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= psy1702
(200 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 = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 49/142 (34%), Positives = 68/142 (47%), Gaps = 10/142 (7%)
Query: 33 GGKVIEKYISSFSELG-SEYNTIFNCTGLGARTLCNDMHVIPVRGQTIRIKAPHITNFY- 90
G K + + SF E+ + I NCTG+ A L D + P RGQ I++ AP + NF
Sbjct: 156 GVKFFLRKVESFEEVARGGADVIINCTGVWAGVLQPDPLLQPGRGQIIKVDAPWLKNFII 215
Query: 91 -----KNEYDT-YIIPNGFDSLVTLGGTQNFGHVNRCVESTDTESILARTEELLPGVGAC 144
+ Y++ YIIP G + VTLGGT G+ N D +I L P +
Sbjct: 216 THDLERGIYNSPYIIP-GLQA-VTLGGTFQVGNWNEINNIQDHNTIWEGCCRLEPTLKDA 273
Query: 145 GGGQCWVGLRPHRYRVRVECEQ 166
+ G RP R +VR+E EQ
Sbjct: 274 KIVGEYTGFRPVRPQVRLEREQ 295
>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 = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 49/142 (34%), Positives = 68/142 (47%), Gaps = 10/142 (7%)
Query: 33 GGKVIEKYISSFSELG-SEYNTIFNCTGLGARTLCNDMHVIPVRGQTIRIKAPHITNFY- 90
G K + + SF E+ + I NCTG+ A L D + P RGQ I++ AP + NF
Sbjct: 156 GVKFFLRKVESFEEVARGGADVIINCTGVWAGVLQPDPLLQPGRGQIIKVDAPWLKNFII 215
Query: 91 -----KNEYDT-YIIPNGFDSLVTLGGTQNFGHVNRCVESTDTESILARTEELLPGVGAC 144
+ Y++ YIIP G + VTLGGT G+ N D +I L P +
Sbjct: 216 THDLERGIYNSPYIIP-GLQA-VTLGGTFQVGNWNEINNIQDHNTIWEGCCRLEPTLKDA 273
Query: 145 GGGQCWVGLRPHRYRVRVECEQ 166
+ G RP R +VR+E EQ
Sbjct: 274 KIVGEYTGFRPVRPQVRLEREQ 295
>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 = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 46/145 (31%), Positives = 67/145 (46%), Gaps = 16/145 (11%)
Query: 33 GGKVIEKYISSFSELGSE-YNTIFNCTGLGARTLCNDMHVIPVRGQTIRIKAPHITNFY- 90
G K ++ + SF E+ E + I NCTG+ A L D + P RGQ +++ AP + +F
Sbjct: 156 GVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFIL 215
Query: 91 -----KNEYDT-YIIPNGFDSLVTLGGTQNFGHVNRCVESTDTESILA---RTEELLPGV 141
+ Y++ YIIP VTLGG G+ + D +I R E L
Sbjct: 216 THDPERGIYNSPYIIPG--TQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNA 273
Query: 142 GACGGGQCWVGLRPHRYRVRVECEQ 166
G G RP R ++R+E EQ
Sbjct: 274 RIIGER---TGFRPVRPQIRLEREQ 295
>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 = 53.5 bits (127), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 46/145 (31%), Positives = 67/145 (46%), Gaps = 16/145 (11%)
Query: 33 GGKVIEKYISSFSELGSE-YNTIFNCTGLGARTLCNDMHVIPVRGQTIRIKAPHITNFY- 90
G K ++ + SF E+ E + I NCTG+ A L D + P RGQ +++ AP + +F
Sbjct: 156 GVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFIL 215
Query: 91 -----KNEYDT-YIIPNGFDSLVTLGGTQNFGHVNRCVESTDTESILA---RTEELLPGV 141
+ Y++ YIIP VTLGG G+ + D +I R E L
Sbjct: 216 THDPERGIYNSPYIIPG--TQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNA 273
Query: 142 GACGGGQCWVGLRPHRYRVRVECEQ 166
G G RP R ++R+E EQ
Sbjct: 274 RIIGER---TGFRPVRPQIRLEREQ 295
>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 = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 40/146 (27%), Positives = 63/146 (43%), Gaps = 13/146 (8%)
Query: 33 GGKVIEKYISSFSELGSEYNTIFNCTGLGARTLC--NDMHVIPVRGQTIRIKAP---HIT 87
G + ++S + + + N TGLGA+++ +D P+RGQT+ +K+P
Sbjct: 156 GATFERRTVTSLEQAFDGADLVVNATGLGAKSIAGIDDQAAEPIRGQTVLVKSPCKRCTM 215
Query: 88 NFYKNEYDTYIIPNGFDSLVTLGGTQNFGHVNRCVESTDTESILARTEELLPGVGACGGG 147
+ YIIP ++ GGT G + V + IL L P + + G
Sbjct: 216 DSSDPASPAYIIPRPGGEVIC-GGTYGVGDWDLSVNPETVQRILKHCLRLDPTISSDGTI 274
Query: 148 QCW------VGLRPHRY-RVRVECEQ 166
+ VGLRP R RVE E+
Sbjct: 275 EGIEVLRHNVGLRPARRGGPRVEAER 300
>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 = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 45/101 (44%), Gaps = 6/101 (5%)
Query: 58 TGLGARTLCNDMHVIPVRGQTIRI---KAPHITNFYKNEYDTYIIPNGFDSLVTLGGTQN 114
+G+ + L + +PV+G+ + + P Y + YI+P LV +G T
Sbjct: 219 SGMFFKQLGLNNAFLPVKGECLSVWNDDIPLTKTLYHDH--CYIVPRKSGRLV-VGATMK 275
Query: 115 FGHVNRCVESTDTESILARTEELLPGVGACGGGQCWVGLRP 155
G + + ES++ + + +LP + + W GLRP
Sbjct: 276 PGDWSETPDLGGLESVMKKAKTMLPAIQNMKVDRFWAGLRP 316
>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 = 35.0 bits (79), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 45/101 (44%), Gaps = 6/101 (5%)
Query: 58 TGLGARTLCNDMHVIPVRGQTIRI---KAPHITNFYKNEYDTYIIPNGFDSLVTLGGTQN 114
+G+ + L + +PV+G+ + + P Y + YI+P LV +G T
Sbjct: 219 SGMFFKQLGLNNAFLPVKGECLSVWNDDIPLTKTLYHDA--CYIVPRKSGRLV-VGATMK 275
Query: 115 FGHVNRCVESTDTESILARTEELLPGVGACGGGQCWVGLRP 155
G + + ES++ + + +LP + + W GLRP
Sbjct: 276 PGDWSETPDLGGLESVMKKAKTMLPAIQNMKVDRFWAGLRP 316
>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 = 33.9 bits (76), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 45/101 (44%), Gaps = 6/101 (5%)
Query: 58 TGLGARTLCNDMHVIPVRGQTIRI---KAPHITNFYKNEYDTYIIPNGFDSLVTLGGTQN 114
+G+ + L + +PV+G+ + + P Y + YI+P LV +G T
Sbjct: 227 SGMFFKQLGLNNAFLPVKGECLSVWNDDIPLTKTLYHDH--CYIVPRKSGRLV-VGATMK 283
Query: 115 FGHVNRCVESTDTESILARTEELLPGVGACGGGQCWVGLRP 155
G + + ES++ + + +LP + + W GLRP
Sbjct: 284 PGDWSETPDLGGLESVMKKAKTMLPPIQNMKVDRFWAGLRP 324
>pdb|2FFL|A Chain A, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2FFL|B Chain B, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2FFL|C Chain C, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2FFL|D Chain D, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2QVW|A Chain A, Structure Of Giardia Dicer Refined Against Twinned Data
pdb|2QVW|B Chain B, Structure Of Giardia Dicer Refined Against Twinned Data
pdb|2QVW|C Chain C, Structure Of Giardia Dicer Refined Against Twinned Data
pdb|2QVW|D Chain D, Structure Of Giardia Dicer Refined Against Twinned Data
Length = 756
Score = 28.9 bits (63), Expect = 1.9, Method: Composition-based stats.
Identities = 34/140 (24%), Positives = 62/140 (44%), Gaps = 9/140 (6%)
Query: 9 PVLPVYKRMSEEELAVYTVLFKTAGGKVIEKYISSFSELGSEYNTIFNCTGLGARTLCND 68
PVL +Y R S + +Y L +T G V K ++ + ++ + Y + + A+T+
Sbjct: 564 PVLYIYHR-SVQCPVLYGSLTETPTGPVASKVLALYEKILA-YESSGGSKHIAAQTVSRS 621
Query: 69 MHV------IPVRGQTIRIK-APHITNFYKNEYDTYIIPNGFDSLVTLGGTQNFGHVNRC 121
+ V IP + ++I PH+ + D ++ + L L T G + R
Sbjct: 622 LAVPIPSGTIPFLIRLLQIALTPHVYQKLELLGDAFLKCSLALHLHALHPTLTEGALTRM 681
Query: 122 VESTDTESILARTEELLPGV 141
+S +T S+L R + P V
Sbjct: 682 RQSAETNSVLGRLTKRFPSV 701
>pdb|1CC1|L Chain L, Crystal Structure Of A Reduced, Active Form Of The
Ni-Fe-Se Hydrogenase From Desulfomicrobium Baculatum
Length = 498
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 18 SEEELAVYTVLFKTAGGKVIEKYISSFSELGSEYNTIFNCTGLGARTL 65
+ +++A Y FK VIE+Y+ LGS Y +F TG+G + +
Sbjct: 202 TADKVAEYAARFKEVQKFVIEEYLPLIYTLGSVYTDLFE-TGIGWKNV 248
>pdb|3K9G|A Chain A, Crystal Structure Of A Plasmid Partition Protein From
Borrelia Burgdorferi At 2.25a Resolution, Iodide Soak
pdb|3K9H|A Chain A, Crystal Structure Of A Plasmid Partition Protein From
Borrelia Burgdorferi At 2.25a Resolution
pdb|3K9H|B Chain B, Crystal Structure Of A Plasmid Partition Protein From
Borrelia Burgdorferi At 2.25a Resolution
Length = 267
Score = 26.6 bits (57), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 1 MQNNHYLKPVLPVYKRMSEEELAVYTVLFKTAGGKVIEKYISSFSELGSEYNTIFNCTGL 60
+ NN L P SE+++ L KT+ G + KY + + N + T L
Sbjct: 106 VDNNLDLIPSYLTLHNFSEDKIEHKDFLLKTSLGTLYYKY----DYIVIDTNPSLDVT-L 160
Query: 61 GARTLCNDMHVIPVRGQTIRIKAPHITNFY 90
LC+D +IP+ + +++ + NF+
Sbjct: 161 KNALLCSDYVIIPMTAEKWAVESLDLFNFF 190
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 0.138 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,790,058
Number of Sequences: 62578
Number of extensions: 226061
Number of successful extensions: 478
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 468
Number of HSP's gapped (non-prelim): 13
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
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: 49 (23.5 bits)