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(-) Description

Title :  CRYSTAL STRUCTURE OF DIPHTHERIA TOXIN AT ACIDIC PH
 
Authors :  O. Leka, F. Vallese, M. Pirazzini, P. Berto, C. Montecucco, G. Zanotti
Date :  28 Jan 14  (Deposition) - 02 Apr 14  (Release) - 01 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Diphtheria Toxin Translocation, Membrane Insertion, Bicelles, Membrane Channels (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Leka, F. Vallese, M. Pirazzini, P. Berto, C. Montecucco, G. Zanotti
Diphtheria Toxin Conformational Switching At Acidic Ph.
Febs J. V. 281 2115 2014
PubMed-ID: 24628974  |  Reference-DOI: 10.1111/FEBS.12783

(-) Compounds

Molecule 1 - DIPHTHERIA TOXIN
    Atcc: 27012/C7 (BETA)
    Chains: A, B
    EC Number: 2.4.2.36
    Fragment: UNP RESIDUES 26-560
    Organism Scientific: CORYNEBACTERIUM DIPHTHERIAE
    Organism Taxid: 698963
    Strain: C7 (BETA)

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4OW6)

(-) Sites  (0, 0)

(no "Site" information available for 4OW6)

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:186 -A:201
2A:461 -A:471
3B:186 -B:201
4B:461 -B:471

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ser B:494 -Ser B:495
2Ser B:495 -Ser B:496

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4OW6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4OW6)

(-) Exons   (0, 0)

(no "Exon" information available for 4OW6)

(-) 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:477
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4ow6a1 A:1-187 Diphtheria toxin, N-terminal domain                                                                                                                                        d4ow6a2 A:200-380 Diphtheria toxin, middle domain                                                                                      d4ow6a3 A:381-535 Diphtheria toxin, C-terminal domain                                                                                                       SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhheeeeeeeeee..eeeeee......hhhhh............hhhhh.eeee.hhhhhhh..............eeeeee...eeeeeee...hhhhhhhhh......hhhhhhhhhhhhhhhh.....eeeeee.......eeeee..hhhhhheeeeeee........hhhhhhhhhhhh.......hhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh..ee..ee...hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhh.................eeeee.hhhhhh.......eeeeeeeeee....ee..eeeee......ee.....eeee..eeeeeeee.....eeeeee....ee.....eeeeeeee...............eeeeeeeeeee..eeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ow6 A   1 GADDVVDSSKSFVMENFSSYHGTKPGYVDSIQKGIQKPKSGTQGNYDDDWKGFYSTDNKYDAAGYSVDNENPLSGKAGGVVKVTYPGLTKVLALKVDNAETIKKELGLSLTEPLMEQVGTEEFIKRFGDGASRVVLSLPFAEGSSSVEYINNWEQAKALSVELEINFETRGKRGQDAMYEYMAQACASCINLDWDVIRDKTKTKIESLTGTNPVFAGANYAAWAVNVAQVIDSETADNLEKTTAALSILPGIGSVMGIADGAVHHNTEEIVAQSIALSSLMVAQAIPLVGELVDIGFAAYNFVESIINLFQVVHNSYNRPAYSPGHKTQPFLHDGYAVSWNTVEDSIIRTGFQGESGHDIKITAENTPLPIAGVLLPTIPGKLDVNKSKTHISVNGRKIRMRCRAIDGDVTFCRPKSPVYVGNGVHANLHVAFHRSSSEKIHSNEISSDSIGVLGYQKTVDHTKVNSKLSLFFEIKS 535
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180      |202       212       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       
                                                                                                                                                                                                                    187|                 220|                                                                                                                                                                                                                                                                            
                                                                                                                                                                                                                     200                  267                                                                                                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:488
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4ow6b1 B:1-187 Diphtheria toxin, N-terminal domain                                                                                                                                        d4ow6b2 B:200-380 Diphtheria toxin, middle domain                                                                                                 d4ow6b3 B:381-535 Diphtheria toxin, C-terminal domain                                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhh.hhhhheeee..eeeeee......hhhhh............hhhhh.eeee.hhhhhhh..............eeeeee...eeeeee....hhhhhhhhh......hhhhhh.hhhhhhhhh.....eeeeee.......eeeee..hhhhhheeeeeee........hhhhhhhhhhhh.......hhhhhhhhhhhhh......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh...........hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh.................eeeee.hhhh.eee....eeeeeeeeeee....ee..eeeee......ee.....eeee..eeeeeeeee....eeeeee....ee.....eeeeeeeee..............eeeeeeeeeee..eeeeeeeeee.eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ow6 B   1 GADDVVDSSKSFVMENFSSYHGTKPGYVDSIQKGIQKPKSGTQGNYDDDWKGFYSTDNKYDAAGYSVDNENPLSGKAGGVVKVTYPGLTKVLALKVDNAETIKKELGLSLTEPLMEQVGTEEFIKRFGDGASRVVLSLPFAEGSSSVEYINNWEQAKALSVELEINFETRGKRGQDAMYEYMAQACASCINLDWDVIRDKTKTKIESLEHPELSELKTVTGTNPVFAGANYAAWAVNVAQVIDSETADNLEKTTAALSILPGIGSVMGIADGAVHHNTEEIVAQSIALSSLMVAQAIPLVGELVDIGFAAYNFVESIINLFQVVHNSYNRPAYSPGHKTQPFLHDGYAVSWNTVEDSIIRTGFQGESGHDIKITAENTPLPIAGVLLPTIPGKLDVNKSKTHISVNGRKIRMRCRAIDGDVTFCRPKSPVYVGNGVHANLHVAFHRSSSEKIHSNEISSDSIGVLGYQKTVDHTKVNSKLSLFFEIKS 535
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180      |202       212       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527        
                                                                                                                                                                                                                    187|                 220|                                                                                                                                                                                                                                                                                       
                                                                                                                                                                                                                     200                  256
   Legend:   → Mismatch (orange background)
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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  (3, 6)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4OW6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4OW6)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ser B:494 - Ser B:495   [ RasMol ]  
    Ser B:495 - Ser B:496   [ RasMol ]  
 
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