQD-GLAVGRVHATDADEGQNAVVYYSVPEDIP------FVV 148
ND P F+ E +PE G +V ++HATDAD G NA + Y + F +
Sbjct: 8 NDNRPVFKEGQVEVHIPENAPVGTSVIQLHATDADIGSNAEIRYIFGAQVAPATKRLFAL 67
Query: 149 DANTGDIRTNKALDYEKQQLY 169
+ TG I ++LD E+ ++
Sbjct: 68 NNTTGLITVQRSLDREETAIH 88
>pdb|3LNG|A Chain A, Crystal Structure Of E-Cadherin Ec12 Aa Extension
pdb|3LNG|B Chain B, Crystal Structure Of E-Cadherin Ec12 Aa Extension
Length = 215
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 98 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 157
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 158 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 189
>pdb|1FF5|A Chain A, Structure Of E-Cadherin Double Domain
pdb|1FF5|B Chain B, Structure Of E-Cadherin Double Domain
Length = 219
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 97 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 156
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 157 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 188
>pdb|3LNI|A Chain A, Crystal Structure Of E-Cadherin Ec12 E89a
pdb|3LNI|B Chain B, Crystal Structure Of E-Cadherin Ec12 E89a
Length = 213
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 155
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 156 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 187
>pdb|1Q1P|A Chain A, E-Cadherin Activation
Length = 212
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 95 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 154
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 155 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 186
>pdb|3LNE|A Chain A, Crystal Structure Of E-Cadherin Ec12 K14e
Length = 213
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 155
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 156 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 187
>pdb|2QVF|B Chain B, Mouse E-cadherin Domains 1,2
Length = 213
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 155
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 156 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 187
>pdb|3Q2L|A Chain A, Mouse E-Cadherin Ec1-2 V81d Mutant
pdb|3Q2L|B Chain B, Mouse E-Cadherin Ec1-2 V81d Mutant
Length = 213
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 155
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 156 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 187
>pdb|3LNH|A Chain A, Crystal Structure Of E-Cadherin Ec12 W2a
pdb|3LNH|B Chain B, Crystal Structure Of E-Cadherin Ec12 W2a
Length = 213
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 155
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 156 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 187
>pdb|3LNF|A Chain A, Crystal Structure Of E-Cadherin Ec12 K14ew2a
pdb|3LNF|B Chain B, Crystal Structure Of E-Cadherin Ec12 K14ew2a
Length = 213
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 155
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 156 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 187
>pdb|1EDH|A Chain A, E-Cadherin Domains 1 And 2 In Complex With Calcium
pdb|1EDH|B Chain B, E-Cadherin Domains 1 And 2 In Complex With Calcium
Length = 226
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN----AVVYYSVPED- 143
I VTD ND PEF +E SV EG G +V +V ATDAD+ N A+ Y V +D
Sbjct: 98 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNTYNAAIAYTIVSQDP 157
Query: 144 -IP----FVVDANTGDIRT-NKALDYEKQQLY 169
+P F V+ +TG I LD E Y
Sbjct: 158 ELPHKNMFTVNRDTGVISVLTSGLDRESYPTY 189
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 81 GLSSTATVNIRVTDINDKNPEF 102
GLS+TA I V DIND P F
Sbjct: 202 GLSTTAKAVITVKDINDNAPVF 223
>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 = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 46/86 (53%), Gaps = 7/86 (8%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPE-GQDGLAVGRVHATDADE----GQNAVVYYSVPEDI 144
I+V+DIND P F + SVPE + G +V +V A DAD+ G V Y + +
Sbjct: 92 IKVSDINDNAPIFVQKIFNGSVPEMSRLGTSVTKVTAEDADDPTVAGHATVTYQIIKGNE 151
Query: 145 PFVVDANTGDIRTNKA-LDYEKQQLY 169
F VD ++G I T +A LD E Q Y
Sbjct: 152 YFTVD-DSGVIFTARADLDRESQSAY 176
>pdb|2O72|A Chain A, Crystal Structure Analysis Of Human E-Cadherin (1-213)
Length = 213
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/92 (36%), Positives = 44/92 (47%), Gaps = 12/92 (13%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADE---GQNAVVYYSV----- 140
I VTD ND PEF ++ SV EG G +V V ATDAD+ NA + Y++
Sbjct: 96 ITVTDQNDNKPEFTQEVFKGSVMEGALPGTSVMEVTATDADDDVNTYNAAIAYTILSQDP 155
Query: 141 --PEDIPFVVDANTGDIR-TNKALDYEKQQLY 169
P+ F ++ NTG I LD E Y
Sbjct: 156 ELPDKNMFTINRNTGVISVVTTGLDRESFPTY 187
>pdb|1SUH|A Chain A, Amino-Terminal Domain Of Epithelial Cadherin In The
Calcium Bound State, Nmr, 20 Structures
Length = 146
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/45 (51%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 90 IRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQN 133
I VTD ND PEF +E SV EG G +V +V ATDAD+ N
Sbjct: 98 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVN 142
>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 = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 40/80 (50%), Gaps = 10/80 (12%)
Query: 88 VNIRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADEGQ--NAVVYYSVPEDI 144
++I V D ND P F+ PY V EG G V R+ A DAD+ NA++ Y++ +
Sbjct: 93 LDISVIDQNDNRPMFKEGPYVGHVMEGSPTGTTVMRMTAFDADDPSTDNALLRYNILKQT 152
Query: 145 P-------FVVDANTGDIRT 157
P F +D GDI T
Sbjct: 153 PTKPSPNMFYIDPEKGDIVT 172
>pdb|3K5R|A Chain A, Crystal Structure Of Mouse T-Cadherin Ec1 Ec2
pdb|3K5R|B Chain B, Crystal Structure Of Mouse T-Cadherin Ec1 Ec2
Length = 218
Score = 35.0 bits (79), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 48/108 (44%), Gaps = 18/108 (16%)
Query: 82 LSSTATVNIRVTDINDKNPEFQSLPYEFSVPEGQ-DGLAVGRVHATDADE--GQNAVVYY 138
L + + V D ND P F+ PY V EG G V R+ A DAD+ NA++ Y
Sbjct: 88 LEGPVPLEVIVIDQNDNRPIFREGPYIGHVMEGSPTGTTVMRMTAFDADDPATDNALLRY 147
Query: 139 SVPEDIP-------FVVDANTGDIRT--------NKALDYEKQQLYLE 171
++ + P F +D GDI T + L+ K +L +E
Sbjct: 148 NIRQQTPDKPSPNMFYIDPEKGDIVTVVSPALLDRETLENPKYELIIE 195
>pdb|2A4C|A Chain A, Crystal Structure Of Mouse Cadherin-11 Ec1
pdb|2A4C|B Chain B, Crystal Structure Of Mouse Cadherin-11 Ec1
Length = 99
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 114 GQDGLAVGRVHATDADEGQNAVVYYSVPEDIP--FVVDANTGDIRTNKALDYEKQQLY 169
G D + VGR+H +D D G + Y E FV+D +G+I K LD E++ Y
Sbjct: 16 GPDPVLVGRLH-SDIDSGDGNIKYILSGEGAGTIFVIDDKSGNIHATKTLDREERAQY 72
>pdb|4APX|B Chain B, Crystal Structure Of Mouse Cadherin-23 Ec1-2 And
Protocadherin-15 Ec1-2 Form I
pdb|4AQ8|C Chain C, Crystal Structure Of Mouse Cadherin-23 Ec1-2 And
Protocadherin-15 Ec1-2 Form Ii
pdb|4AQ8|D Chain D, Crystal Structure Of Mouse Cadherin-23 Ec1-2 And
Protocadherin-15 Ec1-2 Form Ii
pdb|4AQA|B Chain B, Crystal Structure Of Deafness Associated Mutant Mouse
Cadherin-23 Ec1-2d124g And Protocadherin-15 Ec1-2 Form I
pdb|4AQE|B Chain B, Crystal Structure Of Deafness Associated Mutant Mouse
Cadherin-23 Ec1-2s70p And Protocadherin-15 Ec1-2 Form I
pdb|4AXW|B Chain B, Crystal Structure Of Mouse Cadherin-23 Ec1-2 And
Protocadherin-15 Ec1-2, Form I 2.2a
Length = 242
Score = 31.2 bits (69), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 32/99 (32%), Positives = 45/99 (45%), Gaps = 20/99 (20%)
Query: 88 VNIRVTDINDKNPEFQSLPYEFSVPEGQD-GLAV-----GRVHATDADEGQNAVVYYSV- 140
V I V D ND +P F+ Y +V E G + G ATD D+G N + Y +
Sbjct: 113 VRIVVRDRNDNSPTFKHESYYATVNELTPVGTTIFTGFSGDNGATDIDDGPNGQIEYVIQ 172
Query: 141 --PED--------IPFVVDANTGDIRTNKALDYEKQQLY 169
PED IP ++ TG++ K L+YE + Y
Sbjct: 173 YNPEDPTSNDTFEIPLML---TGNVVLRKRLNYEDKTRY 208
>pdb|3UBF|A Chain A, Crystal Structure Of Drosophila N-Cadherin Ec1-3, I
pdb|3UBG|A Chain A, Crystal Structure Of Drosophila N-Cadherin Ec1-3, Ii
pdb|3UBG|B Chain B, Crystal Structure Of Drosophila N-Cadherin Ec1-3, Ii
Length = 316
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 77 QDEGGLSSTATVNIRVTDIND 97
+D GG S++ + IRVTD+ND
Sbjct: 294 EDSGGFSTSVDLTIRVTDVND 314
>pdb|2IDX|A Chain A, Structure Of Human Atp:cobalamin Adenosyltransferase Bound
To Atp.
pdb|2IDX|B Chain B, Structure Of Human Atp:cobalamin Adenosyltransferase Bound
To Atp.
pdb|2IDX|C Chain C, Structure Of Human Atp:cobalamin Adenosyltransferase Bound
To Atp
Length = 196
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 33/83 (39%), Gaps = 9/83 (10%)
Query: 1 MTPCPIPSALEMTSDSLFYGAMARDKHELGVTLMQVKATDKDSGK---------FGLVEY 51
+T +PS +++S F A+ R V L+Q+ TD + K F L Y
Sbjct: 113 LTAFILPSGGKISSALHFCRAVCRRAERRVVPLVQMGETDANVAKFLNRLSDYLFTLARY 172
Query: 52 RLLDNNTDAASYFNLDPATEHQG 74
+ Y DP+ E +G
Sbjct: 173 AAMKEGNQEKIYMKNDPSAESEG 195
>pdb|3K6D|A Chain A, Crystal Structure Of Xenopus Laevis T-Cadherin Ec1
Length = 99
Score = 27.3 bits (59), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 6/62 (9%)
Query: 109 FSVPEGQD---GLAVGRVHATDADEGQNAVVYYSVPEDIP---FVVDANTGDIRTNKALD 162
S+PE Q VGRV +D G +Y + P F ++ N+G++ KALD
Sbjct: 7 ISIPENQRIPFPKIVGRVVVSDRIPGSKIKLYGKGVDQEPKGIFKINENSGEVSVTKALD 66
Query: 163 YE 164
E
Sbjct: 67 RE 68
>pdb|1EPW|A Chain A, Crystal Structure Of Clostridium Neurotoxin Type B
pdb|1F31|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With A Trisaccharide
pdb|1I1E|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With Doxorubicin
pdb|1G9A|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With An Inhibitor (Experiment 3)
pdb|1G9B|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With An Inhibitor (Experiment 1)
pdb|1G9C|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With An Inhibitor (Experiment 4)
pdb|1G9D|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With An Inhibitor (Experiment 2)
pdb|1S0B|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 4.0
pdb|1S0C|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 5.0
pdb|1S0D|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 5.5
pdb|1S0E|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 6.0
pdb|1S0F|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 7.0
pdb|1S0G|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B Apo Form
pdb|2NP0|A Chain A, Crystal Structure Of The Botulinum Neurotoxin Type B
Complexed With Synaptotagamin-Ii Ectodomain
Length = 1290
Score = 26.9 bits (58), Expect = 7.0, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 142 EDIPFVVDANT--GDIRTNKALDYEKQQLYLERVFLISKF 179
ED+ F+ D N+ D+ N+ ++Y Q Y+E F I++
Sbjct: 451 EDLFFIADKNSFSDDLSKNERIEYNTQSNYIENDFPINEL 490
>pdb|3ZUQ|A Chain A, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type B-Derivative, Lc-B-Gs-Hn-B
Length = 906
Score = 26.6 bits (57), Expect = 7.7, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 142 EDIPFVVDANT--GDIRTNKALDYEKQQLYLERVFLISKF 179
ED+ F+ D N+ D+ N+ ++Y Q Y+E F I++
Sbjct: 487 EDLFFIADKNSFSDDLSKNERIEYNTQSNYIENDFPINEL 526
>pdb|2YJ3|A Chain A, Conformational Changes In The Catalytic Domain Of The Cpx-
Atpase Copb-B Upon Nucleotide Binding
Length = 263
Score = 26.2 bits (56), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 9/69 (13%)
Query: 8 SALEMTSDSLFYGAMARDKHELGVTLMQVKATDKDSGKFG--------LVEYRLLDNNTD 59
+++E S A+ + E GV +++VK + SG G ++E + +NN D
Sbjct: 60 ASVEALSSHPIAKAIVKYAKEQGVKILEVKDFKEISG-IGVRGKISDKIIEVKKAENNND 118
Query: 60 AASYFNLDP 68
A Y N +P
Sbjct: 119 IAVYINGEP 127
>pdb|2YJ4|A Chain A, Conformational Changes In The Catalytic Domain Of The Cpx-
Atpase Copb-B Upon Nucleotide Binding
pdb|2YJ4|B Chain B, Conformational Changes In The Catalytic Domain Of The Cpx-
Atpase Copb-B Upon Nucleotide Binding
pdb|2YJ5|A Chain A, Conformational Changes In The Catalytic Domain Of The Cpx-
Atpase Copb-B Upon Nucleotide Binding
pdb|2YJ5|B Chain B, Conformational Changes In The Catalytic Domain Of The Cpx-
Atpase Copb-B Upon Nucleotide Binding
pdb|2YJ6|A Chain A, Conformational Changes In The Catalytic Domain Of The
Cpx-Atpase Copb-B Upon Nucleotide Binding
pdb|2YJ6|B Chain B, Conformational Changes In The Catalytic Domain Of The
Cpx-Atpase Copb-B Upon Nucleotide Binding
Length = 263
Score = 26.2 bits (56), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 9/69 (13%)
Query: 8 SALEMTSDSLFYGAMARDKHELGVTLMQVKATDKDSGKFG--------LVEYRLLDNNTD 59
+++E S A+ + E GV +++VK + SG G ++E + +NN D
Sbjct: 60 ASVEALSSHPIAKAIVKYAKEQGVKILEVKDFKEISG-IGVRGKISDKIIEVKKAENNND 118
Query: 60 AASYFNLDP 68
A Y N +P
Sbjct: 119 IAVYINGEP 127
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
0.314 0.133 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,658,762
Number of Sequences: 62578
Number of extensions: 243364
Number of successful extensions: 433
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 343
Number of HSP's gapped (non-prelim): 78
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)