Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4MLR

dihydrodipicolinate synthase from C. jejuni, Y110F mutation with pyruvate and Lysine

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
A	0009085	biological_process	lysine biosynthetic process
A	0009089	biological_process	lysine biosynthetic process via diaminopimelate
A	0016829	molecular_function	lyase activity
A	0019877	biological_process	diaminopimelate biosynthetic process
A	0044281	biological_process	small molecule metabolic process
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
B	0009085	biological_process	lysine biosynthetic process
B	0009089	biological_process	lysine biosynthetic process via diaminopimelate
B	0016829	molecular_function	lyase activity
B	0019877	biological_process	diaminopimelate biosynthetic process
B	0044281	biological_process	small molecule metabolic process
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
C	0009085	biological_process	lysine biosynthetic process
C	0009089	biological_process	lysine biosynthetic process via diaminopimelate
C	0016829	molecular_function	lyase activity
C	0019877	biological_process	diaminopimelate biosynthetic process
C	0044281	biological_process	small molecule metabolic process
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
D	0009085	biological_process	lysine biosynthetic process
D	0009089	biological_process	lysine biosynthetic process via diaminopimelate
D	0016829	molecular_function	lyase activity
D	0019877	biological_process	diaminopimelate biosynthetic process
D	0044281	biological_process	small molecule metabolic process
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
E	0009085	biological_process	lysine biosynthetic process
E	0009089	biological_process	lysine biosynthetic process via diaminopimelate
E	0016829	molecular_function	lyase activity
E	0019877	biological_process	diaminopimelate biosynthetic process
E	0044281	biological_process	small molecule metabolic process
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
F	0009085	biological_process	lysine biosynthetic process
F	0009089	biological_process	lysine biosynthetic process via diaminopimelate
F	0016829	molecular_function	lyase activity
F	0019877	biological_process	diaminopimelate biosynthetic process
F	0044281	biological_process	small molecule metabolic process
G	0005737	cellular_component	cytoplasm
G	0005829	cellular_component	cytosol
G	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
G	0009085	biological_process	lysine biosynthetic process
G	0009089	biological_process	lysine biosynthetic process via diaminopimelate
G	0016829	molecular_function	lyase activity
G	0019877	biological_process	diaminopimelate biosynthetic process
G	0044281	biological_process	small molecule metabolic process
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0008840	molecular_function	4-hydroxy-tetrahydrodipicolinate synthase activity
H	0009085	biological_process	lysine biosynthetic process
H	0009089	biological_process	lysine biosynthetic process via diaminopimelate
H	0016829	molecular_function	lyase activity
H	0019877	biological_process	diaminopimelate biosynthetic process
H	0044281	biological_process	small molecule metabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	8
Details	BINDING SITE FOR RESIDUE LYS A 301

Chain	Residue
A	SER51
A	ALA52
A	LEU54
A	HIS59
A	PHE110
A	LYS302
D	ASN84
D	GLU88

site_id	AC2
Number of Residues	8
Details	BINDING SITE FOR RESIDUE LYS A 302

Chain	Residue
A	GLU88
A	LYS301
D	SER51
D	ALA52
D	LEU54
D	HIS59
D	PHE110
A	ASN84

site_id	AC3
Number of Residues	1
Details	BINDING SITE FOR RESIDUE EDO A 303

Chain	Residue
A	TYR261

site_id	AC4
Number of Residues	2
Details	BINDING SITE FOR RESIDUE ACT A 304

Chain	Residue
A	THR149
A	ASP177

site_id	AC5
Number of Residues	1
Details	BINDING SITE FOR RESIDUE EDO A 305

Chain	Residue
A	LYS204

site_id	AC6
Number of Residues	3
Details	BINDING SITE FOR RESIDUE EDO A 306

Chain	Residue
A	HIS223
A	PHE224
A	ASP227

site_id	AC7
Number of Residues	7
Details	BINDING SITE FOR RESIDUE LYS B 301

Chain	Residue
B	SER51
B	ALA52
B	LEU54
B	HIS59
C	ASN84
C	GLU88
C	LYS301

site_id	AC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PG4 B 302

Chain	Residue
B	GLN117
B	ASP150
B	THR151
B	LYS154

site_id	AC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PGE B 303

Chain	Residue
B	PRO183
B	MET186
B	GLY202
B	LYS204

site_id	BC1
Number of Residues	7
Details	BINDING SITE FOR RESIDUE LYS C 301

Chain	Residue
B	ASN84
B	GLU88
B	LYS301
C	SER51
C	ALA52
C	LEU54
C	HIS59

site_id	BC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE PG4 C 302

Chain	Residue
C	GLN117
C	TYR120
C	ASP150
C	THR151
C	LYS154

site_id	BC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE PGE C 303

Chain	Residue
C	PRO183
C	MET186
C	LYS204

site_id	BC4
Number of Residues	1
Details	BINDING SITE FOR RESIDUE GOL C 304

Chain	Residue
C	PRO140

site_id	BC5
Number of Residues	1
Details	BINDING SITE FOR RESIDUE EDO D 301

Chain	Residue
D	ARG272

site_id	BC6
Number of Residues	10
Details	BINDING SITE FOR RESIDUE LYS E 301

Chain	Residue
E	SER51
E	ALA52
E	LEU54
E	HIS56
E	HIS59
E	PHE110
E	HOH422
F	ASN84
F	GLU88
F	LYS301

site_id	BC7
Number of Residues	2
Details	BINDING SITE FOR RESIDUE PGE E 302

Chain	Residue
E	PRO140
E	GLY144

site_id	BC8
Number of Residues	3
Details	BINDING SITE FOR RESIDUE EDO E 303

Chain	Residue
E	ALA263
E	ILE295
E	GLY297

site_id	BC9
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO E 304

Chain	Residue
E	TYR120
E	LYS154

site_id	CC1
Number of Residues	9
Details	BINDING SITE FOR RESIDUE LYS F 301

Chain	Residue
E	ASN84
E	GLU88
E	LYS301
F	SER51
F	ALA52
F	LEU54
F	HIS56
F	HIS59
F	PHE110

site_id	CC2
Number of Residues	2
Details	BINDING SITE FOR RESIDUE PGE F 302

Chain	Residue
F	GLN117
F	LYS154

site_id	CC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE ACT F 303

Chain	Residue
E	HIS56
E	GLU88
F	HIS56

site_id	CC4
Number of Residues	8
Details	BINDING SITE FOR RESIDUE LYS G 301

Chain	Residue
G	SER51
G	ALA52
G	LEU54
G	HIS56
G	HIS59
H	ASN84
H	GLU88
H	LYS301

site_id	CC5
Number of Residues	1
Details	BINDING SITE FOR RESIDUE EDO G 303

Chain	Residue
G	GLU287

site_id	CC6
Number of Residues	8
Details	BINDING SITE FOR RESIDUE LYS H 301

Chain	Residue
H	ALA52
H	LEU54
H	HIS59
H	PHE110
G	ASN84
G	GLU88
G	LYS301
H	SER51

site_id	CC7
Number of Residues	3
Details	BINDING SITE FOR RESIDUE PGE H 302

Chain	Residue
H	GLN117
H	TYR120
H	LYS154

Functional Information from PROSITE/UniProt

site_id	PS00665
Number of Residues	18
Details	DHDPS_1 Dihydrodipicolinate synthase signature 1. AVVpvGTTGESatltheE

Chain	Residue	Details
A	ALA41-GLU58

site_id	PS00666
Number of Residues	32
Details	DHDPS_2 Dihydrodipicolinate synthase signature 2. YNVPgrTgceIstdtiiklfrdcenIyGVKEA

Chain	Residue	Details
A	TYR137-ALA168

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	8
Details	ACT_SITE: Proton donor/acceptor => ECO:0000255\|HAMAP-Rule:MF_00418

Chain	Residue	Details
A	TYR137
B	TYR137
C	TYR137
D	TYR137
E	TYR137
F	TYR137
G	TYR137
H	TYR137

site_id	SWS_FT_FI2
Number of Residues	8
Details	ACT_SITE: Schiff-base intermediate with substrate => ECO:0000255\|HAMAP-Rule:MF_00418

Chain	Residue	Details
A	KPI166
B	KPI166
C	KPI166
D	KPI166
E	KPI166
F	KPI166
G	KPI166
H	KPI166

site_id	SWS_FT_FI3
Number of Residues	16
Details	BINDING: BINDING => ECO:0000255\|HAMAP-Rule:MF_00418

Chain	Residue	Details
A	THR48
E	ILE207
F	THR48
F	ILE207
G	THR48
G	ILE207
H	THR48
H	ILE207
A	ILE207
B	THR48
B	ILE207
C	THR48
C	ILE207
D	THR48
D	ILE207
E	THR48

site_id	SWS_FT_FI4
Number of Residues	16
Details	SITE: Part of a proton relay during catalysis => ECO:0000255\|HAMAP-Rule:MF_00418

Chain	Residue	Details
A	THR47
E	TYR111
F	THR47
F	TYR111
G	THR47
G	TYR111
H	THR47
H	TYR111
A	TYR111
B	THR47
B	TYR111
C	THR47
C	TYR111
D	THR47
D	TYR111
E	THR47

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