3I3I - JenaLib

Title :   CRYSTAL STRUCTURE OF BOTHROPSTOXIN-I CRYSTALLIZED AT 283 K

Authors :   G. H. M. Salvador, D. P. Marchi-Salvador, A. M. Soares, M. R. M. Fontes

Date :   30 Jun 09 (Deposition) - 28 Apr 10 (Release) - 04 Apr 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.82

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

Keywords :   Homologue Phospholipase A2, Bothropstoxin-I, Bthtx-I_10C, Lys49-Pla2 From Bothrops Jararacussu, Snake Venom, Antibiotic, Antimicrobial, Disulfide Bond, Myotoxin, Secreted, Toxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. A. Fernandes, D. P. Marchi-Salvador, G. M. Salvador, M. C. Silva, T. R. Costa, A. M. Soares, M. R. Fontes
Comparison Between Apo And Complexed Structures Of Bothropstoxin-I Reveals The Role Of Lys122 And Ca(2+)-Binding Loop Region For The Catalytically Inactive Lys49-Pla(2)S.
J. Struct. Biol. V. 171 31 2010
PubMed-ID: 20371382 | Reference-DOI: 10.1016/J.JSB.2010.03.019

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (7, 7)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (3, 3)

Asymmetric Unit (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PA2B1_BOTJR_001 *	F	19	L	PA2B1_BOTJR	---	---	A	F	3	L
2	UniProt	VAR_PA2B1_BOTJR_002 *	Y	37	H	PA2B1_BOTJR	---	---	A	Y	22	H
3	UniProt	VAR_PA2B1_BOTJR_003 *	P	136	A	PA2B1_BOTJR	---	---	A	P	132	A
	* ID not provided by source

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

Biological Unit 1 (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PA2B1_BOTJR_001 *	F	19	L	PA2B1_BOTJR	---	---	A	F	3	L
2	UniProt	VAR_PA2B1_BOTJR_002 *	Y	37	H	PA2B1_BOTJR	---	---	A	Y	22	H
3	UniProt	VAR_PA2B1_BOTJR_003 *	P	136	A	PA2B1_BOTJR	---	---	A	P	132	A
	* ID not provided by source

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

Biological Unit 2 (3, 6)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PA2B1_BOTJR_001 *	F	19	L	PA2B1_BOTJR	---	---	A	F	3	L
2	UniProt	VAR_PA2B1_BOTJR_002 *	Y	37	H	PA2B1_BOTJR	---	---	A	Y	22	H
3	UniProt	VAR_PA2B1_BOTJR_003 *	P	136	A	PA2B1_BOTJR	---	---	A	P	132	A
	* 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.	PA2B1_BOTJR	59-66	1	A:44-51
2	PA2_ASP	PS00119	Phospholipase A2 aspartic acid active site.	PA2B1_BOTJR	101-111	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.	PA2B1_BOTJR	59-66	1	A:44-51
2	PA2_ASP	PS00119	Phospholipase A2 aspartic acid active site.	PA2B1_BOTJR	101-111	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.	PA2B1_BOTJR	59-66	2	A:44-51
2	PA2_ASP	PS00119	Phospholipase A2 aspartic acid active site.	PA2B1_BOTJR	101-111	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

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Chain A from PDB  Type:PROTEIN  Length:121
 aligned with PA2B1_BOTJR | Q90249 from UniProtKB/Swiss-Prot  Length:137

    Alignment length:121
                                    26        36        46        56        66        76        86        96       106       116       126       136 
          PA2B1_BOTJR    17 SLFELGKMILQETGKNPAKSYGAYGCNCGVLGRGKPKDATDRCCYVHKCCYKKLTGCDPKKDRYSYSWKDKTIVCGENNPCLKELCECDKAVAICLRENLGTYNKKYRYHLKPFCKKADPC 137
               SCOP domains d3i3ia_ A: Snake phospholipase A2                                                                                         SCOP domains
               CATH domains 3i3iA00 A:1-133 Phospholipase A2                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.hhhhhhh...............hhhhhhhhhhhhhhh.............eeee..eeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh...... Sec.struct. author
                 SAPs(SNPs) --L-----------------H--------------------------------------------------------------------------------------------------A- SAPs(SNPs)
                    PROSITE ------------------------------------------PA2_HIS ----------------------------------PA2_ASP    -------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 3i3i A   1 SLFELGKMILQETGKNPAKSYGAYGCNCGVLGRGKPKDATDRCCYVHKCCYKKLTGCDPKKDRYSYSWKDKTIVCGENNPCLKELCECDKAVAICLRENLGTYNKKYRYHLKPFCKKADPC 133
                                    10  ||    21        31        41        51 ||   ||69        79        90       100       110       120  || ||132 
                                       13|                                    53|  61|                   88|                              123| ||    
                                        15                                     57   67                    90                               125 ||    
                                                                                                                                             127|    
                                                                                                                                              129

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	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 (5, 5)

Asymmetric Unit(hide GO term definitions)

Chain A (PA2B1_BOTJR | Q90249)

molecular function
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	GO:0004623	phospholipase A2 activity	Catalysis of the reaction: phosphatidylcholine + H2O = 1-acylglycerophosphocholine + a carboxylate.
biological process
	GO:0042742	defense response to bacterium	Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
	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.
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.

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