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= psy4101
(82 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NNE|A Chain A, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|B Chain B, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|C Chain C, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|D Chain D, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|E Chain E, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|F Chain F, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|G Chain G, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|H Chain H, Crystal Structure Of Choline Oxidase S101a Mutant
Length = 546
Score = 53.5 bits (127), Expect = 3e-08, Method: Composition-based stats.
Identities = 29/54 (53%), Positives = 38/54 (70%), Gaps = 2/54 (3%)
Query: 6 HRPQASN-VILSAGTIGSPQILMISGIGPKDHLQDMGIPVIHDLR-VGDNLQDH 57
HR A N V+LS G I +P++LM+SGIGP HL + GI V+ D VG++LQDH
Sbjct: 257 HRLTARNEVVLSTGAIDTPKLLMLSGIGPAAHLAEHGIEVLVDSPGVGEHLQDH 310
>pdb|3LJP|A Chain A, Crystal Structure Of Choline Oxidase V464a Mutant
pdb|3LJP|B Chain B, Crystal Structure Of Choline Oxidase V464a Mutant
Length = 546
Score = 53.5 bits (127), Expect = 3e-08, Method: Composition-based stats.
Identities = 29/54 (53%), Positives = 38/54 (70%), Gaps = 2/54 (3%)
Query: 6 HRPQASN-VILSAGTIGSPQILMISGIGPKDHLQDMGIPVIHDLR-VGDNLQDH 57
HR A N V+LS G I +P++LM+SGIGP HL + GI V+ D VG++LQDH
Sbjct: 257 HRLTARNEVVLSTGAIDTPKLLMLSGIGPAAHLAEHGIEVLVDSPGVGEHLQDH 310
>pdb|2JBV|A Chain A, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
pdb|2JBV|B Chain B, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
Length = 546
Score = 53.5 bits (127), Expect = 3e-08, Method: Composition-based stats.
Identities = 29/54 (53%), Positives = 38/54 (70%), Gaps = 2/54 (3%)
Query: 6 HRPQASN-VILSAGTIGSPQILMISGIGPKDHLQDMGIPVIHDLR-VGDNLQDH 57
HR A N V+LS G I +P++LM+SGIGP HL + GI V+ D VG++LQDH
Sbjct: 257 HRLTARNEVVLSTGAIDTPKLLMLSGIGPAAHLAEHGIEVLVDSPGVGEHLQDH 310
>pdb|3T37|A Chain A, Crystal Structure Of Pyridoxine 4-Oxidase From Mesorbium
Loti
Length = 526
Score = 51.2 bits (121), Expect = 2e-07, Method: Composition-based stats.
Identities = 32/73 (43%), Positives = 43/73 (58%), Gaps = 3/73 (4%)
Query: 10 ASNVILSAGTIGSPQILMISGIGPKDHLQDMGIPVIHDL-RVGDNLQDHVGMAGLTFLVD 68
A ++L AG + SP +LM SGIGP D L G+ + D+ +G NLQDH+ AG +
Sbjct: 260 ADQIVLCAGALESPALLMRSGIGPHDVLDAAGVGCLIDMPDIGRNLQDHLLGAGNLYAAR 319
Query: 69 KPVSIVQNRLQVS 81
KPV +RLQ S
Sbjct: 320 KPVP--PSRLQHS 330
>pdb|3GDN|A Chain A, Almond Hydroxynitrile Lyase In Complex With Benzaldehyde
pdb|3GDN|B Chain B, Almond Hydroxynitrile Lyase In Complex With Benzaldehyde
pdb|3GDP|A Chain A, Hydroxynitrile Lyase From Almond, Monoclinic Crystal Form
pdb|3GDP|B Chain B, Hydroxynitrile Lyase From Almond, Monoclinic Crystal Form
Length = 521
Score = 49.7 bits (117), Expect = 5e-07, Method: Composition-based stats.
Identities = 19/33 (57%), Positives = 29/33 (87%)
Query: 13 VILSAGTIGSPQILMISGIGPKDHLQDMGIPVI 45
VI+SAGTIG+PQ+L++SG+GP+ +L + IPV+
Sbjct: 253 VIVSAGTIGTPQLLLLSGVGPESYLSSLNIPVV 285
>pdb|1JU2|A Chain A, Crystal Structure Of The Hydroxynitrile Lyase From Almond
pdb|1JU2|B Chain B, Crystal Structure Of The Hydroxynitrile Lyase From Almond
Length = 536
Score = 49.3 bits (116), Expect = 5e-07, Method: Composition-based stats.
Identities = 19/33 (57%), Positives = 29/33 (87%)
Query: 13 VILSAGTIGSPQILMISGIGPKDHLQDMGIPVI 45
VI+SAGTIG+PQ+L++SG+GP+ +L + IPV+
Sbjct: 253 VIVSAGTIGTPQLLLLSGVGPESYLSSLNIPVV 285
>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 = 48.1 bits (113), Expect = 1e-06, Method: Composition-based stats.
Identities = 26/49 (53%), Positives = 31/49 (63%), Gaps = 1/49 (2%)
Query: 13 VILSAGTIGSPQILMISGIGPKDHLQDMGIPVIHDLR-VGDNLQDHVGM 60
VILS G +P++LM+SGIGP L GI I D R VG NL DH G+
Sbjct: 262 VILSQGVFETPKLLMLSGIGPTRELSRHGINTIVDSRHVGQNLMDHPGV 310
>pdb|3RED|A Chain A, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|B Chain B, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|C Chain C, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|D Chain D, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|E Chain E, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|F Chain F, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|G Chain G, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|H Chain H, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|I Chain I, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|J Chain J, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|K Chain K, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
pdb|3RED|L Chain L, 3.0 A Structure Of The Prunus Mume Hydroxynitrile Lyase
Isozyme-1
Length = 521
Score = 47.8 bits (112), Expect = 1e-06, Method: Composition-based stats.
Identities = 19/33 (57%), Positives = 28/33 (84%)
Query: 13 VILSAGTIGSPQILMISGIGPKDHLQDMGIPVI 45
VI+SAG IGSPQ+L++SG+GP+ +L + IPV+
Sbjct: 254 VIVSAGPIGSPQLLLLSGVGPESYLSSLNIPVV 286
>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 = 44.7 bits (104), Expect = 1e-05, Method: Composition-based stats.
Identities = 24/45 (53%), Positives = 30/45 (66%)
Query: 13 VILSAGTIGSPQILMISGIGPKDHLQDMGIPVIHDLRVGDNLQDH 57
V+L+AG+ SP IL SGIG K L+ +GI + DL VG NLQD
Sbjct: 285 VLLAAGSAVSPTILEYSGIGMKSILEPLGIDTVVDLPVGLNLQDQ 329
>pdb|3FIM|B Chain B, Crystal Structure Of Aryl-Alcohol-Oxidase From Pleurotus
Eryingii
Length = 566
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 38/55 (69%), Gaps = 1/55 (1%)
Query: 13 VILSAGTIGSPQILMISGIGPKDHLQDMGI-PVIHDLRVGDNLQDHVGMAGLTFL 66
V+LSAG++G+P +L +SGIG ++ L +GI ++++ VG NL DH+ + F+
Sbjct: 268 VVLSAGSVGTPILLQLSGIGDENDLSSVGIDTIVNNPSVGRNLSDHLLLPAAFFV 322
>pdb|1GPE|A Chain A, Glucose Oxidase From Penicillium Amagasakiense
pdb|1GPE|B Chain B, Glucose Oxidase From Penicillium Amagasakiense
Length = 587
Score = 37.7 bits (86), Expect = 0.002, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 27/45 (60%)
Query: 13 VILSAGTIGSPQILMISGIGPKDHLQDMGIPVIHDLRVGDNLQDH 57
V+L+AG+ SP IL SGIG K L + + DL VG N+QD
Sbjct: 289 VLLAAGSAISPLILEYSGIGLKSVLDQANVTQLLDLPVGINMQDQ 333
>pdb|1NAA|A Chain A, Cellobiose Dehydrogenase Flavoprotein Fragment In Complex
With Cellobionolactam
pdb|1NAA|B Chain B, Cellobiose Dehydrogenase Flavoprotein Fragment In Complex
With Cellobionolactam
Length = 541
Score = 34.7 bits (78), Expect = 0.015, Method: Composition-based stats.
Identities = 16/26 (61%), Positives = 19/26 (73%)
Query: 13 VILSAGTIGSPQILMISGIGPKDHLQ 38
VILSAG G+ +IL SGIGP D +Q
Sbjct: 248 VILSAGAFGTSRILFQSGIGPTDMIQ 273
>pdb|1KDG|A Chain A, Crystal Structure Of The Flavin Domain Of Cellobiose
Dehydrogenase
pdb|1KDG|B Chain B, Crystal Structure Of The Flavin Domain Of Cellobiose
Dehydrogenase
Length = 546
Score = 34.7 bits (78), Expect = 0.015, Method: Composition-based stats.
Identities = 16/26 (61%), Positives = 19/26 (73%)
Query: 13 VILSAGTIGSPQILMISGIGPKDHLQ 38
VILSAG G+ +IL SGIGP D +Q
Sbjct: 253 VILSAGAFGTSRILFQSGIGPTDMIQ 278
>pdb|1DKR|A Chain A, Crystal Structures Of Bacillus Subtilis
Phosphoribosylpyrophosphate Synthetase: Molecular Basis
Of Allosteric Inhibition And Activation.
pdb|1DKR|B Chain B, Crystal Structures Of Bacillus Subtilis
Phosphoribosylpyrophosphate Synthetase: Molecular Basis
Of Allosteric Inhibition And Activation.
pdb|1DKU|A Chain A, Crystal Structures Of Bacillus Subtilis
Phosphoribosylpyrophosphate Synthetase: Molecular Basis
Of Allosteric Inhibition And Activation.
pdb|1DKU|B Chain B, Crystal Structures Of Bacillus Subtilis
Phosphoribosylpyrophosphate Synthetase: Molecular Basis
Of Allosteric Inhibition And Activation.
pdb|1IBS|A Chain A, Phosphoribosyldiphosphate Synthetase In Complex With
Cadmium Ions
pdb|1IBS|B Chain B, Phosphoribosyldiphosphate Synthetase In Complex With
Cadmium Ions
Length = 317
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 13/66 (19%)
Query: 22 SPQILMISGIGPKDHLQDMGIPVIHDLRVGDNLQ-------DHVGMAGLTFLVDK---PV 71
+PQI I P DHL MG+P++ + G NL+ DH G+ L D+ P+
Sbjct: 137 APQIQGFFDI-PIDHL--MGVPILGEYFEGKNLEDIVIVSPDHGGVTRARKLADRLKAPI 193
Query: 72 SIVQNR 77
+I+ R
Sbjct: 194 AIIDKR 199
>pdb|1C4X|A Chain A, 2-Hydroxy-6-Oxo-6-Phenylhexa-2,4-Dienoate Hydrolase
(Bphd) From Rhodococcus Sp. Strain Rha1
Length = 285
Score = 26.2 bits (56), Expect = 4.3, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 15 LSAGTIGSPQILMISGIGPKDHLQDMGIPVIHDL 48
L AG SP ++++ G GP H P+I DL
Sbjct: 22 LVAGDPQSPAVVLLHGAGPGAHAASNWRPIIPDL 55
>pdb|1VMK|A Chain A, Crystal Structure Of Purine Nucleoside Phosphorylase
(Tm1596) From Thermotoga Maritima At 2.01 A Resolution
pdb|1VMK|B Chain B, Crystal Structure Of Purine Nucleoside Phosphorylase
(Tm1596) From Thermotoga Maritima At 2.01 A Resolution
pdb|1VMK|C Chain C, Crystal Structure Of Purine Nucleoside Phosphorylase
(Tm1596) From Thermotoga Maritima At 2.01 A Resolution
Length = 277
Score = 25.8 bits (55), Expect = 5.6, Method: Composition-based stats.
Identities = 21/77 (27%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 9 QASNVILSAGTIGSPQILMISGIGPKDHLQDMGIPVIHDLR-----VGDNLQDHVGMAGL 63
+ + +S T SP IL+I G G ++ + PVI D + ++ H G
Sbjct: 18 EEARTFISERTNLSPDILIILGSGFGPFIEKVEDPVIIDYKDIPHFPQPTVEGHSGKLVF 77
Query: 64 TFLVDKPVSIVQNRLQV 80
+ DKPV I+ R +
Sbjct: 78 GRISDKPVMIMAGRFHL 94
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
0.323 0.141 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,214,973
Number of Sequences: 62578
Number of extensions: 77740
Number of successful extensions: 202
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 186
Number of HSP's gapped (non-prelim): 16
length of query: 82
length of database: 14,973,337
effective HSP length: 51
effective length of query: 31
effective length of database: 11,781,859
effective search space: 365237629
effective search space used: 365237629
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)