2BCH - JenaLib

Title :   A POSSIBLE OF SECOND CALCIUM ION IN INTERFACIAL BINDING: ATOMIC AND MEDIUM RESOLUTION CRYSTAL STRUCTURES OF THE QUADRUPLE MUTANT OF PHOSPHOLIPASE A2

Authors :   K. Sekar, M. Yogavel, D. Velmurugan, M. J. Poi, Z. Dauter, M. D. Tsai

Date :   19 Oct 05 (Deposition) - 04 Jul 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.10

Chains :   Asym./Biol. Unit : A

Keywords :   Alpha Helix, Beta Sheet, Calcium Ion And Chloride Ion, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Sekar, M. Yogavel, S. P. Kanaujia, A. Sharma, D. Velmurugan, M. J. Poi, Z. Dauter, M. D. Tsai
Suggestive Evidence For The Involvement Of The Second Calcium And Surface Loop In Interfacial Binding: Monoclinic And Trigonal Crystal Structures Of A Quadruple Mutant Of Phospholipase A(2).
Acta Crystallogr. , Sect. D V. 62 717 2006
PubMed-ID: 16790927 | Reference-DOI: 10.1107/S0907444906014855
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 7)

Sites (7, 7)

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:28 , GLY A:30 , GLY A:32 , ASP A:49 , HOH A:231 , HOH A:297	BINDING SITE FOR RESIDUE CA A 124
2	AC2	SOFTWARE	LYS A:12 , GLU A:81 , ILE A:82	BINDING SITE FOR RESIDUE CL A 126
3	AC3	SOFTWARE	GLU A:17 , LEU A:19 , LEU A:20 , CYS A:105 , LYS A:108 , HOH A:202 , HOH A:280 , HOH A:332 , HOH A:404 , HOH A:409	BINDING SITE FOR RESIDUE MPD A 127
4	AC4	SOFTWARE	ILE A:13 , SER A:15 , ASP A:21 , PHE A:94 , ASN A:97 , TYR A:111 , MPD A:130 , HOH A:219 , HOH A:245 , HOH A:248 , HOH A:331 , HOH A:352	BINDING SITE FOR RESIDUE MPD A 128
5	AC5	SOFTWARE	PHE A:5 , ILE A:9 , PRO A:18 , LEU A:19 , PHE A:22 , ASN A:23 , GLY A:30 , HIS A:48 , TYR A:69 , HOH A:217 , HOH A:231 , HOH A:342 , HOH A:391	BINDING SITE FOR RESIDUE MPD A 129
6	AC6	SOFTWARE	ILE A:13 , PHE A:22 , SER A:107 , VAL A:109 , MPD A:128 , HOH A:212 , HOH A:243 , HOH A:279 , HOH A:281 , HOH A:352 , HOH A:377 , HOH A:397 , HOH A:398	BINDING SITE FOR RESIDUE MPD A 130
7	AC7	SOFTWARE	ASN A:24 , TYR A:25 , GLY A:26 , CYS A:27 , TYR A:28 , CYS A:29 , GLY A:30 , LEU A:31 , GLY A:32 , GLY A:33 , SER A:34 , VAL A:65 , MET A:120 , HOH A:375	BINDING SITE FOR RESIDUE MPD A 131

SS Bonds (7, 7)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological Unit

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

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Chain A from PDB  Type:PROTEIN  Length:123
 aligned with PA21B_BOVIN | P00593 from UniProtKB/Swiss-Prot  Length:145

    Alignment length:123
                                    32        42        52        62        72        82        92       102       112       122       132       142   
          PA21B_BOVIN    23 ALWQFNGMIKCKIPSSEPLLDFNNYGCYCGLGGSGTPVDDLDRCCQTHDNCYKQAKKLDSCKVLVDNPYTNNYSYSCSNNEITCSSENNACEAFICNCDRNAAICFSKVPYNKEHKNLDKKNC 145
               SCOP domains d2bcha_ A: Phospholipase A2                                                                                                 SCOP domains
               CATH domains 2bchA00 A:1-123 Phospholipase A2                                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh...hhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhh...........eeee..eeee....hhhhhhhhhhhhhhhhhhhh...hhhhh..hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------PA2_HIS -------------------------------------------PA2_ASP    ------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bch A   1 ALWQFNGMIKCKIPSSEPLLDFNNYGCYCGLGGSGTPVDDLDRCCQTHDNCYMQAMKLDSCKVLVDNPYTNNYSYSCSNNEITCSSENNACEAFICNCDRNAAICFSKVPYNKEHKNLDMMNC 123
                                    10        20        30        40        50        60        70        80        90       100       110       120

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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 (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PA21B_BOVIN | P00593)

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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