Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6VST

Arginase from Medicago truncatula in complex with ornithine

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000050	biological_process	urea cycle
A	0004053	molecular_function	arginase activity
A	0005739	cellular_component	mitochondrion
A	0006525	biological_process	arginine metabolic process
A	0008783	molecular_function	agmatinase activity
A	0009446	biological_process	putrescine biosynthetic process
A	0016787	molecular_function	hydrolase activity
A	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
A	0019547	biological_process	arginine catabolic process to ornithine
A	0033388	biological_process	putrescine biosynthetic process from arginine
A	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
A	0034214	biological_process	protein hexamerization
A	0046872	molecular_function	metal ion binding
B	0000050	biological_process	urea cycle
B	0004053	molecular_function	arginase activity
B	0005739	cellular_component	mitochondrion
B	0006525	biological_process	arginine metabolic process
B	0008783	molecular_function	agmatinase activity
B	0009446	biological_process	putrescine biosynthetic process
B	0016787	molecular_function	hydrolase activity
B	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
B	0019547	biological_process	arginine catabolic process to ornithine
B	0033388	biological_process	putrescine biosynthetic process from arginine
B	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
B	0034214	biological_process	protein hexamerization
B	0046872	molecular_function	metal ion binding
C	0000050	biological_process	urea cycle
C	0004053	molecular_function	arginase activity
C	0005739	cellular_component	mitochondrion
C	0006525	biological_process	arginine metabolic process
C	0008783	molecular_function	agmatinase activity
C	0009446	biological_process	putrescine biosynthetic process
C	0016787	molecular_function	hydrolase activity
C	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
C	0019547	biological_process	arginine catabolic process to ornithine
C	0033388	biological_process	putrescine biosynthetic process from arginine
C	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
C	0034214	biological_process	protein hexamerization
C	0046872	molecular_function	metal ion binding
D	0000050	biological_process	urea cycle
D	0004053	molecular_function	arginase activity
D	0005739	cellular_component	mitochondrion
D	0006525	biological_process	arginine metabolic process
D	0008783	molecular_function	agmatinase activity
D	0009446	biological_process	putrescine biosynthetic process
D	0016787	molecular_function	hydrolase activity
D	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
D	0019547	biological_process	arginine catabolic process to ornithine
D	0033388	biological_process	putrescine biosynthetic process from arginine
D	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
D	0034214	biological_process	protein hexamerization
D	0046872	molecular_function	metal ion binding
E	0000050	biological_process	urea cycle
E	0004053	molecular_function	arginase activity
E	0005739	cellular_component	mitochondrion
E	0006525	biological_process	arginine metabolic process
E	0008783	molecular_function	agmatinase activity
E	0009446	biological_process	putrescine biosynthetic process
E	0016787	molecular_function	hydrolase activity
E	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
E	0019547	biological_process	arginine catabolic process to ornithine
E	0033388	biological_process	putrescine biosynthetic process from arginine
E	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
E	0034214	biological_process	protein hexamerization
E	0046872	molecular_function	metal ion binding
F	0000050	biological_process	urea cycle
F	0004053	molecular_function	arginase activity
F	0005739	cellular_component	mitochondrion
F	0006525	biological_process	arginine metabolic process
F	0008783	molecular_function	agmatinase activity
F	0009446	biological_process	putrescine biosynthetic process
F	0016787	molecular_function	hydrolase activity
F	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
F	0019547	biological_process	arginine catabolic process to ornithine
F	0033388	biological_process	putrescine biosynthetic process from arginine
F	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
F	0034214	biological_process	protein hexamerization
F	0046872	molecular_function	metal ion binding
G	0000050	biological_process	urea cycle
G	0004053	molecular_function	arginase activity
G	0005739	cellular_component	mitochondrion
G	0006525	biological_process	arginine metabolic process
G	0008783	molecular_function	agmatinase activity
G	0009446	biological_process	putrescine biosynthetic process
G	0016787	molecular_function	hydrolase activity
G	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
G	0019547	biological_process	arginine catabolic process to ornithine
G	0033388	biological_process	putrescine biosynthetic process from arginine
G	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
G	0034214	biological_process	protein hexamerization
G	0046872	molecular_function	metal ion binding
H	0000050	biological_process	urea cycle
H	0004053	molecular_function	arginase activity
H	0005739	cellular_component	mitochondrion
H	0006525	biological_process	arginine metabolic process
H	0008783	molecular_function	agmatinase activity
H	0009446	biological_process	putrescine biosynthetic process
H	0016787	molecular_function	hydrolase activity
H	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
H	0019547	biological_process	arginine catabolic process to ornithine
H	0033388	biological_process	putrescine biosynthetic process from arginine
H	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
H	0034214	biological_process	protein hexamerization
H	0046872	molecular_function	metal ion binding
I	0000050	biological_process	urea cycle
I	0004053	molecular_function	arginase activity
I	0005739	cellular_component	mitochondrion
I	0006525	biological_process	arginine metabolic process
I	0008783	molecular_function	agmatinase activity
I	0009446	biological_process	putrescine biosynthetic process
I	0016787	molecular_function	hydrolase activity
I	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
I	0019547	biological_process	arginine catabolic process to ornithine
I	0033388	biological_process	putrescine biosynthetic process from arginine
I	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
I	0034214	biological_process	protein hexamerization
I	0046872	molecular_function	metal ion binding
J	0000050	biological_process	urea cycle
J	0004053	molecular_function	arginase activity
J	0005739	cellular_component	mitochondrion
J	0006525	biological_process	arginine metabolic process
J	0008783	molecular_function	agmatinase activity
J	0009446	biological_process	putrescine biosynthetic process
J	0016787	molecular_function	hydrolase activity
J	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
J	0019547	biological_process	arginine catabolic process to ornithine
J	0033388	biological_process	putrescine biosynthetic process from arginine
J	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
J	0034214	biological_process	protein hexamerization
J	0046872	molecular_function	metal ion binding
K	0000050	biological_process	urea cycle
K	0004053	molecular_function	arginase activity
K	0005739	cellular_component	mitochondrion
K	0006525	biological_process	arginine metabolic process
K	0008783	molecular_function	agmatinase activity
K	0009446	biological_process	putrescine biosynthetic process
K	0016787	molecular_function	hydrolase activity
K	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
K	0019547	biological_process	arginine catabolic process to ornithine
K	0033388	biological_process	putrescine biosynthetic process from arginine
K	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
K	0034214	biological_process	protein hexamerization
K	0046872	molecular_function	metal ion binding
L	0000050	biological_process	urea cycle
L	0004053	molecular_function	arginase activity
L	0005739	cellular_component	mitochondrion
L	0006525	biological_process	arginine metabolic process
L	0008783	molecular_function	agmatinase activity
L	0009446	biological_process	putrescine biosynthetic process
L	0016787	molecular_function	hydrolase activity
L	0016813	molecular_function	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
L	0019547	biological_process	arginine catabolic process to ornithine
L	0033388	biological_process	putrescine biosynthetic process from arginine
L	0033389	biological_process	putrescine biosynthetic process from arginine, using agmatinase
L	0034214	biological_process	protein hexamerization
L	0046872	molecular_function	metal ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	binding site for residue MN A 401

Chain	Residue
A	ASP181
A	HIS183
A	ASP266
A	ASP268
A	MN402
A	HOH502

site_id	AC2
Number of Residues	6
Details	binding site for residue MN A 402

Chain	Residue
A	ASP266
A	MN401
A	HOH502
A	HIS157
A	ASP181
A	ASP185

site_id	AC3
Number of Residues	12
Details	binding site for residue ORN A 403

Chain	Residue
A	HIS183
A	ASP185
A	TYR187
A	HIS197
A	HIS280
A	HOH502
A	HOH503
A	HOH520
A	HOH560
A	HOH591
B	SER93
B	ASN95

site_id	AC4
Number of Residues	6
Details	binding site for residue MN B 401

Chain	Residue
B	ASP181
B	HIS183
B	ASP266
B	ASP268
B	MN402
B	HOH501

site_id	AC5
Number of Residues	6
Details	binding site for residue MN B 402

Chain	Residue
B	HIS157
B	ASP181
B	ASP185
B	ASP266
B	MN401
B	HOH501

site_id	AC6
Number of Residues	13
Details	binding site for residue ORN B 403

Chain	Residue
B	HIS183
B	ASP185
B	TYR187
B	HIS197
B	HIS280
B	HOH501
B	HOH523
B	HOH578
B	HOH579
B	HOH595
B	HOH599
C	SER93
C	ASN95

site_id	AC7
Number of Residues	6
Details	binding site for residue MN C 401

Chain	Residue
C	ASP181
C	HIS183
C	ASP266
C	ASP268
C	MN402
C	HOH509

site_id	AC8
Number of Residues	6
Details	binding site for residue MN C 402

Chain	Residue
C	HIS157
C	ASP181
C	ASP185
C	ASP266
C	MN401
C	HOH509

site_id	AC9
Number of Residues	6
Details	binding site for residue MN D 401

Chain	Residue
D	ASP181
D	HIS183
D	ASP266
D	ASP268
D	MN402
D	HOH552

site_id	AD1
Number of Residues	6
Details	binding site for residue MN D 402

Chain	Residue
D	HIS157
D	ASP181
D	ASP185
D	ASP266
D	MN401
D	HOH552

site_id	AD2
Number of Residues	11
Details	binding site for residue ORN D 403

Chain	Residue
D	SER93
D	ASN95
D	HOH502
D	HOH520
D	HOH548
D	HOH554
E	HIS183
E	ASP185
E	TYR187
E	HIS197
E	HIS280

site_id	AD3
Number of Residues	6
Details	binding site for residue MN E 401

Chain	Residue
D	HOH502
E	ASP181
E	HIS183
E	ASP266
E	ASP268
E	MN402

site_id	AD4
Number of Residues	6
Details	binding site for residue MN E 402

Chain	Residue
D	HOH502
E	HIS157
E	ASP181
E	ASP185
E	ASP266
E	MN401

site_id	AD5
Number of Residues	6
Details	binding site for residue MN F 401

Chain	Residue
F	ASP268
F	MN402
F	HOH507
F	ASP181
F	HIS183
F	ASP266

site_id	AD6
Number of Residues	6
Details	binding site for residue MN F 402

Chain	Residue
F	HIS157
F	ASP181
F	ASP185
F	ASP266
F	MN401
F	HOH507

site_id	AD7
Number of Residues	13
Details	binding site for residue ORN F 403

Chain	Residue
E	SER93
E	ASN95
F	HIS183
F	ASP185
F	TYR187
F	HIS197
F	HIS280
F	HOH507
F	HOH527
F	HOH556
F	HOH567
F	HOH577
F	HOH589

site_id	AD8
Number of Residues	6
Details	binding site for residue MN G 401

Chain	Residue
G	ASP181
G	HIS183
G	ASP266
G	ASP268
G	MN402
G	HOH553

site_id	AD9
Number of Residues	6
Details	binding site for residue MN G 402

Chain	Residue
G	HIS157
G	ASP181
G	ASP185
G	ASP266
G	MN401
G	HOH553

site_id	AE1
Number of Residues	6
Details	binding site for residue MN H 401

Chain	Residue
H	ASP181
H	HIS183
H	ASP266
H	ASP268
H	MN402
H	HOH505

site_id	AE2
Number of Residues	6
Details	binding site for residue MN H 402

Chain	Residue
H	HIS157
H	ASP181
H	ASP185
H	ASP266
H	MN401
H	HOH505

site_id	AE3
Number of Residues	9
Details	binding site for residue ORN H 403

Chain	Residue
H	HIS183
H	ASP185
H	TYR187
H	HIS197
H	HIS280
H	HOH505
H	HOH512
I	SER93
I	ASN95

site_id	AE4
Number of Residues	6
Details	binding site for residue MN I 401

Chain	Residue
I	ASP181
I	HIS183
I	ASP266
I	ASP268
I	MN402
I	HOH502

site_id	AE5
Number of Residues	6
Details	binding site for residue MN I 402

Chain	Residue
I	HIS157
I	ASP181
I	ASP185
I	ASP266
I	MN401
I	HOH502

site_id	AE6
Number of Residues	6
Details	binding site for residue MN J 401

Chain	Residue
J	ASP181
J	HIS183
J	ASP266
J	ASP268
J	MN402
J	HOH502

site_id	AE7
Number of Residues	6
Details	binding site for residue MN J 402

Chain	Residue
J	HIS157
J	ASP181
J	ASP185
J	ASP266
J	MN401
J	HOH502

site_id	AE8
Number of Residues	12
Details	binding site for residue ORN J 403

Chain	Residue
J	HIS183
J	ASP185
J	TYR187
J	HIS197
J	HOH502
J	HOH505
J	HOH569
J	HOH572
J	HOH598
L	SER93
L	ASN95
L	HOH545

site_id	AE9
Number of Residues	6
Details	binding site for residue MN K 401

Chain	Residue
K	ASP181
K	HIS183
K	ASP266
K	ASP268
K	MN402
K	HOH503

site_id	AF1
Number of Residues	6
Details	binding site for residue MN K 402

Chain	Residue
K	HIS157
K	ASP181
K	ASP185
K	ASP266
K	MN401
K	HOH503

site_id	AF2
Number of Residues	6
Details	binding site for residue MN L 401

Chain	Residue
L	ASP181
L	HIS183
L	ASP266
L	ASP268
L	MN402
L	HOH502

site_id	AF3
Number of Residues	6
Details	binding site for residue MN L 402

Chain	Residue
L	HIS157
L	ASP181
L	ASP185
L	ASP266
L	MN401
L	HOH502

site_id	AF4
Number of Residues	12
Details	binding site for residue ORN L 403

Chain	Residue
K	SER93
K	ASN95
L	HIS183
L	ASP185
L	TYR187
L	HIS197
L	HIS280
L	HOH502
L	HOH503
L	HOH510
L	HOH538
L	HOH573

Functional Information from PROSITE/UniProt

site_id	PS01053
Number of Residues	22
Details	ARGINASE_1 Arginase family signature. SIDVDsldPsiaPGvshhepgG

Chain	Residue	Details
A	SER264-GLY285

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	36
Details	BINDING: BINDING => ECO:0000269\|PubMed:32754173

Chain	Residue	Details
I	SER73
I	ASP92
I	SER220
J	SER73
J	ASP92
J	SER220
K	SER73
K	ASP92
K	SER220
L	SER73
L	ASP92
L	SER220
A	SER220
B	SER73
B	ASP92
B	SER220
C	SER73
C	ASP92
C	SER220
D	SER73
D	ASP92
D	SER220
E	SER73
E	ASP92
E	SER220
F	SER73
F	ASP92
F	SER220
G	SER73
G	ASP92
G	SER220
H	SER73
H	ASP92
H	SER220
A	SER73
A	ASP92

site_id	SWS_FT_FI2
Number of Residues	72
Details	BINDING: BINDING => ECO:0000255\|PROSITE-ProRule:PRU00742, ECO:0000269\|PubMed:32754173

Chain	Residue	Details
I	HIS157
I	ASP181
I	HIS183
I	ASP185
I	ASP266
I	ASP268
J	HIS157
J	ASP181
J	HIS183
J	ASP185
J	ASP266
J	ASP268
K	HIS157
K	ASP181
K	HIS183
K	ASP185
K	ASP266
K	ASP268
L	HIS157
L	ASP181
L	HIS183
L	ASP185
L	ASP266
L	ASP268
A	ASP266
A	ASP268
B	HIS157
B	ASP181
B	HIS183
B	ASP185
B	ASP266
B	ASP268
C	HIS157
C	ASP181
C	HIS183
C	ASP185
C	ASP266
C	ASP268
D	HIS157
D	ASP181
D	HIS183
D	ASP185
D	ASP266
D	ASP268
E	HIS157
E	ASP181
E	HIS183
E	ASP185
E	ASP266
E	ASP268
F	HIS157
F	ASP181
F	HIS183
F	ASP185
F	ASP266
F	ASP268
G	HIS157
G	ASP181
G	HIS183
G	ASP185
G	ASP266
G	ASP268
H	HIS157
H	ASP181
H	HIS183
H	ASP185
H	ASP266
H	ASP268
A	HIS157
A	ASP181
A	HIS183
A	ASP185

site_id	SWS_FT_FI3
Number of Residues	12
Details	BINDING: BINDING => ECO:0000250\|UniProtKB:P53608

Chain	Residue	Details
C	GLU191
D	GLU191
E	GLU191
F	GLU191
G	GLU191
H	GLU191
I	GLU191
J	GLU191
K	GLU191
L	GLU191
A	GLU191
B	GLU191

site_id	SWS_FT_FI4
Number of Residues	12
Details	BINDING: BINDING => ECO:0000305\|PubMed:32754173

Chain	Residue	Details
B	GLU309
C	GLU309
D	GLU309
E	GLU309
F	GLU309
G	GLU309
H	GLU309
I	GLU309
J	GLU309
K	GLU309
L	GLU309
A	GLU309

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)