4EFA: V-type proton ATPase subunit C

Crystal Structure of the Heterotrimeric EGChead Peripheral Stalk Complex of the Yeast Vacuolar ATPase - second conformation. Determined by X-ray diffraction at 2.82 Å resolution. Released 10 Oct 2012.

Method: X-ray diffraction
Resolution: 2.82 Å
Organism: Saccharomyces cerevisiae
Chains: 3
Atoms: 3,429
Mol. weight: 54.7 kDa
Released: 10 Oct 2012

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

Secondary structure: helices and β-sheets

4EFA contains 17 α-helices and 11 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 C: 8 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	181-183	3
β-strand	191-199	9	1
α-helix	200-202	3
α-helix	203-207	5
α-helix	210-212	3
β-strand	217	1	1
α-helix	218	1
β-strand	222	1	2
β-strand	223-227	5	1
β-strand	231-239	9	1
α-helix	240-242	3
α-helix	243-252	10
β-strand	256-258	3	1
α-helix	259	1

Chain E: 6 helices, 5 β-strands

Element	Residues	Length	Sheet
β-strand	5	1	2
α-helix	10-111	102
α-helix	114-132	19
β-strand	136-141	6	3
α-helix	146-149	4
α-helix	153-163	11
β-strand	171-174	4	3
α-helix	178-180	3
β-strand	187-191	5	3
β-strand	198-202	5	3
α-helix	203-222	20

Chain G: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	4-60	57
α-helix	77-89	13
α-helix	91-102	12

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
V-type proton ATPase subunit C	C	protein	130	Saccharomyces cerevisiae	P31412 (AlphaFold model)
V-type proton ATPase subunit G	G	protein	119	Saccharomyces cerevisiae	P48836 (AlphaFold model)
V-type proton ATPase subunit E	E	protein	233	Saccharomyces cerevisiae	P22203 (AlphaFold model)

Sequence of entity 1 (C), FASTA

>4EFA_1 V-type proton ATPase subunit C (chains C)
GPKVPESGSMNLAAAERKKTGDLSVRSLHDIVKPEDFVLNSEHLTTVLVAVPKSLKSDFE
KSYETLSKNVVPASASVIAEDAEYVLFNVHLFKKNVQEFTTAAREKKFIPREFNYSEELI
DQLKKEHDSA

Sequence of entity 2 (G), FASTA

>4EFA_2 V-type proton ATPase subunit G (chains G)
GPKVPMSQKNGIATLLQAEKEAHEIVSKARKYRQDKLKQAKTDAAKEIDSYKIQKDKELK
EFEQKNAGGVGELEKKAEAGVQGELAEIKKIAEKKKDDVVKILIETVIKPSAEVHINAL

Sequence of entity 3 (E), FASTA

>4EFA_3 V-type proton ATPase subunit E (chains E)
MSSAITALTPNQVNDELNKMQAFIRKEAEEKAKEIQLKADQEYEIEKTNIVRNETNNIDG
NFKSKLKKAMLSQQITKSTIANKMRLKVLSAREQSLDGIFEETKEKLSGIANNRDEYKPI
LQSLIVEALLKLLEPKAIVKALERDVDLIESMKDDIMREYGEKAQRAPLEEIVISNDYLN
KDLVSGGVVVSNASDKIEINNTLEERLKLLSEEALPAIRLELYGPSKTRKFFD

Primary citation

Crystal Structure of the Yeast Vacuolar ATPase Heterotrimeric EGC(head) Peripheral Stalk Complex. Oot, R.A., Huang, L.S., Berry, E.A. et al. Structure (2012) 20:1881-1892. DOI 10.1016/j.str.2012.08.020 · PubMed

Other PDB entries of the same protein (UniProt P31412 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1U7L 1.75 Å, Crystal Structure of subunit C (vma5p) of the yeast V-ATPase
4DL0 2.9 Å, Crystal Structure of the heterotrimeric EGChead Peripheral Stalk Complex of the Yeast…
7TMM 3.5 Å, Complete V1 Complex from Saccharomyces cerevisiae
7TMR 3.5 Å, V-ATPase from Saccharomyces cerevisiae, State 1
9MOY 3.6 Å, Reconstituted yeast V-ATPase bound to Rtc5p
7FDE 3.8 Å, CryoEM Structures of Reconstituted V-ATPase, Oxr1 bound V1
9ODU 3.9 Å, Yeast V-ATPase bound to Rtc5p, rotary state 2
7FDA 4.2 Å, CryoEM Structure of Reconstituted V-ATPase, state1
7FDB 4.8 Å, CryoEM Structures of Reconstituted V-ATPase,State2
6O7V 6.6 Å, Saccharomyces cerevisiae V-ATPase Stv1-V1VO State 1
7FDC 6.6 Å, CryoEM Structures of Reconstituted V-ATPase, state3
5VOX 6.8 Å, Yeast V-ATPase in complex with Legionella pneumophila effector SidK (rotational state 1)

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