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1DDO
Biol. Unit 4
Info
Asym.Unit (467 KB)
Biol.Unit 1 (120 KB)
Biol.Unit 2 (120 KB)
Biol.Unit 3 (119 KB)
Biol.Unit 4 (119 KB)
Biol.Unit 5 (231 KB)
Biol.Unit 6 (232 KB)
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(1)
Title
:
REDUCED D-AMINO ACID OXIDASE FROM PIG KIDNEY IN COMPLEX WITH IMINO-TRP
Authors
:
F. Todone, A. Mattevi
Date
:
16 Jan 97 (Deposition) - 23 Jul 97 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,E (1x)
Biol. Unit 2: B,F (1x)
Biol. Unit 3: C,G (1x)
Biol. Unit 4: D,H (1x)
Biol. Unit 5: C,D,G,H (1x)
Biol. Unit 6: A,B,E,F (1x)
Keywords
:
Flavoenzyme, Fad Cofactor, Oxidoreductase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Todone, M. A. Vanoni, A. Mozzarelli, M. Bolognesi, A. Coda, B. Curti, A. Mattevi
Active Site Plasticity In D-Amino Acid Oxidase: A Crystallographic Analysis.
Biochemistry V. 36 5853 1997
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: D-TRYPTOPHAN (DTRa)
1b: D-TRYPTOPHAN (DTRb)
2a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
2b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
2c: FLAVIN-ADENINE DINUCLEOTIDE (FADc)
2d: FLAVIN-ADENINE DINUCLEOTIDE (FADd)
2e: FLAVIN-ADENINE DINUCLEOTIDE (FADe)
2f: FLAVIN-ADENINE DINUCLEOTIDE (FADf)
2g: FLAVIN-ADENINE DINUCLEOTIDE (FADg)
2h: FLAVIN-ADENINE DINUCLEOTIDE (FADh)
3a: IMINO-TRYPTOPHAN (ITRa)
3b: IMINO-TRYPTOPHAN (ITRb)
3c: IMINO-TRYPTOPHAN (ITRc)
3d: IMINO-TRYPTOPHAN (ITRd)
3e: IMINO-TRYPTOPHAN (ITRe)
3f: IMINO-TRYPTOPHAN (ITRf)
3g: IMINO-TRYPTOPHAN (ITRg)
3h: IMINO-TRYPTOPHAN (ITRh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DTR
-1
Ligand/Ion
D-TRYPTOPHAN
2
FAD
2
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
3
ITR
2
Ligand/Ion
IMINO-TRYPTOPHAN
[
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Sites
(6, 6)
Info
All Sites
1: AC7 (SOFTWARE)
2: AC8 (SOFTWARE)
3: BC6 (SOFTWARE)
4: BC7 (SOFTWARE)
5: FAD (UNKNOWN)
6: FAH (UNKNOWN)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC7
SOFTWARE
GLY D:7 , ALA D:8 , GLY D:9 , VAL D:10 , ILE D:11 , ALA D:36 , ASP D:37 , ARG D:38 , THR D:43 , THR D:44 , THR D:45 , VAL D:47 , ALA D:48 , ALA D:49 , GLY D:50 , LEU D:51 , ARG D:162 , LYS D:163 , VAL D:164 , CYS D:181 , THR D:182 , TRP D:185 , GLY D:281 , ARG D:283 , GLY D:312 , GLY D:313 , TYR D:314 , GLY D:315 , LEU D:316 , THR D:317 , ITR D:349 , HOH D:352
BINDING SITE FOR RESIDUE FAD D 348
2
AC8
SOFTWARE
GLN D:53 , PRO D:54 , HIS D:217 , ILE D:223 , TYR D:224 , TYR D:228 , ARG D:283 , GLY D:313 , FAD D:348
BINDING SITE FOR RESIDUE ITR D 349
3
BC6
SOFTWARE
GLY H:7 , ALA H:8 , GLY H:9 , VAL H:10 , ILE H:11 , ALA H:36 , ASP H:37 , ARG H:38 , THR H:43 , THR H:44 , THR H:45 , VAL H:47 , ALA H:48 , ALA H:49 , GLY H:50 , LEU H:51 , ARG H:162 , LYS H:163 , VAL H:164 , CYS H:181 , THR H:182 , TRP H:185 , GLY H:281 , ARG H:283 , GLY H:312 , GLY H:313 , TYR H:314 , GLY H:315 , LEU H:316 , THR H:317 , ITR H:349
BINDING SITE FOR RESIDUE FAD H 348
4
BC7
SOFTWARE
GLN H:53 , PRO H:54 , TYR H:228 , ARG H:283 , GLY H:313 , FAD H:348
BINDING SITE FOR RESIDUE ITR H 349
5
FAD
UNKNOWN
FAD D:348
COFACTOR.
6
FAH
UNKNOWN
FAD H:348
COFACTOR.
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: DAO (D:305-323,H:305-323)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DAO
PS00677
D-amino acid oxidases signature.
OXDA_PIG
305-323
2
-
-
-
D:305-323
-
-
-
H:305-323
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 16)
Info
All SCOP Domains
1a: SCOP_d1ddoa2 (A:195-287)
1b: SCOP_d1ddob2 (B:195-287)
1c: SCOP_d1ddoc2 (C:195-287)
1d: SCOP_d1ddod2 (D:195-287)
1e: SCOP_d1ddoe2 (E:195-287)
1f: SCOP_d1ddof2 (F:195-287)
1g: SCOP_d1ddog2 (G:195-287)
1h: SCOP_d1ddoh2 (H:195-287)
2a: SCOP_d1ddoa1 (A:1-194,A:288-339)
2b: SCOP_d1ddob1 (B:1-194,B:288-339)
2c: SCOP_d1ddoc1 (C:1-194,C:288-339)
2d: SCOP_d1ddod1 (D:1-194,D:288-339)
2e: SCOP_d1ddoe1 (E:1-194,E:288-339)
2f: SCOP_d1ddof1 (F:1-194,F:288-339)
2g: SCOP_d1ddog1 (G:1-194,G:288-339)
2h: SCOP_d1ddoh1 (H:1-194,H:288-339)
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)
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)
(
)
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(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FAD-linked reductases, C-terminal domain
(181)
Superfamily
:
FAD-linked reductases, C-terminal domain
(181)
Family
:
D-aminoacid oxidase-like
(29)
Protein domain
:
D-aminoacid oxidase
(10)
Pig (Sus scrofa) [TaxId: 9823]
(6)
1a
d1ddoa2
A:195-287
1b
d1ddob2
B:195-287
1c
d1ddoc2
C:195-287
1d
d1ddod2
D:195-287
1e
d1ddoe2
E:195-287
1f
d1ddof2
F:195-287
1g
d1ddog2
G:195-287
1h
d1ddoh2
H:195-287
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Nucleotide-binding domain
(33)
Superfamily
:
Nucleotide-binding domain
(33)
Family
:
D-aminoacid oxidase, N-terminal domain
(10)
Protein domain
:
D-aminoacid oxidase, N-terminal domain
(10)
Pig (Sus scrofa) [TaxId: 9823]
(6)
2a
d1ddoa1
A:1-194,A:288-339
2b
d1ddob1
B:1-194,B:288-339
2c
d1ddoc1
C:1-194,C:288-339
2d
d1ddod1
D:1-194,D:288-339
2e
d1ddoe1
E:1-194,E:288-339
2f
d1ddof1
F:1-194,F:288-339
2g
d1ddog1
G:1-194,G:288-339
2h
d1ddoh1
H:1-194,H:288-339
[
close SCOP info
]
CATH Domains
(2, 16)
Info
all CATH domains
1a: CATH_1ddoA02 (A:89-139,A:196-285)
1b: CATH_1ddoB02 (B:89-139,B:196-285)
1c: CATH_1ddoC02 (C:89-139,C:196-285)
1d: CATH_1ddoD02 (D:89-139,D:196-285)
1e: CATH_1ddoE02 (E:89-139,E:196-285)
1f: CATH_1ddoF02 (F:89-139,F:196-285)
1g: CATH_1ddoG02 (G:89-139,G:196-285)
1h: CATH_1ddoH02 (H:89-139,H:196-285)
2a: CATH_1ddoA01 (A:1-88,A:140-195,A:286-339)
2b: CATH_1ddoB01 (B:1-88,B:140-195,B:286-339)
2c: CATH_1ddoC01 (C:1-88,C:140-195,C:286-339)
2d: CATH_1ddoD01 (D:1-88,D:140-195,D:286-339)
2e: CATH_1ddoE01 (E:1-88,E:140-195,E:286-339)
2f: CATH_1ddoF01 (F:1-88,F:140-195,F:286-339)
2g: CATH_1ddoG01 (G:1-88,G:140-195,G:286-339)
2h: CATH_1ddoH01 (H:1-88,H:140-195,H:286-339)
View:
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Topologies
(
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
D-Amino Acid Oxidase; Chain A, domain 2
(80)
Homologous Superfamily
:
D-Amino Acid Oxidase, subunit A, domain 2
(80)
Pig (Sus scrofa)
(6)
1a
1ddoA02
A:89-139,A:196-285
1b
1ddoB02
B:89-139,B:196-285
1c
1ddoC02
C:89-139,C:196-285
1d
1ddoD02
D:89-139,D:196-285
1e
1ddoE02
E:89-139,E:196-285
1f
1ddoF02
F:89-139,F:196-285
1g
1ddoG02
G:89-139,G:196-285
1h
1ddoH02
H:89-139,H:196-285
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Pig (Sus scrofa)
(21)
2a
1ddoA01
A:1-88,A:140-195,A:286-339
2b
1ddoB01
B:1-88,B:140-195,B:286-339
2c
1ddoC01
C:1-88,C:140-195,C:286-339
2d
1ddoD01
D:1-88,D:140-195,D:286-339
2e
1ddoE01
E:1-88,E:140-195,E:286-339
2f
1ddoF01
F:1-88,F:140-195,F:286-339
2g
1ddoG01
G:1-88,G:140-195,G:286-339
2h
1ddoH01
H:1-88,H:140-195,H:286-339
[
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Pfam Domains
(0, 0)
Info
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Asym.Unit (467 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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Biol.Unit 3 (119 KB)
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Biol.Unit 4 (119 KB)
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