2OQD - JenaLib

Title :   CRYSTAL STRUCTURE OF BTHTX-II

Authors :   L. C. Correa, D. P. Marchi-Salvador, A. C. O. Cintra, A. M. Soares, M. R. M. Fontes

Date :   31 Jan 07 (Deposition) - 12 Feb 08 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.19

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

Keywords :   Asp49-Phospholipase A2, Bthtx-Ii, Bothropstoxin Ii, Bothrops Jararacussu, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. C. Correa, D. P. Marchi-Salvador, A. C. Cintra, S. V. Sampaio, A. M. Soares, M. R. Fontes
Crystal Structure Of A Myotoxic Asp49-Phospholipase A(2) With Low Catalytic Activity: Insights Into Ca(2+)-Independent Catalytic Mechanism.
Biochim. Biophys. Acta V. 1784 591 2008
PubMed-ID: 18261474 | Reference-DOI: 10.1016/J.BBAPAP.2008.01.007
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (14, 14)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PA2_HIS	PS00118	Phospholipase A2 histidine active site.	PA2B2_BOTJR	59-66	2	A:44-51 B:44-51
2	PA2_ASP	PS00119	Phospholipase A2 aspartic acid active site.	PA2B2_BOTJR	101-111	2	A:95-105 B:95-105

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PA2_HIS	PS00118	Phospholipase A2 histidine active site.	PA2B2_BOTJR	59-66	2	A:44-51 -
2	PA2_ASP	PS00119	Phospholipase A2 aspartic acid active site.	PA2B2_BOTJR	101-111	2	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.	PA2B2_BOTJR	59-66	2	- B:44-51
2	PA2_ASP	PS00119	Phospholipase A2 aspartic acid active site.	PA2B2_BOTJR	101-111	2	- B: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
	(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:122
 aligned with PA2B2_BOTJR | P45881 from UniProtKB/Swiss-Prot  Length:138

    Alignment length:122
                                    26        36        46        56        66        76        86        96       106       116       126       136  
          PA2B2_BOTJR    17 DLWQFGQMILKETGKLPFPYYTTYGCYCGWGGQGQPKDATDRCCFVHDCCYGKLTNCKPKTDRYSYSRENGVIICGEGTPCEKQICECDKAAAVCFRENLRTYKKRYMAYPDVLCKKPAEKC 138
               SCOP domains d2oqda_ A: automated matches                                                                                               SCOP domains
               CATH domains 2oqdA00 A:1-133 Phospholipase A2                                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhh............ee......ee...hhhhhhhhhhhhhhhhhhhhh....hhhhh..hhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------PA2_HIS ----------------------------------PA2_ASP    --------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oqd A   1 DLWQFGQMILKETGKLPFPYYTTYGCYCGWGGQGQPKDATDRCCFVHDCCYGKLTNCKPKTDRYSYSRENGVIICGEGTPCEKQICECDKAAAVCFRENLRTYKKRYMAYPDVLCKKPAEKC 133
                                    10   ||   21        31        41        51    ||||69        79        90       100       110       120 ||    131  
                                        14|                                      56|||                   88|                             122|         
                                         16                                       59||                    90                              124         
                                                                                   61|                                                                
                                                                                    67

Chain B from PDB  Type:PROTEIN  Length:122
 aligned with PA2B2_BOTJR | P45881 from UniProtKB/Swiss-Prot  Length:138

    Alignment length:122
                                    26        36        46        56        66        76        86        96       106       116       126       136  
          PA2B2_BOTJR    17 DLWQFGQMILKETGKLPFPYYTTYGCYCGWGGQGQPKDATDRCCFVHDCCYGKLTNCKPKTDRYSYSRENGVIICGEGTPCEKQICECDKAAAVCFRENLRTYKKRYMAYPDVLCKKPAEKC 138
               SCOP domains d2oqdb_ B: automated matches                                                                                               SCOP domains
               CATH domains 2oqdB00 B:1-133 Phospholipase A2                                                                                           CATH domains
           Pfam domains (1) Phospholip_A2_1-2oqdB01 B:1-133                                                                                            Pfam domains (1)
           Pfam domains (2) Phospholip_A2_1-2oqdB02 B:1-133                                                                                            Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhh.hhhhhh.....hhhhh......hhhhhhhhhhhhhhhh............ee......ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------PA2_HIS ----------------------------------PA2_ASP    --------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oqd B   1 DLWQFGQMILKETGKLPFPYYTTYGCYCGWGGQGQPKDATDRCCFVHDCCYGKLTNCKPKTDRYSYSRENGVIICGEGTPCEKQICECDKAAAVCFRENLRTYKKRYMAYPDVLCKKPAEKC 133
                                    10   ||   21        31        41        51    ||||69        79        90       100       110       120 ||    131  
                                        14|                                      56|||                   88|                             122|         
                                         16                                       59||                    90                              124         
                                                                                   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, 2)

CATH Domains (1, 2)

Pfam Domains (1, 2)

Gene Ontology (7, 7)

Asymmetric Unit(hide GO term definitions)

Chain A,B (PA2B2_BOTJR | P45881)

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.

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	Cis Peptide Bonds
		Lys B:128 - Pro B:129	[ RasMol ]
		Phe A:19 - Pro A:20	[ RasMol ]
		Phe B:19 - Pro B:20	[ RasMol ]

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