6E07: Canton G6PD
Crystal structure of Canton G6PD in complex with structural NADP. Determined by X-ray diffraction at 2.6 Å resolution. Released 25 Jul 2018.
- Method
- X-ray diffraction
- Resolution
- 2.6 Å
- Organism
- Homo sapiens
- Chains
- 8
- Atoms
- 32,689
- Mol. weight
- 483.69 kDa
- Ligands
- PO4, NAP
- Released
- 25 Jul 2018
Explore 6E07 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
6E07 contains 270 α-helices and 160 β-strands across 8 chains. 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 B: 34 helices, 20 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 31-37 | 7 | 26 |
| α-helix | 42-43 | 2 | |
| α-helix | 44-48 | 5 | |
| α-helix | 49-57 | 9 | |
| β-strand | 64-71 | 8 | 26 |
| α-helix | 77-84 | 8 | |
| α-helix | 85-87 | 3 | |
| α-helix | 92-94 | 3 | |
| α-helix | 95-103 | 9 | |
| β-strand | 105-109 | 5 | 26 |
| α-helix | 115-126 | 12 | |
| β-strand | 135-140 | 6 | 26 |
| α-helix | 144-146 | 3 | |
| α-helix | 147-157 | 11 | |
| β-strand | 165-169 | 5 | 26 |
| α-helix | 177-190 | 14 | |
| α-helix | 193-195 | 3 | |
| β-strand | 196-199 | 4 | 26 |
| α-helix | 201-204 | 4 | |
| α-helix | 206-216 | 11 | |
| α-helix | 219-221 | 3 | |
| β-strand | 230-238 | 9 | 13 |
| α-helix | 247-251 | 5 | |
| α-helix | 254-255 | 2 | |
| α-helix | 256-264 | 9 | |
| α-helix | 265-272 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 281-292 | 12 | |
| β-strand | 295 | 1 | 27 |
| α-helix | 296-299 | 4 | |
| α-helix | 300-302 | 3 | |
| β-strand | 303-309 | 7 | 13 |
| α-helix | 316-319 | 4 | |
| α-helix | 322-324 | 3 | |
| α-helix | 329 | 1 | |
| β-strand | 337-343 | 7 | 13 |
| β-strand | 344 | 1 | 27 |
| β-strand | 353-359 | 7 | 13 |
| β-strand | 362 | 1 | 28 |
| β-strand | 366-373 | 8 | 13 |
| α-helix | 374-376 | 3 | |
| β-strand | 389-395 | 7 | 13 |
| β-strand | 399-407 | 9 | 13 |
| α-helix | 408 | 1 | |
| β-strand | 415-423 | 9 | 13 |
| α-helix | 424-427 | 4 | |
| α-helix | 432-435 | 4 | |
| α-helix | 436-446 | 11 | |
| β-strand | 452-453 | 2 | 26 |
| α-helix | 455-475 | 21 | |
| α-helix | 477-479 | 3 | |
| β-strand | 480-483 | 4 | 13 |
| β-strand | 486 | 1 | 28 |
| α-helix | 490-499 | 10 | |
Chain C: 34 helices, 20 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 31-37 | 7 | 5 |
| α-helix | 42-43 | 2 | |
| α-helix | 44-48 | 5 | |
| α-helix | 49-57 | 9 | |
| β-strand | 64-71 | 8 | 5 |
| α-helix | 77-84 | 8 | |
| α-helix | 85-87 | 3 | |
| α-helix | 92-94 | 3 | |
| α-helix | 95-103 | 9 | |
| β-strand | 105-109 | 5 | 5 |
| α-helix | 115-126 | 12 | |
| β-strand | 135-140 | 6 | 5 |
| α-helix | 144-146 | 3 | |
| α-helix | 147-157 | 11 | |
| β-strand | 165-169 | 5 | 5 |
| α-helix | 177-190 | 14 | |
| α-helix | 193-195 | 3 | |
| β-strand | 196-199 | 4 | 5 |
| α-helix | 201-204 | 4 | |
| α-helix | 206-216 | 11 | |
| α-helix | 219-221 | 3 | |
| β-strand | 230-238 | 9 | 2 |
| α-helix | 247-251 | 5 | |
| α-helix | 254-255 | 2 | |
| α-helix | 256-264 | 9 | |
| α-helix | 265-272 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 281-293 | 13 | |
| β-strand | 295 | 1 | 6 |
| α-helix | 296-299 | 4 | |
| α-helix | 300-302 | 3 | |
| β-strand | 303-309 | 7 | 2 |
| α-helix | 316-319 | 4 | |
| α-helix | 322-324 | 3 | |
| α-helix | 329 | 1 | |
| β-strand | 337-343 | 7 | 2 |
| β-strand | 344 | 1 | 6 |
| β-strand | 353-359 | 7 | 2 |
| β-strand | 362 | 1 | 7 |
| β-strand | 366-373 | 8 | 2 |
| α-helix | 374-376 | 3 | |
| β-strand | 389-395 | 7 | 2 |
| β-strand | 399-407 | 9 | 2 |
| α-helix | 408 | 1 | |
| β-strand | 415-423 | 9 | 2 |
| α-helix | 424-427 | 4 | |
| α-helix | 432-435 | 4 | |
| α-helix | 436-446 | 11 | |
| β-strand | 452-453 | 2 | 5 |
| α-helix | 455-475 | 21 | |
| α-helix | 477-479 | 3 | |
| β-strand | 480-483 | 4 | 2 |
| β-strand | 486 | 1 | 7 |
| α-helix | 490-499 | 10 | |
Chains F, N and T: 34 helices, 20 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 31-37 | 7 | 8 |
| α-helix | 42-43 | 2 | |
| α-helix | 44-48 | 5 | |
| α-helix | 49-57 | 9 | |
| β-strand | 64-71 | 8 | 8 |
| α-helix | 77-84 | 8 | |
| α-helix | 85-87 | 3 | |
| α-helix | 92-94 | 3 | |
| α-helix | 95-103 | 9 | |
| β-strand | 105-109 | 5 | 8 |
| α-helix | 115-126 | 12 | |
| β-strand | 135-140 | 6 | 8 |
| α-helix | 144-146 | 3 | |
| α-helix | 147-157 | 11 | |
| β-strand | 165-169 | 5 | 8 |
| α-helix | 177-190 | 14 | |
| α-helix | 193-195 | 3 | |
| β-strand | 196-198 | 3 | 8 |
| α-helix | 201-204 | 4 | |
| α-helix | 206-216 | 11 | |
| α-helix | 219-221 | 3 | |
| β-strand | 230-238 | 9 | 9 |
| α-helix | 247-251 | 5 | |
| α-helix | 254-255 | 2 | |
| α-helix | 256-264 | 9 | |
| α-helix | 265-272 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 281-293 | 13 | |
| β-strand | 295 | 1 | 10 |
| α-helix | 296-299 | 4 | |
| α-helix | 300-302 | 3 | |
| β-strand | 303-309 | 7 | 9 |
| α-helix | 316-319 | 4 | |
| α-helix | 322-324 | 3 | |
| α-helix | 329 | 1 | |
| β-strand | 337-343 | 7 | 9 |
| β-strand | 344 | 1 | 10 |
| β-strand | 353-359 | 7 | 9 |
| β-strand | 362 | 1 | 11 |
| β-strand | 366-373 | 8 | 9 |
| α-helix | 374-376 | 3 | |
| β-strand | 389-395 | 7 | 9 |
| β-strand | 399-407 | 9 | 9 |
| α-helix | 408 | 1 | |
| β-strand | 415-423 | 9 | 9 |
| α-helix | 424-427 | 4 | |
| α-helix | 432-435 | 4 | |
| α-helix | 436-446 | 11 | |
| β-strand | 453 | 1 | 8 |
| α-helix | 455-475 | 21 | |
| α-helix | 477-479 | 3 | |
| β-strand | 480-483 | 4 | 9 |
| β-strand | 486 | 1 | 11 |
| α-helix | 490-499 | 10 | |
Chain L: 34 helices, 20 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 32-37 | 6 | 1 |
| α-helix | 42-43 | 2 | |
| α-helix | 44-48 | 5 | |
| α-helix | 49-57 | 9 | |
| β-strand | 65-71 | 7 | 1 |
| α-helix | 77-84 | 8 | |
| α-helix | 85-87 | 3 | |
| α-helix | 92-94 | 3 | |
| α-helix | 95-103 | 9 | |
| β-strand | 105-109 | 5 | 1 |
| α-helix | 115-126 | 12 | |
| β-strand | 135-140 | 6 | 1 |
| α-helix | 144-146 | 3 | |
| α-helix | 147-154 | 8 | |
| β-strand | 165-169 | 5 | 1 |
| α-helix | 177-190 | 14 | |
| α-helix | 193-195 | 3 | |
| β-strand | 196-199 | 4 | 1 |
| α-helix | 201-204 | 4 | |
| α-helix | 206-216 | 11 | |
| α-helix | 219-221 | 3 | |
| β-strand | 230-238 | 9 | 2 |
| α-helix | 247-251 | 5 | |
| α-helix | 254-255 | 2 | |
| α-helix | 256-264 | 9 | |
| α-helix | 265-272 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 281-293 | 13 | |
| β-strand | 295 | 1 | 3 |
| α-helix | 296-299 | 4 | |
| α-helix | 300-302 | 3 | |
| β-strand | 303-309 | 7 | 2 |
| α-helix | 316-319 | 4 | |
| α-helix | 322-324 | 3 | |
| α-helix | 329 | 1 | |
| β-strand | 337-343 | 7 | 2 |
| β-strand | 344 | 1 | 3 |
| β-strand | 353-359 | 7 | 2 |
| β-strand | 362 | 1 | 4 |
| β-strand | 366-373 | 8 | 2 |
| α-helix | 374-376 | 3 | |
| β-strand | 389-395 | 7 | 2 |
| β-strand | 399-407 | 9 | 2 |
| α-helix | 408 | 1 | |
| β-strand | 415-423 | 9 | 2 |
| α-helix | 424-427 | 4 | |
| α-helix | 432-435 | 4 | |
| α-helix | 436-446 | 11 | |
| β-strand | 452-453 | 2 | 1 |
| α-helix | 455-475 | 21 | |
| α-helix | 477-479 | 3 | |
| β-strand | 480-483 | 4 | 2 |
| β-strand | 486 | 1 | 4 |
| α-helix | 490-499 | 10 | |
Chain Q: 33 helices, 20 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 32-37 | 6 | 16 |
| α-helix | 42-43 | 2 | |
| α-helix | 44-48 | 5 | |
| α-helix | 49-57 | 9 | |
| β-strand | 65-71 | 7 | 16 |
| α-helix | 77-84 | 8 | |
| α-helix | 85-87 | 3 | |
| α-helix | 92-94 | 3 | |
| α-helix | 95-103 | 9 | |
| β-strand | 105-109 | 5 | 16 |
| α-helix | 115-126 | 12 | |
| β-strand | 135-140 | 6 | 16 |
| α-helix | 144-146 | 3 | |
| α-helix | 147-154 | 8 | |
| β-strand | 165-169 | 5 | 16 |
| α-helix | 177-190 | 14 | |
| α-helix | 193-195 | 3 | |
| β-strand | 196-198 | 3 | 16 |
| α-helix | 201-204 | 4 | |
| α-helix | 206-216 | 11 | |
| α-helix | 219-221 | 3 | |
| β-strand | 230-238 | 9 | 17 |
| α-helix | 247-251 | 5 | |
| α-helix | 254-255 | 2 | |
| α-helix | 256-264 | 9 | |
| α-helix | 265-272 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 281-293 | 13 | |
| β-strand | 295 | 1 | 18 |
| α-helix | 296-299 | 4 | |
| α-helix | 300-302 | 3 | |
| β-strand | 303-309 | 7 | 17 |
| α-helix | 316-319 | 4 | |
| α-helix | 322-324 | 3 | |
| β-strand | 337-343 | 7 | 17 |
| β-strand | 344 | 1 | 18 |
| β-strand | 353-359 | 7 | 17 |
| β-strand | 362 | 1 | 19 |
| β-strand | 366-373 | 8 | 17 |
| α-helix | 374-376 | 3 | |
| β-strand | 389-395 | 7 | 17 |
| β-strand | 399-407 | 9 | 17 |
| α-helix | 408 | 1 | |
| β-strand | 415-423 | 9 | 17 |
| α-helix | 424-427 | 4 | |
| α-helix | 432-435 | 4 | |
| α-helix | 436-446 | 11 | |
| β-strand | 453 | 1 | 16 |
| α-helix | 455-475 | 21 | |
| α-helix | 477-479 | 3 | |
| β-strand | 480-483 | 4 | 17 |
| β-strand | 486 | 1 | 19 |
| α-helix | 490-499 | 10 | |
Chain W: 33 helices, 20 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 31-37 | 7 | 23 |
| α-helix | 42-43 | 2 | |
| α-helix | 44-48 | 5 | |
| α-helix | 49-57 | 9 | |
| β-strand | 64-71 | 8 | 23 |
| α-helix | 77-84 | 8 | |
| α-helix | 85-87 | 3 | |
| α-helix | 92-94 | 3 | |
| α-helix | 95-103 | 9 | |
| β-strand | 105-109 | 5 | 23 |
| α-helix | 115-126 | 12 | |
| β-strand | 135-140 | 6 | 23 |
| α-helix | 144-146 | 3 | |
| α-helix | 147-157 | 11 | |
| β-strand | 165-169 | 5 | 23 |
| α-helix | 177-190 | 14 | |
| α-helix | 193-195 | 3 | |
| β-strand | 196-198 | 3 | 23 |
| α-helix | 201-204 | 4 | |
| α-helix | 206-216 | 11 | |
| α-helix | 219-221 | 3 | |
| β-strand | 230-238 | 9 | 9 |
| α-helix | 247-251 | 5 | |
| α-helix | 254-255 | 2 | |
| α-helix | 256-264 | 9 | |
| α-helix | 265-272 | 8 | |
| α-helix | 273-276 | 4 | |
| α-helix | 281-292 | 12 | |
| β-strand | 295 | 1 | 24 |
| α-helix | 296-299 | 4 | |
| α-helix | 300-302 | 3 | |
| β-strand | 303-309 | 7 | 9 |
| α-helix | 316-319 | 4 | |
| α-helix | 322-324 | 3 | |
| α-helix | 329 | 1 | |
| β-strand | 337-343 | 7 | 9 |
| β-strand | 344 | 1 | 24 |
| β-strand | 353-359 | 7 | 9 |
| β-strand | 362 | 1 | 25 |
| β-strand | 366-373 | 8 | 9 |
| α-helix | 374-376 | 3 | |
| β-strand | 389-395 | 7 | 9 |
| β-strand | 399-407 | 9 | 9 |
| α-helix | 408 | 1 | |
| β-strand | 415-423 | 9 | 9 |
| α-helix | 424-427 | 4 | |
| α-helix | 436-446 | 11 | |
| β-strand | 453 | 1 | 23 |
| α-helix | 455-475 | 21 | |
| α-helix | 477-479 | 3 | |
| β-strand | 480-483 | 4 | 9 |
| β-strand | 486 | 1 | 25 |
| α-helix | 490-499 | 10 | |
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Glucose-6-phosphate 1-dehydrogenase | B, C, F, L, N, Q, T, W | protein | 515 | Homo sapiens | P11413 (AlphaFold model) |
Sequence of entity 1 (B, C, F, L, N, Q, T, W), FASTA
>6E07_1 Glucose-6-phosphate 1-dehydrogenase (chains B, C, F, L, N, Q, T, W)
MAEQVALSRTQVCGILREELFQGDAFHQSDTHIFIIMGASGDLAKKKIYPTIWWLFRDGL
LPENTFIVGYARSRLTVADIRKQSEPFFKATPEEKLKLEDFFARNSYVAGQYDDAASYQR
LNSHMNALHLGSQANRLFYLALPPTVYEAVTKNIHESCMSQIGWNRIIVEKPFGRDLQSS
DRLSNHISSLFREDQIYRIDHYLGKEMVQNLMVLRFANRIFGPIWNRDNIACVILTFKEP
FGTEGRGGYFDEFGIIRDVMQNHLLQMLCLVAMEKPASTNSDDVRDEKVKVLKCISEVQA
NNVVLGQYVGNPDGEGEATKGYLDDPTVPRGSTTATFAAVVLYVENERWDGVPFILRCGK
ALNERKAEVRLQFHDVAGDIFHQQCKRNELVIRVQPNEAVYTKMMTKKPGMFFNPEESEL
DLTYGNRYKNVKLPDAYERLILDVFCGSQMHFVRSDELLEAWRIFTPLLHQIELEKPKPI
PYIYGSRGPTEADELMKRVGFQYEGTYKWVNPHKL
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| PO4 | Phosphate ion | O4 P | 8 |
| NAP | NADP nicotinamide-adenine-dinucleotide phosphate | C21 H28 N7 O17 P3 | 8 |
Water and common crystallization additives (GOL) are not listed.
Primary citation
Correcting glucose-6-phosphate dehydrogenase deficiency with a small-molecule activator. Hwang, S., Mruk, K., Rahighi, S. et al. Nat Commun (2018) 9:4045-4045. DOI 10.1038/s41467-018-06447-z · PubMed
Other PDB entries of the same protein (UniProt P11413 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 6JYU 1.89 Å, Crystal structure of Human G6PD Canton
- 6E08 1.9 Å, Crystal structure of G6PD in complex with structural NADP
- 7SNH 2.2 Å, Structure of G6PD-D200N tetramer bound to NADP+
- 7ZVE 2.28 Å, K403 acetylated glucose-6-phosphate dehydrogenase (G6PD)
- 7ZVD 2.46 Å, K89 acetylated glucose-6-phosphate dehydrogenase (G6PD) in a complex with structural NADP+
- 2BH9 2.5 Å, X-ray structure of a deletion variant of human glucose 6-phosphate dehydrogenase…
- 7SNI 2.5 Å, Structure of G6PD-D200N tetramer bound to NADP+ and G6P
- 7UC2 2.5 Å, Structure of G6PD-D200N tetramer bound to NADP+ with no symmetry applied
- 5UKW 2.65 Å, Crystal structure of human Glucose 6-phosphate Dehydrogenase mutant (A277C) complexed…
- 7SNG 2.8 Å, structure of G6PD-WT tetramer
- 2BHL 2.9 Å, X-ray structure of human glucose-6-phosphate dehydrogenase (deletion variant) complexed…
- 7SEH 2.9 Å, Glucose-6-phosphate 1-dehydrogenase (K403QdLtL)
Browse structure collections
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