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= psy12687
(143 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
Length = 3245
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 40/61 (65%), Gaps = 5/61 (8%)
Query: 81 WFKNFKD----WEEKLMLLQEIIDEWVKVQQTWMYLEPIFS-SPDIQAQMPEEGRRFSAM 135
++K F++ W+++L ++ ++D W+ VQ+ W+YLE IFS S DI +P E RF ++
Sbjct: 217 YYKVFEEEANHWDDRLNKVRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSI 276
Query: 136 D 136
+
Sbjct: 277 N 277
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 40/61 (65%), Gaps = 5/61 (8%)
Query: 81 WFKNFKD----WEEKLMLLQEIIDEWVKVQQTWMYLEPIFS-SPDIQAQMPEEGRRFSAM 135
++K F++ W+++L ++ ++D W+ VQ+ W+YLE IFS S DI +P E RF ++
Sbjct: 217 YYKVFEEEANHWDDRLNKVRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSI 276
Query: 136 D 136
+
Sbjct: 277 N 277
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 32.3 bits (72), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 87 DWEEKLMLLQEIIDEWVKVQQTWMYLEPIFS-SPDIQAQMPEEGRRFSAM 135
D E KL L EI WV+VQ W+ L I + DIQ +P E +F ++
Sbjct: 67 DLESKLTKLSEIQVNWVEVQFYWLDLYGILGENLDIQNFLPLETSKFKSL 116
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 32.3 bits (72), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 87 DWEEKLMLLQEIIDEWVKVQQTWMYLEPIFS-SPDIQAQMPEEGRRFSAM 135
D E KL L EI WV+VQ W+ L I + DIQ +P E +F ++
Sbjct: 286 DLESKLTKLSEIQVNWVEVQFYWLDLYGILGENLDIQNFLPLETSKFKSL 335
>pdb|4AKV|A Chain A, Crystal Structure Of Human Sorting Nexin 33 (Snx33)
pdb|4AKV|B Chain B, Crystal Structure Of Human Sorting Nexin 33 (Snx33)
Length = 386
Score = 30.8 bits (68), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 23/101 (22%), Positives = 46/101 (45%), Gaps = 7/101 (6%)
Query: 38 QVPSLNPMLEMGSEFKDTFDQNKKKLDNSLFTIHPVLSEMSNIWFKNFKDWEEKLMLLQE 97
Q+P+ + L+ + DTF KK+D+S+ + V SE+ F+ +KL +
Sbjct: 175 QIPTEHQDLQDVEDRVDTFKAFSKKMDDSVLQLSTVASELVRKHVGGFRKEFQKLGSAFQ 234
Query: 98 IIDEWVKVQQTWMYLEPIFSSPDIQAQMPEEGRRFSAMDKL 138
I + ++P F S + + + GR + A+ ++
Sbjct: 235 AISHSFQ-------MDPPFCSEALNSAISHTGRTYEAIGEM 268
>pdb|3UA4|A Chain A, Crystal Structure Of Protein Arginine Methyltransferase
Prmt5
pdb|3UA4|B Chain B, Crystal Structure Of Protein Arginine Methyltransferase
Prmt5
Length = 745
Score = 30.8 bits (68), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/89 (15%), Positives = 41/89 (46%)
Query: 8 DEYMSSIKKAVVDFAIHDPREPQLSIMEKEQVPSLNPMLEMGSEFKDTFDQNKKKLDNSL 67
D Y ++ A+ D + + ++ + P +L+ E+ +TF Q ++ L L
Sbjct: 390 DVYGEAVVGALKDLGADGRKTVVIYLLGGGRGPIGTKILKSEREYNNTFRQGQESLKVKL 449
Query: 68 FTIHPVLSEMSNIWFKNFKDWEEKLMLLQ 96
+ + + + + + N + W+ ++ +++
Sbjct: 450 YIVEKNPNAIVTLKYMNVRTWKRRVTIIE 478
>pdb|3NYE|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa D-Arginine
Dehydrogenase In Complex With Imino-Arginine
pdb|3NYF|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa D-Arginine
Dehydrogenase In Complex With Imino-Histidine
pdb|3NYC|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa D-Arginine
Dehydrogenase
pdb|3SM8|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa D-Arginine
Dehydrogenase In Complex With An (N5) Flavin Adduct
Length = 381
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 13/60 (21%)
Query: 18 VVDFAIHDPRE------------PQLSIMEKEQVPSLNPMLEMGSEFKDTFDQNKKKLDN 65
VVDF+ DP E PQ+ +++ EQ S+ P+L F T+D +D
Sbjct: 95 VVDFS-DDPEELRRQYESGKALVPQMRLLDAEQACSIVPVLRRDKVFGATYDPTGADIDT 153
>pdb|3PXH|A Chain A, Tandem Ig Domains Of Tyrosine Phosphatase Lar
Length = 201
Score = 27.3 bits (59), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 19/24 (79%)
Query: 30 QLSIMEKEQVPSLNPMLEMGSEFK 53
+LS++E++Q+PS P ++MG + K
Sbjct: 96 KLSVLEEDQLPSGFPTIDMGPQLK 119
>pdb|4AEF|A Chain A, The Crystal Structure Of Thermostable Amylase From The
Pyrococcus
pdb|4AEF|B Chain B, The Crystal Structure Of Thermostable Amylase From The
Pyrococcus
Length = 645
Score = 26.9 bits (58), Expect = 3.7, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 76 EMSNIWFKNFKDWEEKLMLLQEIIDEWVKVQQTWMYLEPIFSS 118
++ I + K W L+ ++E ID V + +YL PIFSS
Sbjct: 222 KIQGIAYPKDKYWGGDLIGIKEKIDHLVNLGINAIYLTPIFSS 264
>pdb|3UA3|A Chain A, Crystal Structure Of Protein Arginine Methyltransferase
Prmt5 In Complex With Sah
pdb|3UA3|B Chain B, Crystal Structure Of Protein Arginine Methyltransferase
Prmt5 In Complex With Sah
Length = 745
Score = 26.6 bits (57), Expect = 5.5, Method: Composition-based stats.
Identities = 14/89 (15%), Positives = 41/89 (46%)
Query: 8 DEYMSSIKKAVVDFAIHDPREPQLSIMEKEQVPSLNPMLEMGSEFKDTFDQNKKKLDNSL 67
D Y ++ A+ D + + ++ + P +L+ E+ +TF Q ++ L L
Sbjct: 390 DVYGEAVVGALKDLGADGRKTVVIYLLGGGRGPIGTKILKSEREYNNTFRQGQESLKVKL 449
Query: 68 FTIHPVLSEMSNIWFKNFKDWEEKLMLLQ 96
+ + + + + + N + W+ ++ +++
Sbjct: 450 YIVEKNPNAIVTLKYXNVRTWKRRVTIIE 478
>pdb|3TY7|A Chain A, Crystal Structure Of Aldehyde Dehydrogenase Family Protein
From Staphylococcus Aureus
pdb|3TY7|B Chain B, Crystal Structure Of Aldehyde Dehydrogenase Family Protein
From Staphylococcus Aureus
Length = 478
Score = 26.2 bits (56), Expect = 6.0, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 31/56 (55%), Gaps = 7/56 (12%)
Query: 4 NEVKDEYMSSIKKAVVDFAIHDPRE------PQLSIMEKEQVPS-LNPMLEMGSEF 52
N++KD +++ +K+ + +PRE P +S + +QV + +N +E G+E
Sbjct: 292 NKIKDAFLAELKEQFSQVRVGNPREDGTQVGPIISKKQFDQVQNYINKGIEEGAEL 347
>pdb|2YD5|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Lar
pdb|2YD8|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Lar In Complex
With Sucrose Octasulphate
Length = 214
Score = 26.2 bits (56), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 18/24 (75%)
Query: 30 QLSIMEKEQVPSLNPMLEMGSEFK 53
+LS++E+EQ+P P ++MG + K
Sbjct: 95 KLSVLEEEQLPPGFPSIDMGPQLK 118
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
0.318 0.132 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,405,599
Number of Sequences: 62578
Number of extensions: 171181
Number of successful extensions: 422
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 410
Number of HSP's gapped (non-prelim): 17
length of query: 143
length of database: 14,973,337
effective HSP length: 89
effective length of query: 54
effective length of database: 9,403,895
effective search space: 507810330
effective search space used: 507810330
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)