Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4LK3

Crystal structure of Human UDP-xylose synthase R236A substitution

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0042732	biological_process	D-xylose metabolic process
A	0070403	molecular_function	NAD+ binding
B	0042732	biological_process	D-xylose metabolic process
B	0070403	molecular_function	NAD+ binding
C	0042732	biological_process	D-xylose metabolic process
C	0070403	molecular_function	NAD+ binding
D	0042732	biological_process	D-xylose metabolic process
D	0070403	molecular_function	NAD+ binding
E	0042732	biological_process	D-xylose metabolic process
E	0070403	molecular_function	NAD+ binding
F	0042732	biological_process	D-xylose metabolic process
F	0070403	molecular_function	NAD+ binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	26
Details	BINDING SITE FOR RESIDUE NAD A 501

Chain	Residue
A	GLY95
A	GLY124
A	HIS143
A	ASP144
A	VAL145
A	LEU159
A	ALA160
A	SER161
A	ALA163
A	THR178
A	ALA200
A	ALA97
A	SER201
A	THR202
A	LYS235
A	ILE258
A	PHE259
A	THR261
A	HIS267
A	GLY98
A	PHE99
A	VAL100
A	ASP119
A	ASN120
A	PHE122
A	THR123

site_id	AC2
Number of Residues	10
Details	BINDING SITE FOR RESIDUE UDP A 502

Chain	Residue
A	ARG272
A	VAL273
A	ASN276
A	PHE277
A	THR288
A	VAL289
A	TYR290
A	GLN295
A	ARG297
A	ILE331

site_id	AC3
Number of Residues	15
Details	BINDING SITE FOR RESIDUE UGA A 503

Chain	Residue
A	PRO148
A	LEU149
A	TYR150
A	ASN185
A	GLY188
A	LEU189
A	LYS191
A	ARG192
A	TYR245
A	GLN248
A	GLU249
B	ASN171
B	ILE173
B	LYS174
B	LYS177

site_id	AC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 A 504

Chain	Residue
A	ARG125
A	HIS267
A	MET268
A	ASN269

site_id	AC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 A 505

Chain	Residue
A	ARG125
A	LYS126
A	ARG127
F	ARG125
F	LYS126
F	ARG127

site_id	AC6
Number of Residues	30
Details	BINDING SITE FOR RESIDUE NAD B 501

Chain	Residue
B	GLY95
B	ALA97
B	GLY98
B	PHE99
B	VAL100
B	ASP119
B	ASN120
B	PHE121
B	PHE122
B	THR123
B	GLY124
B	HIS143
B	ASP144
B	VAL145
B	LEU159
B	ALA160
B	SER161
B	PRO162
B	ALA163
B	THR178
B	ALA200
B	SER201
B	THR202
B	LYS235
B	ILE258
B	PHE259
B	THR261
B	HIS267
B	ARG272
B	HOH615

site_id	AC7
Number of Residues	11
Details	BINDING SITE FOR RESIDUE UDP B 502

Chain	Residue
B	ARG297
B	ILE331
B	HOH613
B	GLY271
B	ARG272
B	VAL273
B	ASN276
B	PHE277
B	THR288
B	TYR290
B	GLN295

site_id	AC8
Number of Residues	13
Details	BINDING SITE FOR RESIDUE UGA B 503

Chain	Residue
A	LYS177
B	PRO148
B	LEU149
B	TYR150
B	LEU184
B	ASN185
B	GLY188
B	LEU189
B	LYS191
B	ARG192
B	TYR245
B	GLN248
B	GLU249

site_id	AC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 B 504

Chain	Residue
B	ARG125
B	HIS267
B	MET268
B	ASN269

site_id	BC1
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 B 505

Chain	Residue
B	ARG125
B	LYS126
B	ARG127
C	ARG125
C	LYS126
C	ARG127

site_id	BC2
Number of Residues	28
Details	BINDING SITE FOR RESIDUE NAD C 501

Chain	Residue
C	GLY95
C	ALA97
C	GLY98
C	PHE99
C	VAL100
C	ASP119
C	ASN120
C	PHE122
C	THR123
C	GLY124
C	HIS143
C	ASP144
C	VAL145
C	LEU159
C	ALA160
C	SER161
C	PRO162
C	THR178
C	ALA200
C	SER201
C	THR202
C	LYS235
C	ILE258
C	THR261
C	HIS267
C	ARG272
C	HOH607
C	HOH614

site_id	BC3
Number of Residues	13
Details	BINDING SITE FOR RESIDUE UGA C 502

Chain	Residue
C	PRO148
C	LEU149
C	TYR150
C	LEU184
C	ASN185
C	GLY188
C	LEU189
C	LYS191
C	ARG192
C	TYR245
C	GLN248
C	GLU249
D	LYS177

site_id	BC4
Number of Residues	3
Details	BINDING SITE FOR RESIDUE POP C 503

Chain	Residue
C	ARG272
C	VAL273
C	ARG297

site_id	BC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 C 504

Chain	Residue
C	ARG125
C	HIS267
C	MET268
C	ASN269

site_id	BC6
Number of Residues	28
Details	BINDING SITE FOR RESIDUE NAD D 501

Chain	Residue
D	GLY95
D	ALA97
D	GLY98
D	PHE99
D	VAL100
D	ASP119
D	ASN120
D	PHE121
D	PHE122
D	THR123
D	GLY124
D	HIS143
D	ASP144
D	VAL145
D	LEU159
D	SER161
D	ALA163
D	THR178
D	ALA200
D	SER201
D	THR202
D	LYS235
D	ILE258
D	PHE259
D	ASN260
D	THR261
D	HIS267
D	ARG272

site_id	BC7
Number of Residues	9
Details	BINDING SITE FOR RESIDUE UDP D 502

Chain	Residue
D	ASN260
D	ARG272
D	VAL273
D	ASN276
D	THR288
D	TYR290
D	GLN295
D	ARG297
D	ILE331

site_id	BC8
Number of Residues	13
Details	BINDING SITE FOR RESIDUE UGA D 503

Chain	Residue
C	ASN171
C	LYS177
D	PRO148
D	LEU149
D	TYR150
D	ASN185
D	GLY188
D	LEU189
D	LYS191
D	ARG192
D	TYR245
D	GLN248
D	GLU249

site_id	BC9
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 D 504

Chain	Residue
D	ARG125
D	LYS126
D	ARG127
E	ARG125
E	LYS126
E	ARG127

site_id	CC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 D 505

Chain	Residue
D	ARG125
D	HIS267
D	MET268
D	ASN269

site_id	CC2
Number of Residues	26
Details	BINDING SITE FOR RESIDUE NAD E 501

Chain	Residue
E	GLY95
E	ALA97
E	GLY98
E	PHE99
E	VAL100
E	ASP119
E	ASN120
E	PHE121
E	PHE122
E	THR123
E	GLY124
E	HIS143
E	ASP144
E	VAL145
E	LEU159
E	ALA160
E	SER161
E	THR178
E	ALA200
E	SER201
E	THR202
E	LYS235
E	ILE258
E	THR261
E	HIS267
E	ARG272

site_id	CC3
Number of Residues	1
Details	BINDING SITE FOR RESIDUE POP E 502

Chain	Residue
E	ARG297

site_id	CC4
Number of Residues	13
Details	BINDING SITE FOR RESIDUE UGA E 503

Chain	Residue
E	PRO148
E	LEU149
E	TYR150
E	ASN185
E	GLY188
E	LEU189
E	LYS191
E	ARG192
E	TYR245
E	GLN248
E	GLU249
E	HOH602
F	LYS177

site_id	CC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 E 504

Chain	Residue
E	ARG125
E	HIS267
E	MET268
E	ASN269

site_id	CC6
Number of Residues	26
Details	BINDING SITE FOR RESIDUE NAD F 501

Chain	Residue
F	GLY95
F	ALA97
F	GLY98
F	PHE99
F	VAL100
F	ASP119
F	ASN120
F	PHE121
F	PHE122
F	THR123
F	GLY124
F	HIS143
F	ASP144
F	VAL145
F	LEU159
F	ALA160
F	SER161
F	THR178
F	SER201
F	THR202
F	LYS235
F	ILE258
F	PHE259
F	THR261
F	HIS267
F	ARG272

site_id	CC7
Number of Residues	13
Details	BINDING SITE FOR RESIDUE UGA F 502

Chain	Residue
E	LYS174
E	LYS177
F	PRO148
F	LEU149
F	TYR150
F	ASN185
F	GLY188
F	LEU189
F	LYS191
F	ARG192
F	TYR245
F	GLN248
F	GLU249

site_id	CC8
Number of Residues	5
Details	BINDING SITE FOR RESIDUE POP F 503

Chain	Residue
F	ASN260
F	ARG272
F	VAL273
F	ARG297
F	PHE299

site_id	CC9
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 F 504

Chain	Residue
F	ARG125
F	HIS267
F	MET268
F	ASN269

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	90
Details	Binding site: {"evidences":[{"source":"PubMed","id":"22810237","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"25521717","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"2B69","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4LK3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M55","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	66
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25521717","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4LK3","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	6
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25521717","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4M55","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	6
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25521717","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4LK3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4M55","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	6
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	6
Details	Glycosylation: {"description":"N-linked (GlcNAc...) asparagine","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

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