6Q82: Biportin Pdr6

Crystal structure of the biportin Pdr6 in complex with RanGTP. Determined by X-ray diffraction at 2.99 Å resolution. Released 1 May 2019.

Method
X-ray diffraction
Resolution
2.99 Å
Organisms
Saccharomyces cerevisiae (strain ATCC 204508 / S288c), Homo sapiens
Chains
2
Atoms
9,682
Mol. weight
145.45 kDa
Ligands
MG, GTP
Released
1 May 2019

Explore 6Q82 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6Q82 contains 70 α-helices and 12 β-strands across 2 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: 64 helices, 4 β-strands

ElementResiduesLengthSheet
α-helix4-1411
α-helix23-3311
α-helix39-4810
α-helix54-6310
α-helix81-9818
α-helix109-12517
α-helix145-1506
α-helix164-1707
α-helix177-1837
α-helix187-21024
α-helix217-2204
α-helix221-2255
α-helix226-23813
α-helix246-26116
α-helix273-28412
α-helix294-30916
α-helix311-3133
α-helix316-32712
α-helix345-35511
α-helix359-37315
α-helix377-3859
β-strand38611
α-helix398-41215
β-strand41812
β-strand42212
α-helix424-4274
α-helix429-44012
β-strand44711
α-helix451-46919
α-helix472-48211
α-helix486-50924
α-helix511-5155
α-helix516-5238
α-helix538-55619
α-helix565-5717
α-helix576-58813
α-helix595-62127
α-helix623-6253
α-helix626-64217
α-helix651-67121
α-helix677-6793
α-helix680-69011
α-helix699-71416
α-helix721-74525
α-helix750-76920
α-helix772-7732
α-helix782-79514
α-helix800-81213
α-helix815-8184
α-helix821-83212
α-helix837-8382
α-helix849-85911
α-helix865-88218
α-helix889-89911
α-helix901-9033
α-helix904-9085
α-helix912-92817
α-helix930-9345
α-helix939-9435
α-helix944-9496
α-helix956-97116
α-helix977-98913
α-helix991-100414
α-helix1011-102313
α-helix1025-103511
α-helix1045-105713
α-helix1064-10707
α-helix1072-10754
Chain B: 6 helices, 8 β-strands
ElementResiduesLengthSheet
β-strand9-1793
α-helix23-3210
β-strand45-5283
β-strand59-6683
α-helix70-723
α-helix76-805
β-strand85-9173
α-helix95-995
α-helix101-1099
β-strand117-12263
β-strand144-14853
β-strand15014
β-strand15514
α-helix159-16911

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Importin beta-like protein KAP122Aprotein1080Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P32767 (AlphaFold model)
GTP-binding nuclear protein RanBprotein176Homo sapiensP62826 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>6Q82_1 Importin beta-like protein KAP122 (chains A)
SSIHEVVALIEELYSPHPKHDVNQIQQSLQSIQKSEQGFHLANELLSDDKYSANVKYFGA
LTLTVQLNTRGENDYETLWNVFRSNLLYLTKFSTLYVSNPNMYGQSLIIIKKLMSNLSLI
FTKINDPQLNNAGNENMIKQWNNPINTFIQLMSVQNQNINADQLLLDSINCSLTYEQLSQ
FVSLSQKHNELALTFTEVIVEDLTKFQTKRHSMSQIHEVVHEHLYISTMALINLNLTAQA
VFNPTVFDCITAWINYISLTRSVSSSGRMDLSEIFQNLIDLMYQSTEGSDGYENAEKILT
IFGNVFANDPLLMSYDLRQQIECIFLGVVRPDSGITDISNKNSWMLQYMNYLVTNDFFSE
LKELAICIVDFLQINTLSVCNKLFTNIQAADNGQVQDEYIQEYIKVLLQMTNFPLTPVLQ
EFFSVRMVDFWLDLSDAYTNLASETLRPNSIELSTQIFQQLINIYLPKISLSVKQRIIEE
EGESTSVNEFEDFRNAVSDLAQSLWSILGNDNLTNVLIDGMGQMPAASDETLIIKDTDVL
FRIETMCFVLNTILVDMTLSESPWIKNIVDANKFFNQNVISVFQTGFQTSASTKVSQILK
LDFVRTSTTLIGTLAGYFKQEPFQLNPYVEALFQGLHTCTNFTSKNEQEKISNDKLEVMV
IKTVSTLCETCREELTPYLMHFISFLNTVIMPDSNVSHFTRTKLVRSIGYVVQCQVSNGP
EEQAKYILQLTNLLSGSIEHCLASSVQLQEQQDYINCLLYCISELATSLIQPTEIIENDA
LLQRLSEFQSFWSSDPLQIRSKIMCTIDKVLDNSIYCKNSAFVEIGCLIVGKGLNLPDGE
PYFLKYNMSEVMNFVLRHVPNCELATCLPYFVYLLEKLISEFRKELTPQEFDFMFEKILL
VYYDAYIINDPDLLQMTIGFVNNVLDVKPGLAIGSKHWTSFILPQFLKLIPSREKFTIVA
VAKFWTKLINNKKYNQEELTTVRQQVSSIGGDLVYQIMYGLFHTQRSDLNSYTDLLRALV
AKFPIEAREWLVAVLPQICNNPAGHEKFINKLLITRGSRAAGNVILQWWLDCTTLPNYQG
Sequence of entity 2 (B), FASTA
>6Q82_2 GTP-binding nuclear protein Ran (chains B)
GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW
DTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKV
DIKDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMP

Ligands and cofactors

IDNameFormulaCopies
MGMagnesium ionMg1
GTPGuanosine-5'-triphosphateC10 H16 N5 O14 P31

Primary citation

Structural basis for the nuclear import and export functions of the biportin Pdr6/Kap122. Aksu, M., Trakhanov, S., Vera Rodriguez, A. et al. J Cell Biol (2019) 218:1839-1852. DOI 10.1083/jcb.201812093 · PubMed

Other PDB entries of the same protein (UniProt P32767 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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