1K8Q - JenaLib

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Biological Unit 1 (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF DOG GASTRIC LIPASE IN COMPLEX WITH A PHOSPHONATE INHIBITOR

Authors :   A. Roussel, N. Miled, L. Berti-Dupuis, M. Riviere, S. Spinelli, P. Bern V. Gruber, R. Verger, C. Cambillau

Date :   25 Oct 01 (Deposition) - 06 Mar 02 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.70

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

Keywords :   Apha Beta Hydrolase Fold, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Roussel, N. Miled, L. Berti-Dupuis, M. Riviere, S. Spinelli, P. Berna, V. Gruber, R. Verger, C. Cambillau
Crystal Structure Of The Open Form Of Dog Gastric Lipase In Complex With A Phosphonate Inhibitor.
J. Biol. Chem. V. 277 2266 2002
PubMed-ID: 11689574 | Reference-DOI: 10.1074/JBC.M109484200

Molecule 1 - TRIACYLGLYCEROL LIPASE, GASTRIC
	Chains	:	A, B
	EC Number	:	3.1.1.3
	Engineered	:	YES
	Expression System	:	ZEA MAYS
	Expression System Plasmid	:	PUC18
	Expression System Strain	:	HI-II MAIZE GERMPLASM
	Expression System Taxid	:	4577
	Gene	:	LIPF
	Organism Common	:	DOG
	Organism Scientific	:	CANIS LUPUS FAMILIARIS
	Organism Taxid	:	9615
	Strain	:	FAMILIARIS

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 12)

No.	Name	Count	Type	Full Name
1	BOG	2	Ligand/Ion	B-OCTYLGLUCOSIDE
2	C11	2	Ligand/Ion	UNDECYL-PHOSPHINIC ACID BUTYL ESTER
3	NAG	8	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (3, 6)

No.	Name	Count	Type	Full Name
1	BOG	1	Ligand/Ion	B-OCTYLGLUCOSIDE
2	C11	1	Ligand/Ion	UNDECYL-PHOSPHINIC ACID BUTYL ESTER
3	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (3, 6)

No.	Name	Count	Type	Full Name
1	BOG	1	Ligand/Ion	B-OCTYLGLUCOSIDE
2	C11	1	Ligand/Ion	UNDECYL-PHOSPHINIC ACID BUTYL ESTER
3	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:15 , GLN A:18 , GLU A:29 , HOH A:2108	BINDING SITE FOR RESIDUE NAG A 1001
02	AC2	SOFTWARE	ASN A:80 , GLN A:364 , HOH A:2099 , HOH A:2120	BINDING SITE FOR RESIDUE NAG A 1002
03	AC3	SOFTWARE	ASN A:9 , LEU A:78 , ASN A:81 , ASN A:252 , ARG A:255 , MET A:360 , HOH A:2014	BINDING SITE FOR RESIDUE NAG A 1003
04	AC4	SOFTWARE	TYR A:306 , ASN A:308 , HOH A:2044 , HOH A:2110 , HOH A:2134	BINDING SITE FOR RESIDUE NAG A 1005
05	AC5	SOFTWARE	ASN B:15 , GLN B:18 , GLU B:29 , HOH B:2021 , HOH B:2094 , HOH B:2165	BINDING SITE FOR RESIDUE NAG B 1001
06	AC6	SOFTWARE	ASN B:80 , PRO B:363 , GLN B:364 , HOH B:2057 , HOH B:2171	BINDING SITE FOR RESIDUE NAG B 1002
07	AC7	SOFTWARE	ASN B:9 , LEU B:78 , ASN B:81 , ASN B:252 , ARG B:255 , MET B:360 , HOH B:2026 , HOH B:2052 , HOH B:2134	BINDING SITE FOR RESIDUE NAG B 1003
08	AC8	SOFTWARE	TYR B:306 , ASN B:308 , HOH B:2105 , HOH B:2170	BINDING SITE FOR RESIDUE NAG B 1005
09	AC9	SOFTWARE	TYR A:213 , LEU A:260 , HOH A:2020 , HOH A:2082 , HOH A:2139	BINDING SITE FOR RESIDUE BOG A 1006
10	BC1	SOFTWARE	TYR B:213 , LEU B:260 , HOH B:2078 , HOH B:2089 , HOH B:2090	BINDING SITE FOR RESIDUE BOG B 2002
11	BC2	SOFTWARE	GLY A:66 , LEU A:67 , SER A:153 , GLN A:154 , ILE A:192 , MET A:196 , LEU A:326 , HIS A:353	BINDING SITE FOR RESIDUE C11 A 2001
12	BC3	SOFTWARE	GLY B:66 , LEU B:67 , SER B:153 , GLN B:154 , ILE B:192 , MET B:196 , TRP B:275 , LEU B:326 , HIS B:353	BINDING SITE FOR RESIDUE C11 B 2001

Asymmetric Unit

No.	Residues
1	A:227	-	A:236
2	B:227	-	B:236

Asymmetric Unit

No.	Residues
1	Asn A:263	-	Pro A:264
2	Asn B:263	-	Pro B:264

(no "SAP(SNP)/Variant" information available for 1K8Q)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LIPASE_SER	PS00120	Lipases, serine active site.	LIPG_CANLF	166-175	2	A:147-156 B:147-156

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LIPASE_SER	PS00120	Lipases, serine active site.	LIPG_CANLF	166-175	1	A:147-156 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LIPASE_SER	PS00120	Lipases, serine active site.	LIPG_CANLF	166-175	1	- B:147-156

(no "Exon" information available for 1K8Q)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:377
 aligned with LIPG_CANLF | P80035 from UniProtKB/Swiss-Prot  Length:398

    Alignment length:377
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       
           LIPG_CANLF    20 LFGKLHPTNPEVTMNISQMITYWGYPAEEYEVVTEDGYILGIDRIPYGRKNSENIGRRPVAFLQHGLLASATNWISNLPNNSLAFILADAGYDVWLGNSRGNTWARRNLYYSPDSVEFWAFSFDEMAKYDLPATIDFILKKTGQDKLHYVGHSQGTTIGFIAFSTNPKLAKRIKTFYALAPVATVKYTETLLNKLMLVPSFLFKLIFGNKIFYPHHFFDQFLATEVCSRETVDLLCSNALFIICGFDTMNLNMSRLDVYLSHNPAGTSVQNVLHWSQAVKSGKFQAFDWGSPVQNMMHYHQSMPPYYNLTDMHVPIAVWNGGNDLLADPHDVDLLLSKLPNLIYHRKIPPYNHLDFIWAMDAPQAVYNEIVSMMGTD 396
               SCOP domains d1k8qa_ A: Gastric lipase                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1k8qA00 A:1-377  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                                                                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhh....eeeeee....eeeeeeee..............eeeee.....hhhhhh......hhhhhhhhh..eeee..........ee.............hhhhhhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhh.eeeeeee..........hhhhhhhh.hhhhhhhhh...ee...hhhhhhhhhhh.....hhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.....eehhhhhhhhhhhhhh........hhhhhhhhhh.......hhhhh...eeeeee......hhhhhhhhhh....eeeeeee.....hhhhhh.hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------LIPASE_SER----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1k8q A   1 AFGKLHPTNPEVTMNISQMITYWGYPAEEYEVVTEDGYILGIDRIPYGRKNSENIGRRPVAFLQHGLLASATNWISNLPNNSLAFILADAGYDVWLGNSRGNTWARRNLYYSPDSVEFWAFSFDEMAKYDLPATIDFILKKTGQDKLHYVGHSQGTTIGFIAFSTNPKLAKRIKTFYALAPVATVKYTETLINKLMLVPSFLFKLIFGNKIFYPHHFFDQFLATEVCSRETVDLLCSNALFIICGFDTMNLNMSRLDVYLSHNPAGTSVQNVLHWSQAVKSGKFQAFDWGSPVQNMMHYHQSMPPYYNLTDMHVPIAVWNGGNDLLADPHDVDLLLSKLPNLIYHRKIPPYNHLDFIWAMDAPQAVYNEIVSMMGTD 377
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370

Chain B from PDB  Type:PROTEIN  Length:377
 aligned with LIPG_CANLF | P80035 from UniProtKB/Swiss-Prot  Length:398

    Alignment length:377
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       
           LIPG_CANLF    20 LFGKLHPTNPEVTMNISQMITYWGYPAEEYEVVTEDGYILGIDRIPYGRKNSENIGRRPVAFLQHGLLASATNWISNLPNNSLAFILADAGYDVWLGNSRGNTWARRNLYYSPDSVEFWAFSFDEMAKYDLPATIDFILKKTGQDKLHYVGHSQGTTIGFIAFSTNPKLAKRIKTFYALAPVATVKYTETLLNKLMLVPSFLFKLIFGNKIFYPHHFFDQFLATEVCSRETVDLLCSNALFIICGFDTMNLNMSRLDVYLSHNPAGTSVQNVLHWSQAVKSGKFQAFDWGSPVQNMMHYHQSMPPYYNLTDMHVPIAVWNGGNDLLADPHDVDLLLSKLPNLIYHRKIPPYNHLDFIWAMDAPQAVYNEIVSMMGTD 396
               SCOP domains d1k8qb_ B: Gastric lipase                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1k8qB00 B:1-377  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                                                                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhh....eeeeee....eeeeeeee..............eeeee.....hhhhhh......hhhhhhhhh..eeee..........ee.............hhhhhhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhh.hhhhhh.eeeeeee..........hhhhhhhh.hhhhhhhhh...ee...hhhhhhhhhhh.....hhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.....eehhhhhhhhhhhhhh........hhhhhhhhhh.......hhhhh...eeeeee......hhhhhhhhhh....eeeeeee.....hhhhhh.hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------LIPASE_SER----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1k8q B   1 AFGKLHPTNPEVTMNISQMITYWGYPAEEYEVVTEDGYILGIDRIPYGRKNSENIGRRPVAFLQHGLLASATNWISNLPNNSLAFILADAGYDVWLGNSRGNTWARRNLYYSPDSVEFWAFSFDEMAKYDLPATIDFILKKTGQDKLHYVGHSQGTTIGFIAFSTNPKLAKRIKTFYALAPVATVKYTETLINKLMLVPSFLFKLIFGNKIFYPHHFFDQFLATEVCSRETVDLLCSNALFIICGFDTMNLNMSRLDVYLSHNPAGTSVQNVLHWSQAVKSGKFQAFDWGSPVQNMMHYHQSMPPYYNLTDMHVPIAVWNGGNDLLADPHDVDLLLSKLPNLIYHRKIPPYNHLDFIWAMDAPQAVYNEIVSMMGTD 377
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: alpha/beta-Hydrolases (971)

Superfamily: alpha/beta-Hydrolases (971)

Family: Gastric lipase (2)

Protein domain: Gastric lipase (2)

Dog (Canis familiaris) [TaxId: 9615] (1)

1a	d1k8qa_	A:
1b	d1k8qb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.1820, no name defined] (692)

Dog (Canis lupus familiaris) (2)

1a	1k8qA00	A:1-377
1b	1k8qB00	B:1-377

(no "Pfam Domain" information available for 1K8Q)

Asymmetric Unit(hide GO term definitions)

Chain A,B (LIPG_CANLF | P80035)

molecular function
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0016788	hydrolase activity, acting on ester bonds	Catalysis of the hydrolysis of any ester bond.
	GO:0004806	triglyceride lipase activity	Catalysis of the reaction: triacylglycerol + H2O = diacylglycerol + a carboxylate.
biological process
	GO:0016042	lipid catabolic process	The chemical reactions and pathways resulting in the breakdown of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
	GO:0006629	lipid metabolic process	The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Asymmetric Unit
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	Cis Peptide Bonds
		Asn A:263 - Pro A:264	[ RasMol ]
		Asn B:263 - Pro B:264	[ RasMol ]

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	1k8q
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1hlg	1HLG CONTAINS HUMAN GASTRIC LIPASE WITHOUT INHIBITOR

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 12)

Sites (12, 12)

SS Bonds (2, 2)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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