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(-) Description

Title :  CRYSTAL STRUCTURE OF THE MONOMERIC, CLEAVED FORM OF THE PORE-FORMING TOXIN MONALYSIN
 
Authors :  P. Leone, A. Roussel
Date :  05 Sep 13  (Deposition) - 11 Mar 15  (Release) - 10 Jun 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Pore-Forming Toxin, Toxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Leone, C. Bebeacua, O. Opota, C. Kellenberger, B. Klaholz, I. Orlov C. Cambillau, B. Lemaitre, A. Roussel
X-Ray And Cryo-Electron Microscopy Structures Of Monalysin Pore-Forming Toxin Reveal Multimerization Of The Pro-Form.
J. Biol. Chem. V. 290 13191 2015
PubMed-ID: 25847242  |  Reference-DOI: 10.1074/JBC.M115.646109

(-) Compounds

Molecule 1 - MONALYSIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 36-271
    Gene: PSEEN3174
    Organism Scientific: PSEUDOMONAS ENTOMOPHILA
    Organism Taxid: 384676
    Strain: L48

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 29)

Asymmetric Unit (3, 29)
No.NameCountTypeFull Name
1ACT13Ligand/IonACETATE ION
2HG8Ligand/IonMERCURY (II) ION
3ZN8Ligand/IonZINC ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2HG-1Ligand/IonMERCURY (II) ION
3ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
2HG-1Ligand/IonMERCURY (II) ION
3ZN-1Ligand/IonZINC ION
Biological Unit 3 (1, 5)
No.NameCountTypeFull Name
1ACT5Ligand/IonACETATE ION
2HG-1Ligand/IonMERCURY (II) ION
3ZN-1Ligand/IonZINC ION
Biological Unit 4 (1, 2)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2HG-1Ligand/IonMERCURY (II) ION
3ZN-1Ligand/IonZINC ION

(-) Sites  (29, 29)

Asymmetric Unit (29, 29)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:54 , GLY A:64 , CYS A:65 , ALA A:92BINDING SITE FOR RESIDUE HG A 1001
02AC2SOFTWAREPRO A:89 , PHE A:91 , LEU A:180 , VAL A:181BINDING SITE FOR RESIDUE HG A 1002
03AC3SOFTWAREASP A:266 , HIS A:268 , HOH A:1312BINDING SITE FOR RESIDUE ZN A 1003
04AC4SOFTWAREASP A:68 , HOH A:1146 , HOH A:1225 , HOH A:1408 , HOH A:1422BINDING SITE FOR RESIDUE ZN A 1004
05AC5SOFTWARESER A:262 , ASN A:265 , HOH A:1176 , HOH A:1201 , HOH A:1371 , ASN B:135 , ILE B:138 , HIS B:268BINDING SITE FOR RESIDUE ACT A 1005
06AC6SOFTWAREASP A:48 , LYS A:221 , ASP C:48 , PHE C:49 , ASP C:52 , ACT C:1007BINDING SITE FOR RESIDUE ACT A 1006
07AC7SOFTWARETYR B:54 , GLY B:64 , CYS B:65 , ALA B:92BINDING SITE FOR RESIDUE HG B 1001
08AC8SOFTWAREPRO B:89 , PHE B:91 , LEU B:180 , VAL B:181BINDING SITE FOR RESIDUE HG B 1002
09AC9SOFTWAREASP B:266 , HIS B:268 , ACT B:1005 , ACT B:1006BINDING SITE FOR RESIDUE ZN B 1003
10BC1SOFTWAREASP B:68 , HOH B:1192 , HOH B:1244 , HOH B:1253 , HOH B:1347BINDING SITE FOR RESIDUE ZN B 1004
11BC2SOFTWARETYR A:86 , THR A:187 , ARG A:208 , TYR A:264 , ASP B:266 , HIS B:268 , ZN B:1003 , ACT B:1006BINDING SITE FOR RESIDUE ACT B 1005
12BC3SOFTWARETYR A:86 , ARG A:208 , TRP A:261 , ASP B:266 , PRO B:267 , HIS B:268 , ZN B:1003 , ACT B:1005BINDING SITE FOR RESIDUE ACT B 1006
13BC4SOFTWAREASP B:48 , SER B:146 , LYS B:221 , PHE D:49 , ASP D:52 , ACT D:1006BINDING SITE FOR RESIDUE ACT B 1007
14BC5SOFTWAREARG B:270 , HOH B:1159 , HOH B:1348BINDING SITE FOR RESIDUE ACT B 1008
15BC6SOFTWARETYR C:54 , GLY C:64 , CYS C:65 , ALA C:92BINDING SITE FOR RESIDUE HG C 1001
16BC7SOFTWAREPRO C:89 , PHE C:91 , LEU C:180 , VAL C:181BINDING SITE FOR RESIDUE HG C 1002
17BC8SOFTWAREASP C:266 , HIS C:268 , ACT C:1005 , ACT C:1006BINDING SITE FOR RESIDUE ZN C 1003
18BC9SOFTWAREASP C:68 , HOH C:1158 , HOH C:1198 , HOH C:1222 , HOH C:1368BINDING SITE FOR RESIDUE ZN C 1004
19CC1SOFTWAREASP C:266 , PRO C:267 , HIS C:268 , ZN C:1003 , ACT C:1006 , TYR D:86 , ARG D:208 , TRP D:261BINDING SITE FOR RESIDUE ACT C 1005
20CC2SOFTWAREASP C:266 , HIS C:268 , ZN C:1003 , ACT C:1005 , TYR D:86 , ARG D:208 , TYR D:264BINDING SITE FOR RESIDUE ACT C 1006
21CC3SOFTWAREASP A:48 , PHE A:49 , ASP A:52 , ACT A:1006 , ASP C:48 , LYS C:221 , HOH C:1300BINDING SITE FOR RESIDUE ACT C 1007
22CC4SOFTWAREARG C:270 , HOH C:1329 , HOH C:1371BINDING SITE FOR RESIDUE ACT C 1008
23CC5SOFTWARESER C:262 , ASN C:265 , ASP C:266 , ARG C:269BINDING SITE FOR RESIDUE ACT C 1009
24CC6SOFTWARETYR D:54 , CYS D:65 , ALA D:92BINDING SITE FOR RESIDUE HG D 1001
25CC7SOFTWAREVAL D:67 , PRO D:89 , PHE D:91 , LEU D:180 , VAL D:181BINDING SITE FOR RESIDUE HG D 1002
26CC8SOFTWAREASP D:266 , HIS D:268 , HOH D:1274 , HOH D:1384BINDING SITE FOR RESIDUE ZN D 1003
27CC9SOFTWAREASP D:68 , HOH D:1248 , HOH D:1352 , HOH D:1353BINDING SITE FOR RESIDUE ZN D 1004
28DC1SOFTWAREASN C:135 , ILE C:138 , HIS C:268 , HOH C:1166 , SER D:262 , ASN D:265 , HOH D:1171BINDING SITE FOR RESIDUE ACT D 1005
29DC2SOFTWAREASP B:48 , PHE B:49 , ASP B:52 , ACT B:1007 , ASP D:48 , LYS D:221BINDING SITE FOR RESIDUE ACT D 1006

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MKO)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Gly A:169 -Pro A:170
2Gly B:169 -Pro B:170
3Gly C:169 -Pro C:170
4Gly D:169 -Pro D:170

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MKO)

(-) 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:236
                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh.eehhhhhhhhhhh.......eeee....eeeeeee..eeeeeeeeeeeeeeeeeeeeee....eeeeeeeeee..hhhhhhhh...ee.hhhhhhhhhhh...............eeeeeeeeee..eeeeeeeeeeeeeeee.............eeeeee..eeeeeeeeeeeeeeeeeee.hhh....hhhhhhhhhh...ee....ee....hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mko A  36 SGRFDQYPTKKGDFAIDGYLLDYSSPKQGCWVDGITVYGDIYIGKQNWGTYTRPVFAYLQYVETISIPQNVTTTLSYQLTKGHTRSFETSVNAKYSVGANIDIVNVGSEISTGFTRSESWSTTQSFTDTTEMKGPGTFVIYQVVLVYAHNATSAGRQNANAFAYSKTQAVGSRVDLYYLSAITQRKRVIVPSSNAVTPLDWDTVQRNVLMENYNPGSNSGHFSFDWSAYNDPHRRY 271
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265      


Chain B from PDB  Type:PROTEIN  Length:235
                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.eehhhhhhhhhhh.......eeee....eeeeeee..eeeeeeeeeeeeeeeeeeeeee....eeeeeeeeee..hhhhhhhh...ee.hhhhhhhhhhh......hhhhhh...eeeeeeeeee..eeeeeeeeeeeeeeee..............eeeee..eeeeeeeeeeeeeeeeeee........hhhhhhhhhh...ee....ee....hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mko B  37 GRFDQYPTKKGDFAIDGYLLDYSSPKQGCWVDGITVYGDIYIGKQNWGTYTRPVFAYLQYVETISIPQNVTTTLSYQLTKGHTRSFETSVNAKYSVGANIDIVNVGSEISTGFTRSESWSTTQSFTDTTEMKGPGTFVIYQVVLVYAHNATSAGRQNANAFAYSKTQAVGSRVDLYYLSAITQRKRVIVPSSNAVTPLDWDTVQRNVLMENYNPGSNSGHFSFDWSAYNDPHRRY 271
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266     


Chain C from PDB  Type:PROTEIN  Length:235
                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.eehhhhhhhhhhh.......eeee....eeeeeee..eeeeeeeeeeeeeeeeeeeeee....eeeeeeeeee..hhhhhhhh...ee.hhhhhhhhhhh......hhhhhh...eeeeeeeeee..eeeeeeeeeeeeeeee..............eeeee..eeeeeeeeeeeeeeeeeee.hhh....hhhhhhhhhh...ee....ee....hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mko C  37 GRFDQYPTKKGDFAIDGYLLDYSSPKQGCWVDGITVYGDIYIGKQNWGTYTRPVFAYLQYVETISIPQNVTTTLSYQLTKGHTRSFETSVNAKYSVGANIDIVNVGSEISTGFTRSESWSTTQSFTDTTEMKGPGTFVIYQVVLVYAHNATSAGRQNANAFAYSKTQAVGSRVDLYYLSAITQRKRVIVPSSNAVTPLDWDTVQRNVLMENYNPGSNSGHFSFDWSAYNDPHRRY 271
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266     


Chain D from PDB  Type:PROTEIN  Length:236
                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh.eehhhhhhhhhhh.......eeee....eeeeeee..eeeeeeeeeeeeeeeeeeeeee....eeeeeeeeee..hhhhhhhh...ee.hhhhhhhhhhh...............eeeeeeeeee..eeeeeeeeeeeeeeee..............eeeee..eeeeeeeeeeeeeeeeeee.hhh....hhhhhhhhhh...ee....ee....hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mko D  36 SGRFDQYPTKKGDFAIDGYLLDYSSPKQGCWVDGITVYGDIYIGKQNWGTYTRPVFAYLQYVETISIPQNVTTTLSYQLTKGHTRSFETSVNAKYSVGANIDIVNVGSEISTGFTRSESWSTTQSFTDTTEMKGPGTFVIYQVVLVYAHNATSAGRQNANAFAYSKTQAVGSRVDLYYLSAITQRKRVIVPSSNAVTPLDWDTVQRNVLMENYNPGSNSGHFSFDWSAYNDPHRRY 271
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265
   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  (0, 0)

(no "SCOP Domain" information available for 4MKO)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

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 Related Entries

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        MONAL_PSEE4 | Q1I8U1: 4mjt 4mkq

(-) Related Entries Specified in the PDB File

4mjt 4mkq