1SGK: Nucleotide-free diphtheria toxin

Name: PDB 1SGK: Nucleotide-free diphtheria toxin
Published: 1996-12-23
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: toxin

Nucleotide-free diphtheria toxin. Determined by X-ray diffraction at 2.3 Å resolution. Released 23 Dec 1996.

Method: X-ray diffraction
Resolution: 2.3 Å
Organism: Corynephage beta
Chains: 1
Atoms: 4,378
Mol. weight: 58.41 kDa
Released: 23 Dec 1996

Explore 1SGK in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1SGK contains 29 α-helices and 35 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 29 helices, 35 β-strands

Element	Residues	Length	Sheet
β-strand	6	1	1
α-helix	8-10	3
β-strand	12-15	4	2
β-strand	18-23	6	2
α-helix	31-33	3
α-helix	48-50	3
β-strand	53-56	4	2
α-helix	59-63	5
β-strand	67	1	3
β-strand	77	1	3
β-strand	79-84	6	2
β-strand	88-93	6	2
β-strand	94	1	1
α-helix	99-105	7
α-helix	114-118	5
α-helix	121-127	7
β-strand	133-139	7	2
β-strand	147-151	5	2
α-helix	155-158	4
β-strand	160-166	7	2
α-helix	168-170	3
α-helix	176-183	8
α-helix	184-186	3
α-helix	206-221	16
α-helix	224-229	6
α-helix	230-232	3
α-helix	240-254	15
α-helix	261-266	6
α-helix	271-273	3
α-helix	275-286	12
α-helix	291-295	5
α-helix	297-304	8
α-helix	310-314	5
β-strand	316-317	2	4
β-strand	320-321	2	4
α-helix	326-346	21
α-helix	352-357	6
α-helix	359-376	18
α-helix	380-381	2
β-strand	384	1	5
β-strand	389-391	3	6
β-strand	394-398	5	6
α-helix	402-404	3
β-strand	405-407	3	7
β-strand	412-422	11	6
β-strand	427-428	2	8
β-strand	431-435	5	5
β-strand	437	1	9
β-strand	441	1	9
β-strand	442-443	2	6
β-strand	449-452	4	6
β-strand	455-458	4	6
β-strand	459-464	6	5
β-strand	468-473	6	5
β-strand	478-479	2	8
β-strand	480	1	10
β-strand	483	1	10
β-strand	485-493	9	6
α-helix	498-499	2
α-helix	501-503	3
β-strand	508-516	9	5
α-helix	518-520	3
β-strand	523-530	8	5
β-strand	532-534	3	7

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Diphtheria toxin (dimeric)	A	protein	535	Corynephage beta	P00588

Sequence of entity 1 (A), FASTA

>1SGK_1 DIPHTHERIA TOXIN (DIMERIC) (chains A)
GADDVVDSSKSFVMENFSSYHGTKPGYVDSIQKGIQKPKSGTQGNYDDDWKGFYSTDNKY
DAAGYSVDNENPLSGKAGGVVKVTYPGLTKVLALKVDNAETIKKELGLSLTEPLMEQVGT
EEFIKRFGDGASRVVLSLPFAEGSSSVEYINNWEQAKALSVELEINFETRGKRGQDAMYE
YMAQACAGNRVRRSVGSSLSCINLDWDVIRDKTKTKIESLKEHGPIKNKMSESPNKTVSE
EKAKQYLEEFHQTALEHPELSELKTVTGTNPVFAGANYAAWAVNVAQVIDSETADNLEKT
TAALSILPGIGSVMGIADGAVHHNTEEIVAQSIALSSLMVAQAIPLVGELVDIGFAAYNF
VESIINLFQVVHNSYNRPAYSPGHKTQPFLHDGYAVSWNTVEDSIIRTGFQGESGHDIKI
TAENTPLPIAGVLLPTIPGKLDVNKSKTHISVNGRKIRMRCRAIDGDVTFCRPKSPVYVG
NGVHANLHVAFHRSSSEKIHSNEISSDSIGVLGYQKTVDHTKVNSKLSLFFEIKS

Primary citation

Crystal structure of nucleotide-free diphtheria toxin. Bell, C.E., Eisenberg, D. Biochemistry (1997) 36:481-488. DOI 10.1021/bi962214s · PubMed

Other PDB entries of the same protein (UniProt P00588), best resolution first:

1F0L 1.55 Å, 1.55 Å crystal structure of wild type diphtheria toxin
4AE0 2.0 Å, Crystal structure of diphtheria toxin mutant CRM197
1DDT 2.0 Å, The refined structure of dimeric diphtheria toxin at 2.0 Å resolution
4AE1 2.08 Å, Crystal structure of diphtheria toxin mutant CRM197 in complex with nicotinamide
1MDT 2.3 Å, The refined structure of monomeric diphtheria toxin at 2.3 Å resolution
1TOX 2.3 Å, Diphtheria toxin dimer complexed with NAD
1DTP 2.5 Å, The structure of the isolated catalytic domain of diphtheria toxin
1XDT 2.65 Å, Complex of diphtheria toxin and heparin-binding epidermal growth factor
4OW6 2.8 Å, Crystal structure of Diphtheria Toxin at acidic pH

Browse structure collections

About this viewer

MolViewer shows 1SGK directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.