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= psy12008
(458 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WWT|A Chain A, Solution Structure Of The Tgs Domain From Human Threonyl-
Trna Synthetase
Length = 88
Score = 52.0 bits (123), Expect = 7e-07, Method: Composition-based stats.
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 210 LPEDAELIMNKNLSTPYNCAQHMSEMLCDRSVLALIDGVKLWDMHRPLESDCELQLLHFY 269
LP+ ++ +TPY A +S+ L D +V+A ++ V +WD+ RPLE DC L+LL F
Sbjct: 16 LPDGKQVDAESWKTTPYQIACGISQGLADNTVIAKVNNV-VWDLDRPLEEDCTLELLKFE 74
Query: 270 DSD 272
D +
Sbjct: 75 DEE 77
>pdb|1NYQ|A Chain A, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With An Analogue Of Threonyl
Adenylate
pdb|1NYQ|B Chain B, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With An Analogue Of Threonyl
Adenylate
pdb|1NYR|A Chain A, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With Atp
pdb|1NYR|B Chain B, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With Atp
Length = 645
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 52/210 (24%), Positives = 100/210 (47%), Gaps = 21/210 (10%)
Query: 200 IEKINVTYKGLPEDAELIMNKNLSTPYNCAQHMSEMLCDRSVLALIDGVKLWDMHRPLES 259
+E+IN+ + P+ + +K +T + AQ +S L ++V +G +L D+ +PLE+
Sbjct: 1 MEQINIQF---PDGNKKAFDKGTTTE-DIAQSISPGLRKKAVAGKFNG-QLVDLTKPLET 55
Query: 260 DCELQLLHFYDSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNVKSGSFVY 319
D ++++ + R S + ++ + + NV+ F V G F Y
Sbjct: 56 DGSIEIVTPGSEEALEVLR---HSTAHLMAHAIKRLYG-NVK-----FGVGPVIEGGFYY 106
Query: 320 DVQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFEHNKYKLEQIPS 379
D + + +S + + M ++ E + ER +S+D A+ LF +++YKLE I +
Sbjct: 107 DFDI----DQNISSDDFEQIEKTMKQIVNENMKIERKVVSRDEAKELFSNDEYKLELIDA 162
Query: 380 IVQQSIDGKVIVYRIKDHIDISRGPMMSNT 409
I + D V +Y D D+ RG + +T
Sbjct: 163 IPE---DENVTLYSQGDFTDLCRGVHVPST 189
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 33/129 (25%), Positives = 59/129 (45%), Gaps = 11/129 (8%)
Query: 15 SGSFVYDVQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFEHNKYK 74
G F YD + + +S + + M ++ E + ER +S+D A+ LF +++YK
Sbjct: 101 EGGFYYDFDI----DQNISSDDFEQIEKTMKQIVNENMKIERKVVSRDEAKELFSNDEYK 156
Query: 75 LEQIPSIVQQSIDGKVIVYRIKDHIDISRGPMMSNTNHLGR----CTIAAAQQVETDAGL 130
LE I +I + D V +Y D D+ RG + +T + T A + +++ +
Sbjct: 157 LELIDAIPE---DENVTLYSQGDFTDLCRGVHVPSTAKIKEFKLLSTAGAYWRGDSNNKM 213
Query: 131 FYRFQGVAL 139
R G A
Sbjct: 214 LQRIYGTAF 222
>pdb|1PX5|A Chain A, Crystal Structure Of The 2'-Specific And Double-Stranded
Rna-Activated Interferon-Induced Antiviral Protein
2'-5'- Oligoadenylate Synthetase
pdb|1PX5|B Chain B, Crystal Structure Of The 2'-Specific And Double-Stranded
Rna-Activated Interferon-Induced Antiviral Protein
2'-5'- Oligoadenylate Synthetase
Length = 349
Score = 32.0 bits (71), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 10/80 (12%)
Query: 134 FQGVALP----KSIKGFIPSWMNMGLSSIEAGKSDIFLVIRLGQISSNIVQ-KQNDIFNK 188
FQG A P K +KG + G + G+SD LV+ L +++S Q ++ F +
Sbjct: 45 FQGTADPVRVSKVVKG-----GSSGKGTTLRGRSDADLVVFLTKLTSFEDQLRRRGEFIQ 99
Query: 189 EFKRQQNAVGRIEKINVTYK 208
E +RQ A R +K VT++
Sbjct: 100 EIRRQLEACQREQKFKVTFE 119
>pdb|1TJE|A Chain A, Crystal Structure Of The Editing Domain Of Threonyl-Trna
Synthetase
pdb|1TKE|A Chain A, Crystal Structure Of The Editing Domain Of Threonyl-trna
Synthetase Complexed With Serine
pdb|1TKG|A Chain A, Crystal Structure Of The Editing Domain Of Threonyl-Trna
Synthetase Complexed With An Analog Of Seryladenylate
pdb|1TKY|A Chain A, Crystal Structure Of The Editing Domain Of Threonyl-trna
Synthetase Complexed With Seryl-3'-aminoadenosine
Length = 224
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 43/189 (22%), Positives = 84/189 (44%), Gaps = 22/189 (11%)
Query: 224 TPYNCAQHMSEMLCDRSVLALIDGVKLWDMHRPLESDCELQLLHFYDSDPYHSNRTFWRS 283
+P + A + L + ++G +L D +E+D +L ++ D + R S
Sbjct: 19 SPMDVALDIGPGLAKACIAGRVNG-ELVDACDLIENDAQLSIITAKDEEGLEIIR---HS 74
Query: 284 CSIMLGSVLSNAFKDNVEVQLHSFPSPNVKSGSFVYDVQLSGVDNWKPTSAELRVLSAEM 343
C+ +LG + + + ++ + P + +G F YDV L T ++ L M
Sbjct: 75 CAHLLGHAIKQLWP-HTKMAI----GPVIDNG-FYYDVDLDRT----LTQEDVEALEKRM 124
Query: 344 VKLAYEAVPFERLSISQDLAEALFEH--NKYKLEQIPSIVQQSI--DGKVIVYRIKDHID 399
+LA + + +S A F + YK+ SI+ ++I D K +Y ++++D
Sbjct: 125 HELAEKNYDVIKKKVSWHEARETFANRGESYKV----SILDENIAHDDKPGLYFHEEYVD 180
Query: 400 ISRGPMMSN 408
+ RGP + N
Sbjct: 181 MCRGPHVPN 189
>pdb|1QF6|A Chain A, Structure Of E. Coli Threonyl-Trna Synthetase Complexed
With Its Cognate Trna
Length = 642
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 43/189 (22%), Positives = 84/189 (44%), Gaps = 22/189 (11%)
Query: 224 TPYNCAQHMSEMLCDRSVLALIDGVKLWDMHRPLESDCELQLLHFYDSDPYHSNRTFWRS 283
+P + A + L + ++G +L D +E+D +L ++ D + R S
Sbjct: 19 SPMDVALDIGPGLAKACIAGRVNG-ELVDACDLIENDAQLSIITAKDEEGLEIIR---HS 74
Query: 284 CSIMLGSVLSNAFKDNVEVQLHSFPSPNVKSGSFVYDVQLSGVDNWKPTSAELRVLSAEM 343
C+ +LG + + + ++ + P + +G F YDV L T ++ L M
Sbjct: 75 CAHLLGHAIKQLWP-HTKMAI----GPVIDNG-FYYDVDLDRT----LTQEDVEALEKRM 124
Query: 344 VKLAYEAVPFERLSISQDLAEALFEH--NKYKLEQIPSIVQQSI--DGKVIVYRIKDHID 399
+LA + + +S A F + YK+ SI+ ++I D K +Y ++++D
Sbjct: 125 HELAEKNYDVIKKKVSWHEARETFANRGESYKV----SILDENIAHDDKPGLYFHEEYVD 180
Query: 400 ISRGPMMSN 408
+ RGP + N
Sbjct: 181 MCRGPHVPN 189
>pdb|6LDH|A Chain A, Refined Crystal Structure Of Dogfish M4 Apo-Lactate
Dehydrogenase
pdb|8LDH|A Chain A, Refined Crystal Structure Of Dogfish M4 Apo-Lactate
Dehydrogenase
Length = 330
Score = 28.5 bits (62), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 64/156 (41%), Gaps = 30/156 (19%)
Query: 253 MHRPLESDCELQLLHFYDSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNV 312
MHR + S C L F R SCS G V+ H P+V
Sbjct: 156 MHRIIGSGCNLDSARFR---YLMGERLGVHSCSCH-GWVIGE----------HGDSVPSV 201
Query: 313 KSGSFVYDVQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFE-------RLSISQDLAEA 365
SG V ++L +D + + L ++V AYE + + LS++ DLAE
Sbjct: 202 WSGMNVASIKLHPLDGTNKDKQDWKKLHKDVVDSAYEVIKLKGYTSWAIGLSVA-DLAET 260
Query: 366 LFEHNKYKLEQIPSIVQQSIDGKVIVYRIKDHIDIS 401
+ + N ++ + ++V+ Y IKD++ +S
Sbjct: 261 IMK-NLCRVHPVSTMVKD-------FYGIKDNVFLS 288
>pdb|1LDM|A Chain A, Refined Crystal Structure Of Dogfish M4 Apo-Lactate
Dehydrogenase
Length = 329
Score = 28.5 bits (62), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 64/156 (41%), Gaps = 30/156 (19%)
Query: 253 MHRPLESDCELQLLHFYDSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNV 312
MHR + S C L F R SCS G V+ H P+V
Sbjct: 155 MHRIIGSGCNLDSARFR---YLMGERLGVHSCSCH-GWVIGE----------HGDSVPSV 200
Query: 313 KSGSFVYDVQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFE-------RLSISQDLAEA 365
SG V ++L +D + + L ++V AYE + + LS++ DLAE
Sbjct: 201 WSGMNVASIKLHPLDGTNKDKQDWKKLHKDVVDSAYEVIKLKGYTSWAIGLSVA-DLAET 259
Query: 366 LFEHNKYKLEQIPSIVQQSIDGKVIVYRIKDHIDIS 401
+ + N ++ + ++V+ Y IKD++ +S
Sbjct: 260 IMK-NLCRVHPVSTMVKD-------FYGIKDNVFLS 287
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 0.134 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,155,379
Number of Sequences: 62578
Number of extensions: 463335
Number of successful extensions: 1395
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1389
Number of HSP's gapped (non-prelim): 13
length of query: 458
length of database: 14,973,337
effective HSP length: 102
effective length of query: 356
effective length of database: 8,590,381
effective search space: 3058175636
effective search space used: 3058175636
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: 53 (25.0 bits)