Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

1F8I

CRYSTAL STRUCTURE OF ISOCITRATE LYASE:NITROPROPIONATE:GLYOXYLATE COMPLEX FROM MYCOBACTERIUM TUBERCULOSIS

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003824	molecular_function	catalytic activity
A	0004451	molecular_function	isocitrate lyase activity
A	0005576	cellular_component	extracellular region
A	0005829	cellular_component	cytosol
A	0005886	cellular_component	plasma membrane
A	0006097	biological_process	glyoxylate cycle
A	0006099	biological_process	tricarboxylic acid cycle
A	0006102	biological_process	isocitrate metabolic process
A	0016829	molecular_function	lyase activity
A	0019752	biological_process	carboxylic acid metabolic process
A	0035375	molecular_function	zymogen binding
A	0046421	molecular_function	methylisocitrate lyase activity
A	0046872	molecular_function	metal ion binding
A	0071456	biological_process	cellular response to hypoxia
B	0003824	molecular_function	catalytic activity
B	0004451	molecular_function	isocitrate lyase activity
B	0005576	cellular_component	extracellular region
B	0005829	cellular_component	cytosol
B	0005886	cellular_component	plasma membrane
B	0006097	biological_process	glyoxylate cycle
B	0006099	biological_process	tricarboxylic acid cycle
B	0006102	biological_process	isocitrate metabolic process
B	0016829	molecular_function	lyase activity
B	0019752	biological_process	carboxylic acid metabolic process
B	0035375	molecular_function	zymogen binding
B	0046421	molecular_function	methylisocitrate lyase activity
B	0046872	molecular_function	metal ion binding
B	0071456	biological_process	cellular response to hypoxia
C	0003824	molecular_function	catalytic activity
C	0004451	molecular_function	isocitrate lyase activity
C	0005576	cellular_component	extracellular region
C	0005829	cellular_component	cytosol
C	0005886	cellular_component	plasma membrane
C	0006097	biological_process	glyoxylate cycle
C	0006099	biological_process	tricarboxylic acid cycle
C	0006102	biological_process	isocitrate metabolic process
C	0016829	molecular_function	lyase activity
C	0019752	biological_process	carboxylic acid metabolic process
C	0035375	molecular_function	zymogen binding
C	0046421	molecular_function	methylisocitrate lyase activity
C	0046872	molecular_function	metal ion binding
C	0071456	biological_process	cellular response to hypoxia
D	0003824	molecular_function	catalytic activity
D	0004451	molecular_function	isocitrate lyase activity
D	0005576	cellular_component	extracellular region
D	0005829	cellular_component	cytosol
D	0005886	cellular_component	plasma membrane
D	0006097	biological_process	glyoxylate cycle
D	0006099	biological_process	tricarboxylic acid cycle
D	0006102	biological_process	isocitrate metabolic process
D	0016829	molecular_function	lyase activity
D	0019752	biological_process	carboxylic acid metabolic process
D	0035375	molecular_function	zymogen binding
D	0046421	molecular_function	methylisocitrate lyase activity
D	0046872	molecular_function	metal ion binding
D	0071456	biological_process	cellular response to hypoxia

Functional Information from PDB Data

site_id	AC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MG A 451

Chain	Residue
A	ASP153
A	GLV461
A	HOH1001
A	HOH1002
A	HOH1003

site_id	AC2
Number of Residues	6
Details	BINDING SITE FOR RESIDUE MG B 452

Chain	Residue
B	HOH1005
B	HOH1006
B	ASP108
B	ASP153
B	GLV462
B	HOH1004

site_id	AC3
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MG C 453

Chain	Residue
C	ASP153
C	GLV463
C	HOH1007
C	HOH1008
C	HOH1009

site_id	AC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE MG D 454

Chain	Residue
D	ASP153
D	GLV464
D	HOH1010
D	HOH1011
D	HOH1012

site_id	AC5
Number of Residues	11
Details	BINDING SITE FOR RESIDUE GLV A 461

Chain	Residue
A	TYR89
A	SER91
A	GLY92
A	TRP93
A	ASP153
A	ARG228
A	TRP283
A	THR347
A	MG451
A	SIN471
A	HOH1002

site_id	AC6
Number of Residues	12
Details	BINDING SITE FOR RESIDUE GLV B 462

Chain	Residue
B	TYR89
B	SER91
B	GLY92
B	TRP93
B	ASP153
B	ARG228
B	TRP283
B	THR347
B	MG452
B	SIN472
B	HOH1004
B	HOH1005

site_id	AC7
Number of Residues	11
Details	BINDING SITE FOR RESIDUE GLV C 463

Chain	Residue
C	TYR89
C	SER91
C	GLY92
C	TRP93
C	ASP153
C	ARG228
C	TRP283
C	THR347
C	MG453
C	SIN473
C	HOH1009

site_id	AC8
Number of Residues	12
Details	BINDING SITE FOR RESIDUE GLV D 464

Chain	Residue
D	TYR89
D	SER91
D	GLY92
D	TRP93
D	ASP153
D	ARG228
D	THR347
D	MG454
D	SIN474
D	HOH1010
D	HOH1011
D	HOH1012

site_id	AC9
Number of Residues	12
Details	BINDING SITE FOR RESIDUE SIN A 471

Chain	Residue
A	SER191
A	GLY192
A	HIS193
A	ARG228
A	GLU285
A	ASN313
A	SER315
A	SER317
A	THR347
A	GLV461
A	HOH1002
A	HOH1679

site_id	BC1
Number of Residues	13
Details	BINDING SITE FOR RESIDUE SIN B 472

Chain	Residue
B	ASP108
B	SER191
B	GLY192
B	HIS193
B	ARG228
B	GLU285
B	ASN313
B	SER315
B	SER317
B	THR347
B	GLV462
B	HOH1005
B	HOH1680

site_id	BC2
Number of Residues	12
Details	BINDING SITE FOR RESIDUE SIN C 473

Chain	Residue
C	SER317
C	THR347
C	GLV463
C	HOH1008
C	HOH1681
C	SER191
C	GLY192
C	HIS193
C	ARG228
C	GLU285
C	ASN313
C	SER315

site_id	BC3
Number of Residues	13
Details	BINDING SITE FOR RESIDUE SIN D 474

Chain	Residue
D	ASP108
D	SER191
D	GLY192
D	HIS193
D	ARG228
D	GLU285
D	ASN313
D	SER315
D	SER317
D	THR347
D	GLV464
D	HOH1011
D	HOH1682

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	Active site: {"description":"Proton acceptor","evidences":[{"source":"PubMed","id":"24354272","evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	40
Details	Binding site: {"evidences":[{"source":"PubMed","id":"10932251","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	8
Details	Cross-link: {"description":"Isoglutamyl lysine isopeptide (Lys-Gln) (interchain with Q-Cter in protein Pup)","evidences":[{"source":"PubMed","id":"20066036","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

Catalytic Information from CSA

site_id	CSA1
Number of Residues	3
Details	Annotated By Reference To The Literature 1f8m

Chain	Residue	Details
A	ARG228
A	HIS180
A	SER191

site_id	CSA2
Number of Residues	3
Details	Annotated By Reference To The Literature 1f8m

Chain	Residue	Details
B	ARG228
B	HIS180
B	SER191

site_id	CSA3
Number of Residues	3
Details	Annotated By Reference To The Literature 1f8m

Chain	Residue	Details
C	ARG228
C	HIS180
C	SER191

site_id	CSA4
Number of Residues	3
Details	Annotated By Reference To The Literature 1f8m

Chain	Residue	Details
D	ARG228
D	HIS180
D	SER191

site_id	MCSA1
Number of Residues	7
Details	M-CSA 272

Chain	Residue	Details
A	ASP153	metal ligand
A	HIS180	electrostatic stabiliser, hydrogen bond donor
A	SER191	covalent catalysis, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton relay, proton shuttle (general acid/base)
A	HIS193	hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton shuttle (general acid/base)
A	ARG228	electrostatic stabiliser, hydrogen bond donor
A	SER315	electrostatic stabiliser, hydrogen bond donor
A	SER317	electrostatic stabiliser, hydrogen bond donor

site_id	MCSA2
Number of Residues	7
Details	M-CSA 272

Chain	Residue	Details
B	ASP153	metal ligand
B	HIS180	electrostatic stabiliser, hydrogen bond donor
B	SER191	covalent catalysis, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton relay, proton shuttle (general acid/base)
B	HIS193	hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton shuttle (general acid/base)
B	ARG228	electrostatic stabiliser, hydrogen bond donor
B	SER315	electrostatic stabiliser, hydrogen bond donor
B	SER317	electrostatic stabiliser, hydrogen bond donor

site_id	MCSA3
Number of Residues	7
Details	M-CSA 272

Chain	Residue	Details
C	ASP153	metal ligand
C	HIS180	electrostatic stabiliser, hydrogen bond donor
C	SER191	covalent catalysis, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton relay, proton shuttle (general acid/base)
C	HIS193	hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton shuttle (general acid/base)
C	ARG228	electrostatic stabiliser, hydrogen bond donor
C	SER315	electrostatic stabiliser, hydrogen bond donor
C	SER317	electrostatic stabiliser, hydrogen bond donor

site_id	MCSA4
Number of Residues	7
Details	M-CSA 272

Chain	Residue	Details
D	ASP153	metal ligand
D	HIS180	electrostatic stabiliser, hydrogen bond donor
D	SER191	covalent catalysis, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton relay, proton shuttle (general acid/base)
D	HIS193	hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor, proton shuttle (general acid/base)
D	ARG228	electrostatic stabiliser, hydrogen bond donor
D	SER315	electrostatic stabiliser, hydrogen bond donor
D	SER317	electrostatic stabiliser, hydrogen bond donor

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