Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

9L5I

CryoEM structure of Arabidopsis thaliana D397N Rubisco with D4 symmetry

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000287	molecular_function	magnesium ion binding
A	0003729	molecular_function	mRNA binding
A	0005515	molecular_function	protein binding
A	0009505	cellular_component	plant-type cell wall
A	0009507	cellular_component	chloroplast
A	0009535	cellular_component	chloroplast thylakoid membrane
A	0009536	cellular_component	plastid
A	0009570	cellular_component	chloroplast stroma
A	0009579	cellular_component	thylakoid
A	0009737	biological_process	response to abscisic acid
A	0009941	cellular_component	chloroplast envelope
A	0015977	biological_process	carbon fixation
A	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
A	0019253	biological_process	reductive pentose-phosphate cycle
A	0022626	cellular_component	cytosolic ribosome
A	0046686	biological_process	response to cadmium ion
A	0048046	cellular_component	apoplast
B	0000287	molecular_function	magnesium ion binding
B	0003729	molecular_function	mRNA binding
B	0005515	molecular_function	protein binding
B	0009505	cellular_component	plant-type cell wall
B	0009507	cellular_component	chloroplast
B	0009535	cellular_component	chloroplast thylakoid membrane
B	0009536	cellular_component	plastid
B	0009570	cellular_component	chloroplast stroma
B	0009579	cellular_component	thylakoid
B	0009737	biological_process	response to abscisic acid
B	0009941	cellular_component	chloroplast envelope
B	0015977	biological_process	carbon fixation
B	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
B	0019253	biological_process	reductive pentose-phosphate cycle
B	0022626	cellular_component	cytosolic ribosome
B	0046686	biological_process	response to cadmium ion
B	0048046	cellular_component	apoplast
C	0003729	molecular_function	mRNA binding
C	0005507	molecular_function	copper ion binding
C	0005515	molecular_function	protein binding
C	0005739	cellular_component	mitochondrion
C	0009409	biological_process	response to cold
C	0009507	cellular_component	chloroplast
C	0009535	cellular_component	chloroplast thylakoid membrane
C	0009570	cellular_component	chloroplast stroma
C	0009579	cellular_component	thylakoid
C	0009941	cellular_component	chloroplast envelope
C	0015977	biological_process	carbon fixation
C	0015979	biological_process	photosynthesis
C	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
C	0019253	biological_process	reductive pentose-phosphate cycle
C	0022626	cellular_component	cytosolic ribosome
C	0031969	cellular_component	chloroplast membrane
C	0031977	cellular_component	thylakoid lumen
C	0048046	cellular_component	apoplast
C	0110102	biological_process	ribulose bisphosphate carboxylase complex assembly
C	1901149	molecular_function	salicylic acid binding
D	0000287	molecular_function	magnesium ion binding
D	0003729	molecular_function	mRNA binding
D	0005515	molecular_function	protein binding
D	0009505	cellular_component	plant-type cell wall
D	0009507	cellular_component	chloroplast
D	0009535	cellular_component	chloroplast thylakoid membrane
D	0009536	cellular_component	plastid
D	0009570	cellular_component	chloroplast stroma
D	0009579	cellular_component	thylakoid
D	0009737	biological_process	response to abscisic acid
D	0009941	cellular_component	chloroplast envelope
D	0015977	biological_process	carbon fixation
D	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
D	0019253	biological_process	reductive pentose-phosphate cycle
D	0022626	cellular_component	cytosolic ribosome
D	0046686	biological_process	response to cadmium ion
D	0048046	cellular_component	apoplast
E	0003729	molecular_function	mRNA binding
E	0005507	molecular_function	copper ion binding
E	0005515	molecular_function	protein binding
E	0005739	cellular_component	mitochondrion
E	0009409	biological_process	response to cold
E	0009507	cellular_component	chloroplast
E	0009535	cellular_component	chloroplast thylakoid membrane
E	0009570	cellular_component	chloroplast stroma
E	0009579	cellular_component	thylakoid
E	0009941	cellular_component	chloroplast envelope
E	0015977	biological_process	carbon fixation
E	0015979	biological_process	photosynthesis
E	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
E	0019253	biological_process	reductive pentose-phosphate cycle
E	0022626	cellular_component	cytosolic ribosome
E	0031969	cellular_component	chloroplast membrane
E	0031977	cellular_component	thylakoid lumen
E	0048046	cellular_component	apoplast
E	0110102	biological_process	ribulose bisphosphate carboxylase complex assembly
E	1901149	molecular_function	salicylic acid binding
F	0000287	molecular_function	magnesium ion binding
F	0003729	molecular_function	mRNA binding
F	0005515	molecular_function	protein binding
F	0009505	cellular_component	plant-type cell wall
F	0009507	cellular_component	chloroplast
F	0009535	cellular_component	chloroplast thylakoid membrane
F	0009536	cellular_component	plastid
F	0009570	cellular_component	chloroplast stroma
F	0009579	cellular_component	thylakoid
F	0009737	biological_process	response to abscisic acid
F	0009941	cellular_component	chloroplast envelope
F	0015977	biological_process	carbon fixation
F	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
F	0019253	biological_process	reductive pentose-phosphate cycle
F	0022626	cellular_component	cytosolic ribosome
F	0046686	biological_process	response to cadmium ion
F	0048046	cellular_component	apoplast
G	0003729	molecular_function	mRNA binding
G	0005507	molecular_function	copper ion binding
G	0005515	molecular_function	protein binding
G	0005739	cellular_component	mitochondrion
G	0009409	biological_process	response to cold
G	0009507	cellular_component	chloroplast
G	0009535	cellular_component	chloroplast thylakoid membrane
G	0009570	cellular_component	chloroplast stroma
G	0009579	cellular_component	thylakoid
G	0009941	cellular_component	chloroplast envelope
G	0015977	biological_process	carbon fixation
G	0015979	biological_process	photosynthesis
G	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
G	0019253	biological_process	reductive pentose-phosphate cycle
G	0022626	cellular_component	cytosolic ribosome
G	0031969	cellular_component	chloroplast membrane
G	0031977	cellular_component	thylakoid lumen
G	0048046	cellular_component	apoplast
G	0110102	biological_process	ribulose bisphosphate carboxylase complex assembly
G	1901149	molecular_function	salicylic acid binding
H	0000287	molecular_function	magnesium ion binding
H	0003729	molecular_function	mRNA binding
H	0005515	molecular_function	protein binding
H	0009505	cellular_component	plant-type cell wall
H	0009507	cellular_component	chloroplast
H	0009535	cellular_component	chloroplast thylakoid membrane
H	0009536	cellular_component	plastid
H	0009570	cellular_component	chloroplast stroma
H	0009579	cellular_component	thylakoid
H	0009737	biological_process	response to abscisic acid
H	0009941	cellular_component	chloroplast envelope
H	0015977	biological_process	carbon fixation
H	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
H	0019253	biological_process	reductive pentose-phosphate cycle
H	0022626	cellular_component	cytosolic ribosome
H	0046686	biological_process	response to cadmium ion
H	0048046	cellular_component	apoplast
I	0003729	molecular_function	mRNA binding
I	0005507	molecular_function	copper ion binding
I	0005515	molecular_function	protein binding
I	0005739	cellular_component	mitochondrion
I	0009409	biological_process	response to cold
I	0009507	cellular_component	chloroplast
I	0009535	cellular_component	chloroplast thylakoid membrane
I	0009570	cellular_component	chloroplast stroma
I	0009579	cellular_component	thylakoid
I	0009941	cellular_component	chloroplast envelope
I	0015977	biological_process	carbon fixation
I	0015979	biological_process	photosynthesis
I	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
I	0019253	biological_process	reductive pentose-phosphate cycle
I	0022626	cellular_component	cytosolic ribosome
I	0031969	cellular_component	chloroplast membrane
I	0031977	cellular_component	thylakoid lumen
I	0048046	cellular_component	apoplast
I	0110102	biological_process	ribulose bisphosphate carboxylase complex assembly
I	1901149	molecular_function	salicylic acid binding
J	0000287	molecular_function	magnesium ion binding
J	0003729	molecular_function	mRNA binding
J	0005515	molecular_function	protein binding
J	0009505	cellular_component	plant-type cell wall
J	0009507	cellular_component	chloroplast
J	0009535	cellular_component	chloroplast thylakoid membrane
J	0009536	cellular_component	plastid
J	0009570	cellular_component	chloroplast stroma
J	0009579	cellular_component	thylakoid
J	0009737	biological_process	response to abscisic acid
J	0009941	cellular_component	chloroplast envelope
J	0015977	biological_process	carbon fixation
J	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
J	0019253	biological_process	reductive pentose-phosphate cycle
J	0022626	cellular_component	cytosolic ribosome
J	0046686	biological_process	response to cadmium ion
J	0048046	cellular_component	apoplast
K	0003729	molecular_function	mRNA binding
K	0005507	molecular_function	copper ion binding
K	0005515	molecular_function	protein binding
K	0005739	cellular_component	mitochondrion
K	0009409	biological_process	response to cold
K	0009507	cellular_component	chloroplast
K	0009535	cellular_component	chloroplast thylakoid membrane
K	0009570	cellular_component	chloroplast stroma
K	0009579	cellular_component	thylakoid
K	0009941	cellular_component	chloroplast envelope
K	0015977	biological_process	carbon fixation
K	0015979	biological_process	photosynthesis
K	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
K	0019253	biological_process	reductive pentose-phosphate cycle
K	0022626	cellular_component	cytosolic ribosome
K	0031969	cellular_component	chloroplast membrane
K	0031977	cellular_component	thylakoid lumen
K	0048046	cellular_component	apoplast
K	0110102	biological_process	ribulose bisphosphate carboxylase complex assembly
K	1901149	molecular_function	salicylic acid binding
L	0000287	molecular_function	magnesium ion binding
L	0003729	molecular_function	mRNA binding
L	0005515	molecular_function	protein binding
L	0009505	cellular_component	plant-type cell wall
L	0009507	cellular_component	chloroplast
L	0009535	cellular_component	chloroplast thylakoid membrane
L	0009536	cellular_component	plastid
L	0009570	cellular_component	chloroplast stroma
L	0009579	cellular_component	thylakoid
L	0009737	biological_process	response to abscisic acid
L	0009941	cellular_component	chloroplast envelope
L	0015977	biological_process	carbon fixation
L	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
L	0019253	biological_process	reductive pentose-phosphate cycle
L	0022626	cellular_component	cytosolic ribosome
L	0046686	biological_process	response to cadmium ion
L	0048046	cellular_component	apoplast
M	0003729	molecular_function	mRNA binding
M	0005507	molecular_function	copper ion binding
M	0005515	molecular_function	protein binding
M	0005739	cellular_component	mitochondrion
M	0009409	biological_process	response to cold
M	0009507	cellular_component	chloroplast
M	0009535	cellular_component	chloroplast thylakoid membrane
M	0009570	cellular_component	chloroplast stroma
M	0009579	cellular_component	thylakoid
M	0009941	cellular_component	chloroplast envelope
M	0015977	biological_process	carbon fixation
M	0015979	biological_process	photosynthesis
M	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
M	0019253	biological_process	reductive pentose-phosphate cycle
M	0022626	cellular_component	cytosolic ribosome
M	0031969	cellular_component	chloroplast membrane
M	0031977	cellular_component	thylakoid lumen
M	0048046	cellular_component	apoplast
M	0110102	biological_process	ribulose bisphosphate carboxylase complex assembly
M	1901149	molecular_function	salicylic acid binding
N	0000287	molecular_function	magnesium ion binding
N	0003729	molecular_function	mRNA binding
N	0005515	molecular_function	protein binding
N	0009505	cellular_component	plant-type cell wall
N	0009507	cellular_component	chloroplast
N	0009535	cellular_component	chloroplast thylakoid membrane
N	0009536	cellular_component	plastid
N	0009570	cellular_component	chloroplast stroma
N	0009579	cellular_component	thylakoid
N	0009737	biological_process	response to abscisic acid
N	0009941	cellular_component	chloroplast envelope
N	0015977	biological_process	carbon fixation
N	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
N	0019253	biological_process	reductive pentose-phosphate cycle
N	0022626	cellular_component	cytosolic ribosome
N	0046686	biological_process	response to cadmium ion
N	0048046	cellular_component	apoplast
O	0003729	molecular_function	mRNA binding
O	0005507	molecular_function	copper ion binding
O	0005515	molecular_function	protein binding
O	0005739	cellular_component	mitochondrion
O	0009409	biological_process	response to cold
O	0009507	cellular_component	chloroplast
O	0009535	cellular_component	chloroplast thylakoid membrane
O	0009570	cellular_component	chloroplast stroma
O	0009579	cellular_component	thylakoid
O	0009941	cellular_component	chloroplast envelope
O	0015977	biological_process	carbon fixation
O	0015979	biological_process	photosynthesis
O	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
O	0019253	biological_process	reductive pentose-phosphate cycle
O	0022626	cellular_component	cytosolic ribosome
O	0031969	cellular_component	chloroplast membrane
O	0031977	cellular_component	thylakoid lumen
O	0048046	cellular_component	apoplast
O	0110102	biological_process	ribulose bisphosphate carboxylase complex assembly
O	1901149	molecular_function	salicylic acid binding
S	0003729	molecular_function	mRNA binding
S	0005507	molecular_function	copper ion binding
S	0005515	molecular_function	protein binding
S	0005739	cellular_component	mitochondrion
S	0009409	biological_process	response to cold
S	0009507	cellular_component	chloroplast
S	0009535	cellular_component	chloroplast thylakoid membrane
S	0009570	cellular_component	chloroplast stroma
S	0009579	cellular_component	thylakoid
S	0009941	cellular_component	chloroplast envelope
S	0015977	biological_process	carbon fixation
S	0015979	biological_process	photosynthesis
S	0016984	molecular_function	ribulose-bisphosphate carboxylase activity
S	0019253	biological_process	reductive pentose-phosphate cycle
S	0022626	cellular_component	cytosolic ribosome
S	0031969	cellular_component	chloroplast membrane
S	0031977	cellular_component	thylakoid lumen
S	0048046	cellular_component	apoplast
S	0110102	biological_process	ribulose bisphosphate carboxylase complex assembly
S	1901149	molecular_function	salicylic acid binding

Functional Information from PROSITE/UniProt

site_id	PS00157
Number of Residues	9
Details	RUBISCO_LARGE Ribulose bisphosphate carboxylase large chain active site. GlDFtKdDE

Chain	Residue	Details
A	GLY196-GLU204

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	16
Details	Active site: {"description":"Proton acceptor","evidences":[{"source":"HAMAP-Rule","id":"MF_01338","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	88
Details	Binding site: {"evidences":[{"source":"PubMed","id":"29372894","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5IU0","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	8
Details	Binding site: {"description":"in homodimeric partner","evidences":[{"source":"HAMAP-Rule","id":"MF_01338","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"29372894","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5IU0","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	8
Details	Binding site: {"description":"via carbamate group","evidences":[{"source":"HAMAP-Rule","id":"MF_01338","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"29372894","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5IU0","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	24
Details	Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_01338","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"29372894","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5IU0","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	8
Details	Modified residue: {"description":"N6-carboxylysine","evidences":[{"source":"HAMAP-Rule","id":"MF_01338","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"29372894","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5IU0","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	8
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"22092075","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	8
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"19376835","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	8
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19376835","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)