Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4LY8

dihydrodipicolinate synthase from C. jejuni with pyruvate bound to the active site

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0008652	biological_process	amino acid biosynthetic process
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	0008652	biological_process	amino acid biosynthetic process
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	0008652	biological_process	amino acid biosynthetic process
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	0008652	biological_process	amino acid biosynthetic process
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

Functional Information from PDB Data

site_id	AC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO A 301

Chain	Residue
A	HIS223
A	PHE224

site_id	AC2
Number of Residues	3
Details	BINDING SITE FOR RESIDUE PGE A 302

Chain	Residue
A	GLY20
A	ARG272
A	PGE304

site_id	AC3
Number of Residues	5
Details	BINDING SITE FOR RESIDUE EDO A 303

Chain	Residue
A	ASN161
A	ALA127
A	GLN128
A	VAL130
A	ASP131

site_id	AC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE PGE A 304

Chain	Residue
A	PHE271
A	ARG272
A	LEU273
A	PGE302
A	HOH434

site_id	AC5
Number of Residues	2
Details	BINDING SITE FOR RESIDUE PGE A 305

Chain	Residue
A	MET186
A	LYS204

site_id	AC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE EDO A 306

Chain	Residue
A	ASP238
A	GLU239
A	TYR241
A	ASN242
B	HIS181

site_id	AC7
Number of Residues	5
Details	BINDING SITE FOR RESIDUE PGE A 307

Chain	Residue
A	ALA263
A	GLY264
A	ILE295
A	GLY297
A	HOH523

site_id	AC8
Number of Residues	2
Details	BINDING SITE FOR RESIDUE ACT A 308

Chain	Residue
A	GLU36
D	EDO303

site_id	AC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO A 309

Chain	Residue
A	SER200
A	GLY202
A	TYR230
B	LYS234

site_id	BC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE GOL A 310

Chain	Residue
A	THR149
A	ASP150
A	ASP177
A	HIS181
A	ACT312

site_id	BC2
Number of Residues	1
Details	BINDING SITE FOR RESIDUE EDO A 311

Chain	Residue
A	PRO278

site_id	BC3
Number of Residues	2
Details	BINDING SITE FOR RESIDUE ACT A 312

Chain	Residue
A	ARG157
A	GOL310

site_id	BC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PG4 A 313

Chain	Residue
A	GLN117
A	TYR120
A	ASP150
A	LYS154

site_id	BC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE GOL A 314

Chain	Residue
A	SER51
A	LEU54
A	HIS56
A	HIS59
A	HOH444
A	HOH488

site_id	BC6
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PGE B 301

Chain	Residue
B	GLN117
B	ASP150
B	THR151
B	LYS154

site_id	BC7
Number of Residues	5
Details	BINDING SITE FOR RESIDUE GOL B 302

Chain	Residue
B	ARG142
B	KPI166
B	PHE248
B	ASN252
B	HOH472

site_id	BC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PGE B 303

Chain	Residue
B	MET186
B	LYS204
B	LEU226
C	LYS231

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

Chain	Residue
B	ILE7
B	LEU226

site_id	CC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE PGE B 305

Chain	Residue
B	TYR261
B	LEU262

site_id	CC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PGE B 306

Chain	Residue
B	HIS223
B	PHE224
B	ASP227
D	HOH496

site_id	CC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE GOL B 307

Chain	Residue
B	SER51
B	LEU54
B	HIS56
B	HIS59

site_id	CC4
Number of Residues	3
Details	BINDING SITE FOR RESIDUE EDO B 308

Chain	Residue
B	ASP150
B	ASP177
B	HIS181

site_id	CC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE EDO B 309

Chain	Residue
B	ARG29
B	ARG33
B	PHE298

site_id	CC6
Number of Residues	6
Details	BINDING SITE FOR RESIDUE PG4 C 301

Chain	Residue
C	GLN117
C	TYR120
C	THR151
C	LYS154
C	HOH511
C	HOH527

site_id	CC7
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO C 302

Chain	Residue
C	VAL90
C	LYS94

site_id	CC8
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO C 303

Chain	Residue
C	GLY91
C	LEU92

site_id	CC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PGE C 304

Chain	Residue
C	ILE7
C	MET186
C	LYS204
C	LEU226

site_id	DC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO C 305

Chain	Residue
C	ALA263
C	GLY297

site_id	DC2
Number of Residues	1
Details	BINDING SITE FOR RESIDUE EDO C 306

Chain	Residue
C	PHE224

site_id	DC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE EDO C 307

Chain	Residue
C	ASP150
C	ASP177
C	HIS181

site_id	DC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PGE C 308

Chain	Residue
C	PRO140
C	GLY141
C	SER169
C	HOH466

site_id	DC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ACT C 309

Chain	Residue
C	ARG142
C	PHE248
C	SER251
C	ASN252

site_id	DC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE PGE D 301

Chain	Residue
D	GLN117
D	TYR120
D	ASP150
D	THR151
D	LYS154

site_id	DC7
Number of Residues	5
Details	BINDING SITE FOR RESIDUE GOL D 302

Chain	Residue
D	LEU54
D	HIS56
D	HIS59
D	HOH494
D	HOH538

site_id	DC8
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO D 303

Chain	Residue
A	ACT308
D	TYR261

site_id	DC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO D 304

Chain	Residue
C	LYS234
D	SER200
D	GLY202
D	TYR230

site_id	EC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE EDO D 307

Chain	Residue
B	HOH467
D	HOH438

site_id	EC2
Number of Residues	1
Details	BINDING SITE FOR RESIDUE EDO D 308

Chain	Residue
D	HIS223

site_id	EC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EDO D 309

Chain	Residue
D	ASP2
D	LYS3
D	PHE156
D	ARG184

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	4
Details	Active site: {"description":"Proton donor/acceptor","evidences":[{"source":"HAMAP-Rule","id":"MF_00418","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	4
Details	Active site: {"description":"Schiff-base intermediate with substrate","evidences":[{"source":"HAMAP-Rule","id":"MF_00418","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	8
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00418","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	8
Details	Site: {"description":"Part of a proton relay during catalysis","evidences":[{"source":"HAMAP-Rule","id":"MF_00418","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

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