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= psy5260
(142 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1AN9|A Chain A, D-Amino Acid Oxidase Complex With O-Aminobenzoate
pdb|1AN9|B Chain B, D-Amino Acid Oxidase Complex With O-Aminobenzoate
pdb|1EVI|A Chain A, Three-Dimensional Structure Of The Purple Intermediate Of
Porcine Kidney D-Amino Acid Oxidase
pdb|1EVI|B Chain B, Three-Dimensional Structure Of The Purple Intermediate Of
Porcine Kidney D-Amino Acid Oxidase
Length = 340
Score = 75.9 bits (185), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 51/140 (36%), Positives = 76/140 (54%), Gaps = 14/140 (10%)
Query: 11 LQVWAPWLSHFYYLDYDV--------YIIPHSNGAVTLGGCRHYDSYSRDISRHDTASIL 62
++V APWL +F + +D+ YIIP AVTLGG +++ + D +I
Sbjct: 203 IKVDAPWLKNFI-ITHDLERGIYNSPYIIPGLQ-AVTLGGTFQVGNWNEINNIQDHNTIW 260
Query: 63 ERCYSLLPRLEEAPVLYEWCGLRPHRSLVRVEIEQI----GRLKVIHNYGHGGYGVTTAP 118
E C L P L++A ++ E+ G RP R VR+E EQ+ +VIHNYGHGGYG+T
Sbjct: 261 EGCCRLEPTLKDAKIVGEYTGFRPVRPQVRLEREQLRFGSSNTEVIHNYGHGGYGLTIHW 320
Query: 119 GTSRYAVQLVKQALDPTSSL 138
G + +L + L+ + L
Sbjct: 321 GCALEVAKLFGKVLEERNLL 340
>pdb|1KIF|A Chain A, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|B Chain B, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|C Chain C, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|D Chain D, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|E Chain E, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|F Chain F, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|G Chain G, D-Amino Acid Oxidase From Pig Kidney
pdb|1KIF|H Chain H, D-Amino Acid Oxidase From Pig Kidney
pdb|1DAO|A Chain A, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|B Chain B, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|C Chain C, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|D Chain D, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|E Chain E, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|F Chain F, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|G Chain G, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DAO|H Chain H, Covalent Adduct Of D-Amino Acid Oxidase From Pig Kidney
With 3-Methyl-2-Oxo-Valeric Acid
pdb|1DDO|A Chain A, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|B Chain B, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|C Chain C, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|D Chain D, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|E Chain E, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|F Chain F, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|G Chain G, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1DDO|H Chain H, Reduced D-Amino Acid Oxidase From Pig Kidney In Complex
With Imino-Trp
pdb|1VE9|A Chain A, Porcine Kidney D-amino Acid Oxidase
pdb|1VE9|B Chain B, Porcine Kidney D-amino Acid Oxidase
Length = 347
Score = 75.9 bits (185), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 51/140 (36%), Positives = 76/140 (54%), Gaps = 14/140 (10%)
Query: 11 LQVWAPWLSHFYYLDYDV--------YIIPHSNGAVTLGGCRHYDSYSRDISRHDTASIL 62
++V APWL +F + +D+ YIIP AVTLGG +++ + D +I
Sbjct: 203 IKVDAPWLKNFI-ITHDLERGIYNSPYIIPGLQ-AVTLGGTFQVGNWNEINNIQDHNTIW 260
Query: 63 ERCYSLLPRLEEAPVLYEWCGLRPHRSLVRVEIEQI----GRLKVIHNYGHGGYGVTTAP 118
E C L P L++A ++ E+ G RP R VR+E EQ+ +VIHNYGHGGYG+T
Sbjct: 261 EGCCRLEPTLKDAKIVGEYTGFRPVRPQVRLEREQLRFGSSNTEVIHNYGHGGYGLTIHW 320
Query: 119 GTSRYAVQLVKQALDPTSSL 138
G + +L + L+ + L
Sbjct: 321 GCALEVAKLFGKVLEERNLL 340
>pdb|2DU8|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase
pdb|2DU8|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase
pdb|2DU8|G Chain G, Crystal Structure Of Human D-Amino Acid Oxidase
pdb|2DU8|J Chain J, Crystal Structure Of Human D-Amino Acid Oxidase
pdb|2E48|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase:
Substrate- Free Holoenzyme
pdb|2E48|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase:
Substrate- Free Holoenzyme
pdb|2E48|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase:
Substrate- Free Holoenzyme
pdb|2E48|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase:
Substrate- Free Holoenzyme
pdb|2E49|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase In Complex
With Imino- Serine
pdb|2E49|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase In Complex
With Imino- Serine
pdb|2E49|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase In Complex
With Imino- Serine
pdb|2E49|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase In Complex
With Imino- Serine
pdb|2E4A|A Chain A, Crystal Structure Of Human D-amino Acid Oxidase In Complex
With O-aminobenzoate
pdb|2E4A|B Chain B, Crystal Structure Of Human D-amino Acid Oxidase In Complex
With O-aminobenzoate
pdb|2E4A|C Chain C, Crystal Structure Of Human D-amino Acid Oxidase In Complex
With O-aminobenzoate
pdb|2E4A|D Chain D, Crystal Structure Of Human D-amino Acid Oxidase In Complex
With O-aminobenzoate
pdb|2E82|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase Complexed
With Imino-Dopa
pdb|2E82|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase Complexed
With Imino-Dopa
pdb|2E82|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase Complexed
With Imino-Dopa
pdb|2E82|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase Complexed
With Imino-Dopa
pdb|3CUK|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase: Bound To
An Inhibitor
pdb|3CUK|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase: Bound To
An Inhibitor
pdb|3CUK|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase: Bound To
An Inhibitor
pdb|3CUK|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase: Bound To
An Inhibitor
Length = 347
Score = 75.9 bits (185), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 72/135 (53%), Gaps = 14/135 (10%)
Query: 11 LQVWAPWLSHFYYLDYDV--------YIIPHSNGAVTLGGCRHYDSYSRDISRHDTASIL 62
++V APW+ HF L +D YIIP + VTLGG ++S + D +I
Sbjct: 203 MKVDAPWMKHFI-LTHDPERGIYNSPYIIPGTQ-TVTLGGIFQLGNWSELNNIQDHNTIW 260
Query: 63 ERCYSLLPRLEEAPVLYEWCGLRPHRSLVRVEIEQI----GRLKVIHNYGHGGYGVTTAP 118
E C L P L+ A ++ E G RP R +R+E EQ+ +VIHNYGHGGYG+T
Sbjct: 261 EGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHW 320
Query: 119 GTSRYAVQLVKQALD 133
G + A +L + L+
Sbjct: 321 GCALEAAKLFGRILE 335
>pdb|3G3E|A Chain A, Crystal Structure Of Human D-Amino Acid Oxidase In Complex
With Hydroxyquinolin-2(1h)
pdb|3G3E|B Chain B, Crystal Structure Of Human D-Amino Acid Oxidase In Complex
With Hydroxyquinolin-2(1h)
pdb|3G3E|C Chain C, Crystal Structure Of Human D-Amino Acid Oxidase In Complex
With Hydroxyquinolin-2(1h)
pdb|3G3E|D Chain D, Crystal Structure Of Human D-Amino Acid Oxidase In Complex
With Hydroxyquinolin-2(1h)
Length = 351
Score = 75.5 bits (184), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 72/135 (53%), Gaps = 14/135 (10%)
Query: 11 LQVWAPWLSHFYYLDYDV--------YIIPHSNGAVTLGGCRHYDSYSRDISRHDTASIL 62
++V APW+ HF L +D YIIP + VTLGG ++S + D +I
Sbjct: 203 MKVDAPWMKHFI-LTHDPERGIYNSPYIIPGTQ-TVTLGGIFQLGNWSELNNIQDHNTIW 260
Query: 63 ERCYSLLPRLEEAPVLYEWCGLRPHRSLVRVEIEQI----GRLKVIHNYGHGGYGVTTAP 118
E C L P L+ A ++ E G RP R +R+E EQ+ +VIHNYGHGGYG+T
Sbjct: 261 EGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHW 320
Query: 119 GTSRYAVQLVKQALD 133
G + A +L + L+
Sbjct: 321 GCALEAAKLFGRILE 335
>pdb|3IF9|A Chain A, Crystal Structure Of Glycine Oxidase G51sA54RH244A MUTANT
IN COMPLEX With Inhibitor Glycolate
pdb|3IF9|B Chain B, Crystal Structure Of Glycine Oxidase G51sA54RH244A MUTANT
IN COMPLEX With Inhibitor Glycolate
pdb|3IF9|C Chain C, Crystal Structure Of Glycine Oxidase G51sA54RH244A MUTANT
IN COMPLEX With Inhibitor Glycolate
pdb|3IF9|D Chain D, Crystal Structure Of Glycine Oxidase G51sA54RH244A MUTANT
IN COMPLEX With Inhibitor Glycolate
Length = 382
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 44/104 (42%), Gaps = 7/104 (6%)
Query: 29 YIIPHSNGAVTLGGCRHYDSYSRDISRHDTASILERCYSLLPRLEEAPVLYEWCGLRPHR 88
YI+P +G + +G +S S++++ ++LP ++ V W GLRP
Sbjct: 259 YIVPRKSGRLVVGATMKPGDWSETPDLGGLESVMKKAKTMLPAIQNMKVDRFWAGLRPG- 317
Query: 89 SLVRVEIEQIGR----LKVIHNYGHGGYGVTTAPGTSRYAVQLV 128
+ IGR +++ GH G+ AP T L+
Sbjct: 318 --TKDGKPYIGRHPEDSRILFAAGHFRNGILLAPATGALISDLI 359
>pdb|1RYI|A Chain A, Structure Of Glycine Oxidase With Bound Inhibitor
Glycolate
pdb|1RYI|B Chain B, Structure Of Glycine Oxidase With Bound Inhibitor
Glycolate
pdb|1RYI|C Chain C, Structure Of Glycine Oxidase With Bound Inhibitor
Glycolate
pdb|1RYI|D Chain D, Structure Of Glycine Oxidase With Bound Inhibitor
Glycolate
Length = 382
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 44/104 (42%), Gaps = 7/104 (6%)
Query: 29 YIIPHSNGAVTLGGCRHYDSYSRDISRHDTASILERCYSLLPRLEEAPVLYEWCGLRPHR 88
YI+P +G + +G +S S++++ ++LP ++ V W GLRP
Sbjct: 259 YIVPRKSGRLVVGATMKPGDWSETPDLGGLESVMKKAKTMLPAIQNMKVDRFWAGLRPG- 317
Query: 89 SLVRVEIEQIGR----LKVIHNYGHGGYGVTTAPGTSRYAVQLV 128
+ IGR +++ GH G+ AP T L+
Sbjct: 318 --TKDGKPYIGRHPEDSRILFAAGHFRNGILLAPATGALISDLI 359
>pdb|1C0K|A Chain A, Crystal Structure Analysis Of D-Amino Acid Oxidase In
Complex With L-Lactate
pdb|1C0L|A Chain A, D-Amino Acid Oxidase: Structure Of Substrate Complexes At
Very High Resolution Reveal The Chemical Reacttion
Mechanism Of Flavin Dehydrogenation
pdb|1C0P|A Chain A, D-amino Acic Oxidase In Complex With D-alanine And A
Partially Occupied Biatomic Species
pdb|1C0I|A Chain A, Crystal Structure Of D-Amino Acid Oxidase In Complex With
Two Anthranylate Molecules
Length = 363
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 37/135 (27%), Positives = 49/135 (36%), Gaps = 30/135 (22%)
Query: 28 VYIIPHSNGAVTLGGCRHYDSYSRDISRHDTASILERCYSLLP------RLEEAPVLYEW 81
YIIP G V GG + ++ IL+ C L P +E VL
Sbjct: 224 AYIIPRPGGEVICGGTYGVGDWDLSVNPETVQRILKHCLRLDPTISSDGTIEGIEVLRHN 283
Query: 82 CGLRP-HRSLVRVEIEQI-------------GR----------LKVIHNYGHGGYGVTTA 117
GLRP R RVE E+I GR + ++H YG G +
Sbjct: 284 VGLRPARRGGPRVEAERIVLPLDRTKSPLSLGRGSARAAKEKEVTLVHAYGFSSAGYQQS 343
Query: 118 PGTSRYAVQLVKQAL 132
G + QLV +A
Sbjct: 344 WGAAEDVAQLVDEAF 358
>pdb|1NG3|A Chain A, Complex Of Thio (Glycine Oxidase) With Acetyl-Glycine
pdb|1NG3|B Chain B, Complex Of Thio (Glycine Oxidase) With Acetyl-Glycine
pdb|1NG4|A Chain A, Structure Of Thio (Glycine Oxidase) From Bacillus Subtilis
pdb|1NG4|B Chain B, Structure Of Thio (Glycine Oxidase) From Bacillus Subtilis
Length = 390
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 44/104 (42%), Gaps = 7/104 (6%)
Query: 29 YIIPHSNGAVTLGGCRHYDSYSRDISRHDTASILERCYSLLPRLEEAPVLYEWCGLRPHR 88
YI+P +G + +G +S S++++ ++LP ++ V W GLRP
Sbjct: 267 YIVPRKSGRLVVGATMKPGDWSETPDLGGLESVMKKAKTMLPPIQNMKVDRFWAGLRPG- 325
Query: 89 SLVRVEIEQIGR----LKVIHNYGHGGYGVTTAPGTSRYAVQLV 128
+ IGR +++ GH G+ AP T L+
Sbjct: 326 --TKDGKPYIGRHPEDSRILFAAGHFRNGILLAPATGALISDLI 367
>pdb|2X5D|A Chain A, Crystal Structure Of A Probable Aminotransferase From
Pseudomonas Aeruginosa
pdb|2X5D|B Chain B, Crystal Structure Of A Probable Aminotransferase From
Pseudomonas Aeruginosa
pdb|2X5D|C Chain C, Crystal Structure Of A Probable Aminotransferase From
Pseudomonas Aeruginosa
pdb|2X5D|D Chain D, Crystal Structure Of A Probable Aminotransferase From
Pseudomonas Aeruginosa
Length = 412
Score = 26.9 bits (58), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 18 LSHFYYLDYDVYIIPHSNGAVTLG 41
+SH+Y YDV I P S VT+G
Sbjct: 84 ISHWYRDRYDVQIDPESEAIVTIG 107
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 0.139 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,648,899
Number of Sequences: 62578
Number of extensions: 178052
Number of successful extensions: 342
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 326
Number of HSP's gapped (non-prelim): 9
length of query: 142
length of database: 14,973,337
effective HSP length: 89
effective length of query: 53
effective length of database: 9,403,895
effective search space: 498406435
effective search space used: 498406435
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)