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• Protein Classification

• Types (3 types)
• Classes (11 classes)
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• Species (538 species)
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1yce » F-type Sodium ATPase

• Type: 1. Transmembrane (3 classes)
• Class: 1.1. Alpha-helical polytopic (72 superfamilies)
• Superfamily: 1.1.08. Proton or Sodium translocating F-type, V-type and A-type ATPases (1 family) 3.A.2 (TCDB)
• Family: 1.1.08.01. V-type and F-type ATPases (15 proteins) 3.A.2 (TCDB)
• Species: Ilyobacter tartaricus (1 protein)
• Localization: Bacterial Gram-negative inner membrane (269 proteins)

1yce » F-type Sodium ATPase
Hydrophobic Thickness	37.0 ± 0.5 Å
Tilt Angle	0 ± 0°
ΔGtransfer	-104.0 kcal/mol
Links to 1yce	PDB Sum, PDB, SCOP, MSD, OCA, MMDB
Topology	subunit L (N-terminus out)
Resolution	2.40 Å
Other PDB entries of this protein	2wgm
Number of TM Secondary Structures	22

11 transmembrane subunits
L - Tilt: 5° - Segments: 1(17-40), 2(54-80)
M - Tilt: 5° - Segments: 1(17-40), 2(54-80)
N - Tilt: 4° - Segments: 1(17-40), 2(54-80)
O - Tilt: 4° - Segments: 1(17-40), 2(54-80)
P - Tilt: 4° - Segments: 1(17-40), 2(54-80)
Q - Tilt: 4° - Segments: 1(17-40), 2(54-80)
R - Tilt: 4° - Segments: 1(17-40), 2(54-80)
S - Tilt: 4° - Segments: 1(17-40), 2(54-80)
T - Tilt: 4° - Segments: 1(17-40), 2(54-80)
U - Tilt: 5° - Segments: 1(17-40), 2(54-80)
V - Tilt: 5° - Segments: 1(17-40), 2(54-80)

Experimental Verification for 1yce » F-type Sodium ATPase
Spatial positions of calculated hydrophobic boundaries are consistent with electron cryo-microsopy data (Vonck et al 2002, Murata et al. 2005).

2 references
Murata, T., Yamato, I., Kakinuma, Y., Leslie, A.G.W., and Walker, J.E. 2005. PubMed
Vonck J, von Nidda TK, Meier T, Matthey U, Mills DJ, Kuhlbrandt W, and Dimroth P (2002) Molecular architecture of the undecameric rotor of a bacterial Na+-ATP synthase. J. Mol. Biol.321: 307-316. PubMed

Comments on 1yce » F-type Sodium ATPase
Hydrophobic boundaries expand when calculated with detergent parameters.

Copyright © 2005-2013 Andrei Lomize, Mikhail Lomize and Irina Pogozheva
University of Michigan, Ann Arbor, MI 48109 USA