4CG6: Cryo-em of the Sec61-complex

Cryo-em of the Sec61-complex bound to the 80s ribosome translating a membrane-inserting substrate. Determined by electron microscopy at 7.8 Å resolution. Released 5 Feb 2014.

Method: Electron microscopy
Resolution: 7.8 Å
Organism: CANIS LUPUS FAMILIARIS
Chains: 4
Atoms: 4,383
Mol. weight: 71.86 kDa
Released: 5 Feb 2014

Explore 4CG6 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4CG6 contains 24 α-helices and 2 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: 19 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	28-50	23
α-helix	64-69	6
α-helix	82-95	14
α-helix	114-131	18
α-helix	149-170	22
α-helix	180-196	17
α-helix	201	1
α-helix	204	1
α-helix	215-221	7
α-helix	242-257	16
β-strand	263	1	1
β-strand	281	1	1
α-helix	288-311	24
α-helix	317-322	6
α-helix	338	1
α-helix	341-345	5
α-helix	350-352	3
α-helix	361-379	19
α-helix	387-396	10
α-helix	416-439	24
α-helix	447-462	16

Chain B: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	8-24	17
α-helix	31-58	28
α-helix	59-61	3

Chain C: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	70-85	16

Chain D: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-16	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Protein transport protein SEC61 subunit alpha isoform 1	A	protein	476	CANIS LUPUS FAMILIARIS	P38377 (AlphaFold model)
Protein transport protein SEC61 subunit gamma	B	protein	68	CANIS LUPUS FAMILIARIS	P60058 (AlphaFold model)
Protein transport protein SEC61 subunit beta	C	protein	96	CANIS LUPUS FAMILIARIS	P60467 (AlphaFold model)
Peptide	D	protein	17	CANIS LUPUS FAMILIARIS

Sequence of entity 1 (A), FASTA

>4CG6_1 PROTEIN TRANSPORT PROTEIN SEC61 SUBUNIT ALPHA ISOFORM 1 (chains A)
MAIKFLEVIKPFCVILPEIQKPERKIQFKEKVLWTAITLFIFLVCCQIPLFGIMSSDSAD
PFYWMRVILASNRGTLMELGISPIVTSGLIMQLLAGAKIIEVGDTPKDRALFNGAQKLFG
MIITIGQSIVYVMTGMYGDPSEMGAGICLLITIQLFVAGLIVLLLDELLQKGYGLGSGIS
LFIATNICETIVWKAFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFYRQNLP
NLMNLIATIFVFAVVIYFQGFRVDLPIKSARYRGQYNTYPIKLFYTSNIPIILQSALVSN
LYVISQMLSARFSGNLLVSLLGTWSDTSSGGPARAYPVGGLCHYLSPPESFGSVLEDPVH
AVVYIVFMLGSCAFFSKTWIEVSGSSAKDVAKQLKEQQMVMRGHRETSMVHELNRYIPTA
AAFGGLCIGALSVLADFLGAIGSGTGILLAVTIIYQYFEIFVKEQSEVGSMGALLF

Sequence of entity 2 (B), FASTA

>4CG6_2 PROTEIN TRANSPORT PROTEIN SEC61 SUBUNIT GAMMA (chains B)
MDQVMQFVEPSRQFVKDSIRLVKRCTKPDRKEFQKIAMATAIGFAIMGFIGFFVKLIHIP
INNIIVGG

Sequence of entity 3 (C), FASTA

>4CG6_3 PROTEIN TRANSPORT PROTEIN SEC61 SUBUNIT BETA (chains C)
MPGPTPSGTNVGSSGRSPSKAVAARAAGSTVRQRKNASCGTRSAGRTTSAGTGGMWRFYT
EDSPGLKVGPVPVLVMSLLFIASVFMLHIWGKYTRS

Sequence of entity 4 (D), FASTA

>4CG6_4 PEPTIDE (chains D)
VFIVSVGSFISVLFIVI

Primary citation

Structures of the Sec61 Complex Engaged in Nascent Peptide Translocation or Membrane Insertion. Gogala, M., Becker, T., Beatrix, B. et al. Nature (2014) 506:107. DOI 10.1038/NATURE12950 · PubMed

Other PDB entries of the same protein (UniProt P38377 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6Z3T 2.69 Å, Structure of canine Sec61 inhibited by mycolactone
8RJB 2.69 Å, Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in…
8RJD 2.79 Å, Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in…
8RJC 2.9 Å, Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in…
7TM3 3.25 Å, Structure of the rabbit 80S ribosome stalled on a 2-TMD Rhodopsin intermediate in…
8OJ8 3.3 Å, 60S ribosomal subunit bound to the E3-UFM1 complex - state 1 (native)
8BTK 3.5 Å, Structure of the TRAP complex with the Sec translocon and a translating ribosome
3JC2 3.6 Å, The structure of the mammalian Sec61 channel opened by a signal sequence
7TUT 3.88 Å, Structure of the rabbit 80S ribosome stalled on a 4-TMD Rhodopsin intermediate in…
6R7Q 3.9 Å, Structure of XBP1u-paused ribosome nascent chain complex with Sec61.
6FTI 4.2 Å, Cryo-EM Structure of the Mammalian Oligosaccharyltransferase Bound to Sec61 and the…
6FTJ 4.7 Å, Cryo-EM Structure of the Mammalian Oligosaccharyltransferase Bound to Sec61 and the…

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