PDB entry 5gan

View 5gan on RCSB PDB site
Description: The overall structure of the yeast spliceosomal U4/U6.U5 tri-snRNP at 3.7 Angstrom
Class: transcription
Keywords: pre-mRNA splicing, snRNP, GTPase, U5 snRNA, Prp8, spliceosome, U4/U6 snRNP, Brr2, Snu114, transcription
Deposited on 2015-12-15, released 2016-01-27
The last revision prior to the SCOPe 2.08 freeze date was dated 2019-12-11, with a file datestamp of 2019-12-06.
Experiment type: EM
Resolution: 3.6 Å
R-factor: N/A
AEROSPACI score: 0.07 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '2':
    Compound: u6 snrna-associated sm-like protein lsm2
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain '3':
    Compound: U6 snRNA-associated Sm-like protein LSm3
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain '4':
    Compound: u6 snrna-associated sm-like protein lsm4
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain '5':
    Compound: U6 snRNA-associated Sm-like protein LSm5
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain '6':
    Compound: U6 snRNA-associated Sm-like protein LSm6
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain '7':
    Compound: U6 snRNA-associated Sm-like protein LSm7
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain '8':
    Compound: U6 snRNA-associated Sm-like protein LSm8
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'A':
    Compound: Pre-mRNA-splicing factor 8
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: Pre-mRNA-splicing helicase BRR2
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Pre-mRNA-splicing factor SNU114
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P36048
      • conflict (529-531)
  • Chain 'D':
    Compound: Spliceosomal protein DIB1
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Snu66
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
    • PDB 5GAN (0-327)
    Domains in SCOPe 2.08: d5gane_
  • Chain 'F':
    Compound: Pre-mRNA-processing factor 31
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5ganf1, d5ganf2
  • Chain 'G':
    Compound: U4/U6 small nuclear ribonucleoprotein Prp3
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5gang1, d5gang2
  • Chain 'H':
    Compound: U4/U6 small nuclear ribonucleoprotein PRP4
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'J':
    Compound: Pre-mRNA-splicing factor 6
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5ganj_
  • Chain 'K':
    Compound: 13 kDa ribonucleoprotein-associated protein
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'U':
    Compound: U5 snRNA
    Species: Saccharomyces cerevisiae [TaxId:4932]
  • Chain 'V':
    Compound: U4 snRNA
    Species: Saccharomyces cerevisiae [TaxId:4932]
  • Chain 'W':
    Compound: U6 snRNA
    Species: Saccharomyces cerevisiae [TaxId:4932]
  • Chain 'b':
    Compound: Small nuclear ribonucleoprotein-associated protein B
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'd':
    Compound: Small nuclear ribonucleoprotein Sm D3
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'e':
    Compound: Small nuclear ribonucleoprotein E
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'f':
    Compound: Small nuclear ribonucleoprotein F
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'g':
    Compound: Small nuclear ribonucleoprotein G
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'h':
    Compound: Small nuclear ribonucleoprotein Sm D1
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'j':
    Compound: Small nuclear ribonucleoprotein Sm D2
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'k':
    Compound: Small nuclear ribonucleoprotein-associated protein B
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'l':
    Compound: Small nuclear ribonucleoprotein Sm D1
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'm':
    Compound: Small nuclear ribonucleoprotein Sm D2
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'n':
    Compound: Small nuclear ribonucleoprotein Sm D3
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'p':
    Compound: Small nuclear ribonucleoprotein E
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'q':
    Compound: Small nuclear ribonucleoprotein F
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'r':
    Compound: Small nuclear ribonucleoprotein G
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'x':
    Compound: unknown protein
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
    • PDB 5GAN (0-99)
  • Heterogens: GTP

PDB Chain Sequences:

  • Chain '2':
    No sequence available.

  • Chain '3':
    No sequence available.

  • Chain '4':
    No sequence available.

  • Chain '5':
    No sequence available.

  • Chain '6':
    No sequence available.

  • Chain '7':
    No sequence available.

  • Chain '8':
    No sequence available.

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    No sequence available.

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >5ganE (E:)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
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xxxxxxxxxxxxxxxxxxxrxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxttkeaykklsqkfhgtksnkk

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >5ganF (F:)
msseedyfdeleydladevneekediqtkklttvncqtekfnpfeilpesielfrtlali
spdrlslsetaqilpkivdlkrilqqqeidfikllpffneiipliksniklmhnflisly
srrfpelsslipsplqyskvisilenenysknesdelffhlenkakltreqilvltmsmk
tsfknkepldiktrtqileansilenlwklqedigqyiaskisiiapnvcflvgpeiaaq
liahaggvlefsripscniasigknkhlshelhtlesgvrqegylfasdmiqkfpvsvhk
qmlrmlcakvslaarvdagqkngdrntvlahkwkaelskkarklseapsisetkalpipe
dqpkkkragrkfrkykekfrlshvrqlqnrmefgkqeqtvldsygeevglgmsntslqqa
vgatsgsrrsagnqakltkvmkhriseanqqadeflislghnteqpnlspemvqmhkkqh
tnpeeetnwfsghg

    Sequence, based on observed residues (ATOM records): (download) 
    >5ganF (F:)
pfeilpesielfrtlalispdrlslsetaqilpkivdlkrilqqqeidfikllpffneii
pliksniklmhnflislysrrfpelsslipsplqyskvisilenenysknesdelffhle
nkakltreqilvltmsmktsfknkepldiktrtqileansilenlwklqedigqyiaski
siiapnvcflvgpeiaaqliahaggvlefsripscniasigknkhlshelhtlesgvrqe
gylfasdmiqkfpvsvhkqmlrmlcakvslaarvdagqkngdrntvlahkwkaelskkar
klseapsisetkalpipedqpkkkragrkfrkykekfrlshvrqlqnrmefgkqeqtvld
sygeevglgmsntslqqavgatsgsrrsagnqakltkvmkhriseanqqadefli

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >5ganG (G:)
mpprntyekgnpkrqnspyykpsflrreettndeekfqghglktelhsalkssnlnlirr
tyqtgenpylsdphdrgsssrfnrryerglkfyqkgeiskriaqertlqkqqeeeelkrk
lkqeedekdkrkliesgdlpnlelhedkflldlskfkiyydnnhgyewwdtayldekgel
mekydmngtspaeeklaedidevddddddehpsiryvahplpekineakvsikayltqhe
rkrlrrnrrkmareareikiklgllpkpepkvklsnmmsvfendqnitdptawekvvkdq
vdlrkrkhleenerrhedaikrrkeavnmnvekptvyhckvfqfknlqnpkirfklkmns
kelslkglclrirddgpgiiivvgneksckfyenlvmkrikwnedfelhtntgdikmdmh
nnsisktwegylqdckfkgwfmkvcndqdsllrtlgqfdsehfyspvqt

    Sequence, based on observed residues (ATOM records): (download) 
    >5ganG (G:)
lldlskfkiyydnnhgyewwdtayldekgelmekydmngtspaeeklaedidevdddddd
ehpsiryvahplpekineakvsikayltqherkrlrrnrrkmareareikiklgllpkpe
pkvklsnmmsvfendqnitdptawekvvkdqvdlrkrkhleenerrhedaikrrkeavnm
nvekptvyhckvfqfknlqnpkirfklkmnskelslkglclrirddgpgiiivvgneksc
kfyenlvmkrikwnedfelhtntgdikmdmhnnsisktwegylqdckfkgwfmkvcndqd
sllrtlgqfdsehfyspv

  • Chain 'H':
    No sequence available.

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >5ganJ (J:)
merpsfldqeppagyvpgigrgatgfstkekqvvsnddkgrripkryrenlnnhlqsqpk
ddeddeaanvfktlelklaqkkkkranekdddnsvdssnvkrqfadlkeslaavtesewm
dipdatdftrrnkrnriqeqlnrktyaapdslipgnvdlnklteerekllqsqidenlaq
ltknasnpiqvnkpnaatdalsylkdlendrvnslsdatledlqkmrtilksyrkadptn
pqgwiasarleekarkfsvakkiiengcqecprssdiwlenirlhesdvhycktlvatai
nfnptspllwfkaidlesttvnkyrvvrkalqeiprdeglwklavsfeadkaqvikmlek
atqfipqsmdlltaytnlqsyhnakmtlnsfrkilpqepeiwiistlleernnpdipvdk
lvsllkegllelskngykatlsawlkraealndapnsnltcqaivyailewlresgeyes
elnnvdqilekmphskvqiavlkkliqwdpcdtvlwsrlkmatesyhkieellaffqell
fqtknsddiranmrekspgllmmyvseywkaqkgdtrqtlvlidqiidfaphnldlrffk
ikllgrslqldelrdffqqtfssledfkisgterlyykyvnflryqdlneeaikflnerc
lksfpichkfflqlgqiyhsmgniemsretylsgtrlvpncpllwvslskideidlknpv
rarsildrgllknpddvlfyiakiqmeirlgnldqaellvtqalqkfpsnallwveqikl
fkhgnksslkktifqdalrrtqndhrvlleigvsfyaeaqyetslkwleralkkcsrygd
twvwlfrtyarlgkdtvdlynmfdqceptygpewiaasknvkmqyctpreillrlmndk

    Sequence, based on observed residues (ATOM records): (download) 
    >5ganJ (J:)
gnvdlnklteerekllqsqidenlaqltknasnpiqvnkpnaatdalsylkdlendrvns
lsdatledlqkmrtilksyrkadptnpqgwiasarleekarkfsvakkiiengcqecprs
sdiwlenirlhesdvhycktlvatainfnptspllwfkaidlesttvnkyrvvrkalqei
prdeglwklavsfeadkaqvikmlekatqfipqsmdlltaytnlqsyhnakmtlnsfrki
lpqepeiwiistlleernnpklvsllkegllelskngykatlsawlkraealndapnsnl
tcqaivyailewlresgeyeselnnvdqilekmphskvqiavlkkliqwdpcdtvlwsrl
kmatesyeellaffqellfqtsddiranmrekspgllmmyvseywkaqkgdtrqtlvlid
qiidfaphnldlrffkikllgrslqldelrdffqqtfssledfkisgterlyykyvnflr
yqdlneeaikflnerclksfpichkfflqlgqiyhsmgniemsretylsgtrlvpncpll
wvslskideidlknpvrarsildrgllknpddvlfyiakiqmeirlgnldqaellvtqal
qkfpsnallwveqiklfkhgnksslkktifqdalrrtqndhrvlleigvsfyaeaqyets
lkwleralkkcsrygdtwvwlfrtyarlgkdtvdlynmfdqceptygpewiaasknctpr
eillrlmnd

  • Chain 'K':
    No sequence available.

  • Chain 'U':
    No sequence available.

  • Chain 'V':
    No sequence available.

  • Chain 'W':
    No sequence available.

  • Chain 'b':
    No sequence available.

  • Chain 'd':
    No sequence available.

  • Chain 'e':
    No sequence available.

  • Chain 'f':
    No sequence available.

  • Chain 'g':
    No sequence available.

  • Chain 'h':
    No sequence available.

  • Chain 'j':
    No sequence available.

  • Chain 'k':
    No sequence available.

  • Chain 'l':
    No sequence available.

  • Chain 'm':
    No sequence available.

  • Chain 'n':
    No sequence available.

  • Chain 'p':
    No sequence available.

  • Chain 'q':
    No sequence available.

  • Chain 'r':
    No sequence available.

  • Chain 'x':
    No sequence available.