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= 001056
(1171 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 36.6 bits (83), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 49/103 (47%), Gaps = 4/103 (3%)
Query: 1069 SLEELGRPRIDVVVNCSGVFRDLFINQMNLLDRAVKMVAELDEPEEQNYVRKHALEQA-- 1126
S EE+ R DV++NC+GV+ + + LL + ++D P +N++ H LE+
Sbjct: 166 SFEEVARGGADVIINCTGVWAGV-LQPDPLLQPGRGQIIKVDAPWLKNFIITHDLERGIY 224
Query: 1127 -KALGIDVREAATRVFSNASGSYSSNINLAVENSSWNDEKQLQ 1168
I +A T + G+++ N+ N+ W +L+
Sbjct: 225 NSPYIIPGLQAVTLGGTFQVGNWNEINNIQDHNTIWEGCCRLE 267
>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 = 36.2 bits (82), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 49/103 (47%), Gaps = 4/103 (3%)
Query: 1069 SLEELGRPRIDVVVNCSGVFRDLFINQMNLLDRAVKMVAELDEPEEQNYVRKHALEQA-- 1126
S EE+ R DV++NC+GV+ + + LL + ++D P +N++ H LE+
Sbjct: 166 SFEEVARGGADVIINCTGVWAGV-LQPDPLLQPGRGQIIKVDAPWLKNFIITHDLERGIY 224
Query: 1127 -KALGIDVREAATRVFSNASGSYSSNINLAVENSSWNDEKQLQ 1168
I +A T + G+++ N+ N+ W +L+
Sbjct: 225 NSPYIIPGLQAVTLGGTFQVGNWNEINNIQDHNTIWEGCCRLE 267
>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 = 33.1 bits (74), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 1069 SLEELGRPRIDVVVNCSGVFRDLFINQMNLLDRAVKMVAELDEPEEQNYVRKHALEQA 1126
S EE+ R DV+VNC+GV+ + + LL + ++D P ++++ H E+
Sbjct: 166 SFEEVAREGADVIVNCTGVWAGA-LQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERG 222
>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 = 33.1 bits (74), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 1069 SLEELGRPRIDVVVNCSGVFRDLFINQMNLLDRAVKMVAELDEPEEQNYVRKHALEQA 1126
S EE+ R DV+VNC+GV+ + + LL + ++D P ++++ H E+
Sbjct: 166 SFEEVAREGADVIVNCTGVWAGA-LQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERG 222
>pdb|2R79|A Chain A, Crystal Structure Of A Periplasmic Heme Binding Protein
From Pseudomonas Aeruginosa
Length = 283
Score = 31.2 bits (69), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%)
Query: 227 PSDKAQDARLYILSLQFWLGGSPDNLQNFLKMISGSYVPALRGQKIEYADPVLFLDT 283
P+ A+D RL +L +GG L + L +S ++ P+ + E A P+L D+
Sbjct: 223 PTRAARDGRLLVLDPTLLVGGLGPRLPDGLAALSAAFYPSAKPLSTEAAHPLLGDDS 279
>pdb|1V5E|A Chain A, Crystal Structure Of Pyruvate Oxidase Containing Fad, From
Aerococcus Viridans
pdb|2DJI|A Chain A, Crystal Structure Of Pyruvate Oxidase From Aerococcus
Viridans Containing Fad
Length = 590
Score = 29.6 bits (65), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 12/92 (13%)
Query: 40 SKYPLKVKCAVVGNGLFTQTSPEVRRIVPENRDNLPTVKIV-----YVVLEAQYQSALSA 94
+ YP + ++G+G F+ T P+V V R N+P + +V Y ++ +Y+
Sbjct: 427 NTYPDRQVWNIIGDGAFSMTYPDV---VTNVRYNMPVINVVFSNTEYAFIKNKYEDTNKN 483
Query: 95 AVQALNQQVNYA----SYEVVGYLVEELRDVD 122
V+YA + G+ V + D+D
Sbjct: 484 LFGVDFTDVDYAKIAEAQGAKGFTVSRIEDMD 515
>pdb|1V5F|A Chain A, Crystal Structure Of Pyruvate Oxidase Complexed With Fad
And Tpp, From Aerococcus Viridans
pdb|1V5G|A Chain A, Crystal Structure Of The Reaction Intermediate Between
Pyruvate Oxidase Containing Fad And Tpp, And Substrate
Pyruvate
Length = 589
Score = 29.6 bits (65), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 12/92 (13%)
Query: 40 SKYPLKVKCAVVGNGLFTQTSPEVRRIVPENRDNLPTVKIV-----YVVLEAQYQSALSA 94
+ YP + ++G+G F+ T P+V V R N+P + +V Y ++ +Y+
Sbjct: 426 NTYPDRQVWNIIGDGAFSMTYPDV---VTNVRYNMPVINVVFSNTEYAFIKNKYEDTNKN 482
Query: 95 AVQALNQQVNYA----SYEVVGYLVEELRDVD 122
V+YA + G+ V + D+D
Sbjct: 483 LFGVDFTDVDYAKIAEAQGAKGFTVSRIEDMD 514
>pdb|2ZYH|A Chain A, Mutant A. Fulgidus Lipase S136a Complexed With Fatty Acid
Fragment
pdb|2ZYH|B Chain B, Mutant A. Fulgidus Lipase S136a Complexed With Fatty Acid
Fragment
Length = 475
Score = 29.6 bits (65), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 28/48 (58%)
Query: 1041 ESLAQVLWMIGVRPVSDTFGRVNRVEPVSLEELGRPRIDVVVNCSGVF 1088
E+L ++L R + +TF R++RV +L E G ++D+V + G F
Sbjct: 93 ETLDKILSKSRERLIDETFSRLDRVIDEALAESGADKVDLVGHAMGTF 140
>pdb|2ZYR|A Chain A, A. Fulgidus Lipase With Fatty Acid Fragment And Magnesium
pdb|2ZYR|B Chain B, A. Fulgidus Lipase With Fatty Acid Fragment And Magnesium
Length = 484
Score = 29.6 bits (65), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 28/48 (58%)
Query: 1041 ESLAQVLWMIGVRPVSDTFGRVNRVEPVSLEELGRPRIDVVVNCSGVF 1088
E+L ++L R + +TF R++RV +L E G ++D+V + G F
Sbjct: 93 ETLDKILSKSRERLIDETFSRLDRVIDEALAESGADKVDLVGHSMGTF 140
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 0.135 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,142,481
Number of Sequences: 62578
Number of extensions: 1544421
Number of successful extensions: 3695
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 3688
Number of HSP's gapped (non-prelim): 24
length of query: 1171
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1061
effective length of database: 8,089,757
effective search space: 8583232177
effective search space used: 8583232177
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: 57 (26.6 bits)