Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

2D69

Crystal structure of the complex of sulfate ion and octameric ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) from Pyrococcus horikoshii OT3 (form-2 crystal)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000287	molecular_function	magnesium ion binding
A	0006196	biological_process	AMP catabolic process
A	0015977	biological_process	carbon fixation
A	0016491	molecular_function	oxidoreductase activity
A	0016829	molecular_function	lyase activity
A	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
A	0046872	molecular_function	metal ion binding
B	0000287	molecular_function	magnesium ion binding
B	0006196	biological_process	AMP catabolic process
B	0015977	biological_process	carbon fixation
B	0016491	molecular_function	oxidoreductase activity
B	0016829	molecular_function	lyase activity
B	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
B	0046872	molecular_function	metal ion binding
D	0000287	molecular_function	magnesium ion binding
D	0006196	biological_process	AMP catabolic process
D	0015977	biological_process	carbon fixation
D	0016491	molecular_function	oxidoreductase activity
D	0016829	molecular_function	lyase activity
D	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
D	0046872	molecular_function	metal ion binding
E	0000287	molecular_function	magnesium ion binding
E	0006196	biological_process	AMP catabolic process
E	0015977	biological_process	carbon fixation
E	0016491	molecular_function	oxidoreductase activity
E	0016829	molecular_function	lyase activity
E	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
E	0046872	molecular_function	metal ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 A 1001

Chain	Residue
A	LYS160
A	GLY349
A	GLY350
A	GLN370
A	GLY372
A	GLY373
A	HOH1094
A	HOH1135

site_id	AC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 A 1002

Chain	Residue
A	HIS311
A	HOH1141
A	HOH1200
A	HOH1217
A	ARG279

site_id	AC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 A 1003

Chain	Residue
A	TYR31
A	HIS78
A	ARG119
A	PRO289

site_id	AC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 A 1004

Chain	Residue
A	GLY148
A	VAL149
A	LYS150
A	ASP151
A	ARG152

site_id	AC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 A 1005

Chain	Residue
A	LYS205
A	ARG208
A	VAL209
A	ARG212

site_id	AC6
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 B 2001

Chain	Residue
B	GLY349
B	GLY350
B	GLN370
B	GLY372
B	GLY373
B	HOH2076
B	HOH2077

site_id	AC7
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 B 2002

Chain	Residue
B	ARG279
B	HIS311
B	SER348
B	HOH2149
B	HOH2150
B	HOH2155

site_id	AC8
Number of Residues	6
Details	BINDING SITE FOR RESIDUE SO4 B 2003

Chain	Residue
B	TYR31
B	HIS78
B	ARG119
B	LEU121
B	PRO289
B	HOH2082

site_id	AC9
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 B 2004

Chain	Residue
B	GLY148
B	VAL149
B	ARG152

site_id	BC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SO4 B 2005

Chain	Residue
B	LYS205
B	ARG208
B	VAL209
B	ARG212

site_id	BC2
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SO4 D 3001

Chain	Residue
D	LYS160
D	GLY349
D	GLY350
D	GLN370
D	GLY372
D	GLY373
D	HOH3025
D	HOH3108

site_id	BC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 D 3002

Chain	Residue
D	ARG279
D	HIS311
D	HOH3147

site_id	BC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 D 3003

Chain	Residue
D	TYR31
D	HIS78
D	ARG119
D	PRO289
D	HOH3129

site_id	BC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 D 3004

Chain	Residue
D	GLY148
D	VAL149
D	ARG152

site_id	BC6
Number of Residues	7
Details	BINDING SITE FOR RESIDUE SO4 E 4001

Chain	Residue
E	LYS160
E	GLY350
E	GLN370
E	GLY372
E	GLY373
E	HOH4157
E	HOH4175

site_id	BC7
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 E 4002

Chain	Residue
E	ARG279
E	HIS311
E	SER348
E	HOH4146
E	HOH4147

site_id	BC8
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 E 4003

Chain	Residue
E	TYR31
E	HIS78
E	PRO289

site_id	BC9
Number of Residues	5
Details	BINDING SITE FOR RESIDUE SO4 E 4004

Chain	Residue
E	GLY148
E	VAL149
E	LYS150
E	ASP151
E	ARG152

site_id	CC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE SO4 E 4005

Chain	Residue
E	LYS205
E	ARG208
E	VAL209

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	8
Details	ACT_SITE: Proton acceptor => ECO:0000255\|HAMAP-Rule:MF_01133

Chain	Residue	Details
A	LYS160
A	HIS278
B	LYS160
B	HIS278
D	LYS160
D	HIS278
E	LYS160
E	HIS278

site_id	SWS_FT_FI2
Number of Residues	28
Details	BINDING: BINDING => ECO:0000255\|HAMAP-Rule:MF_01133

Chain	Residue	Details
A	LYS162
B	GLU189
B	ARG279
B	HIS311
B	SER348
B	GLN370
D	LYS162
D	ASP188
D	GLU189
D	ARG279
D	HIS311
A	ASP188
D	SER348
D	GLN370
E	LYS162
E	ASP188
E	GLU189
E	ARG279
E	HIS311
E	SER348
E	GLN370
A	GLU189
A	ARG279
A	HIS311
A	SER348
A	GLN370
B	LYS162
B	ASP188

site_id	SWS_FT_FI3
Number of Residues	4
Details	BINDING: via carbamate group => ECO:0000255\|HAMAP-Rule:MF_01133

Chain	Residue	Details
A	LYS186
B	LYS186
D	LYS186
E	LYS186

site_id	SWS_FT_FI4
Number of Residues	4
Details	SITE: Transition state stabilizer => ECO:0000255\|HAMAP-Rule:MF_01133

Chain	Residue	Details
A	LYS318
B	LYS318
D	LYS318
E	LYS318

site_id	SWS_FT_FI5
Number of Residues	4
Details	MOD_RES: N6-carboxylysine => ECO:0000255\|HAMAP-Rule:MF_01133

Chain	Residue	Details
A	LYS186
B	LYS186
D	LYS186
E	LYS186

Catalytic Information from CSA

site_id	CSA1
Number of Residues	6
Details	Annotated By Reference To The Literature 1rbl

Chain	Residue	Details
A	HIS311
A	HIS278
A	LYS186
A	LYS160
A	ASP188
A	LYS162

site_id	CSA2
Number of Residues	6
Details	Annotated By Reference To The Literature 1rbl

Chain	Residue	Details
B	HIS311
B	HIS278
B	LYS186
B	LYS160
B	ASP188
B	LYS162

site_id	CSA3
Number of Residues	6
Details	Annotated By Reference To The Literature 1rbl

Chain	Residue	Details
D	HIS311
D	HIS278
D	LYS186
D	LYS160
D	ASP188
D	LYS162

site_id	CSA4
Number of Residues	6
Details	Annotated By Reference To The Literature 1rbl

Chain	Residue	Details
E	HIS311
E	HIS278
E	LYS186
E	LYS160
E	ASP188
E	LYS162

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