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= psy8965
(193 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J3W|B Chain B, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex.
pdb|2J3W|F Chain F, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex
Length = 188
Score = 236 bits (603), Expect = 5e-63, Method: Compositional matrix adjust.
Identities = 104/184 (56%), Positives = 146/184 (79%), Gaps = 1/184 (0%)
Query: 10 ISISIIQPKTSILDKPINTKVKHDISINLYALLFSELVQYCQNKSLSVPEFQSKLHEVGQ 69
+ + + K++IL++ + T+ K ++S++ +ALLFSE+VQYCQ++ SV E Q++L ++GQ
Sbjct: 1 MEVRFTRGKSAILERSL-TRPKTEVSVSAFALLFSEMVQYCQSRVYSVSELQARLADMGQ 59
Query: 70 SIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERANDDERTYYLIE 129
+GA L+D+ REKNGKRE K+LNIL F+K+N+WK +FGKE DKLE+ANDD++TYY+IE
Sbjct: 60 GVGASLLDVLVMREKNGKRETKVLNILLFIKVNVWKALFGKEADKLEQANDDDKTYYIIE 119
Query: 130 QESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTAHWHKGTTYMIQFDEQVI 189
+E L+N +ISVPK+ +LNCA F GIVEA+L + GF + VT HWHKGTT MI+FDE VI
Sbjct: 120 KEPLINAYISVPKENSTLNCAAFTGGIVEAILTHSGFPAKVTVHWHKGTTLMIKFDESVI 179
Query: 190 ARDK 193
ARDK
Sbjct: 180 ARDK 183
>pdb|2J3R|B Chain B, The Crystal Structure Of The Bet3-Trs31 Heterodimer
Length = 157
Score = 218 bits (555), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 94/156 (60%), Positives = 127/156 (81%)
Query: 31 KHDISINLYALLFSELVQYCQNKSLSVPEFQSKLHEVGQSIGAKLIDINFYREKNGKREI 90
K ++S++ +ALLFSE+VQYCQ++ SV E Q++L ++GQ +GA L+D+ REKNGKRE
Sbjct: 2 KTEVSVSAFALLFSEMVQYCQSRVYSVSELQARLADMGQGVGASLLDVLVMREKNGKRET 61
Query: 91 KLLNILQFVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCA 150
K+LNIL F+K+N+WK +FGKE DKLE+ANDD++TYY+IE+E L+N +ISVPK+ +LNCA
Sbjct: 62 KVLNILLFIKVNVWKALFGKEADKLEQANDDDKTYYIIEKEPLINAYISVPKENSTLNCA 121
Query: 151 IFVAGIVEAVLNNCGFKSTVTAHWHKGTTYMIQFDE 186
F GIVEA+L + GF + VT HWHKGTT MI+FDE
Sbjct: 122 AFTGGIVEAILTHSGFPAKVTVHWHKGTTLMIKFDE 157
>pdb|3CUE|B Chain B, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|H Chain H, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|N Chain N, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|T Chain T, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
Length = 283
Score = 73.6 bits (179), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 40/118 (33%), Positives = 67/118 (56%), Gaps = 10/118 (8%)
Query: 81 YREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFISV 140
Y K +R++K+L+ILQF+ LW +F D L ++++ + Y +++ + +FI
Sbjct: 165 YITKMRRRDLKILDILQFIHGTLWSYLFNHVSDDLVKSSERDNEYMIVDNFPTLTQFI-- 222
Query: 141 PKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTAH------WHKGTTYMIQFDEQVIARD 192
P + +++C FV GI++ L N GF VTAH + T Y+IQFD QV+ R+
Sbjct: 223 PGE--NVSCEYFVCGIIKGFLFNAGFPCGVTAHRMPQGGHSQRTVYLIQFDRQVLDRE 278
Score = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 13/52 (25%), Positives = 30/52 (57%)
Query: 31 KHDISINLYALLFSELVQYCQNKSLSVPEFQSKLHEVGQSIGAKLIDINFYR 82
+ + S++ A LF E++ + +F++KL + G +IG +L+++ +R
Sbjct: 54 RQEASLSAMAFLFQEMISQLHRTCKTAGDFETKLSDYGHNIGIRLLELLNFR 105
>pdb|2J3T|B Chain B, The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23 Complex
Length = 159
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 39/129 (30%), Positives = 58/129 (44%), Gaps = 23/129 (17%)
Query: 51 QNKSLSVPEFQSKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGK 110
Q SLSV E VGQ++G +L RE RE L++L+F+ +LW +F K
Sbjct: 30 QKMSLSVLEGMG--FRVGQALGERLP-----RETLAFREE--LDVLKFLCKDLWVAVFQK 80
Query: 111 ECDKLERANDDERTYYLIEQESLVNKF-ISVPKDKG------SLNCAIFVAGIVEAVLNN 163
+ D L + + TY L + N F + +P G + F G++ L
Sbjct: 81 QMDSLR--TNHQGTYVLQD-----NSFPLLLPMASGLQYLEEAPKFLAFTCGLLRGALYT 133
Query: 164 CGFKSTVTA 172
G +S VTA
Sbjct: 134 LGIESVVTA 142
>pdb|2C0J|B Chain B, Crystal Structure Of The Bet3-Trs33 Heterodimer
Length = 160
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 39/129 (30%), Positives = 58/129 (44%), Gaps = 23/129 (17%)
Query: 51 QNKSLSVPEFQSKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGK 110
Q SLSV E VGQ++G +L RE RE L++L+F+ +LW +F K
Sbjct: 31 QKMSLSVLEGMG--FRVGQALGERLP-----RETLAFREE--LDVLKFLCKDLWVAVFQK 81
Query: 111 ECDKLERANDDERTYYLIEQESLVNKF-ISVPKDKG------SLNCAIFVAGIVEAVLNN 163
+ D L + + TY L + N F + +P G + F G++ L
Sbjct: 82 QMDSLR--TNHQGTYVLQD-----NSFPLLLPMASGLQYLEEAPKFLAFTCGLLRGALYT 134
Query: 164 CGFKSTVTA 172
G +S VTA
Sbjct: 135 LGIESVVTA 143
>pdb|2CFH|C Chain C, Structure Of The Bet3-Tpc6b Core Of Trapp
pdb|2CFH|D Chain D, Structure Of The Bet3-Tpc6b Core Of Trapp
Length = 158
Score = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 53/117 (45%), Gaps = 15/117 (12%)
Query: 62 SKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERANDD 121
+KL +G +G LI+ K+ R L+I++F+ + W +F K+ D L R N
Sbjct: 34 TKLENMGFRVGQGLIE---RFTKDTARFKDELDIMKFICKDFWTTVFKKQIDNL-RTNHQ 89
Query: 122 ------ERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTA 172
+ + L+ Q S +++ + C G++ L+N G KS VTA
Sbjct: 90 GIYVLQDNKFRLLTQMSAGKQYLEHASKYLAFTC-----GLIRGGLSNLGIKSIVTA 141
>pdb|3KXC|C Chain C, Mutant Transport Protein
Length = 158
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 53/117 (45%), Gaps = 15/117 (12%)
Query: 62 SKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERANDD 121
+KL +G +G LI+ K+ R L+I++F+ + W +F K+ D L R N
Sbjct: 34 TKLENMGFRVGQGLIE---RFTKDTARFKDELDIMKFICKDFWTTVFKKQIDNL-RTNHQ 89
Query: 122 ------ERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTA 172
+ + L+ Q S +++ + C G++ L+N G KS VTA
Sbjct: 90 GIYVLQDNKFRLLTQMSAGKQYLEHASKYLAFTC-----GLIRGGLSNLGIKSIVTA 141
>pdb|2BJN|A Chain A, X-Ray Structure Of Human Tpc6
pdb|2BJN|B Chain B, X-Ray Structure Of Human Tpc6
Length = 160
Score = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 53/117 (45%), Gaps = 15/117 (12%)
Query: 62 SKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERANDD 121
+KL +G +G LI+ K+ R L+I++F+ + W +F K+ D L R N
Sbjct: 36 TKLENMGFRVGQGLIE---RFTKDTARFKDELDIMKFICKDFWTTVFKKQIDNL-RTNHQ 91
Query: 122 ------ERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTA 172
+ + L+ Q S +++ + C G++ L+N G KS VTA
Sbjct: 92 GIYVLQDNKFRLLTQMSAGKQYLEHASKYLAFTC-----GLIRGGLSNLGIKSIVTA 143
>pdb|1VHV|A Chain A, Crystal Structure Of Diphthine Synthase
pdb|1VHV|B Chain B, Crystal Structure Of Diphthine Synthase
Length = 268
Score = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 40/96 (41%), Gaps = 21/96 (21%)
Query: 105 KNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKD----------------KGSLN 148
+ FGK +LER++ +E ++ LIE+ + + VP D KG
Sbjct: 59 EEFFGKRVVELERSDLEENSFRLIERAKSKSVVLLVPGDPXVATTHSAIKLEAERKGVKT 118
Query: 149 CAIFVAGIVEAV-----LNNCGFKSTVTAHWHKGTT 179
I A I AV L+N F + T WH+ T
Sbjct: 119 RIIHGASISTAVCGLTGLHNYRFGKSATVSWHRSQT 154
>pdb|3CUE|D Chain D, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|E Chain E, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|J Chain J, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|K Chain K, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|P Chain P, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|Q Chain Q, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|V Chain V, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|W Chain W, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
Length = 193
Score = 30.4 bits (67), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 35/158 (22%), Positives = 67/158 (42%), Gaps = 24/158 (15%)
Query: 34 ISINLYALLFSELV-QYCQNKSLSVPEFQSKLHEVGQSIGAKLIDINFYREKNGKRE--I 90
I+ L+ L + +V Q CQ+ + L+ +G +IG +LI+ R + E +
Sbjct: 25 INTELFTLTYGSIVAQLCQDYERDFNKVNDHLYSMGYNIGCRLIEDFLARTALPRCENLV 84
Query: 91 KLLNILQFVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCA 150
K +L ++ NI + + ++ T+ LI E+ + F+ +P D +
Sbjct: 85 KTSEVLSKCAFKIFLNI----TPNITNWSHNKDTFSLILDENPLADFVELPMDAMK---S 137
Query: 151 IFVAGIVEAVLNNCGFKSTVTAHWHKGTTYMIQFDEQV 188
++ + I+ VL KG+ M+Q D V
Sbjct: 138 LWYSNILCGVL--------------KGSLEMVQLDCDV 161
>pdb|1HLG|A Chain A, Crystal Structure Of Human Gastric Lipase
pdb|1HLG|B Chain B, Crystal Structure Of Human Gastric Lipase
Length = 371
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 40/94 (42%), Gaps = 19/94 (20%)
Query: 35 SINLYALLFSELVQYCQNKSLSV---PEFQSKLHEVGQSIGAKLIDINFYREKNGKREIK 91
S+ +A F E+ +Y ++ Q +LH VG S G + I F + + IK
Sbjct: 107 SVEFWAFSFDEMAKYDLPATIDFIVKKTGQKQLHYVGHSQGTTIGFIAFSTNPSLAKRIK 166
Query: 92 ----------------LLNILQFVKINLWKNIFG 109
L+N L+FV +L+K IFG
Sbjct: 167 TFYALAPVATVKYTKSLINKLRFVPQSLFKFIFG 200
>pdb|1UX4|A Chain A, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Tethered-Dimer Architecture
pdb|1UX4|B Chain B, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Tethered-Dimer Architecture
Length = 410
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 55 LSVPEFQSKLHEVGQSIGAKLIDINFYR 82
L++ EF+S +H G+ G K I+F++
Sbjct: 349 LTIMEFESLMHTYGEDSGDKFAKISFFK 376
>pdb|1UX5|A Chain A, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Flexibly Tethered Dimer Architecture
Length = 411
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 55 LSVPEFQSKLHEVGQSIGAKLIDINFYR 82
L++ EF+S +H G+ G K I+F++
Sbjct: 355 LTIMEFESLMHTYGEDSGDKFAKISFFK 382
>pdb|1Y64|B Chain B, Bni1p Formin Homology 2 Domain Complexed With Atp-actin
Length = 443
Score = 26.9 bits (58), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 55 LSVPEFQSKLHEVGQSIGAKLIDINFYR 82
L++ EF+S +H G+ G K I+F++
Sbjct: 378 LTIMEFESLMHTYGEDSGDKFAKISFFK 405
>pdb|3TLM|A Chain A, Crystal Structure Of Endoplasmic Reticulum Ca2+-Atpase
(Serca) From Bovine Muscle
Length = 992
Score = 26.9 bits (58), Expect = 7.9, Method: Composition-based stats.
Identities = 32/164 (19%), Positives = 65/164 (39%), Gaps = 20/164 (12%)
Query: 6 NTAGISISIIQPKTSIL--DKPINTKVKHDISINLYALLFSELVQYCQNKSLSVPEFQSK 63
N ++ S P+ +L DKP+ + ++D + L + + C + SL E +
Sbjct: 380 NEFSVTGSTYAPEGEVLKNDKPVRSG-QYDGLVEL-----ATICALCNDSSLDFNETKGI 433
Query: 64 LHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERA-NDDE 122
+VG++ L + ++ +N+ NL K C+ + R E
Sbjct: 434 YEKVGEATETALTTL-----------VEKMNVFNTEVRNLSKVERANACNSVIRQLMKKE 482
Query: 123 RTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGF 166
T ++ + S K + ++ +FV G E V++ C +
Sbjct: 483 FTLEFSRDRKSMSVYCSPAKSRAAVGNKMFVKGAPEGVIDRCNY 526
>pdb|1GYL|A Chain A, Involvement Of Tyr24 And Trp108 In Substrate Binding And
Substrate Specificity Of Glycolate Oxidase
pdb|1GYL|B Chain B, Involvement Of Tyr24 And Trp108 In Substrate Binding And
Substrate Specificity Of Glycolate Oxidase
Length = 369
Score = 26.6 bits (57), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 30/69 (43%)
Query: 62 SKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERANDD 121
++L + G K I + + G+RE + N KN G + K+++AND
Sbjct: 138 AQLVRRAERAGFKAIALTVDTPRLGRREADIKNRFVLPPFLTLKNFEGIDLGKMDKANDS 197
Query: 122 ERTYYLIEQ 130
+ Y+ Q
Sbjct: 198 GLSSYVAGQ 206
>pdb|1GOX|A Chain A, Refined Structure Of Spinach Glycolate Oxidase At 2
Angstroms Resolution
Length = 370
Score = 26.6 bits (57), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 30/69 (43%)
Query: 62 SKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERANDD 121
++L + G K I + + G+RE + N KN G + K+++AND
Sbjct: 139 AQLVRRAERAGFKAIALTVDTPRLGRREADIKNRFVLPPFLTLKNFEGIDLGKMDKANDS 198
Query: 122 ERTYYLIEQ 130
+ Y+ Q
Sbjct: 199 GLSSYVAGQ 207
>pdb|1AL7|A Chain A, Three-Dimensional Structures Of Glycolate Oxidase With
Bound Active- Site Inhibitors
pdb|1AL8|A Chain A, Three-Dimensional Structure Of Glycolate Oxidase With
Bound Active- Site Inhibitors
Length = 359
Score = 26.6 bits (57), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 30/69 (43%)
Query: 62 SKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERANDD 121
++L + G K I + + G+RE + N KN G + K+++AND
Sbjct: 138 AQLVRRAERAGFKAIALTVDTPRLGRREADIKNRFVLPPFLTLKNFEGIDLGKMDKANDS 197
Query: 122 ERTYYLIEQ 130
+ Y+ Q
Sbjct: 198 GLSSYVAGQ 206
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
0.319 0.135 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,329,989
Number of Sequences: 62578
Number of extensions: 206490
Number of successful extensions: 634
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 623
Number of HSP's gapped (non-prelim): 20
length of query: 193
length of database: 14,973,337
effective HSP length: 93
effective length of query: 100
effective length of database: 9,153,583
effective search space: 915358300
effective search space used: 915358300
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)