1AE7 - JenaLib

Title :   NOTEXIN, A PRESYNAPTIC NEUROTOXIC PHOSPHOLIPASE A2

Authors :   B. Westerlund, P. Nordlund, U. Uhlin, D. Eaker, H. Eklund

Date :   06 Mar 97 (Deposition) - 15 May 97 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Hydrolase, Phospholipase A2, Lipid Degradation, Presynaptic Neurotoxin, Venom (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Westerlund, P. Nordlund, U. Uhlin, D. Eaker, H. Eklund
The Three-Dimensional Structure Of Notexin, A Presynaptic Neurotoxic Phospholipase A2 At 2. 0 A Resolution.
Febs Lett. V. 301 159 1992
PubMed-ID: 1568473 | Reference-DOI: 10.1016/0014-5793(92)81238-H

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 3)

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:86 , ILE A:87 , LYS A:88 , LYS A:89 , TRP A:116 , ASN A:117 , HOH A:217 , HOH A:220 , HOH A:289	BINDING SITE FOR RESIDUE SO4 A 223
2	AC2	SOFTWARE	ASN A:1 , LEU A:2 , VAL A:3 , GLN A:4 , LYS A:69 , HOH A:239 , HOH A:344	BINDING SITE FOR RESIDUE SO4 A 228
3	AC3	SOFTWARE	LYS A:16 , ARG A:17 , PRO A:110 , TYR A:111 , ASN A:113 , HOH A:202 , HOH A:269	BINDING SITE FOR RESIDUE SO4 A 350
4	CAL	UNKNOWN	TYR A:28 , GLY A:30 , GLY A:32 , ASP A:49	SITE CAL COMPRISES THOSE RESIDUES FORMING THE CA2+ BINDING SITE. IN THE PRESENT CA-FREE FORM THIS SITE IS EMPTY.
5	CNR	UNKNOWN	HIS A:48 , TYR A:52 , TYR A:73 , ASP A:99	SITE CNR COMPRISES THOSE RESIDUES FORMING THE CATALYTIC NETWORK.

SS Bonds (7, 7)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 1)

Asymmetric Unit (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PA2B_NOTSC_001 *	K	16	R	PA2B_NOTSC	---	---	A	K	16	R
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PA2B_NOTSC_001 *	K	16	R	PA2B_NOTSC	---	---	A	K	16	R
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PA2B_NOTSC_001 *	K	16	R	PA2B_NOTSC	---	---	A	K	16	R
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

PROSITE Motifs (2, 2)

Asymmetric Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PA2_HIS	PS00118	Phospholipase A2 histidine active site.	PA2B_NOTSC	44-51	1	A:44-51
2	PA2_ASP	PS00119	Phospholipase A2 aspartic acid active site.	PA2B_NOTSC	89-99	1	A:95-105

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PA2_HIS	PS00118	Phospholipase A2 histidine active site.	PA2B_NOTSC	44-51	1	A:44-51
2	PA2_ASP	PS00119	Phospholipase A2 aspartic acid active site.	PA2B_NOTSC	89-99	1	A:95-105

Biological Unit 2 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PA2_HIS	PS00118	Phospholipase A2 histidine active site.	PA2B_NOTSC	44-51	2	A:44-51
2	PA2_ASP	PS00119	Phospholipase A2 aspartic acid active site.	PA2B_NOTSC	89-99	2	A:95-105

Exons (0, 0)

Sequences/Alignments

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
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Chain A from PDB  Type:PROTEIN  Length:119
 aligned with PA2B_NOTSC | P00608 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:119
                                    10        20        30        40        50        60        70        80        90       100       110         
           PA2B_NOTSC     1 NLVQFSYLIQCANHGKRPTWHYMDYGCYCGAGGSGTPVDELDRCCKIHDDCYDEAGKKGCFPKMSAYDYYCGENGPYCRNIKKKCLRFVCDCDVEAAFCFAKAPYNNANWNIDTKKRCQ 119
               SCOP domains d1ae7a_ A: Snake phospholipase A2                                                                                       SCOP domains
               CATH domains 1ae7A00 A:1-125 Phospholipase A2                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh......hhhh.................hhhhhhhhhhhhhhhhhh...........eeee..eeee.....hhhhhhhhhhhhhhhhhhh....hhh....hhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------R------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------PA2_HIS -------------------------------------PA2_ASP    -------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 1ae7 A   1 NLVQFSYLIQCANHGKRPTWHYMDYGCYCGAGGSGTPVDELDRCCKIHDDCYDEAGKKGCFPKMSAYDYYCGENGPYCRNIKKKCLRFVCDCDVEAAFCFAKAPYNNANWNIDTKKRCQ 125
                                    10        20        30        40        50      ||61|       76        86        96       106       116         
                                                                                   57| ||                                                          
                                                                                    59 ||                                                          
                                                                                      61|                                                          
                                                                                       67

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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (8, 8)

Asymmetric Unit(hide GO term definitions)

Chain A (PA2B_NOTSC | P00608)

molecular function
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0004623	phospholipase A2 activity	Catalysis of the reaction: phosphatidylcholine + H2O = 1-acylglycerophosphocholine + 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.
	GO:0072556	other organism presynaptic membrane	A presynaptic membrane that is part of another organism, i.e. a secondary organism with which the first organism is interacting. A presynaptic membrane is specialized area of membrane of the axon terminal that faces the plasma membrane of the neuron or muscle fiber with which the axon terminal establishes a synaptic junction; many synaptic junctions exhibit structural presynaptic characteristics, such as conical, electron-dense internal protrusions, that distinguish it from the remainder of the axon plasma membrane.

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	1ae7
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