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= psy8644
(173 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 = 57.8 bits (138), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 33/86 (38%), Positives = 50/86 (58%)
Query: 66 RTEEHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIPEDVPVGTV 125
+E +L V K G + G L GT T+ + D NDN P F S Y S+PEDV +GT
Sbjct: 174 EAKEEYLVVIQAKDMGGHSGGLSGTTTLTVTLTDVNDNPPKFAQSLYHFSVPEDVVLGTA 233
Query: 126 VQVVSASDADLGVNSKLSWNELEPNG 151
+ V A+D D+G N++ S++ ++ +G
Sbjct: 234 IGRVKANDQDIGENAQSSYDIIDGDG 259
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/103 (33%), Positives = 51/103 (49%), Gaps = 7/103 (6%)
Query: 57 NVGTLKRALRTE--EHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSL 114
++ +KR R E E+ L + + + P L I V+D NDN P F Y
Sbjct: 56 DIHAIKRLDREEKAEYTLTAQAVDFETNKP--LEPPSEFIIKVQDINDNAPEFLNGPYHA 113
Query: 115 SIPEDVPVGTVVQVVSASDAD---LGVNSKLSWNELEPNGLFS 154
++PE +GT V V+A+DAD G ++KL ++ LE FS
Sbjct: 114 TVPEMSILGTSVTNVTATDADDPVYGNSAKLVYSILEGQPYFS 156
>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 = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 34/99 (34%), Positives = 51/99 (51%), Gaps = 9/99 (9%)
Query: 61 LKRALRTE---EHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIP 117
L++ L E E ++ + H+G V T I V D NDN P F YS+ IP
Sbjct: 67 LRQPLDRETKSEFTVEFSVSDHQG------VITRKVNIQVGDVNDNAPTFHNQPYSVRIP 120
Query: 118 EDVPVGTVVQVVSASDADLGVNSKLSWNELEPNGLFSSD 156
E+ PVGT + +V+A+D DLG + ++ P+ F+ D
Sbjct: 121 ENTPVGTPIFIVNATDPDLGAGGSVLYSFQPPSPFFAID 159
>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 = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 34/99 (34%), Positives = 51/99 (51%), Gaps = 9/99 (9%)
Query: 61 LKRALRTE---EHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIP 117
L++ L E E ++ + H+G V T I V D NDN P F YS+ IP
Sbjct: 67 LRQPLDRETKSEFTVEFSVSDHQG------VITRKVNIQVGDVNDNAPTFHNQPYSVRIP 120
Query: 118 EDVPVGTVVQVVSASDADLGVNSKLSWNELEPNGLFSSD 156
E+ PVGT + +V+A+D DLG + ++ P+ F+ D
Sbjct: 121 ENTPVGTPIFIVNATDPDLGAGGSVLYSFQPPSPFFAID 159
>pdb|3MVS|A Chain A, Structure Of The N-Terminus Of Cadherin 23
Length = 210
Score = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 34/99 (34%), Positives = 51/99 (51%), Gaps = 9/99 (9%)
Query: 61 LKRALRTE---EHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIP 117
L++ L E E ++ + H+G V T I V D NDN P F YS+ IP
Sbjct: 66 LRQPLDRETKSEFTVEFSVSDHQG------VITRKVNIQVGDVNDNAPTFHNQPYSVRIP 119
Query: 118 EDVPVGTVVQVVSASDADLGVNSKLSWNELEPNGLFSSD 156
E+ PVGT + +V+A+D DLG + ++ P+ F+ D
Sbjct: 120 ENTPVGTPIFIVNATDPDLGAGGSVLYSFQPPSPFFAID 158
>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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 50/99 (50%), Gaps = 9/99 (9%)
Query: 61 LKRALRTE---EHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIP 117
L++ L E E ++ + H+G V T I V NDN P F YS+ IP
Sbjct: 67 LRQPLDRETKSEFTVEFSVSDHQG------VITRKVNIQVGGVNDNAPTFHNQPYSVRIP 120
Query: 118 EDVPVGTVVQVVSASDADLGVNSKLSWNELEPNGLFSSD 156
E+ PVGT + +V+A+D DLG + ++ P+ F+ D
Sbjct: 121 ENTPVGTPIFIVNATDPDLGAGGSVLYSFQPPSPFFAID 159
>pdb|2EE0|A Chain A, Solution Structures Of The Ca Domain Of Human
Protocadherin 9
Length = 114
Score = 47.0 bits (110), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 30/44 (68%)
Query: 101 NDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNSKLSW 144
NDN P+F Q + IPE+ PVGT V + A+DAD+G N+++ +
Sbjct: 8 NDNRPVFKEGQVEVHIPENAPVGTSVIQLHATDADIGSNAEIRY 51
>pdb|3UBH|A Chain A, Crystal Structure Of Drosophila N-Cadherin Ec1-4
Length = 419
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 3/91 (3%)
Query: 83 NPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSL-SIPEDVPVGTVVQVVSASDADLGVNSK 141
+ G + + TI V D NDN P F + Y ++ ED+P+GT + V A D+D G N++
Sbjct: 300 DSGGFSTSVDLTIRVTDVNDNAPKFELPDYQAHNVDEDIPLGTSILRVKAMDSDSGSNAE 359
Query: 142 LSWNELEPNGLFSSDLRVEWVINRSVDQHTN 172
+ + L + F+ D V N+ +D N
Sbjct: 360 IEY--LVSDDHFAVDSNGIIVNNKQLDADNN 388
>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 = 42.7 bits (99), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 37/63 (58%), Gaps = 3/63 (4%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDAD---LGVNSKLSWNELEPNG 151
I + D NDN PIF Y+ ++PE VGT V V+A+DAD G ++K+ ++ L+
Sbjct: 94 IKIHDINDNEPIFTKDVYTATVPEMADVGTFVVQVTATDADDPTYGNSAKVVYSILQGQP 153
Query: 152 LFS 154
FS
Sbjct: 154 YFS 156
>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 = 42.7 bits (99), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 34/90 (37%), Positives = 43/90 (47%), Gaps = 8/90 (8%)
Query: 51 TTRLYKNVGTLK--RALRTEE---HWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNP 105
T R+ +N G++ R L E + L VE T G L G +IV DQNDN P
Sbjct: 50 TFRINENTGSVSVTRTLDRETIATYQLYVETTDASGKT---LEGPVPLEVIVIDQNDNRP 106
Query: 106 IFPVSQYSLSIPEDVPVGTVVQVVSASDAD 135
IF Y + E P GT V ++A DAD
Sbjct: 107 IFREGPYIGHVMEGSPTGTTVMRMTAFDAD 136
>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 = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 39/80 (48%)
Query: 61 LKRALRTEEHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIPEDV 120
+ R L EE+ V ++ N P+ TI V DQNDN P F + S+ E V
Sbjct: 217 VTRPLDREEYDKYVLSSHAVSENGSPVEEPMEITINVIDQNDNRPKFTQDVFRGSVREGV 276
Query: 121 PVGTVVQVVSASDADLGVNS 140
GT V VSA+D D ++S
Sbjct: 277 QPGTQVMAVSATDEDDNIDS 296
Score = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 4/91 (4%)
Query: 46 FIANPTTRLYKNVGTLKRALRTEEHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNP 105
F N T + +GT + E+ L V+ T +G+ L I + D NDN P
Sbjct: 318 FTINRETGVISLIGTGLDREKFPEYTLTVQATDLEGAG---LSVEGKAIIQITDANDNAP 374
Query: 106 IFPVSQYSLSIPEDVPVGTVVQVVSASDADL 136
IF Y+ +PE+ +G VQ +S +D D+
Sbjct: 375 IFDPKTYTALVPEN-EIGFEVQRLSVTDLDM 404
>pdb|1L3W|A Chain A, C-Cadherin Ectodomain
Length = 546
Score = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 39/80 (48%)
Query: 61 LKRALRTEEHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIPEDV 120
+ R L EE+ V ++ N P+ TI V DQNDN P F + S+ E V
Sbjct: 68 VTRPLDREEYDKYVLSSHAVSENGSPVEEPMEITINVIDQNDNRPKFTQDVFRGSVREGV 127
Query: 121 PVGTVVQVVSASDADLGVNS 140
GT V VSA+D D ++S
Sbjct: 128 QPGTQVMAVSATDEDDNIDS 147
Score = 35.8 bits (81), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 43/91 (47%), Gaps = 4/91 (4%)
Query: 46 FIANPTTRLYKNVGTLKRALRTEEHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNP 105
F N T + +GT + E+ L V+ T +G+ L I + D NDN P
Sbjct: 169 FTINRETGVISLIGTGLDREKFPEYTLTVQATDLEGAG---LSVEGKAIIQITDANDNAP 225
Query: 106 IFPVSQYSLSIPEDVPVGTVVQVVSASDADL 136
IF Y+ +PE+ +G VQ +S +D D+
Sbjct: 226 IFDPKTYTALVPEN-EIGFEVQRLSVTDLDM 255
>pdb|2A4E|A Chain A, Crystal Structure Of Mouse Cadherin-11 Ec1-2
Length = 215
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 38/72 (52%), Gaps = 3/72 (4%)
Query: 86 PLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDAD---LGVNSKL 142
PL + V+D NDN P F Y ++PE VGT V V+ASDAD G ++KL
Sbjct: 86 PLEPPSEFIVKVQDINDNPPEFLHEIYHANVPERSNVGTSVIQVTASDADDPTYGNSAKL 145
Query: 143 SWNELEPNGLFS 154
++ LE FS
Sbjct: 146 VYSILEGQPYFS 157
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 141
>pdb|1SUH|A Chain A, Amino-Terminal Domain Of Epithelial Cadherin In The
Calcium Bound State, Nmr, 20 Structures
Length = 146
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 98 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 143
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 141
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 141
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 98 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 143
>pdb|1Q1P|A Chain A, E-Cadherin Activation
Length = 212
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 95 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 140
>pdb|2QVF|B Chain B, Mouse E-cadherin Domains 1,2
Length = 213
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 141
>pdb|3LNE|A Chain A, Crystal Structure Of E-Cadherin Ec12 K14e
Length = 213
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 141
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 97 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 142
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 141
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 141
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 87 LVGTCNTTIIVEDQNDNNPIFPVSQYSLSIPED 119
L T I V+D NDN P+F S Y +PE+
Sbjct: 201 LSTTAKAVITVKDINDNAPVFNPSTYQGQVPEN 233
Score = 26.9 bits (58), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 47/102 (46%), Gaps = 8/102 (7%)
Query: 47 IANPTTRLYKNVGTLKRA--LRTEEHWLKVENTKHKGSNP--GPLVGTCNTTIIVEDQND 102
+ +PTT N G LK A L E + + + + P G LV + T + +
Sbjct: 272 VTDPTT----NDGILKTAKGLDFEAKQQYILHVRVENEEPFEGSLVPSTATVTVDVVDVN 327
Query: 103 NNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNSKLSW 144
PIF ++ + +PED VG + +A + D ++ K+++
Sbjct: 328 EAPIFMPAERRVEVPEDFGVGQEITSYTAREPDTFMDQKITY 369
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 141
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 98 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 143
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V VSA+DAD VN+
Sbjct: 96 ITVTDQNDNRPEFTQEVFEGSVAEGAVPGTSVMKVSATDADDDVNT 141
>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 = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 37/65 (56%), Gaps = 3/65 (4%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDAD---LGVNSKLSWNELEPNG 151
I V D NDN PIF ++ S+PE +GT V V+A DAD + ++ +++ ++ N
Sbjct: 92 IKVSDINDNAPIFVQKIFNGSVPEMSRLGTSVTKVTAEDADDPTVAGHATVTYQIIKGNE 151
Query: 152 LFSSD 156
F+ D
Sbjct: 152 YFTVD 156
>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 = 36.2 bits (82), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 70 HWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVV 129
+ L+VE T G + G I V DQNDN P+F Y + E P GT V +
Sbjct: 73 YQLEVEVTDLSGKI---IDGPVRLDISVIDQNDNRPMFKEGPYVGHVMEGSPTGTTVMRM 129
Query: 130 SASDAD 135
+A DAD
Sbjct: 130 TAFDAD 135
>pdb|3HBA|A Chain A, Crystal Structure Of A Putative Phosphosugar Isomerase
(Sden_2705) From Shewanella Denitrificans Os217 At 2.00
A Resolution
pdb|3HBA|B Chain B, Crystal Structure Of A Putative Phosphosugar Isomerase
(Sden_2705) From Shewanella Denitrificans Os217 At 2.00
A Resolution
Length = 334
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 11/84 (13%)
Query: 3 LNLIGKGYEYNHWSISKLLESRYLHLRPKSGMYAPAFTFSIAKFIANPTTRLYKNVGTLK 62
L ++G+G+ Y ++SK + L L+ ++A AF S A+F+ P T + K + L
Sbjct: 207 LVVLGRGFGY---AVSKEIA---LKLKEVCAIHAEAF--SSAEFLHGPVTLVEKKLSILD 258
Query: 63 RALRTE---EHWLKVENTKHKGSN 83
+R E H ++ N K +G+N
Sbjct: 259 VCIRDESYGSHVEQIANVKQRGAN 282
>pdb|2O72|A Chain A, Crystal Structure Analysis Of Human E-Cadherin (1-213)
Length = 213
Score = 35.4 bits (80), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 26/46 (56%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNS 140
I V DQNDN P F + S+ E GT V V+A+DAD VN+
Sbjct: 96 ITVTDQNDNKPEFTQEVFKGSVMEGALPGTSVMEVTATDADDDVNT 141
>pdb|2YST|A Chain A, Solution Structure Of The Third Cadherin Domain From Human
Protocadherin 7
Length = 119
Score = 34.3 bits (77), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%)
Query: 101 NDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNSKLSW 144
NDN+P F S Y + E+ GT + + A+D D+GVN ++ +
Sbjct: 8 NDNSPRFEKSVYEADLAENSAPGTPILQLRAADLDVGVNGQIEY 51
>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 = 33.9 bits (76), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 95 IIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVV-----SASDADLGVNSKLSW 144
I+V D+NDN+P F Y ++ E PVGT + A+D D G N ++ +
Sbjct: 115 IVVRDRNDNSPTFKHESYYATVNELTPVGTTIFTGFSGDNGATDIDDGPNGQIEY 169
>pdb|2QVI|A Chain A, Crystal Structure Of N-Cadherin Domains Ec12
Length = 215
Score = 32.0 bits (71), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 39/92 (42%), Gaps = 8/92 (8%)
Query: 46 FIANPTTRLYKNVGTLKRALRTEEHWLK--VENTKHKGSNPGPLVGTCNTTIIVEDQNDN 103
FI NP + L R L H V+ ++ NP + I V D NDN
Sbjct: 51 FIINPISGQLSVTKPLDRELIARFHLRAHAVDINGNQVENP------IDIVINVIDMNDN 104
Query: 104 NPIFPVSQYSLSIPEDVPVGTVVQVVSASDAD 135
P F ++ S+PE GT V V+A DAD
Sbjct: 105 RPEFLHQVWNGSVPEGSKPGTYVMTVTAIDAD 136
>pdb|1NCJ|A Chain A, N-Cadherin, Two-Domain Fragment
Length = 215
Score = 31.6 bits (70), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 39/92 (42%), Gaps = 8/92 (8%)
Query: 46 FIANPTTRLYKNVGTLKRALRTEEHWLK--VENTKHKGSNPGPLVGTCNTTIIVEDQNDN 103
FI NP + L R L H V+ ++ NP + I V D NDN
Sbjct: 51 FIINPISGQLSVTKPLDRELIARFHLRAHAVDINGNQVENP------IDIVINVIDMNDN 104
Query: 104 NPIFPVSQYSLSIPEDVPVGTVVQVVSASDAD 135
P F ++ S+PE GT V V+A DAD
Sbjct: 105 RPEFLHQVWNGSVPEGSKPGTYVMTVTAIDAD 136
>pdb|3VML|A Chain A, Chimera 3-Isopropylmalate Dehydrogenase Between Shewanella
Oneidensis Mr-1 (O) And Shewanella Benthica Db21 Mt-2
(M) From N-Terminal: 20% O Middle 70% M Residual 10% O
Length = 375
Score = 31.2 bits (69), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 33 GMYAPAFTFS---IAKFIANPTTRLYKNVGTLKRALRTEEHWLKVENTKHKGSNPGPLVG 89
GMY PA + + IANP ++ L+ +L+ E+ L +E K N G L G
Sbjct: 287 GMYEPAGGSAPDIAGQGIANPVAQILSAALLLRHSLKLEDAALAIEAAVSKALNSGYLTG 346
>pdb|3Q2W|A Chain A, Crystal Structure Of Mouse N-Cadherin Ectodomain
Length = 559
Score = 31.2 bits (69), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 40/92 (43%), Gaps = 8/92 (8%)
Query: 46 FIANPTTRLYKNVGTLKRALRTEEHWLK--VENTKHKGSNPGPLVGTCNTTIIVEDQNDN 103
FI NP + L R L H V+ ++ NP +V I V D NDN
Sbjct: 51 FIINPISGQLSVTKPLDRELIARFHLRAHAVDINGNQVENPIDIV------INVIDMNDN 104
Query: 104 NPIFPVSQYSLSIPEDVPVGTVVQVVSASDAD 135
P F ++ S+PE GT V V+A DAD
Sbjct: 105 RPEFLHQVWNGSVPEGSKPGTYVMTVTAIDAD 136
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 1/70 (1%)
Query: 66 RTEEHWLKVENTKHKGSNPGPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIPEDVPVGTV 125
+ +++ L ++ T +G+ L T I V D NDN P F + +PE+ V +
Sbjct: 182 KVQQYTLIIQATDMEGNPTYGLSNTATAVITVTDVNDNPPEFTAMTFYGEVPENR-VDVI 240
Query: 126 VQVVSASDAD 135
V ++ +D D
Sbjct: 241 VANLTVTDKD 250
>pdb|2C6X|A Chain A, Structure Of Bacillus Subtilis Citrate Synthase
pdb|2C6X|B Chain B, Structure Of Bacillus Subtilis Citrate Synthase
pdb|2C6X|C Chain C, Structure Of Bacillus Subtilis Citrate Synthase
pdb|2C6X|D Chain D, Structure Of Bacillus Subtilis Citrate Synthase
Length = 363
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 4/35 (11%)
Query: 87 LVGTCNTTIIVEDQNDNNPIF-PVSQYSLSIPEDV 120
+VG C + +Q +NN IF P +QY+ +IPE+V
Sbjct: 332 MVGWCAHVL---EQAENNMIFRPSAQYTGAIPEEV 363
>pdb|3VKZ|A Chain A, 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis
Mr-1 At Atmospheric Pressure
pdb|3VL2|A Chain A, 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis
Mr-1 At 160 Mpa
pdb|3VL3|A Chain A, 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis
Mr-1 At 340 Mpa
pdb|3VL4|A Chain A, 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis
Mr-1 At 410 Mpa
pdb|3VL6|A Chain A, 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis
Mr-1 At 580 Mpa
pdb|3VL7|A Chain A, 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis
Mr-1 At 650 Mpa
pdb|3VMJ|A Chain A, 3-Isopropylmalate Dehydrogenase From Shewanella Oneidensis
Mr-1
Length = 375
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 33 GMYAPAFTFS---IAKFIANPTTRLYKNVGTLKRALRTEEHWLKVENTKHKGSNPGPLVG 89
G++ PA + K IANP ++ L+ +L+ EE +E K N G L G
Sbjct: 287 GLFEPAGGSAPDIAGKGIANPIAQILSAALMLRHSLKQEEAASAIERAVTKALNSGYLTG 346
>pdb|3TRE|A Chain A, Structure Of A Translation Elongation Factor P (Efp) From
Coxiella Burnetii
Length = 191
Score = 26.6 bits (57), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 30/78 (38%), Gaps = 9/78 (11%)
Query: 7 GKGYEYNHWSISKLLESRYLHLRPKSGMYAPA---------FTFSIAKFIANPTTRLYKN 57
GKG +N L R L KSG PA + ++ +F T+ Y+
Sbjct: 36 GKGQAFNRVKFRNLKTGRVLERTFKSGETLPAADVVEVEXQYLYNDGEFWHFXTSENYEQ 95
Query: 58 VGTLKRALRTEEHWLKVE 75
K A+ + WLK E
Sbjct: 96 HAASKEAVAEAKQWLKEE 113
>pdb|2FSG|A Chain A, Complex Seca:atp From Escherichia Coli
pdb|2FSG|B Chain B, Complex Seca:atp From Escherichia Coli
Length = 853
Score = 26.6 bits (57), Expect = 8.2, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 32/76 (42%)
Query: 85 GPLVGTCNTTIIVEDQNDNNPIFPVSQYSLSIPEDVPVGTVVQVVSASDADLGVNSKLSW 144
G V T N + D +N P+F ++ I + A+D G N++ +
Sbjct: 117 GVHVVTVNDYLAQRDAENNRPLFEFLGLTVGINLPGXPAPAKREAYAADITYGTNNEYGF 176
Query: 145 NELEPNGLFSSDLRVE 160
+ L N FS + RV+
Sbjct: 177 DYLRDNXAFSPEERVQ 192
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 0.132 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,605,070
Number of Sequences: 62578
Number of extensions: 228298
Number of successful extensions: 417
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 37
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 365
Number of HSP's gapped (non-prelim): 60
length of query: 173
length of database: 14,973,337
effective HSP length: 92
effective length of query: 81
effective length of database: 9,216,161
effective search space: 746509041
effective search space used: 746509041
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)