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= psy15590
(217 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZMV|A Chain A, Crystal Structure Of Synbindin
pdb|2ZMV|B Chain B, Crystal Structure Of Synbindin
Length = 227
Score = 266 bits (679), Expect = 9e-72, Method: Compositional matrix adjust.
Identities = 120/213 (56%), Positives = 162/213 (76%)
Query: 1 MVIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVG 60
M I+ VY+V+K+GGLI+ D P+ E TF +PL++ L +++++V+FGQRDGI VG
Sbjct: 1 MAIFSVYVVNKAGGLIYQLDSYAPRAEAEKTFSYPLDLLLKLHDERVLVAFGQRDGIRVG 60
Query: 61 HVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLFA 120
H + A+N + DG +VLE+L P ++PV + F RPR+T+NEK+ LASMF+ LFA
Sbjct: 61 HAVLAINGMDVNGRYTADGKEVLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSLFA 120
Query: 121 IASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGLDLILKKIYELYADY 180
I SQLSPE SSGIE+LE DTFKLHCYQTLTG+KF+++ D Q+G+D +L+KIYE+Y+D+
Sbjct: 121 IGSQLSPEQGSSGIEMLETDTFKLHCYQTLTGIKFVVLADPRQAGIDSLLRKIYEIYSDF 180
Query: 181 ALKNPFYSLEMPIRCELFDTHLQNLLQQHEKTG 213
ALKNPFYSLEMPIRCELFD +L+ L+ EK G
Sbjct: 181 ALKNPFYSLEMPIRCELFDQNLKLALEVAEKAG 213
>pdb|2J3T|D Chain D, The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23 Complex
Length = 219
Score = 266 bits (679), Expect = 9e-72, Method: Compositional matrix adjust.
Identities = 120/213 (56%), Positives = 162/213 (76%)
Query: 1 MVIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVG 60
M I+ VY+V+K+GGLI+ D P+ E TF +PL++ L +++++V+FGQRDGI VG
Sbjct: 1 MAIFSVYVVNKAGGLIYQLDSYAPRAEAEKTFSYPLDLLLKLHDERVLVAFGQRDGIRVG 60
Query: 61 HVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLFA 120
H + A+N + DG +VLE+L P ++PV + F RPR+T+NEK+ LASMF+ LFA
Sbjct: 61 HAVLAINGMDVNGRYTADGKEVLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSLFA 120
Query: 121 IASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGLDLILKKIYELYADY 180
I SQLSPE SSGIE+LE DTFKLHCYQTLTG+KF+++ D Q+G+D +L+KIYE+Y+D+
Sbjct: 121 IGSQLSPEQGSSGIEMLETDTFKLHCYQTLTGIKFVVLADPRQAGIDSLLRKIYEIYSDF 180
Query: 181 ALKNPFYSLEMPIRCELFDTHLQNLLQQHEKTG 213
ALKNPFYSLEMPIRCELFD +L+ L+ EK G
Sbjct: 181 ALKNPFYSLEMPIRCELFDQNLKLALEVAEKAG 213
>pdb|2JSN|A Chain A, Solution Structure Of The Atypical Pdz-Like Domain Of
Synbindin
Length = 96
Score = 84.7 bits (208), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%)
Query: 20 DHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVGHVLTAVNDAVIKNGQLDDG 79
D P+ E TF +PL++ L +++++V+FGQRDGI VGH + A+N + DG
Sbjct: 10 DSYAPRAEAEKTFSYPLDLLLKLHDERVLVAFGQRDGIRVGHAVLAINGMDVNGRYTADG 69
Query: 80 TDVLEFLSKPESFPVKLTFTRPRMTTN 106
+VLE+L P ++PV + F RPR+T+N
Sbjct: 70 KEVLEYLGNPANYPVSIRFGRPRLTSN 96
>pdb|3CUE|A Chain A, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|G Chain G, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|M Chain M, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|S Chain S, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
Length = 219
Score = 64.3 bits (155), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 64/248 (25%), Positives = 108/248 (43%), Gaps = 73/248 (29%)
Query: 1 MVIYGVYIVSKSGGLIF--NYDHNVPKIEN------AVTFQ--FPLNIKLTPENKKIVVS 50
M I + +++KSGGLI+ N+ ++ K+ + A T F + +LTP+ ++
Sbjct: 1 MAIETILVINKSGGLIYQRNFTNDEQKLNSNEYLILASTLHGVFAIASQLTPKALQLTQQ 60
Query: 51 FGQRDGI-LVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKI 109
+ I + +V + N + +NG ++ + T NEK+
Sbjct: 61 TNIENTIPYIPYVGMSSNRSDTRNGGGNNN----------------------KHTNNEKL 98
Query: 110 --FLASMFYPLFAIASQLSPEP----KSSGIEVLEADTFKLHCYQTLTGVKFMIVGDT-- 161
F F+ EP SG+ L D F + YQTLTG+KF+ + +
Sbjct: 99 GSFKGDDFFK----------EPFTNWNKSGLRQLCTDQFTMFIYQTLTGLKFVAISSSVM 148
Query: 162 -----------------NQSGL-----DLILKKIYELYADYALKNPFYSLEMPIRCELFD 199
+ S L D L+K+Y LY+DY +K+P YS+EMPIR LFD
Sbjct: 149 PQRQPTIATTDKPDRPKSTSNLAIQIADNFLRKVYCLYSDYVMKDPSYSMEMPIRSNLFD 208
Query: 200 THLQNLLQ 207
++ +++
Sbjct: 209 EKVKKMVE 216
>pdb|2J3T|C Chain C, The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23 Complex
Length = 145
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 51/102 (50%), Gaps = 1/102 (0%)
Query: 107 EKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGL 166
E + M + + + S++SP G + +KLH Y+T TG+K ++ D +
Sbjct: 34 EYKLMYGMLFSIRSFVSKMSPLDMKDGFLSFQTSRYKLHYYETPTGIKVVMNTDLGVGPI 93
Query: 167 DLILKKIYE-LYADYALKNPFYSLEMPIRCELFDTHLQNLLQ 207
+L IY LY ++ +KNP L ++ ELF + L + ++
Sbjct: 94 RDVLHHIYSALYVEFVVKNPLCPLGQTVQSELFRSRLDSYVR 135
>pdb|1H3Q|A Chain A, Crystal Sturcture Of Sedl At 2.4 Angstroms Resolution
Length = 140
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 146 CYQTLTGVKFMIVGDTNQ-SGLDLILKKIYELYADYALKNPFYSLEMPIRCELFDTHLQN 204
+ T ++F+++ D Q G+ +Y+LY +A+ NPFY PIR FD +Q
Sbjct: 74 AFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAM-NPFYEPNSPIRSSAFDRKVQF 132
Query: 205 LLQQH 209
L ++H
Sbjct: 133 LGKKH 137
>pdb|2J3W|A Chain A, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex.
pdb|2J3W|C Chain C, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex
Length = 142
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 146 CYQTLTGVKFMIVGDTNQ-SGLDLILKKIYELYADYALKNPFYSLEMPIRCELFDTHLQN 204
+ T ++F+++ D Q G+ +Y+LY +A+ NPFY PIR FD +Q
Sbjct: 76 AFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAM-NPFYEPNSPIRSSAFDRKVQF 134
Query: 205 LLQQH 209
L ++H
Sbjct: 135 LGKKH 139
>pdb|3CUE|C Chain C, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|I Chain I, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|O Chain O, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|U Chain U, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
Length = 159
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 111 LASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGLDLIL 170
L M + L +I +LS + I + +++H Y T +G+ F+++ D Q +L
Sbjct: 44 LYGMIFSLRSITQKLSKGSVKNDIRSISTGKYRVHTYCTASGLWFVLLSDFKQQSYTQVL 103
Query: 171 KKIY-ELYADYALKN 184
+ IY +Y Y N
Sbjct: 104 QYIYSHIYVKYVSNN 118
>pdb|4H6V|A Chain A, Structure Of Patellamide Maturation Protease Pata
Length = 306
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 9/84 (10%)
Query: 2 VIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVGH 61
V G +I++ SGG + ++ +ENAV+ L +N ++V+ +G H
Sbjct: 112 VNAGAHIINISGGELTDFGEADGWLENAVS--------LCRQNNVLLVAAAGNNGCDCLH 163
Query: 62 VLTAVNDAVIKNGQLDDGTDVLEF 85
V A+ AV+ G +DD L+F
Sbjct: 164 VPAAL-PAVLAVGAMDDHGHPLDF 186
>pdb|3ZXX|A Chain A, Structure Of Self-cleaved Protease Domain Of Pata
Length = 307
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 9/84 (10%)
Query: 2 VIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVGH 61
V G +I++ SGG + ++ +ENAV+ L +N ++V+ +G H
Sbjct: 121 VNAGAHIINISGGELTDFGEADGWLENAVS--------LCRQNNVLLVAAAGNNGCDCLH 172
Query: 62 VLTAVNDAVIKNGQLDDGTDVLEF 85
V A+ AV+ G +DD L+F
Sbjct: 173 VPAAL-PAVLAVGAMDDHGHPLDF 195
>pdb|3ZXY|A Chain A, Structure Of S218a Mutant Of The Protease Domain Of Pata
Length = 282
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 9/84 (10%)
Query: 2 VIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVGH 61
V G +I++ SGG + ++ +ENAV+ L +N ++V+ +G H
Sbjct: 102 VNAGAHIINISGGELTDFGEADGWLENAVS--------LCRQNNVLLVAAAGNNGCDCLH 153
Query: 62 VLTAVNDAVIKNGQLDDGTDVLEF 85
V A+ AV+ G +DD L+F
Sbjct: 154 VPAAL-PAVLAVGAMDDHGHPLDF 176
>pdb|1CV8|A Chain A, Staphopain, Cysteine Proteinase From Staphylococcus Aureus
V8
Length = 174
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 39 KLTPENKKIVV---SFGQRDGILVGHVLTAVNDAVIKNGQ 75
LT NK I + R+G+ GH + V +A + NGQ
Sbjct: 95 NLTKNNKGIAILGSRVESRNGMHAGHAMAVVGNAKLNNGQ 134
>pdb|4EY4|A Chain A, Crystal Structure Of Recombinant Human
Acetylcholinesterase In The Apo State
pdb|4EY4|B Chain B, Crystal Structure Of Recombinant Human
Acetylcholinesterase In The Apo State
pdb|4EY5|A Chain A, Crystal Structure Of Recombinant Human
Acetylcholinesterase In Complex With (-)-Huperzine A
pdb|4EY5|B Chain B, Crystal Structure Of Recombinant Human
Acetylcholinesterase In Complex With (-)-Huperzine A
pdb|4EY6|A Chain A, Crystal Structure Of Recombinant Human
Acetylcholinesterase In Complex With (-)-Galantamine
pdb|4EY6|B Chain B, Crystal Structure Of Recombinant Human
Acetylcholinesterase In Complex With (-)-Galantamine
pdb|4EY7|A Chain A, Crystal Structure Of Recombinant Human
Acetylcholinesterase In Complex With Donepezil
pdb|4EY7|B Chain B, Crystal Structure Of Recombinant Human
Acetylcholinesterase In Complex With Donepezil
pdb|4EY8|A Chain A, Crystal Structure Of Recombinant Human
Acetylcholinesterase In Complex With Fasciculin-2
Length = 542
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 125 LSPEPKSSGIEVLEADTFKLHCYQ 148
L PEPK V++A TF+ CYQ
Sbjct: 47 LPPEPKQPWSGVVDATTFQSVCYQ 70
>pdb|3LII|A Chain A, Recombinant Human Acetylcholinesterase
pdb|3LII|B Chain B, Recombinant Human Acetylcholinesterase
Length = 540
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 125 LSPEPKSSGIEVLEADTFKLHCYQ 148
L PEPK V++A TF+ CYQ
Sbjct: 45 LPPEPKQPWSGVVDATTFQSVCYQ 68
>pdb|1B41|A Chain A, Human Acetylcholinesterase Complexed With Fasciculin-Ii,
Glycosylated Protein
Length = 539
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 125 LSPEPKSSGIEVLEADTFKLHCYQ 148
L PEPK V++A TF+ CYQ
Sbjct: 44 LPPEPKQPWSGVVDATTFQSVCYQ 67
>pdb|1F8U|A Chain A, Crystal Structure Of Mutant E202q Of Human
Acetylcholinesterase Complexed With Green Mamba Venom
Peptide Fasciculin-ii
Length = 583
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 125 LSPEPKSSGIEVLEADTFKLHCYQ 148
L PEPK V++A TF+ CYQ
Sbjct: 48 LPPEPKQPWSGVVDATTFQSVCYQ 71
>pdb|2X8B|A Chain A, Crystal Structure Of Human Acetylcholinesterase Inhibited
By Aged Tabun And Complexed With Fasciculin-Ii
Length = 583
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 125 LSPEPKSSGIEVLEADTFKLHCYQ 148
L PEPK V++A TF+ CYQ
Sbjct: 48 LPPEPKQPWSGVVDATTFQSVCYQ 71
>pdb|3O9Z|A Chain A, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
Thermus Thermophilus In Complex With Nad And
Alpha-Ketoglutarate At 1.45 Angstrom Resolution
pdb|3O9Z|B Chain B, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
Thermus Thermophilus In Complex With Nad And
Alpha-Ketoglutarate At 1.45 Angstrom Resolution
pdb|3O9Z|C Chain C, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
Thermus Thermophilus In Complex With Nad And
Alpha-Ketoglutarate At 1.45 Angstrom Resolution
pdb|3O9Z|D Chain D, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
Thermus Thermophilus In Complex With Nad And
Alpha-Ketoglutarate At 1.45 Angstrom Resolution
pdb|3OA0|A Chain A, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
Thermus Thermophilus In Complex With Nad And Udp-Glcnaca
pdb|3OA0|B Chain B, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
Thermus Thermophilus In Complex With Nad And Udp-Glcnaca
pdb|3OA0|C Chain C, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
Thermus Thermophilus In Complex With Nad And Udp-Glcnaca
pdb|3OA0|D Chain D, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
Thermus Thermophilus In Complex With Nad And Udp-Glcnaca
Length = 312
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 3/71 (4%)
Query: 59 VGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLAS---MF 115
VG VL A D G +D EF ++PE+F L R R + + +AS +
Sbjct: 26 VGGVLVASLDPATNVGLVDSFFPEAEFFTEPEAFEAYLEDLRDRGEGVDYLSIASPNHLH 85
Query: 116 YPLFAIASQLS 126
YP +A +L
Sbjct: 86 YPQIRMALRLG 96
>pdb|1CRI|A Chain A, The Role Of A Conserved Internal Water Molecule And Its
Associated Hydrogen Bond Network In Cytochrome C
pdb|1CRJ|A Chain A, The Role Of A Conserved Internal Water Molecule And Its
Associated Hydrogen Bond Network In Cytochrome C
Length = 108
Score = 26.9 bits (58), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 51 FGQRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESF 92
FG+ G G+ T DA+IK L D ++ EFL+ P +
Sbjct: 41 FGRHSGQAEGYSYT---DAIIKKNVLWDENNMSEFLTNPXKY 79
>pdb|1MQL|A Chain A, Bha Of Ukr63
pdb|1MQL|D Chain D, Bha Of Ukr63
pdb|1MQL|G Chain G, Bha Of Ukr63
pdb|1MQM|A Chain A, BhaLSTA
pdb|1MQM|D Chain D, BhaLSTA
pdb|1MQM|G Chain G, BhaLSTA
pdb|1MQN|A Chain A, BhaLSTC
pdb|1MQN|D Chain D, BhaLSTC
pdb|1MQN|G Chain G, BhaLSTC
Length = 329
Score = 26.9 bits (58), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 6/96 (6%)
Query: 27 ENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVGHVLTAV----NDAVIKNGQLDDGTDV 82
NA + +P +I + +V S G + I G T V + K G +
Sbjct: 91 SNAFSNCYPYDIPDYASLRSLVASSGTLEFITEGFTWTGVTQNGGSSACKRGPANGFFSR 150
Query: 83 LEFLSKPES-FPVKLTFTRPRMTTNEKIFLASMFYP 117
L +L+K ES +PV L T P +K+++ + +P
Sbjct: 151 LNWLTKSESAYPV-LNVTMPNNDNFDKLYIWGVHHP 185
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
0.321 0.139 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,445,524
Number of Sequences: 62578
Number of extensions: 259464
Number of successful extensions: 569
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 551
Number of HSP's gapped (non-prelim): 24
length of query: 217
length of database: 14,973,337
effective HSP length: 95
effective length of query: 122
effective length of database: 9,028,427
effective search space: 1101468094
effective search space used: 1101468094
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)