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= psy5269
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 22/32 (68%)
Query: 150 KVIHNYGHGGYGVTTAPGTSRYAVQLVTRALD 181
+VIHNYGHGGYG+T G + A +L R L+
Sbjct: 304 EVIHNYGHGGYGLTIHWGCALEAAKLFGRILE 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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 22/32 (68%)
Query: 150 KVIHNYGHGGYGVTTAPGTSRYAVQLVTRALD 181
+VIHNYGHGGYG+T G + A +L R L+
Sbjct: 304 EVIHNYGHGGYGLTIHWGCALEAAKLFGRILE 335
>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 = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 150 KVIHNYGHGGYGVTTAPGTSRYAVQLVTRALD 181
+VIHNYGHGGYG+T G + +L + L+
Sbjct: 304 EVIHNYGHGGYGLTIHWGCALEVAKLFGKVLE 335
>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 = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 150 KVIHNYGHGGYGVTTAPGTSRYAVQLVTRALD 181
+VIHNYGHGGYG+T G + +L + L+
Sbjct: 304 EVIHNYGHGGYGLTIHWGCALEVAKLFGKVLE 335
>pdb|2RE7|A Chain A, Crystal Structure Of A Pyridoxamine 5'-Phosphate Oxidase
Related Protein (Psyc_0186) From Psychrobacter Arcticus
273-4 At 2.50 A Resolution
Length = 134
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 21/41 (51%), Gaps = 6/41 (14%)
Query: 118 VKGTAILPAD------LRSPVYRAAIAGGSEATYQQLLKVI 152
+ G A LP D L SPVY A A G E QL+KV+
Sbjct: 84 ISGDAELPTDKAKLDELWSPVYSAFFANGKEDANIQLIKVV 124
>pdb|1MI6|A Chain A, Docking Of The Modified Rf2 X-Ray Structure Into The Low
Resolution Cryo-Em Map Of Rf2 E.Coli 70s Ribosome
Length = 365
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/18 (72%), Positives = 14/18 (77%)
Query: 123 ILPADLRSPVYRAAIAGG 140
I PADLR VYRA+ AGG
Sbjct: 234 INPADLRIDVYRASGAGG 251
>pdb|1GQE|A Chain A, Polypeptide Chain Release Factor 2 (Rf2) From Escherichia
Coli
Length = 365
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/18 (72%), Positives = 14/18 (77%)
Query: 123 ILPADLRSPVYRAAIAGG 140
I PADLR VYRA+ AGG
Sbjct: 234 INPADLRIDVYRASGAGG 251
>pdb|2VAW|A Chain A, Ftsz Pseudomonas Aeruginosa Gdp
Length = 394
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%)
Query: 98 LGVYGDPDTLTLARAKFEAHVKGTAILPADLRSPVYRAAIAGGSEATYQQLLKVIHN 154
LG Y D + A A VK ++ AD+R ++ +A G A ++ +KV+ N
Sbjct: 273 LGEYSDVGNIIEQFASEHATVKVGTVIDADMRDELHVTVVATGLGARLEKPVKVVDN 329
>pdb|3FQD|A Chain A, Crystal Structure Of The S. Pombe Rat1-Rai1 Complex
Length = 899
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 6/64 (9%)
Query: 66 QILKPAGQSLGWEPKANENHLNTLLRSLIISR----LGVYGDPDTLTLARAKFEAHVKGT 121
Q KP Q LG P A++N+L L++L + Y + T+ L KFE +G
Sbjct: 667 QPFKPYEQLLGVLPAASKNNLPEKLQTLXTDENSEIIDFYPENFTIDLNGKKFEW--QGV 724
Query: 122 AILP 125
A+LP
Sbjct: 725 ALLP 728
>pdb|3N29|A Chain A, Crystal Structure Of Carboxynorspermidine Decarboxylase
Complexed With Norspermidine From Campylobacter Jejuni
pdb|3N29|B Chain B, Crystal Structure Of Carboxynorspermidine Decarboxylase
Complexed With Norspermidine From Campylobacter Jejuni
Length = 418
Score = 27.3 bits (59), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/64 (21%), Positives = 30/64 (46%), Gaps = 11/64 (17%)
Query: 62 QFGVQILKPAGQSLGWEPKANENHLNTLLRSLIISRLGVYGDPDTLTLARAKFEAHVKGT 121
++GVQ+ G+++GW+ +L+ S + + + + + EAH+ T
Sbjct: 261 KYGVQVYLEPGEAVGWQTG-----------NLVASVVDIIENEKQIAILDTSSEAHMPDT 309
Query: 122 AILP 125
I+P
Sbjct: 310 IIMP 313
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 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,886,309
Number of Sequences: 62578
Number of extensions: 236459
Number of successful extensions: 771
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 759
Number of HSP's gapped (non-prelim): 15
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
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: 48 (23.1 bits)