8DHB: Active FLCN GAP complex
Active FLCN GAP complex. Determined by electron microscopy at 3.53 Å resolution. Released 28 Sept 2022.
- Method
- Electron microscopy
- Resolution
- 3.53 Å
- Organism
- Homo sapiens
- Chains
- 10
- Atoms
- 15,171
- Mol. weight
- 419.25 kDa
- Ligands
- GDP, BEF, CZC
- Released
- 28 Sept 2022
Explore 8DHB in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
8DHB contains 75 α-helices and 74 β-strands across 10 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 A: 11 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 63-68 | 6 | 1 |
| α-helix | 75-83 | 9 | |
| α-helix | 89-92 | 4 | |
| β-strand | 101-102 | 2 | 1 |
| β-strand | 113-116 | 4 | 1 |
| β-strand | 128 | 1 | 2 |
| α-helix | 130-133 | 4 | |
| β-strand | 139-145 | 7 | 1 |
| α-helix | 151-167 | 17 | |
| β-strand | 172-178 | 7 | 1 |
| α-helix | 185-205 | 21 | |
| β-strand | 213-217 | 5 | 1 |
| α-helix | 224-236 | 13 | |
| α-helix | 240-252 | 13 | |
| β-strand | 256-263 | 8 | 3 |
| β-strand | 268-269 | 2 | 3 |
| α-helix | 276-278 | 3 | |
| α-helix | 279-298 | 20 | |
| β-strand | 316-319 | 4 | 3 |
| β-strand | 324-328 | 5 | 3 |
| β-strand | 335-342 | 8 | 3 |
| α-helix | 343-346 | 4 | |
| α-helix | 349-368 | 20 | |
Chain B: 8 helices, 11 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 9-14 | 6 | 4 |
| α-helix | 20-27 | 8 | |
| β-strand | 51-52 | 2 | 4 |
| β-strand | 56-60 | 5 | 4 |
| α-helix | 71-76 | 6 | |
| β-strand | 85-91 | 7 | 4 |
| α-helix | 101-108 | 8 | |
| β-strand | 121-124 | 4 | 4 |
| α-helix | 137-151 | 15 | |
| β-strand | 156-157 | 2 | 4 |
| α-helix | 168-180 | 13 | |
| α-helix | 184-198 | 15 | |
| β-strand | 202-207 | 6 | 3 |
| β-strand | 216-218 | 3 | 3 |
| α-helix | 226-243 | 18 | |
| β-strand | 251-256 | 6 | 3 |
| β-strand | 259-267 | 9 | 3 |
| β-strand | 270-276 | 7 | 3 |
| α-helix | 283-297 | 15 | |
Chain C: 3 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| α-helix | 50-64 | 15 | |
| α-helix | 85-91 | 7 | |
| α-helix | 126-145 | 20 | |
| β-strand | 155-156 | 2 | 5 |
Chain D: 7 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 1-2 | 2 | 5 |
| α-helix | 6-11 | 6 | |
| α-helix | 12-14 | 3 | |
| β-strand | 19-25 | 7 | 6 |
| β-strand | 31 | 1 | 6 |
| α-helix | 46-49 | 4 | |
| α-helix | 50-54 | 5 | |
| α-helix | 67-69 | 3 | |
| β-strand | 71-75 | 5 | 6 |
| β-strand | 79-86 | 8 | 6 |
| β-strand | 89-96 | 8 | 6 |
| α-helix | 101-114 | 14 | |
| α-helix | 117-119 | 3 | |
Chain E: 4 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 7-12 | 6 | |
| β-strand | 19-25 | 7 | 6 |
| β-strand | 31-33 | 3 | 6 |
| β-strand | 36 | 1 | 6 |
| α-helix | 47-59 | 13 | |
| β-strand | 70-75 | 6 | 6 |
| β-strand | 78-80 | 3 | 6 |
| β-strand | 83 | 1 | 6 |
| β-strand | 90-95 | 6 | 6 |
| α-helix | 103-106 | 4 | |
| α-helix | 111-120 | 10 | |
Chain F: 2 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 7-11 | 5 | |
| β-strand | 15-20 | 6 | 7 |
| β-strand | 22 | 1 | 8 |
| β-strand | 25 | 1 | 8 |
| α-helix | 37-51 | 15 | |
| β-strand | 65-69 | 5 | 7 |
| β-strand | 73-80 | 8 | 7 |
| β-strand | 83-90 | 8 | 7 |
Chain G: 4 helices, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 85-94 | 10 | |
| β-strand | 103-106 | 4 | 9 |
| β-strand | 114-116 | 3 | 9 |
| α-helix | 121-137 | 17 | |
| α-helix | 154-155 | 2 | |
| β-strand | 156 | 1 | 10 |
| α-helix | 157 | 1 | |
| β-strand | 165-168 | 4 | 9 |
| β-strand | 169 | 1 | 10 |
Chain H: 2 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 59-74 | 16 | |
| α-helix | 90-91 | 2 | |
2 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Ras-related GTP-binding protein C | A | protein | 400 | Homo sapiens | Q9HB90 (AlphaFold model) |
| Ras-related GTP-binding protein A | B | protein | 336 | Homo sapiens | Q7L523 (AlphaFold model) |
| Ragulator complex protein LAMTOR1 | C | protein | 166 | Homo sapiens | Q6IAA8 (AlphaFold model) |
| Ragulator complex protein LAMTOR2 | D | protein | 127 | Homo sapiens | Q9Y2Q5 (AlphaFold model) |
| Ragulator complex protein LAMTOR3 | E | protein | 124 | Homo sapiens | Q9UHA4 |
| Ragulator complex protein LAMTOR4 | F | protein | 99 | Homo sapiens | Q0VGL1 |
| Ragulator complex protein LAMTOR5 | G | protein | 173 | Homo sapiens | O43504 |
| Glutathione S-transferase class-mu 26 kDa isozyme,Sodium-coupled neutral amino acid transporter 9… | H | protein | 356 | Homo sapiens | P08515, Q8NBW4 |
| Folliculin-interacting protein 2 | I | protein | 1351 | Homo sapiens | Q9P278 |
| Folliculin | J | protein | 622 | Homo sapiens | Q8NFG4 |
Sequence of entity 1 (A), FASTA
>8DHB_1 Ras-related GTP-binding protein C (chains A)
MSLQYGAEETPLAGSYGAADSFPKDFGYGVEEEEEEAAAAGGGVGAGAGGGCGPGGADSS
KPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQ
MDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKV
NGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDHSIFEAFSKVVQKLIPQL
PTLENLLNIFISNSGIEKAFLFDVVSKIYIATDSSPVDMQSYELCCDMIDVVIDVSCIYG
LKEDGSGSAYDKESMAIIKLNNTTVLYLKEVTKFLALVCILREESFERKGLIDYNFHCFR
KAIHEVFEVGVTSHRSCGHQTSASSLKALTHNGTPRNAIL
Sequence of entity 2 (B), FASTA
>8DHB_2 Ras-related GTP-binding protein A (chains B)
MSWSHPQFEKGGFDIDYKDDDDKMPNTAMKKKVLLMGKSGSGKTSMRSIIFANYIARDTR
RLGATIDVEHSHVRFLGNLVLNLWDCGGQDTFMENYFTSQRDNIFRNVEVLIYVFDVESR
ELEKDMHYYQSCLEAILQNSPDAKIFCLVHKMDLVQEDQRDLIFKEREEDLRRLSRPLEC
ACFRTSIWDETLYKAWSSIVYQLIPNVQQLEMNLRNFAQIIEADEVLLFERATFLVISHY
QCKEQRDVHRFEKISNIIKQFKLSCSKLAASFQSMEVRNSNFAAFIDIFTSNTYVMVVMS
DPSIPSAATLINIRNARKHFEKLERVDGPKHSLLMR
Sequence of entity 3 (C), FASTA
>8DHB_3 Ragulator complex protein LAMTOR1 (chains C)
SNAEFMACCYSSENEDSDQDREERKLLLDPSSPPTKALNGAEPNYHSLPSARTDEQALLS
SILAKTASNIIDVSAADSQGMEQHEYMDRARQYSTRLAVLSSSLTHWKKLPPLPSLTSQP
HQVLASEPIPFSDLQQVSRIAAYAYSALSQIRVDAKEELVVQFGIP
Sequence of entity 4 (D), FASTA
>8DHB_4 Ragulator complex protein LAMTOR2 (chains D)
GAMLRPKALTQVLSQANTGGVQSTLLLNNEGSLLAYSGYGDTDARVTAAIASNIWAAYDR
NGNQAFNEDNLKFILMDCMEGRVAITRVANLLLCMYAKETVGFGMLKAKAQALVQYLEEP
LTQVAAS
Sequence of entity 5 (E), FASTA
>8DHB_5 Ragulator complex protein LAMTOR3 (chains E)
MADDLKRFLYKKLPSVEGLHAIVVSDRDGVPVIKVANDNAPEHALRPGFLSTFALATDQG
SKLGLSKNKSIICYYNTYQVVQFNRLPLVVSFIASSSANTGLIVSLEKELAPLFEELRQV
VEVS
Sequence of entity 6 (F), FASTA
>8DHB_6 Ragulator complex protein LAMTOR4 (chains F)
MTSALTQGLERIPDQLGYLVLSEGAVLASSGDLENDEQAASAISELVSTACGFRLHRGMN
VPFKRLSVVFGEHTLLVTVSGQRVFVVKRQNRGREPIDV
Sequence of entity 7 (G), FASTA
>8DHB_7 Ragulator complex protein LAMTOR5 (chains G)
MEPGAGHLDGHRAGSPSLRQALCDGSAVMFSSKERGRCTVINFVPLEAPLRSTPRSRQVT
EACGGEGRAVPLGSEPEWSVGGMEATLEQHLEDTMKNPSIVGVLCTDSQGLNLGCRGTLS
DEHAGVISVLAQQAAKLTSDPTDIPVVCLESDNGNIMIQKHDGITVAVHKMAS
Sequence of entity 8 (H), FASTA
>8DHB_8 Glutathione S-transferase class-mu 26 kDa isozyme,Sodium-coupled neutral amino acid transporter 9 chimera (chains H)
MASPILGYWKIKGLVQPTRLLLEYLEEKYEEHLYERDEGDKWRNKKFELGLEFPNLPYYI
DGDVKLTQSMAIIRYIADKHNMLGGCPKERAEISMLEGAVLDIRYGVSRIAYSKDFETLK
VDFLSKLPEMLKMFEDRLCHKTYLNGDHVTHPDFMLYDALDVVLYMDPMCLDAFPKLVCF
KKRIEAIPQIDKYLKSSKYIAWPLQGWQATFGGGDHPPKSDDYDIPTTENLYFQGGTMAN
MNSDSRHLGTSEVDHERDPGPMNIQFEPSDLRSKRPFCIEPTNIVNVNHVIQRVSDHASA
MNKRIHYYSRLTTPADKALIAPDHVVPAPEECYVYSPLGSAYKLQSYTEGYGKNTS
Sequence of entity 9 (I), FASTA
>8DHB_9 Folliculin-interacting protein 2 (chains I)
MASPILGYWKIKGLVQPTRLLLEYLEEKYEEHLYERDEGDKWRNKKFELGLEFPNLPYYI
DGDVKLTQSMAIIRYIADKHNMLGGCPKERAEISMLEGAVLDIRYGVSRIAYSKDFETLK
VDFLSKLPEMLKMFEDRLCHKTYLNGDHVTHPDFMLYDALDVVLYMDPMCLDAFPKLVCF
KKRIEAIPQIDKYLKSSKYIAWPLQGWQATFGGGDHPPKSDDYDIPTTENLYFQGGTMAP
TLLQKLFNKRGSSGSSAAASAQGRAPKEGPAFSWSCSEFDLNEIRLIVYQDCDRRGRQVL
FDSKAVQKIEEVTAQKTEDVPIKISAKCCQGSSSVSSSSSSSISSHSSSGGSSHHAKEQL
PKYQYTRPASDVNMLGEMMFGSVAMSYKGSTLKIHYIRSPPQLMISKVFSARMGSFCGST
NNLQDSFEYINQDPNLGKLNTNQNSLGPCRTGSNLAHSTPVDMPSRGQNEDRDSGIARSA
SLSSLLITPFPSPSSSTSSSSSYQRRWLRSQTTSLENGIIPRRSTDETFSLAEETCSSNP
AMVRRKKIAISIIFSLCEKEEAQRNFQDFFFSHFPLFESHMNRLKSAIEKAMISCRKIAE
SSLRVQFYVSRLMEALGEFRGTIWNLYSVPRIAEPVWLTMMSGTLEKNQLCQRFLKEFTL
LIEQINKNQFFAALLTAVLTYHLAWVPTVMPVDHPPIKAFSEKRTSQSVNMLAKTHPYNP
LWAQLGDLYGAIGSPVRLTRTVVVGKQKDLVQRILYVLTYFLRCSELQENQLTWSGNHGE
GDQVLNGSKIITALEKGEVEESEYVVITVRNEPALVPPILPPTAAERHNPWPTGFPECPE
GTDSRDLGLKPDKEANRRPEQGSEACSAGCLGPASDASWKPQNAFCGDEKNKEAPQDGSS
RLPSCEVLGAGMKMDQQAVCELLKVEMPTRLPDRSVAWPCPDRHLREKPSLEKVTFQIGS
FASPESDFESRMKKMEERVKACGPSLEASEAADVAQDPQVSRSPFKPGFQENVCCPQNRL
SEGDEGESDKGFAEDRGSRNDMAADIAGQLSHAADLGTASHGAGGTGGRRLEATRGLYVK
AAEGPVLEPVAPRCVQRGPGLVAGANIPCGDDNKKANFRTEGDIPRNESSDSALGDSDDE
ACASAMLDLGHGGDRTGGSLEVELPLPRSQSISTQNVRNFGRSLLAGYCPTYMPDLVLHG
TGSDEKLKQCLVADLVHTVHHPVLDEPIAEAVCIIADTDKWSVQVATSQRKVTDNMKLGQ
DVLVSSQVSSLLQSILQLYKLHLPADFCIMHLEDRLQEMYLKSKMLSEYLRGHTRVHVKE
LGVVLGIESNDLPLLTAIASTHSPYVAQILL
Sequence of entity 10 (J), FASTA
>8DHB_10 Folliculin (chains J)
MASWSHPQFEKGGGARGGSGGGSWSHPQFEKGFDYKDDDDKGTMNAIVALCHFCELHGPR
TLFCTEVLHAPLPQGDGNEDSPGQGEQAEEEEGGIQMNSRMRAHSPAEGASVESSSPGPK
KSDMCEGCRSLAAGHPGYISHDKETSIKYVSHQHPSHPQLFSIVRQACVRSLSCEVCPGR
EGPIFFGDEQHGFVFSHTFFIKDSLARGFQRWYSIITIMMDRIYLINSWPFLLGKVRGII
DELQGKALKVFEAEQFGCPQRAQRMNTAFTPFLHQRNGNAARSLTSLTSDDNLWACLHTS
FAWLLKACGSRLTEKLLEGAPTEDTLVQMEKLADLEEESESWDNSEAEEEEKAPVLPEST
EGRELTQGPAESSSLSGCGSWQPRKLPVFKSLRHMRQVLGAPSFRMLAWHVLMGNQVIWK
SRDVDLVQSAFEVLRTMLPVGCVRIIPYSSQYEEAYRCNFLGLSPHVQIPPHVLSSEFAV
IVEVHAAARSTLHPVGCEDDQSLSKYEFVVTSGSPVAADRVGPTILNKIEAALTNQNLSV
DVVDQCLVCLKEEWMNKVKVLFKFTKVDSRPKEDTQKLLSILGASEEDNVKLLKFWMTGL
SKTYKSHLMSTVRSPTASESRN
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| GDP | Guanosine-5'-diphosphate | C10 H15 N5 O11 P2 | 1 |
| BEF | Beryllium trifluoride ion | Be F3 | 1 |
| CZC | [(2~{R},3~{S},4~{R},5~{R})-5-[2,6-bis(oxidanylidene)-3~{H}-purin-9-yl]-3,4-bis(… | C10 H14 N4 O12 P2 | 1 |
Primary citation
Structural basis for FLCN RagC GAP activation in MiT-TFE substrate-selective mTORC1 regulation. Jansen, R.M., Peruzzo, R., Fromm, S.A. et al. Sci Adv (2022) 8:eadd2926-eadd2926. DOI 10.1126/sciadv.add2926 · PubMed
Other PDB entries of the same protein (UniProt Q9HB90 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 3LLU 1.4 Å, Crystal structure of the nucleotide-binding domain of Ras-related GTP-binding protein C
- 6S6D 2.5 Å, Crystal structure of RagA-Q66L-GTP/RagC-S75N-GDP GTPase heterodimer complex
- 6S6A 2.63 Å, Crystal structure of RagA-Q66L/RagC-T90N GTPase heterodimer complex
- 6EHR 2.9 Å, The crystal structure of the human LAMTOR-RagA CTD-RagC CTD complex
- 7UX2 2.9 Å, cryo-EM structure of the Raptor-TFEB-Rag-Ragulator complex
- 6U62 3.18 Å, Raptor-Rag-Ragulator complex
- 6WJ2 3.2 Å, CryoEM structure of the SLC38A9-RagA-RagC-Ragulator complex in the pre-GAP state
- 7UXC 3.2 Å, cryo-EM structure of the mTORC1-TFEB-Rag-Ragulator complex with symmetry expansion
- 7UXH 3.2 Å, cryo-EM structure of the mTORC1-TFEB-Rag-Ragulator complex
- 9ED4 3.23 Å, A composite map of mTORC1-Rag-Ragultor-4EBP1 on membrane
- 6ULG 3.31 Å, Cryo-EM structure of the FLCN-FNIP2-Rag-Ragulator complex
- 6NZD 3.6 Å, Cryo-EM Structure of the Lysosomal Folliculin Complex (FLCN-FNIP2-RagA-RagC-Ragulator)
Browse structure collections
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