3ICQ: Karyopherin nuclear state

Karyopherin nuclear state. Determined by X-ray diffraction at 3.2 Å resolution. Released 25 Aug 2009.

Method
X-ray diffraction
Resolution
3.2 Å
Organisms
Schizosaccharomyces pombe, Saccharomyces cerevisiae
Chains
6
Atoms
19,125
Mol. weight
304.35 kDa
Ligands
MG, GTP
Released
25 Aug 2009

Explore 3ICQ in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3ICQ contains 139 α-helices and 18 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 B: 6 helices, 6 β-strands

ElementResiduesLengthSheet
β-strand12-1982
α-helix25-339
β-strand47-5592
β-strand60-6892
α-helix80-823
β-strand87-9372
α-helix98-1014
α-helix103-11311
β-strand119-12462
α-helix140-1434
β-strand147-15042
α-helix161-17010
Chain C: 8 helices, 8 β-strands
ElementResiduesLengthSheet
β-strand12-1984
α-helix25-339
α-helix43-453
β-strand47-5264
β-strand62-6874
α-helix80-823
β-strand87-9374
α-helix98-1014
α-helix103-11311
β-strand119-12464
α-helix135-1373
α-helix140-1434
β-strand147-15044
β-strand15215
β-strand15715
α-helix161-17010
Chain T: 66 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix3-1311
α-helix20-3516
α-helix41-488
α-helix55-7016
α-helix74-9421
α-helix102-11918
α-helix127-13711
α-helix141-15919
α-helix167-18216
α-helix185-20117
α-helix205-21915
α-helix224-2274
α-helix230-23910
α-helix243-25816
α-helix263-27210
α-helix276-2816
α-helix289-30921
α-helix318-33922
α-helix344-3485
α-helix351-36414
α-helix369-3713
α-helix372-38918
α-helix391-3922
α-helix396-3983
α-helix404-42623
α-helix428-44720
α-helix451-4533
α-helix455-46814
β-strand47911
α-helix4851
β-strand48611
α-helix4871
α-helix488-49811
α-helix500-5034
α-helix507-51913
α-helix521-5255
α-helix528-5303
α-helix531-5399
α-helix551-56515
α-helix574-58512
α-helix602-6076
α-helix611-62414
α-helix632-65524
α-helix661-67717
α-helix678-6803
α-helix682-6832
α-helix691-70919
α-helix713-73018
α-helix731-7333
α-helix735-7373
α-helix738-74710
α-helix754-76714
α-helix770-7723
α-helix773-79220
α-helix798-82124
α-helix825-8284
α-helix830-8356
α-helix836-84712
α-helix854-86916
α-helix880-8856
α-helix887-8926
α-helix893-8953
α-helix906-92015
α-helix9311
α-helix932-9365
α-helix937-9393
α-helix944-95613
α-helix960-97415
Chain U: 59 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix3-1210
α-helix22-3312
α-helix40-489
α-helix55-7016
α-helix74-9320
α-helix95-984
α-helix102-11918
α-helix127-13812
α-helix141-15818
α-helix164-1652
α-helix167-18317
α-helix185-20218
α-helix205-21915
α-helix224-2274
α-helix230-23910
α-helix243-25816
α-helix263-27210
α-helix275-2817
α-helix289-31123
α-helix318-34023
α-helix344-3485
α-helix351-36313
α-helix372-38918
α-helix391-3922
α-helix404-42623
α-helix428-44720
α-helix451-4533
α-helix455-46814
β-strand47913
β-strand48613
α-helix488-49811
α-helix507-51913
α-helix521-5255
α-helix528-5303
α-helix531-5399
α-helix551-56515
α-helix574-5818
α-helix582-5843
α-helix602-6065
α-helix611-62616
α-helix632-65322
α-helix661-67818
α-helix691-70818
α-helix713-73018
α-helix735-7373
α-helix738-7458
α-helix751-76717
α-helix769-7724
α-helix775-7784
α-helix780-79011
α-helix798-82023
α-helix824-8274
α-helix830-84617
α-helix854-87017
α-helix879-8857
α-helix887-8904
α-helix893-8953
α-helix906-92318
α-helix929-9346
α-helix949-9546
α-helix959-97416

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Exportin-TT, Uprotein980Schizosaccharomyces pombeO94258 (AlphaFold model)
GTP-binding nuclear protein GSP1/CNR1B, Cprotein171Saccharomyces cerevisiaeP32835 (AlphaFold model)
RNA (62-mer)D, ERNA67
Sequence of entity 1 (T, U), FASTA
>3ICQ_1 Exportin-T (chains T, U)
GPMSAQDVENAVEAALDPSVGPIIKQQATDFIGSLRSSSTGWKICHEIFSEKTKYKPSTR
LICLQTLSEKVREWNNESNLLELQMIRDSVWSYIKELSFLDEPAYISNAVQHLLTLLFLQ
LYPSNWNDFFASLQGVIAASSQSEFSNFYLKVLLSIGDEIADSLVLKTDVQIQKDNLVKD
AIRANDMSDIVSFVYEMMLAYSNAKNYGTVGLCLQVYAQWVSWININLIVNEPCMNLLYS
FLQIEELRCAACETMTEIVNKKMKPLEKLNLLNILNLNLFFSKSQEQSTDPNFDEHVAKL
INAQGVELVAIKSDPSELSPELKENCSFQLYNLFPYLIRYLSDDYDETSTAVFPFLSDLL
VSLRKESSSKELSASLKEFLKSLLEAIIKKMKYDESQEWDDDPDSEEEAEFQEMRKKLKI
FQDTINSIDSSLFSSYMYSAITSSLSTAATLSPENSWQLIEFALYETYIFGEGLRGPDAF
FNEVDKSPTVLSQILALVTTSQVCRHPHPLVQLLYMEILVRYASFFDYESAAIPALIEYF
VGPRGIHNTNERVRPRAWYLFYRFVKSIKKQVVNYTESSLAMLGDLLNISVSPVTDMDAP
VPTLNSSIRNSDFNSQLYLFETVGVLISSGNLTPEEQALYCDSLINALIGKANAALSSDL
SALENIISVYCSLMAIGNFAKGFPARGSEEVAWLASFNKASDEIFLILDRMGFNEDIRGA
VRFTSGRIINVVGPDMLPKVPQLISILLNSIDMNELVDVLSFISQLIHIYKDNMMEITNR
MLPTLLMRIFSSLSAAPQGTDDAVKQNDLRKSYISFILQLLNKGFGSILFTEENQVYFDP
LINSILHFANLVGEPATQKSSIALVSKMVSLWGGKDGIAGFENFTLSLTPLCFEMPVNPN
FNTRDGQSLVVLGELAGLQKIILEKLGDIYKSYLVTVYFPTVNFPDVMASEYLQALSNLD
SRSFKQFFQKFIQALKSGNV
Sequence of entity 2 (B, C), FASTA
>3ICQ_2 GTP-binding nuclear protein GSP1/CNR1 (chains B, C)
EVPTFKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDT
AGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCENIPIVLCGNKVDV
KERKVKAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQLEFV
Sequence of entity 3 (D, E), FASTA
>3ICQ_3 RNA (62-MER) (chains D, E)
GCGGAUUUAACUCAGUUGGGAGAGCGCCUUCGGGAGGUCCUGUGUUCGAUCCACAGAAUU
CGCACCA

Ligands and cofactors

IDNameFormulaCopies
MGMagnesium ionMg2
GTPGuanosine-5'-triphosphateC10 H16 N5 O14 P32

Primary citation

Structures of the tRNA export factor in the nuclear and cytosolic states. Cook, A.G., Fukuhara, N., Jinek, M. et al. Nature (2009) 461:60-65. DOI 10.1038/nature08394 · PubMed

Other PDB entries of the same protein (UniProt O94258 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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