5OT4: Legionella pneumophila effector RidL

Structure of the Legionella pneumophila effector RidL (1-866). Determined by X-ray diffraction at 3.0 Å resolution. Released 13 Dec 2017.

Method
X-ray diffraction
Resolution
3.0 Å
Organism
Legionella pneumophila
Chains
4
Atoms
26,232
Mol. weight
406.12 kDa
Released
13 Dec 2017

Explore 5OT4 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5OT4 contains 210 α-helices and 24 β-strands across 4 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: 47 helices, 4 β-strands

ElementResiduesLengthSheet
α-helix12-2514
α-helix30-4516
α-helix51-599
α-helix62-687
α-helix104-12017
α-helix125-1339
α-helix136-14510
β-strand14911
β-strand15111
α-helix161-1644
β-strand165-16622
β-strand174-17522
α-helix184-20522
α-helix209-2179
α-helix221-23111
α-helix238-2403
α-helix245-27228
α-helix276-2816
α-helix283-2864
α-helix291-2966
α-helix300-3056
α-helix311-32818
α-helix335-3384
α-helix343-3508
α-helix360-3645
α-helix370-38415
α-helix394-40310
α-helix407-41610
α-helix430-44920
α-helix455-4573
α-helix458-4658
α-helix469-4779
α-helix480-4867
α-helix491-4977
α-helix505-51915
α-helix524-5318
α-helix536-5372
α-helix541-55616
α-helix564-57815
α-helix583-5897
α-helix604-61310
α-helix618-6258
α-helix631-6399
α-helix649-6568
α-helix665-6739
α-helix680-69213
α-helix695-71117
α-helix715-74127
α-helix743-7508
α-helix766-80439
α-helix820-86243
Chain B: 53 helices, 10 β-strands
ElementResiduesLengthSheet
α-helix12-2514
α-helix30-4516
α-helix51-599
α-helix62-687
α-helix70-734
α-helix85-906
α-helix104-12017
α-helix125-1339
α-helix136-14510
β-strand14913
β-strand15113
β-strand15514
β-strand15814
α-helix161-1644
β-strand165-16625
α-helix172-1732
β-strand174-17525
α-helix184-20522
α-helix209-2168
α-helix221-23010
α-helix235-2406
α-helix245-26521
α-helix267-2715
α-helix276-2816
α-helix283-2875
α-helix291-2977
α-helix300-3034
α-helix308-3103
α-helix311-32818
α-helix335-3395
α-helix343-3519
α-helix361-3633
α-helix370-38415
β-strand38916
β-strand39216
α-helix394-40310
α-helix407-41610
α-helix429-44921
α-helix455-4573
α-helix458-4658
α-helix469-4779
α-helix480-4856
α-helix491-4988
α-helix505-51814
α-helix524-5318
α-helix541-55515
α-helix564-57815
α-helix583-5897
β-strand59217
β-strand59917
α-helix604-62522
α-helix629-64012
α-helix646-6483
α-helix649-6568
α-helix665-6739
α-helix680-69213
α-helix695-71016
α-helix715-74127
α-helix743-7508
α-helix770-7723
α-helix774-80431
α-helix806-8072
α-helix820-85738
Chain C: 58 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix41
α-helix61
α-helix13-2513
α-helix31-4515
α-helix51-599
α-helix62-687
α-helix70-734
α-helix85-895
α-helix104-12017
α-helix125-1317
α-helix136-14510
α-helix161-1644
β-strand165-16628
β-strand174-17528
α-helix184-20522
α-helix209-2179
α-helix221-23010
α-helix237-2404
α-helix245-27329
α-helix276-2816
α-helix283-2864
α-helix291-2944
α-helix301-3055
α-helix308-3103
α-helix311-32818
α-helix335-3384
α-helix343-3508
α-helix360-3634
α-helix370-38314
α-helix394-40310
α-helix407-41711
α-helix429-44921
α-helix458-4658
α-helix469-4779
α-helix479-4813
α-helix482-4876
α-helix491-4988
α-helix505-51915
α-helix525-5317
α-helix541-5433
α-helix544-5518
α-helix568-5758
α-helix586-5894
α-helix609-6157
α-helix617-6259
α-helix632-6387
α-helix646-6483
α-helix650-6567
α-helix657-6593
α-helix665-6739
α-helix680-69011
α-helix695-70814
α-helix719-73113
α-helix732-7343
α-helix775-7795
α-helix782-7854
α-helix788-79912
α-helix833-8364
α-helix841-8499
α-helix851-8544
Chain D: 52 helices, 8 β-strands
ElementResiduesLengthSheet
α-helix12-2615
α-helix30-4516
α-helix51-6010
α-helix62-687
α-helix70-723
α-helix85-884
α-helix104-11815
α-helix125-1339
α-helix136-1449
β-strand14919
β-strand15119
α-helix162-1643
β-strand165-166210
β-strand174-175210
α-helix184-20522
α-helix209-2168
α-helix221-23010
α-helix237-2404
α-helix245-26521
α-helix267-2726
α-helix276-2816
α-helix283-2864
α-helix291-2966
α-helix300-3056
α-helix308-3103
α-helix311-32616
α-helix335-3395
α-helix343-3508
α-helix361-3633
α-helix367-3715
α-helix372-38413
β-strand389111
β-strand392111
α-helix394-40310
α-helix407-41711
α-helix427-44923
α-helix454-4563
α-helix458-4669
α-helix469-4757
α-helix480-4867
α-helix491-4988
α-helix505-51814
α-helix524-5318
α-helix543-55614
α-helix568-57811
α-helix583-5886
β-strand592112
β-strand599112
α-helix604-61512
α-helix617-6259
α-helix629-63810
α-helix646-6483
α-helix649-6535
α-helix665-6739
α-helix680-69213
α-helix695-70915
α-helix715-73521
α-helix738-75215
α-helix775-80329
α-helix821-85333

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
InteraptinA, B, C, Dprotein901Legionella pneumophilaQ5ZT54 (AlphaFold model)
Sequence of entity 1 (A, B, C, D), FASTA
>5OT4_1 Interaptin (chains A, B, C, D)
SMILEEYIRMAKNKEFFDALEEIAESAKNDETLRNELAKVLDDILKTDPSDPEAFRKIVA
EHQEFWDEHDPSLMEFNEGRFFGKSRKQYLKSDDFLNSTDPTYNFQKLHQFAAEQRVKLG
LEKSDTDTLVAILKNNPEECRAYIESKKPGLGNFSEGNVHGWLKEEYTPTIPPKAINKST
GVLSDEAIKRIKEQARDLLLLKLINSSGNTQLLKDLRDAMSKPEAERAANALGFPTEGNG
VLFLSREVVDALEERVEKLEQEAAKRGFDSYVQSLSHNALLAKKNGLESTTAAGFKNSLD
EPYKTYLPESEWERAQGVLGARYLQAVLSSGTQNLKDALNAKDANALITELKKPALLGPH
DYIDKAVTEENLGSLKKNMMKSFINNIKDETNLKALDALKALDGAKNLDKFKEVLGKLGI
TPADWVKDTDLKDMKQWARARQFELEINRVSSLGSGAHSKLMSTLTKLPVEKQREILAKP
QQLRHLMNAYESHVAEHYLGKNASGIAELLTENKRLEGFRAIHNAEVARVLANFKPEITL
NDKQVAAINQALTTANSNPNTYTQATDYKILIDAIKTQSGSVNQKDFYNAFNLNDDGRAF
TSSTPRKDEMSKQQQHNQHIYAEYNSTSNSGNKKLLAVLLSIEKPVTFSKDIVNRFLRPL
KDSETPQDYADTLFGENPTNPANKKFKDDLLRELTPTVFNEIKNDLRKQELLDTNPAHVM
TAIKALSTELESIKGITGPIRTNADKLKFINDIDPVHLYNPTFQGTARSKAAQMKERYEG
LSRDCGLVVDQLRRQVVALEGHLKSLPKEGEFKAAGLTLEQKAEIKKLRTDLEAELSAVR
EDLDFYKKIQGKLETIVKEVDVAAKGKMHYYYNSEGIKRHPPVSRDQIPPLPNVPNPSLR
S

Primary citation

Molecular mechanism for the subversion of the retromer coat by the Legionella effector RidL. Romano-Moreno, M., Rojas, A.L., Williamson, C.D. et al. Proc Natl Acad Sci U S A (2017) 114:E11151-E11160. DOI 10.1073/pnas.1715361115 · PubMed

Other PDB entries of the same protein (UniProt Q5ZT54 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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