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= 039605
(352 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RP0|A Chain A, Crystal Structure Of Thi1 Protein From Arabidopsis
Thaliana
pdb|1RP0|B Chain B, Crystal Structure Of Thi1 Protein From Arabidopsis
Thaliana
Length = 284
Score = 429 bits (1102), Expect = e-120, Method: Compositional matrix adjust.
Identities = 213/276 (77%), Positives = 228/276 (82%), Gaps = 20/276 (7%)
Query: 75 DLDAFKFDAIKESIVSRETTRRYMTDMITHADTDXXXXGAGSAGLSCAYEISKNPNVQVA 134
DL+AF FD IKESIVSRE TRRYMTDMIT+A+TD GAGSAGLS AYEISKNPNVQVA
Sbjct: 8 DLNAFTFDPIKESIVSREMTRRYMTDMITYAETDVVVVGAGSAGLSAAYEISKNPNVQVA 67
Query: 135 IIEQXXX--------XXXXXXXXXRKPAHLFLDELGIDYDEQDNYVVIKHAALFTSTIMS 186
IIEQ RKPAHLFLDE+G+ YDEQD YVV+KHAALFTSTIMS
Sbjct: 68 IIEQSVSPGGGAWLGGQLFSAMIVRKPAHLFLDEIGVAYDEQDTYVVVKHAALFTSTIMS 127
Query: 187 KLLARPNVKLFNAVAAEDLIVKGNRVGGIVTNWALVSMNHDSQSCMDPNVMEAKVVVSSC 246
KLLARPNVKLFNAVAAEDLIVKGNRVGG+VTNWALV+ NH +QSCMDPNVMEAK+VVSSC
Sbjct: 128 KLLARPNVKLFNAVAAEDLIVKGNRVGGVVTNWALVAQNHHTQSCMDPNVMEAKIVVSSC 187
Query: 247 GHDGPFGATGVR------------GMKALDMNTAEDAIVKLTREIVPGMIVAGMEVAEID 294
GHDGPFGATGV+ GMKALDMNTAEDAIV+LTRE+VPGMIV GMEVAEID
Sbjct: 188 GHDGPFGATGVKRLKSIGMIDHVPGMKALDMNTAEDAIVRLTREVVPGMIVTGMEVAEID 247
Query: 295 GAPRMGPTFGAMMISGQKAAHLALKSLGQPNAMDGT 330
GAPRMGPTFGAMMISGQKA LALK+LG PNA+DGT
Sbjct: 248 GAPRMGPTFGAMMISGQKAGQLALKALGLPNAIDGT 283
>pdb|3JSK|A Chain A, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|B Chain B, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|C Chain C, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|D Chain D, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|E Chain E, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|F Chain F, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|G Chain G, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|H Chain H, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|I Chain I, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|J Chain J, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|K Chain K, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|L Chain L, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|M Chain M, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|N Chain N, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|O Chain O, Thiazole Synthase From Neurospora Crassa
pdb|3JSK|P Chain P, Thiazole Synthase From Neurospora Crassa
Length = 344
Score = 277 bits (709), Expect = 5e-75, Method: Compositional matrix adjust.
Identities = 144/283 (50%), Positives = 182/283 (64%), Gaps = 40/283 (14%)
Query: 77 DAFKFDAIKESIVSRETTRRYMTDMITHADTDXXXXGAGSAGLSCAYEISK-NPNVQVAI 135
DAF F I+ES VSR TRRY D+ HA+TD GAGS GLS AY +S P++++ I
Sbjct: 50 DAFTFSPIRESTVSRAMTRRYFADLDAHAETDIVIVGAGSCGLSAAYVLSTLRPDLRITI 109
Query: 136 IEQXXX--------XXXXXXXXXRKPAHLFLDELGIDYDEQDNYVVIKHAALFTSTIMSK 187
+E RKPA +FLDE+G+ Y+++ +YVV+KHAALFTST++SK
Sbjct: 110 VEAGVAPGGGAWLGGQLFSAMVMRKPADVFLDEVGVPYEDEGDYVVVKHAALFTSTVLSK 169
Query: 188 LLARPNVKLFNAVAAEDLIVKGN-------------------RVGGIVTNWALVSMNHDS 228
+L RPNVKLFNA EDLI + + R+ G+VTNW LVSM+HD
Sbjct: 170 VLQRPNVKLFNATTVEDLITRKHHAESSSSSDDGEAEDEAKVRIAGVVTNWTLVSMHHDD 229
Query: 229 QSCMDPNVMEAKVVVSSCGHDGPFGATGVR------------GMKALDMNTAEDAIVKLT 276
QS MDPN + A V++S+ GHDGPFGA V+ GM+ LDM +AEDAIV T
Sbjct: 230 QSXMDPNTINAPVIISTTGHDGPFGAFSVKRLVSMKQMERLNGMRGLDMQSAEDAIVNNT 289
Query: 277 REIVPGMIVAGMEVAEIDGAPRMGPTFGAMMISGQKAAHLALK 319
REIVPG+IV GME++EIDGA RMGPTFGAM +SG KAAH A++
Sbjct: 290 REIVPGLIVGGMELSEIDGANRMGPTFGAMALSGVKAAHEAIR 332
>pdb|3FPZ|A Chain A, Saccharomyces Cerevisiae Thi4p Is A Suicide Thiamin
Thiazole Synthase
pdb|3FPZ|B Chain B, Saccharomyces Cerevisiae Thi4p Is A Suicide Thiamin
Thiazole Synthase
Length = 326
Score = 218 bits (556), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 134/291 (46%), Positives = 163/291 (56%), Gaps = 44/291 (15%)
Query: 75 DLDAFKFDAIKESIVSRETTRRYMTDMITHADTDXXXXGAGSAGLSCAYEISKN-PNVQV 133
D FKF I+ES VSR T RY D+ A +D GAGS+GLS AY I+KN P+++V
Sbjct: 34 DWSDFKFAPIRESTVSRAMTSRYFKDLDKFAVSDVIIVGAGSSGLSAAYVIAKNRPDLKV 93
Query: 134 AIIEQXXX--------XXXXXXXXXRKPAHLFLDELGIDYDEQDNYVVIKHAALFTSTIM 185
IIE RKPAHLFL EL I Y+++ +YVV+KHAALF ST++
Sbjct: 94 CIIESSVAPGGGSWLGGQLFSAMVMRKPAHLFLQELEIPYEDEGDYVVVKHAALFISTVL 153
Query: 186 SKLLARPNVKLFNAVAAEDLIV-----KGN-RVGGIVTNWALVSMNHDSQSCMDPNVMEA 239
SK+L PNVKLFNA EDL+ KG V G+VTNW LV+ H +Q MDPNV+E
Sbjct: 154 SKVLQLPNVKLFNATCVEDLVTRPPTEKGEVTVAGVVTNWTLVTQAHGTQCXMDPNVIEL 213
Query: 240 K---------------VVVSSCGHDGPFGATGVR------------GMKALDMNTAEDAI 272
V++S+ GHDGPFGA + GMK LDMN AE +
Sbjct: 214 AGYKNDGTRDLSQKHGVILSTTGHDGPFGAFCAKRIVDIDQNQKLGGMKGLDMNHAEHDV 273
Query: 273 VKLTREI--VPGMIVAGMEVAEIDGAPRMGPTFGAMMISGQKAAHLALKSL 321
V + V M AGMEVAE+DG RMGPTFGAM +SG AA LK
Sbjct: 274 VIHSGAYAGVDNMYFAGMEVAELDGLNRMGPTFGAMALSGVHAAEQILKHF 324
>pdb|3G05|A Chain A, Crystal Structure Of N-Terminal Domain (2-550) Of E.Coli
Mnmg
pdb|3G05|B Chain B, Crystal Structure Of N-Terminal Domain (2-550) Of E.Coli
Mnmg
Length = 576
Score = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 179 LFTSTIMSKLLARPNVKLFNAVAAEDLIVKGNRVGGIVTNWAL 221
L+ + + L +PN+ +F A EDLIV+ +RV G VT L
Sbjct: 129 LYRQAVRTALENQPNLMIFQQ-AVEDLIVENDRVVGAVTQMGL 170
>pdb|1W8J|A Chain A, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
pdb|1W8J|B Chain B, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
pdb|1W8J|C Chain C, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
pdb|1W8J|D Chain D, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
Length = 766
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 27/126 (21%), Positives = 52/126 (41%), Gaps = 22/126 (17%)
Query: 153 PAHLFLDELGIDYDEQDNYVVIKHAALFTSTIMSKLLARPNVKLFNAVAAEDLIVKGNRV 212
P +F D +G+DY+E +++ + A T T + +P KL +A+ A D + K +
Sbjct: 356 PLTIFCDLMGVDYEEMAHWLCHRKLATATETYI-----KPISKL-HAINARDALAK--HI 407
Query: 213 GGIVTNWALVSMNHDSQSCMDPNVMEAKVVVSSCGHDGPFGATGVRGMKALDMNTAEDAI 272
+ NW + +N K + S+ G + G + ++N+ E
Sbjct: 408 YANLFNWIVDHVN--------------KALHSTVKQHSFIGVLDIYGFETFEINSFEQFC 453
Query: 273 VKLTRE 278
+ E
Sbjct: 454 INYANE 459
>pdb|1OE9|A Chain A, Crystal Structure Of Myosin V Motor With Essential Light
Chain - Nucleotide-Free
pdb|1W7I|A Chain A, Crystal Structure Of Myosin V Motor Without Nucleotide
Soaked In 10 Mm Mgadp
pdb|1W7J|A Chain A, Crystal Structure Of Myosin V Motor With Essential Light
Chain + Adp-Befx - Near Rigor
Length = 795
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 27/126 (21%), Positives = 52/126 (41%), Gaps = 22/126 (17%)
Query: 153 PAHLFLDELGIDYDEQDNYVVIKHAALFTSTIMSKLLARPNVKLFNAVAAEDLIVKGNRV 212
P +F D +G+DY+E +++ + A T T + +P KL +A+ A D + K +
Sbjct: 356 PLTIFCDLMGVDYEEMAHWLCHRKLATATETYI-----KPISKL-HAINARDALAK--HI 407
Query: 213 GGIVTNWALVSMNHDSQSCMDPNVMEAKVVVSSCGHDGPFGATGVRGMKALDMNTAEDAI 272
+ NW + +N K + S+ G + G + ++N+ E
Sbjct: 408 YANLFNWIVDHVN--------------KALHSTVKQHSFIGVLDIYGFETFEINSFEQFC 453
Query: 273 VKLTRE 278
+ E
Sbjct: 454 INYANE 459
>pdb|3CES|A Chain A, Crystal Structure Of E.Coli Mnmg (Gida), A
Highly-Conserved Trna Modifying Enzyme
pdb|3CES|B Chain B, Crystal Structure Of E.Coli Mnmg (Gida), A
Highly-Conserved Trna Modifying Enzyme
pdb|3CES|C Chain C, Crystal Structure Of E.Coli Mnmg (Gida), A
Highly-Conserved Trna Modifying Enzyme
pdb|3CES|D Chain D, Crystal Structure Of E.Coli Mnmg (Gida), A
Highly-Conserved Trna Modifying Enzyme
Length = 651
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 179 LFTSTIMSKLLARPNVKLFNAVAAEDLIVKGNRVGGIVTNWAL 221
L+ + + L +PN+ +F A EDLIV+ +RV G VT L
Sbjct: 125 LYRQAVRTALENQPNLMIFQQ-AVEDLIVENDRVVGAVTQMGL 166
>pdb|3CP2|A Chain A, Crystal Structure Of Gida From E. Coli
Length = 649
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 179 LFTSTIMSKLLARPNVKLFNAVAAEDLIVKGNRVGGIVTNWAL 221
L+ + + L +PN+ +F A EDLIV+ +RV G VT L
Sbjct: 123 LYRQAVRTALENQPNLMIFQQ-AVEDLIVENDRVVGAVTQMGL 164
>pdb|1CF3|A Chain A, Glucose Oxidase From Apergillus Niger
pdb|1GAL|A Chain A, Crystal Structure Of Glucose Oxidase From Aspergillus
Niger: Refined At 2.3 Angstroms Resolution
pdb|3QVP|A Chain A, Crystal Structure Of Glucose Oxidase For Space Group C2221
At 1.2 A Resolution
pdb|3QVR|A Chain A, Crystal Structure Of Glucose Oxidase For Space Group P3121
At 1.3 A Resolution
Length = 583
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 108 DXXXXGAGSAGLSCAYEISKNPNVQVAIIE 137
D G G GL+ A +++NPN+ V +IE
Sbjct: 21 DYIIAGGGLTGLTTAARLTENPNISVLVIE 50
>pdb|2DFS|A Chain A, 3-D Structure Of Myosin-V Inhibited State
pdb|2DFS|M Chain M, 3-D Structure Of Myosin-V Inhibited State
Length = 1080
Score = 29.3 bits (64), Expect = 3.5, Method: Composition-based stats.
Identities = 27/126 (21%), Positives = 52/126 (41%), Gaps = 22/126 (17%)
Query: 153 PAHLFLDELGIDYDEQDNYVVIKHAALFTSTIMSKLLARPNVKLFNAVAAEDLIVKGNRV 212
P +F D +G+DY+E +++ + A T T + +P KL +A+ A D + K +
Sbjct: 356 PLTIFCDLMGVDYEEMAHWLCHRKLATATETYI-----KPISKL-HAINARDALAK--HI 407
Query: 213 GGIVTNWALVSMNHDSQSCMDPNVMEAKVVVSSCGHDGPFGATGVRGMKALDMNTAEDAI 272
+ NW + +N K + S+ G + G + ++N+ E
Sbjct: 408 YANLFNWIVDHVN--------------KALHSTVKQHSFIGVLDIYGFETFEINSFEQFC 453
Query: 273 VKLTRE 278
+ E
Sbjct: 454 INYANE 459
>pdb|3Q9T|A Chain A, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|B Chain B, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|C Chain C, Crystal Structure Analysis Of Formate Oxidase
Length = 577
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 108 DXXXXGAGSAGLSCAYEISKNPNVQVAIIE 137
D G G+AG + A +++NPNV V I+E
Sbjct: 8 DFVIVGGGTAGNTVAGRLAENPNVTVLIVE 37
>pdb|1GPE|A Chain A, Glucose Oxidase From Penicillium Amagasakiense
pdb|1GPE|B Chain B, Glucose Oxidase From Penicillium Amagasakiense
Length = 587
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 108 DXXXXGAGSAGLSCAYEISKNPNVQVAIIEQ 138
D G G GL+ A ++++NP ++V +IE+
Sbjct: 26 DYIIAGGGLTGLTVAAKLTENPKIKVLVIEK 56
>pdb|2DKH|A Chain A, Crystal Structure Of 3-Hydroxybenzoate Hydroxylase From
Comamonas Testosteroni, In Complex With The Substrate
pdb|2DKI|A Chain A, Crystal Structure Of 3-Hydroxybenzoate Hydroxylase From
Comamonas Testosteroni, Under Pressure Of Xenon Gas (12
Atm)
Length = 639
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 20/34 (58%)
Query: 105 ADTDXXXXGAGSAGLSCAYEISKNPNVQVAIIEQ 138
+ D G G AGL+ A +++ P+++ I+EQ
Sbjct: 31 SQVDVLIVGCGPAGLTLAAQLAAFPDIRTCIVEQ 64
>pdb|3FIM|B Chain B, Crystal Structure Of Aryl-Alcohol-Oxidase From Pleurotus
Eryingii
Length = 566
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 105 ADTDXXXXGAGSAGLSCAYEISKNPNVQVAIIE 137
AD D GAG+AG A ++++P+V V ++E
Sbjct: 1 ADFDYVVVGAGNAGNVVAARLTEDPDVSVLVLE 33
>pdb|1WPM|A Chain A, Structure Of Bacillus Subtilis Inorganic Pyrophosphatase
pdb|1WPM|B Chain B, Structure Of Bacillus Subtilis Inorganic Pyrophosphatase
pdb|2HAW|A Chain A, Crystal Structure Of Family Ii Inorganic Pyrophosphatase
In Complex With Pnp
pdb|2HAW|B Chain B, Crystal Structure Of Family Ii Inorganic Pyrophosphatase
In Complex With Pnp
Length = 309
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 14/115 (12%)
Query: 181 TSTIMSKLLARPNVKLFNAVAAEDLIVKGNRVGGIVTNWALVSMNHDSQSCMDPNVMEAK 240
T+TI++K+ NVK+ +A G + I+++ S+ S +C D +V AK
Sbjct: 119 TATILNKMYKENNVKIEKEIA-------GLMLSAIISD----SLLFKSPTCTDQDVAAAK 167
Query: 241 VVVSSCGHDG-PFGATGVRGMKALDMNTAEDAIVKLTREIVPGMIVAGMEVAEID 294
+ G D +G ++ L T E+ I +E G +E+A+++
Sbjct: 168 ELAEIAGVDAEEYGLNMLKAGADLSKKTVEELISLDAKEFTLGS--KKVEIAQVN 220
>pdb|2IW4|A Chain A, Crystal Structure Of Basillus Subtilis Family Ii Inorganic
Pyrophosphatase Mutant, H98q, In Complex With Pnp
pdb|2IW4|B Chain B, Crystal Structure Of Basillus Subtilis Family Ii Inorganic
Pyrophosphatase Mutant, H98q, In Complex With Pnp
Length = 309
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 14/115 (12%)
Query: 181 TSTIMSKLLARPNVKLFNAVAAEDLIVKGNRVGGIVTNWALVSMNHDSQSCMDPNVMEAK 240
T+TI++K+ NVK+ +A G + I+++ S+ S +C D +V AK
Sbjct: 119 TATILNKMYKENNVKIEKEIA-------GLMLSAIISD----SLLFKSPTCTDQDVAAAK 167
Query: 241 VVVSSCGHDG-PFGATGVRGMKALDMNTAEDAIVKLTREIVPGMIVAGMEVAEID 294
+ G D +G ++ L T E+ I +E G +E+A+++
Sbjct: 168 ELAEIAGVDAEEYGLNMLKAGADLSKKTVEELISLDAKEFTLGS--KKVEIAQVN 220
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
0.317 0.132 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,404,881
Number of Sequences: 62578
Number of extensions: 294172
Number of successful extensions: 668
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 646
Number of HSP's gapped (non-prelim): 20
length of query: 352
length of database: 14,973,337
effective HSP length: 100
effective length of query: 252
effective length of database: 8,715,537
effective search space: 2196315324
effective search space used: 2196315324
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: 52 (24.6 bits)