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(-) Description

Title :  CRYSTAL STRUCTURE OF MYOTOXIN II (MJTX-II), A MYOTOXIC LYS49-PHOSPHOLIPASE A2 FROM BOTHROPS MOOJENI.
 
Authors :  G. H. M. Salvador, J. I. Dos Santos, M. R. M. Fontes
Date :  26 Apr 13  (Deposition) - 17 Jul 13  (Release) - 24 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.92
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  B  (1x)
Biol. Unit 2:  A  (1x)
Keywords :  Phospholipase A2-Like Myotoxin, Toxin, Venom Glands (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. H. Salvador, W. L. Cavalcante, J. I. Dos Santos, M. Gallacci, A. M. Soares, M. R. Fontes
Structural And Functional Studies With Mytoxin Ii From Bothrops Moojeni Reveal Remarkable Similarities And Differences Compared To Other Catalytically Inactive Phospholipases A2-Like.
Toxicon V. 72C 52 2013
PubMed-ID: 23810946  |  Reference-DOI: 10.1016/J.TOXICON.2013.06.013

(-) Compounds

Molecule 1 - BASIC PHOSPHOLIPASE A2 HOMOLOG 2
    Chains: B, A
    Fragment: PHOSPHOLIPASE A2-LIKE MYOTOXIN
    Organism Common: LANCE-HEADED VIPER
    Organism Scientific: BOTHROPS MOOJENI
    Organism Taxid: 98334
    Synonym: SVPLA2 HOMOLOG, M-VI, MJTX-II, MYOTOXIN II

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x):  B
Biological Unit 2 (1x): A 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 10)

Asymmetric Unit (2, 10)
No.NameCountTypeFull Name
1IPA6Ligand/IonISOPROPYL ALCOHOL
2PE44Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1IPA3Ligand/IonISOPROPYL ALCOHOL
2PE43Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1IPA3Ligand/IonISOPROPYL ALCOHOL
2PE41Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:1 , LEU A:2 , ILE A:9 , TYR A:22 , CYS A:29 , GLY A:30 , LYS A:70 , TYR B:121 , PRO B:125 , PE4 B:203 , HOH B:372 , HOH B:374BINDING SITE FOR RESIDUE PE4 B 201
02AC2SOFTWARELYS A:123 , PRO A:125 , LEU B:2 , ILE B:9 , GLY B:30 , CYS B:45 , LYS B:70 , ARG B:72 , HOH B:385BINDING SITE FOR RESIDUE PE4 B 202
03AC3SOFTWARELEU A:2 , GLY B:23 , GLY B:30 , VAL B:31 , GLY B:32 , LYS B:49 , TYR B:52 , PE4 B:201 , HOH B:338BINDING SITE FOR RESIDUE PE4 B 203
04AC4SOFTWARELYS B:20 , LYS B:115 , ARG B:118 , HOH B:341BINDING SITE FOR RESIDUE IPA B 204
05AC5SOFTWAREARG B:34 , LYS B:53BINDING SITE FOR RESIDUE IPA B 205
06AC6SOFTWAREASN B:17 , LYS B:20 , SER B:21BINDING SITE FOR RESIDUE IPA B 206
07AC7SOFTWAREPHE A:3 , LYS A:7 , LEU A:10 , GLN A:11 , TYR A:75 , TRP A:77 , LEU B:10 , GLN B:11 , GLY B:15 , TRP B:77BINDING SITE FOR RESIDUE PE4 A 201
08AC8SOFTWAREGLY A:15 , LYS A:16 , ASN A:17 , LYS A:20BINDING SITE FOR RESIDUE IPA A 202
09AC9SOFTWAREGLY A:33 , ARG A:34 , LYS A:53BINDING SITE FOR RESIDUE IPA A 203
10BC1SOFTWARELYS A:20 , LYS A:115 , ARG A:118BINDING SITE FOR RESIDUE IPA A 204

(-) SS Bonds  (14, 14)

Asymmetric Unit
No.Residues
1A:27 -A:127
2A:29 -A:45
3A:44 -A:105
4A:50 -A:133
5A:51 -A:98
6A:61 -A:90
7A:84 -A:96
8B:27 -B:127
9B:29 -B:45
10B:44 -B:105
11B:50 -B:133
12B:51 -B:98
13B:61 -B:90
14B:84 -B:96

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4KF3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4KF3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4KF3)

(-) Exons   (0, 0)

(no "Exon" information available for 4KF3)

(-) 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
                                                                                                                                                          
               SCOP domains d4kf3a_ A: automated matches                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh.hhhhhhh...............hhhhhhhhhhhhhhhh............eeee..eeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kf3 A   1 SLFELGKMILQETGKNPAKSYGVYGCNCGVGGRGKPKDATDRCCYVHKCCYKKLTGCDPKKDRYSYSWKDKTIVCGENNSCLKELCECDKAVAICLRENLDTYNKKYRYNYLKPFCKKADPC 133
                                    10  ||    21        31        41        51 ||   ||69        79        89||     100       110       120  ||   131  
                                       13|                                    53|  61|                     90|                            123|        
                                        15                                     57   67                      92                             125        


Chain B from PDB  Type:PROTEIN  Length:122
                                                                                                                                                          
               SCOP domains d4kf3b_ B: automated matches                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.hhhhhhh...............hhhhhhhhhhhhhhhh............eeee..eeee...hhhhhhhhhhhhhhhhhhhhh....hhhhhh..hhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kf3 B   1 SLFELGKMILQETGKNPAKSYGVYGCNCGVGGRGKPKDATDRCCYVHKCCYKKLTGCDPKKDRYSYSWKDKTIVCGENNSCLKELCECDKAVAICLRENLDTYNKKYRYNYLKPFCKKADPC 133
                                    10  ||    21        31        41        51 ||   ||69        79        89||     100       110       120  ||   131  
                                       13|                                    53|  61|                     90|                            123|        
                                        15                                     57   67                      92                             125
   Legend:   → Mismatch (orange background)
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  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)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4KF3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4KF3)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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        PA2H2_BOTMO | Q9I834: 1xxs 4yv5

(-) Related Entries Specified in the PDB File

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