Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3DFY

Crystal structure of apo dipeptide epimerase from Thermotoga maritima

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0016853	molecular_function	isomerase activity
A	0016854	molecular_function	racemase and epimerase activity
A	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
A	0016998	biological_process	cell wall macromolecule catabolic process
A	0046872	molecular_function	metal ion binding
A	0071555	biological_process	cell wall organization
A	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
B	0016853	molecular_function	isomerase activity
B	0016854	molecular_function	racemase and epimerase activity
B	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
B	0016998	biological_process	cell wall macromolecule catabolic process
B	0046872	molecular_function	metal ion binding
B	0071555	biological_process	cell wall organization
B	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
C	0016853	molecular_function	isomerase activity
C	0016854	molecular_function	racemase and epimerase activity
C	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
C	0016998	biological_process	cell wall macromolecule catabolic process
C	0046872	molecular_function	metal ion binding
C	0071555	biological_process	cell wall organization
C	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
D	0016853	molecular_function	isomerase activity
D	0016854	molecular_function	racemase and epimerase activity
D	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
D	0016998	biological_process	cell wall macromolecule catabolic process
D	0046872	molecular_function	metal ion binding
D	0071555	biological_process	cell wall organization
D	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
E	0016853	molecular_function	isomerase activity
E	0016854	molecular_function	racemase and epimerase activity
E	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
E	0016998	biological_process	cell wall macromolecule catabolic process
E	0046872	molecular_function	metal ion binding
E	0071555	biological_process	cell wall organization
E	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
F	0016853	molecular_function	isomerase activity
F	0016854	molecular_function	racemase and epimerase activity
F	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
F	0016998	biological_process	cell wall macromolecule catabolic process
F	0046872	molecular_function	metal ion binding
F	0071555	biological_process	cell wall organization
F	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
G	0016853	molecular_function	isomerase activity
G	0016854	molecular_function	racemase and epimerase activity
G	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
G	0016998	biological_process	cell wall macromolecule catabolic process
G	0046872	molecular_function	metal ion binding
G	0071555	biological_process	cell wall organization
G	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
H	0016853	molecular_function	isomerase activity
H	0016854	molecular_function	racemase and epimerase activity
H	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
H	0016998	biological_process	cell wall macromolecule catabolic process
H	0046872	molecular_function	metal ion binding
H	0071555	biological_process	cell wall organization
H	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
I	0016853	molecular_function	isomerase activity
I	0016854	molecular_function	racemase and epimerase activity
I	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
I	0016998	biological_process	cell wall macromolecule catabolic process
I	0046872	molecular_function	metal ion binding
I	0071555	biological_process	cell wall organization
I	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
J	0016853	molecular_function	isomerase activity
J	0016854	molecular_function	racemase and epimerase activity
J	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
J	0016998	biological_process	cell wall macromolecule catabolic process
J	0046872	molecular_function	metal ion binding
J	0071555	biological_process	cell wall organization
J	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
K	0016853	molecular_function	isomerase activity
K	0016854	molecular_function	racemase and epimerase activity
K	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
K	0016998	biological_process	cell wall macromolecule catabolic process
K	0046872	molecular_function	metal ion binding
K	0071555	biological_process	cell wall organization
K	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
L	0016853	molecular_function	isomerase activity
L	0016854	molecular_function	racemase and epimerase activity
L	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
L	0016998	biological_process	cell wall macromolecule catabolic process
L	0046872	molecular_function	metal ion binding
L	0071555	biological_process	cell wall organization
L	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
M	0016853	molecular_function	isomerase activity
M	0016854	molecular_function	racemase and epimerase activity
M	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
M	0016998	biological_process	cell wall macromolecule catabolic process
M	0046872	molecular_function	metal ion binding
M	0071555	biological_process	cell wall organization
M	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
N	0016853	molecular_function	isomerase activity
N	0016854	molecular_function	racemase and epimerase activity
N	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
N	0016998	biological_process	cell wall macromolecule catabolic process
N	0046872	molecular_function	metal ion binding
N	0071555	biological_process	cell wall organization
N	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
O	0016853	molecular_function	isomerase activity
O	0016854	molecular_function	racemase and epimerase activity
O	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
O	0016998	biological_process	cell wall macromolecule catabolic process
O	0046872	molecular_function	metal ion binding
O	0071555	biological_process	cell wall organization
O	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity
P	0016853	molecular_function	isomerase activity
P	0016854	molecular_function	racemase and epimerase activity
P	0016855	molecular_function	racemase and epimerase activity, acting on amino acids and derivatives
P	0016998	biological_process	cell wall macromolecule catabolic process
P	0046872	molecular_function	metal ion binding
P	0071555	biological_process	cell wall organization
P	0103031	molecular_function	L-Ala-D/L-Glu epimerase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG A 401

Chain	Residue
A	ASP188
A	GLU216
A	ASP241

site_id	AC2
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG B 401

Chain	Residue
B	ASP188
B	GLU216
B	ASP241

site_id	AC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG C 401

Chain	Residue
C	ASP188
C	GLU216
C	ASP241

site_id	AC4
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG D 401

Chain	Residue
D	ASP188
D	GLU216
D	ASP241

site_id	AC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG E 401

Chain	Residue
E	ASP188
E	GLU216
E	ASP241

site_id	AC6
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG F 401

Chain	Residue
F	ASP188
F	GLU216
F	ASP241

site_id	AC7
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG G 401

Chain	Residue
G	ASP188
G	GLU216
G	ASP241

site_id	AC8
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG H 401

Chain	Residue
H	ASP188
H	GLU216
H	ASP241

site_id	AC9
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG I 401

Chain	Residue
I	ASP188
I	GLU216
I	ASP241

site_id	BC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG J 401

Chain	Residue
J	ASP188
J	GLU216
J	ASP241

site_id	BC2
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG K 401

Chain	Residue
K	ASP188
K	GLU216
K	ASP241

site_id	BC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG L 401

Chain	Residue
L	ASP188
L	GLU216
L	ASP241

site_id	BC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG M 401

Chain	Residue
M	ASP188
M	GLU216
M	ASP241
M	GLU242

site_id	BC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG N 401

Chain	Residue
N	ASP188
N	ASN190
N	GLU216
N	ASP241

site_id	BC6
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG O 401

Chain	Residue
O	ASP188
O	GLU216
O	ASP241

site_id	BC7
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG P 401

Chain	Residue
P	ASP188
P	GLU216
P	ASP241

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	16
Details	ACT_SITE: Proton acceptor; specific for (R)-substrate epimerization => ECO:0000250

Chain	Residue	Details
A	LYS161
J	LYS161
K	LYS161
L	LYS161
M	LYS161
N	LYS161
O	LYS161
P	LYS161
B	LYS161
C	LYS161
D	LYS161
E	LYS161
F	LYS161
G	LYS161
H	LYS161
I	LYS161

site_id	SWS_FT_FI2
Number of Residues	16
Details	ACT_SITE: Proton acceptor; specific for (S)-substrate epimerization => ECO:0000250

Chain	Residue	Details
A	LYS265
J	LYS265
K	LYS265
L	LYS265
M	LYS265
N	LYS265
O	LYS265
P	LYS265
B	LYS265
C	LYS265
D	LYS265
E	LYS265
F	LYS265
G	LYS265
H	LYS265
I	LYS265

site_id	SWS_FT_FI3
Number of Residues	144
Details	BINDING:

Chain	Residue	Details
A	THR134
B	THR134
L	THR134
L	LYS159
L	ASP188
L	ASN190
L	GLU216
L	ASP241
L	CYS292
L	ASP317
L	ASP319
M	THR134
B	LYS159
M	LYS159
M	ASP188
M	ASN190
M	GLU216
M	ASP241
M	CYS292
M	ASP317
M	ASP319
N	THR134
N	LYS159
B	ASP188
N	ASP188
N	ASN190
N	GLU216
N	ASP241
N	CYS292
N	ASP317
N	ASP319
O	THR134
O	LYS159
O	ASP188
B	ASN190
O	ASN190
O	GLU216
O	ASP241
O	CYS292
O	ASP317
O	ASP319
P	THR134
P	LYS159
P	ASP188
P	ASN190
B	GLU216
P	GLU216
P	ASP241
P	CYS292
P	ASP317
P	ASP319
B	ASP241
B	CYS292
B	ASP317
B	ASP319
C	THR134
A	LYS159
C	LYS159
C	ASP188
C	ASN190
C	GLU216
C	ASP241
C	CYS292
C	ASP317
C	ASP319
D	THR134
D	LYS159
A	ASP188
D	ASP188
D	ASN190
D	GLU216
D	ASP241
D	CYS292
D	ASP317
D	ASP319
E	THR134
E	LYS159
E	ASP188
A	ASN190
E	ASN190
E	GLU216
E	ASP241
E	CYS292
E	ASP317
E	ASP319
F	THR134
F	LYS159
F	ASP188
F	ASN190
A	GLU216
F	GLU216
F	ASP241
F	CYS292
F	ASP317
F	ASP319
G	THR134
G	LYS159
G	ASP188
G	ASN190
G	GLU216
A	ASP241
G	ASP241
G	CYS292
G	ASP317
G	ASP319
H	THR134
H	LYS159
H	ASP188
H	ASN190
H	GLU216
H	ASP241
A	CYS292
H	CYS292
H	ASP317
H	ASP319
I	THR134
I	LYS159
I	ASP188
I	ASN190
I	GLU216
I	ASP241
I	CYS292
A	ASP317
I	ASP317
I	ASP319
J	THR134
J	LYS159
J	ASP188
J	ASN190
J	GLU216
J	ASP241
J	CYS292
J	ASP317
A	ASP319
J	ASP319
K	THR134
K	LYS159
K	ASP188
K	ASN190
K	GLU216
K	ASP241
K	CYS292
K	ASP317
K	ASP319

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