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= psy7404
(196 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DE0|X Chain X, Crystal Structure Of Human Alpha 1,6-fucosyltransferase,
Fut8
Length = 526
Score = 255 bits (651), Expect = 1e-68, Method: Compositional matrix adjust.
Identities = 113/199 (56%), Positives = 145/199 (72%), Gaps = 3/199 (1%)
Query: 1 SLVQDLNTLQASDSFEAWRLKESHDLSDLVQRRLEYLQNPSDCRTAKKLVCTLNKGCGYG 60
S++ DL L +D WR KE+ DL++LVQRR+ YLQNP DC AKKLVC +NKGCGYG
Sbjct: 100 SIMTDLYYLSQTDGAGDWREKEAKDLTELVQRRITYLQNPKDCSKAKKLVCNINKGCGYG 159
Query: 61 CQLHHVVYCFIVAYATQRTLILKSKGWRYARGGWEEVFEPVSKTCTSPEGASTSSWPGH- 119
CQLHHVVYCF++AY TQRTLIL+S+ WRYA GGWE VF PVS+TCT G ST W G
Sbjct: 160 CQLHHVVYCFMIAYGTQRTLILESQNWRYATGGWETVFRPVSETCTDRSGISTGHWSGEV 219
Query: 120 --DETQVIKLPVIDSISPRPAYLPLSIPKDLEPRLSRLHGDPIVWWIGQILKYLFKPQPK 177
QV++LP++DS+ PRP YLPL++P+DL RL R+HGDP VWW+ Q +KYL +PQP
Sbjct: 220 KDKNVQVVELPIVDSLHPRPPYLPLAVPEDLADRLVRVHGDPAVWWVSQFVKYLIRPQPW 279
Query: 178 TRDFLSKYGEKINFQKPIV 196
+ + +K+ F+ P++
Sbjct: 280 LEKEIEEATKKLGFKHPVI 298
>pdb|1TPY|A Chain A, Structure Of The Cyclopropane Synthase Mmaa2 From
Mycobacterium Tuberculosis
Length = 287
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 35/160 (21%), Positives = 55/160 (34%), Gaps = 23/160 (14%)
Query: 50 VCTLNKGCGYGCQLHHVVYCFIVAYA------TQRTLILKS-------KGWRYARGGWEE 96
+ L+ GCG+G + + + V Q + KS + R GWE+
Sbjct: 66 MTLLDIGCGWGATMRRAIAQYDVNVVGLTLSKNQAAHVQKSFDEMDTPRDRRVLLAGWEQ 125
Query: 97 VFEPVSKTCTSPEGASTSSWPGHDETQVIKLPVIDSISPRPAYLPLSIPKDLEPRLSRLH 156
EPV + + GHD I P L L L + H
Sbjct: 126 FNEPVDRIVS----IGAFEHFGHDR-HADFFARAHKILPPDGVLLLHTITGLTRQQMVDH 180
Query: 157 GDPIVWWIGQILKYLFKP-----QPKTRDFLSKYGEKINF 191
G P+ W+ + LK++ QP T + + + K F
Sbjct: 181 GLPLTLWLARFLKFIATEIFPGGQPPTIEMVEEQSAKTGF 220
>pdb|1KTZ|A Chain A, Crystal Structure Of The Human Tgf-Beta Type Ii Receptor
Extracellular Domain In Complex With Tgf-Beta3
pdb|1TGJ|A Chain A, Human Transforming Growth Factor-beta 3, Crystallized From
Dioxane
pdb|1TGK|A Chain A, Human Transforming Growth Factor Beta 3, Crystallized From
Peg 4000
pdb|2PJY|A Chain A, Structural Basis For Cooperative Assembly Of The Tgf-Beta
Signaling Complex
pdb|3EO1|C Chain C, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|F Chain F, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|I Chain I, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|L Chain L, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
Length = 112
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 14/80 (17%)
Query: 93 GWEEVFEP---VSKTCTSPEGASTSSWPGHDETQVIKLPVIDSISPRPAYLPLSIPKDLE 149
GW+ V EP + C+ P S+ D T L + ++++P + P +P+DLE
Sbjct: 29 GWKWVHEPKGYYANFCSGPCPYLRSA----DTTHSTVLGLYNTLNPEASASPCCVPQDLE 84
Query: 150 PRLSRLHGDPIVWWIGQILK 169
P I++++G+ K
Sbjct: 85 PLT-------ILYYVGRTPK 97
>pdb|1TFG|A Chain A, An Unusual Feature Revealed By The Crystal Structure At
2.2 Angstroms Resolution Of Human Transforming Growth
Factor-Beta2
pdb|2TGI|A Chain A, Crystal Structure Of Transforming Growth Factor-Beta2: An
Unusual Fold For The Superfamily
Length = 112
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 93 GWEEVFEPVSKTCTSPEGASTSSWPGHDETQVIKLPVIDSISPRPAYLPLSIPKDLEPRL 152
GW+ + EP GA W D L + ++I+P + P + +DLEP
Sbjct: 29 GWKWIHEPKGYNANFCAGACPYLW-SSDTQHSRVLSLYNTINPEASASPCCVSQDLEPLT 87
Query: 153 SRLHGDPIVWWIGQILK 169
I+++IG+ K
Sbjct: 88 -------ILYYIGKTPK 97
>pdb|4AFK|A Chain A, In Meso Structure Of Alginate Transporter, Alge, From
Pseudomonas Aeruginosa, Pao1
Length = 458
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 5 DLNTLQASDSFEAWRLKESHDLSDLVQRRLEYLQNPSDCRTA 46
+L+ LQA+ F +W+L+E +D S LV + + + SD T+
Sbjct: 341 ELSNLQAATLFGSWQLREDYDAS-LVYHKFWRVDDDSDIGTS 381
>pdb|3RBH|A Chain A, Structure Of Alginate Export Protein Alge From Pseudomonas
Aeruginosa
pdb|3RBH|B Chain B, Structure Of Alginate Export Protein Alge From Pseudomonas
Aeruginosa
pdb|3RBH|C Chain C, Structure Of Alginate Export Protein Alge From Pseudomonas
Aeruginosa
pdb|3RBH|D Chain D, Structure Of Alginate Export Protein Alge From Pseudomonas
Aeruginosa
Length = 479
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 5 DLNTLQASDSFEAWRLKESHDLSDLVQRRLEYLQNPSDCRTA 46
+L+ LQA+ F +W+L+E +D S LV + + + SD T+
Sbjct: 362 ELSNLQAATLFGSWQLREDYDAS-LVYHKFWRVDDDSDIGTS 402
>pdb|2FUG|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|L Chain L, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|U Chain U, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|3I9V|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3I9V|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3IAM|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAM|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAS|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|L Chain L, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|U Chain U, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3M9S|3 Chain 3, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|3M9S|C Chain C, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|2YBB|3 Chain 3, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|4HEA|3 Chain 3, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
pdb|4HEA|D Chain D, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
Length = 783
Score = 27.3 bits (59), Expect = 5.0, Method: Composition-based stats.
Identities = 21/97 (21%), Positives = 39/97 (40%), Gaps = 16/97 (16%)
Query: 78 RTLILKSKGWRYARGGWEEVFEPVSKTCTSPEGASTSSWPGHDET-----------QVIK 126
+T +++ +G R WEE F + + G + HD T + +K
Sbjct: 307 KTPLVRKEG-RLVEATWEEAFLALKEGLKEARGEEVGLYLAHDATLEEGLLASELAKALK 365
Query: 127 LPVID----SISPRPAYLPLSIPKDLEPRLSRLHGDP 159
P +D + +P + P S+ L+ + + GDP
Sbjct: 366 TPHLDFQGRTAAPASLFPPASLEDLLQADFALVLGDP 402
>pdb|1X54|A Chain A, Crystal Structure Of Asparaginyl-trna Synthetase From
Pyrococcus Horikoshii Complexed With
Asparaginyl-adenylate
pdb|1X55|A Chain A, Crystal Structure Of Asparaginyl-Trna Synthetase From
Pyrococcus Horikoshii Complexed With
Asparaginyl-Adenylate Analogue
pdb|1X56|A Chain A, Crystal Structure Of Asparaginyl-Trna Synthetase From
Pyrococcus Horikoshii
Length = 434
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 76 TQRTLILKSKGWRYARGGWEEVFEPVSKTCTSPEGAS 112
+ TLI+ ++ W + GW EVF P+ T GA+
Sbjct: 137 VKETLIMAAREW-LLKDGWHEVFPPILVTGAVEGGAT 172
>pdb|4B3K|A Chain A, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3K|B Chain B, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3K|C Chain C, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3K|D Chain D, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3K|E Chain E, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3K|F Chain F, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3L|A Chain A, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3L|B Chain B, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3L|C Chain C, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3L|D Chain D, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3L|E Chain E, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
pdb|4B3L|F Chain F, Family 1 6-phospho-beta-d Glycosidase From Streptococcus
Pyogenes
Length = 479
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 5/41 (12%)
Query: 90 ARGGWE-----EVFEPVSKTCTSPEGASTSSWPGHDETQVI 125
A GGWE ++F SK C G W H+E V+
Sbjct: 128 AYGGWESKHVVDLFVAFSKVCFEQFGDRVKDWFVHNEPMVV 168
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
0.320 0.137 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,437,672
Number of Sequences: 62578
Number of extensions: 268614
Number of successful extensions: 536
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 532
Number of HSP's gapped (non-prelim): 11
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
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)