4YJG

Crystal structure of DAAO(Y228L/R283G) variant (R-3-amino 1-phenylbutane binding form)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003884	molecular_function	D-amino-acid oxidase activity
A	0005576	cellular_component	extracellular region
A	0005777	cellular_component	peroxisome
A	0005782	cellular_component	peroxisomal matrix
A	0005829	cellular_component	cytosol
A	0006562	biological_process	L-proline catabolic process
A	0007586	biological_process	digestion
A	0016491	molecular_function	oxidoreductase activity
A	0019478	biological_process	D-amino acid catabolic process
A	0036088	biological_process	D-serine catabolic process
A	0042416	biological_process	dopamine biosynthetic process
A	0043799	molecular_function	glycine oxidase activity
A	0046416	biological_process	D-amino acid metabolic process
A	0048786	cellular_component	presynaptic active zone
A	0055130	biological_process	D-alanine catabolic process
A	0070945	biological_process	neutrophil-mediated killing of gram-negative bacterium
A	0071949	molecular_function	FAD binding
B	0003884	molecular_function	D-amino-acid oxidase activity
B	0005576	cellular_component	extracellular region
B	0005777	cellular_component	peroxisome
B	0005782	cellular_component	peroxisomal matrix
B	0005829	cellular_component	cytosol
B	0006562	biological_process	L-proline catabolic process
B	0007586	biological_process	digestion
B	0016491	molecular_function	oxidoreductase activity
B	0019478	biological_process	D-amino acid catabolic process
B	0036088	biological_process	D-serine catabolic process
B	0042416	biological_process	dopamine biosynthetic process
B	0043799	molecular_function	glycine oxidase activity
B	0046416	biological_process	D-amino acid metabolic process
B	0048786	cellular_component	presynaptic active zone
B	0055130	biological_process	D-alanine catabolic process
B	0070945	biological_process	neutrophil-mediated killing of gram-negative bacterium
B	0071949	molecular_function	FAD binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	5
Details	binding site for residue 4DD A 401

Chain	Residue
A	GLN53
A	TYR224
A	PHE242
A	GLY313
A	FAD402

---

site_id	AC2
Number of Residues	32
Details	binding site for residue FAD A 402

Chain	Residue
A	ILE11
A	ALA36
A	ASP37
A	ARG38
A	THR43
A	THR44
A	THR45
A	ALA48
A	ALA49
A	GLY50
A	LEU51
A	ARG162
A	VAL164
A	CYS181
A	THR182
A	TRP185
A	ILE202
A	GLY281
A	HIS311
A	GLY312
A	GLY313
A	TYR314
A	GLY315
A	LEU316
A	THR317
A	4DD401
A	HOH505
A	HOH514
A	GLY7
A	ALA8
A	GLY9
A	VAL10

---

site_id	AC3
Number of Residues	7
Details	binding site for residue SO4 A 403

Chain	Residue
A	ARG286
A	GLN288
A	VAL289
A	ARG290
A	GLU292
B	ARG22
B	LYS328

---

site_id	AC4
Number of Residues	3
Details	binding site for residue SO4 A 404

Chain	Residue
A	THR118
A	PRO119
A	ARG120

---

site_id	AC5
Number of Residues	5
Details	binding site for residue 4DD B 401

Chain	Residue
B	LEU51
B	GLN53
B	TYR224
B	GLY313
B	FAD402

---

site_id	AC6
Number of Residues	32
Details	binding site for residue FAD B 402

Chain	Residue
B	GLY7
B	ALA8
B	GLY9
B	VAL10
B	ILE11
B	ALA36
B	ASP37
B	ARG38
B	THR44
B	THR45
B	ALA48
B	ALA49
B	GLY50
B	LEU51
B	ARG162
B	VAL164
B	CYS181
B	THR182
B	GLY183
B	TRP185
B	ILE202
B	GLY281
B	HIS311
B	GLY312
B	GLY313
B	TYR314
B	GLY315
B	LEU316
B	THR317
B	4DD401
B	HOH507
B	HOH520

---

site_id	AC7
Number of Residues	4
Details	binding site for residue SO4 B 403

Chain	Residue
B	GLU21
B	HIS24
B	ARG155
B	HOH501

---

site_id	AC8
Number of Residues	4
Details	binding site for residue SO4 B 404

Chain	Residue
A	ARG38
A	LYS163
B	ARG142
B	GLN146

---

Functional Information from PROSITE/UniProt

site_id	PS00677
Number of Residues	19
Details	DAO D-amino acid oxidases signature. VIHNYGhGGyGltihwGcA

Chain	Residue	Details
B	VAL305-ALA323
A	VAL305-ALA323

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	30
Details	Region: {"description":"Required for protein stability","evidences":[{"source":"UniProtKB","id":"P14920","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	24
Details	Region: {"description":"Active site lid that may open upon substrate/product migration in and out of the active site and close to increase the hydrophobicity of the active site, to make the hydride transfer reaction more efficient","evidences":[{"source":"PubMed","id":"9153426","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	16
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10876160","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24644036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27648606","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30333894","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"8755502","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9153426","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9399588","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1AN9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1DDO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1EVI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1KIF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1VE9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3WGT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5WWV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5WX2","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"UniProtKB","id":"P14920","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"27648606","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4YJH","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10876160","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24644036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27648606","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30333894","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"8755502","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9399588","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1AN9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1EVI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1KIF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3WGT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5WX2","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10876160","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24644036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27648606","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30333894","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9153426","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9399588","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1AN9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1DDO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1EVI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1KIF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1VE9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3WGT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5WWV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5WX2","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10876160","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24644036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27648606","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30333894","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"8755502","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9153426","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9399588","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1AN9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1DDO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1EVI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1KIF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1VE9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3WGT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5WWV","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10876160","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24644036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27648606","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"8755502","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9399588","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1AN9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1EVI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1KIF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1VE9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3WGT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJH","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10876160","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24644036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27648606","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30333894","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"8755502","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9153426","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9399588","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1AN9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1DDO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1EVI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1KIF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1VE9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3WGT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5WWV","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10876160","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1EVI","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PubMed","id":"9399588","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"1AN9","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI13
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10876160","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24644036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27648606","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9153426","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1DDO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1EVI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3WGT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJH","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI14
Number of Residues	2
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10876160","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"24644036","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27648606","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"30333894","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"8755502","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9153426","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9399588","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1AN9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1DDO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1EVI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1KIF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1VE9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3WGT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4YJH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5WX2","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---