Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4L6D

Crystal structure of 5-carboxyvanillate decarboxylase from Sphingomonas paucimobilis complexed with vanillic acid

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0016787	molecular_function	hydrolase activity
A	0016829	molecular_function	lyase activity
A	0016831	molecular_function	carboxy-lyase activity
A	0019748	biological_process	secondary metabolic process
A	0046872	molecular_function	metal ion binding
A	1901360	biological_process	organic cyclic compound metabolic process
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0016787	molecular_function	hydrolase activity
B	0016829	molecular_function	lyase activity
B	0016831	molecular_function	carboxy-lyase activity
B	0019748	biological_process	secondary metabolic process
B	0046872	molecular_function	metal ion binding
B	1901360	biological_process	organic cyclic compound metabolic process
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0016787	molecular_function	hydrolase activity
C	0016829	molecular_function	lyase activity
C	0016831	molecular_function	carboxy-lyase activity
C	0019748	biological_process	secondary metabolic process
C	0046872	molecular_function	metal ion binding
C	1901360	biological_process	organic cyclic compound metabolic process
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0016787	molecular_function	hydrolase activity
D	0016829	molecular_function	lyase activity
D	0016831	molecular_function	carboxy-lyase activity
D	0019748	biological_process	secondary metabolic process
D	0046872	molecular_function	metal ion binding
D	1901360	biological_process	organic cyclic compound metabolic process
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0016787	molecular_function	hydrolase activity
E	0016829	molecular_function	lyase activity
E	0016831	molecular_function	carboxy-lyase activity
E	0019748	biological_process	secondary metabolic process
E	0046872	molecular_function	metal ion binding
E	1901360	biological_process	organic cyclic compound metabolic process
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0016787	molecular_function	hydrolase activity
F	0016829	molecular_function	lyase activity
F	0016831	molecular_function	carboxy-lyase activity
F	0019748	biological_process	secondary metabolic process
F	0046872	molecular_function	metal ion binding
F	1901360	biological_process	organic cyclic compound metabolic process
G	0005737	cellular_component	cytoplasm
G	0005829	cellular_component	cytosol
G	0016787	molecular_function	hydrolase activity
G	0016829	molecular_function	lyase activity
G	0016831	molecular_function	carboxy-lyase activity
G	0019748	biological_process	secondary metabolic process
G	0046872	molecular_function	metal ion binding
G	1901360	biological_process	organic cyclic compound metabolic process
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0016787	molecular_function	hydrolase activity
H	0016829	molecular_function	lyase activity
H	0016831	molecular_function	carboxy-lyase activity
H	0019748	biological_process	secondary metabolic process
H	0046872	molecular_function	metal ion binding
H	1901360	biological_process	organic cyclic compound metabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MN A 401

Chain	Residue
A	GLU7
A	HIS173
A	ASP296
A	VNL402
A	HOH791

site_id	AC2
Number of Residues	14
Details	BINDING SITE FOR RESIDUE VNL A 402

Chain	Residue
A	SER192
A	ASP296
A	TYR299
A	MN401
A	HOH525
A	HOH527
A	HOH565
A	HOH628
H	ASN244
H	HOH900
A	LEU34
A	ARG45
A	ALA77
A	HIS173

site_id	AC3
Number of Residues	9
Details	BINDING SITE FOR RESIDUE VNL A 403

Chain	Residue
A	THR89
A	ARG90
A	ARG93
A	HOH797
A	HOH817
A	HOH928
A	HOH931
F	GLN13
F	HOH596

site_id	AC4
Number of Residues	9
Details	BINDING SITE FOR RESIDUE VNL A 404

Chain	Residue
A	LEU235
A	TRP236
A	ASP239
A	HOH642
A	HOH740
E	VNL404
H	SER275
H	HOH526
H	HOH557

site_id	AC5
Number of Residues	5
Details	BINDING SITE FOR RESIDUE EPE A 405

Chain	Residue
A	TYR240
A	MET241
A	GLY243
A	ASN244
A	HOH567

site_id	AC6
Number of Residues	7
Details	BINDING SITE FOR RESIDUE MN A 406

Chain	Residue
A	ARG136
A	HOH537
A	HOH870
A	HOH910
A	HOH940
A	HOH941
A	HOH943

site_id	AC7
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MN B 401

Chain	Residue
B	GLU7
B	HIS173
B	ASP296
B	VNL402
B	HOH950

site_id	AC8
Number of Residues	14
Details	BINDING SITE FOR RESIDUE VNL B 402

Chain	Residue
B	LEU34
B	ARG45
B	ALA77
B	HIS173
B	SER192
B	ASP296
B	TYR299
B	MN401
B	HOH513
B	HOH524
B	HOH553
B	HOH614
G	ASN244
G	HOH682

site_id	AC9
Number of Residues	11
Details	BINDING SITE FOR RESIDUE VNL B 403

Chain	Residue
B	LEU235
B	TRP236
B	ASP239
B	ARG263
B	HOH567
B	HOH596
B	HOH700
B	HOH897
G	SER275
G	HOH521
H	VNL403

site_id	BC1
Number of Residues	8
Details	BINDING SITE FOR RESIDUE VNL B 404

Chain	Residue
A	LYS253
A	LEU254
A	LYS255
A	HOH689
B	ARG24
B	ASP41
B	HOH828
B	HOH965

site_id	BC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EPE B 405

Chain	Residue
B	TYR240
B	MET241
B	GLY243
B	ASN244

site_id	BC3
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MN C 401

Chain	Residue
C	GLU7
C	HIS173
C	ASP296
C	VNL402
C	HOH897

site_id	BC4
Number of Residues	14
Details	BINDING SITE FOR RESIDUE VNL C 402

Chain	Residue
C	HIS173
C	SER192
C	ASP296
C	TYR299
C	MN401
C	HOH515
C	HOH555
C	HOH558
C	HOH617
F	ASN244
F	HOH615
C	LEU34
C	ARG45
C	ALA77

site_id	BC5
Number of Residues	10
Details	BINDING SITE FOR RESIDUE VNL C 403

Chain	Residue
C	LEU235
C	TRP236
C	ASP239
C	HOH547
C	HOH587
C	HOH729
C	HOH813
F	SER275
F	HOH511
G	VNL403

site_id	BC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE EPE C 404

Chain	Residue
C	TYR240
C	MET241
C	GLY243
C	ASN244
C	HOH810

site_id	BC7
Number of Residues	7
Details	BINDING SITE FOR RESIDUE GOL C 405

Chain	Residue
C	PRO304
C	PHE308
C	THR311
C	HOH574
C	HOH614
C	HOH722
D	ARG263

site_id	BC8
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MN D 401

Chain	Residue
D	GLU7
D	HIS173
D	ASP296
D	VNL402
D	HOH908

site_id	BC9
Number of Residues	14
Details	BINDING SITE FOR RESIDUE VNL D 402

Chain	Residue
D	LEU34
D	ARG45
D	ALA77
D	HIS173
D	SER192
D	ASP296
D	TYR299
D	MN401
D	HOH533
D	HOH545
D	HOH565
D	HOH606
E	ASN244
E	HOH595

site_id	CC1
Number of Residues	11
Details	BINDING SITE FOR RESIDUE VNL D 403

Chain	Residue
D	LEU235
D	TRP236
D	ASP239
D	ARG263
D	HOH605
D	HOH631
D	HOH770
D	HOH856
E	SER275
E	HOH532
F	VNL403

site_id	CC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EPE D 404

Chain	Residue
D	TYR240
D	MET241
D	GLY243
D	ASN244

site_id	CC3
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MN E 401

Chain	Residue
E	GLU7
E	HIS173
E	ASP296
E	VNL402
E	HOH915

site_id	CC4
Number of Residues	14
Details	BINDING SITE FOR RESIDUE VNL E 402

Chain	Residue
D	ASN244
D	HOH912
E	LEU34
E	ARG45
E	ALA77
E	HIS173
E	SER192
E	ASP296
E	TYR299
E	MN401
E	HOH529
E	HOH533
E	HOH543
E	HOH601

site_id	CC5
Number of Residues	7
Details	BINDING SITE FOR RESIDUE VNL E 403

Chain	Residue
A	ARG93
A	ASP97
A	LEU98
A	HOH793
A	HOH861
E	ARG126
E	HOH838

site_id	CC6
Number of Residues	11
Details	BINDING SITE FOR RESIDUE VNL E 404

Chain	Residue
A	VNL404
D	SER275
D	HOH530
E	LEU235
E	TRP236
E	ASP239
E	ARG263
E	HOH556
E	HOH610
E	HOH747
E	HOH752

site_id	CC7
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EPE E 405

Chain	Residue
E	TYR240
E	MET241
E	GLY243
E	ASN244

site_id	CC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PEG E 406

Chain	Residue
E	PRO46
E	ALA47
G	ARG20
G	HOH579

site_id	CC9
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MN F 401

Chain	Residue
F	GLU7
F	HIS173
F	ASP296
F	VNL402
F	HOH909

site_id	DC1
Number of Residues	14
Details	BINDING SITE FOR RESIDUE VNL F 402

Chain	Residue
C	ASN244
C	HOH899
F	LEU34
F	ARG45
F	ALA77
F	HIS173
F	SER192
F	ASP296
F	TYR299
F	MN401
F	HOH517
F	HOH534
F	HOH562
F	HOH625

site_id	DC2
Number of Residues	11
Details	BINDING SITE FOR RESIDUE VNL F 403

Chain	Residue
C	SER275
C	HOH508
D	VNL403
F	LEU235
F	TRP236
F	ASP239
F	ARG263
F	HOH576
F	HOH680
F	HOH786
F	HOH838

site_id	DC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EPE F 404

Chain	Residue
F	TYR240
F	MET241
F	GLY243
F	ASN244

site_id	DC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MN G 401

Chain	Residue
G	GLU7
G	HIS173
G	ASP296
G	VNL402
G	HOH938

site_id	DC5
Number of Residues	15
Details	BINDING SITE FOR RESIDUE VNL G 402

Chain	Residue
B	ASN244
B	HOH956
G	LEU34
G	ARG45
G	THR76
G	ALA77
G	HIS173
G	SER192
G	ASP296
G	TYR299
G	MN401
G	HOH517
G	HOH530
G	HOH554
G	HOH635

site_id	DC6
Number of Residues	10
Details	BINDING SITE FOR RESIDUE VNL G 403

Chain	Residue
B	SER275
C	VNL403
G	LEU235
G	TRP236
G	ASP239
G	HOH525
G	HOH570
G	HOH647
G	HOH750
G	HOH889

site_id	DC7
Number of Residues	6
Details	BINDING SITE FOR RESIDUE VNL G 404

Chain	Residue
F	LYS253
F	LEU254
F	LYS255
G	ARG24
G	ASP41
G	HOH818

site_id	DC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EPE G 405

Chain	Residue
G	TYR240
G	MET241
G	GLY243
G	ASN244

site_id	DC9
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MN H 401

Chain	Residue
H	GLU7
H	HIS173
H	ASP296
H	VNL402
H	HOH898

site_id	EC1
Number of Residues	15
Details	BINDING SITE FOR RESIDUE VNL H 402

Chain	Residue
A	ASN244
A	HOH926
H	LEU34
H	ARG45
H	THR76
H	ALA77
H	HIS173
H	SER192
H	ASP296
H	TYR299
H	MN401
H	HOH508
H	HOH529
H	HOH551
H	HOH590

site_id	EC2
Number of Residues	10
Details	BINDING SITE FOR RESIDUE VNL H 403

Chain	Residue
A	SER275
A	HOH517
A	HOH564
B	VNL403
H	LEU235
H	TRP236
H	ASP239
H	HOH609
H	HOH745
H	HOH803

site_id	EC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE EPE H 404

Chain	Residue
H	TYR240
H	MET241
H	GLY243
H	ASN244

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