Cryo-EM structure of the Tripartite ATP-independent Periplasmic (TRAP) transporter SiaQM from Photobacterium profundum in amphipol. Determined by electron microscopy at 2.97 Å resolution. Released 21 Dec 2022.
Explore 7QHA in 3D Show helices and sheets RCSB PDB PDBe
7QHA contains 38 α-helices and 11 β-strands across 3 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.
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 3-6 | 4 | |
| α-helix | 9-30 | 22 | |
| α-helix | 31-35 | 5 | |
| α-helix | 42-63 | 22 | |
| α-helix | 74-76 | 3 | |
| α-helix | 79-110 | 32 | |
| β-strand | 115-116 | 2 | 1 |
| β-strand | 121-122 | 2 | 1 |
| α-helix | 124-127 | 4 | |
| α-helix | 129-151 | 23 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 2-14 | 13 | |
| α-helix | 18-32 | 15 | |
| α-helix | 38-46 | 9 | |
| α-helix | 47-49 | 3 | |
| α-helix | 53-55 | 3 | |
| α-helix | 56-69 | 14 | |
| α-helix | 72-84 | 13 | |
| α-helix | 91-102 | 12 | |
| α-helix | 109-125 | 17 | |
| α-helix | 131-140 | 10 | |
| α-helix | 141-144 | 4 | |
| α-helix | 152-161 | 10 | |
| α-helix | 165-171 | 7 | |
| α-helix | 173-194 | 22 | |
| α-helix | 199-203 | 5 | |
| α-helix | 204-213 | 10 | |
| α-helix | 219-229 | 11 | |
| α-helix | 235-249 | 15 | |
| α-helix | 259-293 | 35 | |
| α-helix | 296-306 | 11 | |
| α-helix | 310-324 | 15 | |
| α-helix | 330-336 | 7 | |
| α-helix | 338-346 | 9 | |
| α-helix | 352-366 | 15 | |
| α-helix | 374-383 | 10 | |
| α-helix | 390-394 | 5 | |
| α-helix | 395-397 | 3 | |
| α-helix | 399-410 | 12 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 18-22 | 5 | 2 |
| β-strand | 34-39 | 6 | 1 |
| β-strand | 46-51 | 6 | 1 |
| β-strand | 57-59 | 3 | 1 |
| α-helix | 61-63 | 3 | |
| β-strand | 68-72 | 5 | 2 |
| β-strand | 77-82 | 6 | 2 |
| β-strand | 91-96 | 6 | 1 |
| α-helix | 104-106 | 3 | |
| β-strand | 107 | 1 | 1 |
| β-strand | 112-114 | 3 | 1 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Putative TRAP-type C4-dicarboxylate transport system, small permease component | A | protein | 170 | Photobacterium profundum SS9 | Q6LPW0 (AlphaFold model) |
| Putative TRAP-type C4-dicarboxylate transport system, large permease component | B | protein | 427 | Photobacterium profundum SS9 | Q6LPW1 (AlphaFold model) |
| Megabody c7HopQ | C | protein | 510 | Helicobacter pylori, synthetic construct | B5Z8H1 (AlphaFold model) |
>7QHA_1 Putative TRAP-type C4-dicarboxylate transport system, small permease component (chains A) MFRKIIDNIEEIITVPLMIALLCILTWQISSRWLFDSPSLWSEELARVLFLHMAIIGGAI AIKKDDHVKITFFSDKLPRNFRYSLLFALELLVLITIVAMIYYGYAHVQRTAFFELITLG ISSSWMTYALPVGGCFMLVRQCQKLYFVLIDWRINENKNTSHLTACDINE
>7QHA_2 Putative TRAP-type C4-dicarboxylate transport system, large permease component (chains B) MFTSIVGWLGLLFAGMPVGFSLIFVGLAFLVLTESTGINFAAQQMIGGLDNFTLLAVPFF VLTGHLMNSAGITERIFNFAKAMVGHITGSLGHVNILASLLFSGMSGSALADAGGLGQLE IKSMRDAKYDDDFAGGLTAASCIIGPLVPPSIPLVIYGVVSNTSIGALFLAGAIPGLLCC IALCIMTYFIAKKRGYMTLPRASRKERLIAFRDAFLSLLTPFIIIGGIFSGKFTPTEAAI ISSLYALFLGTVVYKSLTMDKFIKLVQETVTTTSVVALMVMGVTVFGWIVAREQLPQQLA ELFLSISDNPLILLLLINLLLLFLGTFIESLALLLLLVPFLVPVATSVGIDPVHFGVMAI LNLMIGILTPPMGMALYVVSKVGNIPFHVLTRGVLPLLVPLFIVLGLIIVFPQITLFLPQ LVLGYGL
>7QHA_3 Megabody c7HopQ (chains C) QVQLQESGGGLVQTKTTTSVIDTTNDAQNLLTQAQTIVNTLKDYCPILIAKSSSSNGGTN NANTPSWQTAGGGKNSCATFGAEFSAASDMINNAQKIVQETQQLSANQPKNITQPHNLNL NSPSSLTALAQKMLKNAQSQAEILKLANQVESDFNKLSSGHLKDYIGKCDASAISSANMT MQNQKNNWGNGCAGVEETQSLLKTSAADFNNQTPQINQAQNLANTLIQELGNNDTYEQLS RLLTNDNGTNSKTSAQAINQAVNNLNERAKTLAGGTTNSPAYQATLLALRSVLGLWNSMG YAVICGGYTKSPGENNQKDFHYTDENGNGTTINCGGSTNSNGTHSYNGTNTLKADKNVSL SIEQYEKIHEAYQILSKALKQAGLAPLNSKGEKLEAHVTTSKYAGGSLRLSCAASGNIFD RGYMGWYRQAPGKERELVAGISYGGSTYYADSVKGRFTISRDNAKNTVYLQMNSLKPEDT AVYYCAAYPLYDDPYYYWGQGTQVTVSSLE
Structure and mechanism of a tripartite ATP-independent periplasmic TRAP transporter. Davies, J.S., Currie, M.J., North, R.A. et al. Nat Commun (2023) 14:1120-1120. DOI 10.1038/s41467-023-36590-1 · PubMed
Other PDB entries of the same protein (UniProt Q6LPW0 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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