5UBP: TREX2 M-region

TREX2 M-region. Determined by X-ray diffraction at 2.3 Å resolution. Released 5 Apr 2017.

Method
X-ray diffraction
Resolution
2.3 Å
Organisms
Saccharomyces cerevisiae RM11-1a, Saccharomyces cerevisiae S288c
Chains
3
Atoms
8,557
Mol. weight
119.3 kDa
Released
5 Apr 2017

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

Secondary structure: helices and β-sheets

5UBP contains 68 α-helices and 12 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.

Chain A: 37 helices, 7 β-strands

ElementResiduesLengthSheet
α-helix81-833
β-strand8511
α-helix90-967
α-helix103-1064
α-helix113-1153
β-strand11711
α-helix118-1192
α-helix120-1223
α-helix126-1272
β-strand12812
α-helix138-15316
α-helix157-17721
α-helix187-1893
α-helix206-21510
α-helix220-2223
α-helix231-2322
α-helix238-2425
α-helix249-2513
α-helix252-2543
α-helix258-27114
α-helix273-2753
α-helix280-29617
β-strand29912
α-helix302-32524
α-helix331-35424
α-helix362-37211
α-helix377-3848
α-helix388-3914
α-helix394-40613
α-helix416-4183
α-helix426-4338
α-helix440-4467
α-helix447-4493
α-helix450-46415
α-helix469-4713
β-strand472-47323
α-helix474-4818
α-helix486-49510
β-strand499-50133
β-strand505-50733
α-helix508-5103
α-helix522-5265
α-helix530-5367
α-helix541-5455
Chain B: 28 helices, 4 β-strands
ElementResiduesLengthSheet
α-helix3-1210
α-helix23-3715
α-helix42-5110
α-helix59-7416
α-helix80-9617
α-helix106-12823
α-helix131-1344
α-helix140-15516
α-helix156-1605
α-helix170-1734
α-helix175-18814
α-helix192-1943
α-helix195-20511
α-helix211-2133
α-helix216-23217
α-helix236-25116
α-helix258-27720
β-strand28214
α-helix285-2906
α-helix293-30816
α-helix311-32010
α-helix322-3276
α-helix331-35121
α-helix352-3576
β-strand362-36435
α-helix365-37612
α-helix400-40910
β-strand416-41835
β-strand423-42535
α-helix432-4354
α-helix439-4468
α-helix448-4503
Chain C: 3 helices, 1 β-strand
ElementResiduesLengthSheet
α-helix28-314
α-helix35-373
β-strand6014
α-helix72-8716

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Leucine permease transcriptional regulatorAprotein482Saccharomyces cerevisiae RM11-1aB3LGC5
Nuclear mRNA export protein THP1Bprotein455Saccharomyces cerevisiae S288cQ08231 (AlphaFold model)
26S proteasome complex subunit SEM1Cprotein89Saccharomyces cerevisiae S288cO94742 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>5UBP_1 Leucine permease transcriptional regulator (chains A)
SGSPSYTENKPDKKKKYMINDAKTIQLVGPLISSPDNLGFQKRSHKARELPRFLINQEPQ
LEKRAFVQDPWDKANQEKMISLEESIDDLNELYETLKKMRNTERSIMEEKGLVDKADSAK
DLYDAIVFQGTCLDMCPTFERSRRNVEYTVYSYEKNQPNDKKASRTKALKVFARPAAAAA
PPLPSDVRPPHILVKTLDYIVDNLLTTLPESEGFLWDRMRSIRQDFTYQNYSGPEAVDCN
ERIVRIHLLILHIMVKSNVEFSLQQELEQLHKSLITLSEIYDDVRSSGGTCPNEAEFRAY
ALLSKIRDPQYDENIQRLPKHIFQDKLVQMALCFRRVISNSAYTERGFVKTENCLNFYAR
FFQLMQSPSLPLLMGFFLQMHLTDIRFYALRALSHTLNKKHKPIPFIYLENMLLFNNRQE
IIEFCNYYSIEIINGDAADLKTLQHYSHKLSETQPLKKTYLTCLERRLQKTTYKGLINGG
ED
Sequence of entity 2 (B), FASTA
>5UBP_2 Nuclear mRNA export protein THP1 (chains B)
MDMANQLLDELAHGNFSHLTLNLSQNGREIAILQKQLTGFDDKQLETFVEQHPAMPNDTR
FKIMCTSFLNYARDVDPWSAWSSSDLIFEFYQCLINCLINDNAPHIEMLIPVATRETEFI
INLAGKLDSFHLQLHTRSHQFLSHISSILSRLFNSIKPPRGNASSTNIPGKQRILLYLVN
KLNNIYFRIESPQLCSNIFKNFQPKSMLAHFNEYQLDQQIEYRYLLGRYYLLNSQVHNAF
VQFNEAFQSLLNLPLTNQAITRNGTRILNYMIPTGLILGKMVKWGPLRPFLSQETIDNWS
VLYKHVRYGNIQGVSLWLRQNERHLCARQLLIVLLEKLPMVTYRNLIKTVIKSWTTEWGQ
NKLPYSLIERVLQLSIGPTFEDPGAQEITIYNGIHSPKNVENVLVTLINLGLLRANCFPQ
LQLCVVKKTTMIQEIVPPVNERITKMFPAHSHVLW
Sequence of entity 3 (C), FASTA
>5UBP_3 26S proteasome complex subunit SEM1 (chains C)
MSTDVAAAQAQSKIDLTKKKNEEINKKSLEEDDEFEDFPIDTWANGETIKSNAVTQTNIW
EENWDDVEVDDDFTNELKAELDRYKRENQ

Primary citation

Structure of the Sac3 RNA-binding M-region in the Saccharomyces cerevisiae TREX-2 complex. Gordon, J.M.B., Aibara, S., Stewart, M. Nucleic Acids Res (2017) 45:5577-5585. DOI 10.1093/nar/gkx158 · PubMed

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