3OAA

Structure of the E.coli F1-ATP synthase inhibited by subunit Epsilon

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.26 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.243 
  • R-Value Observed: 0.243 

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This is version 1.1 of the entry. See complete history. 


Literature

Structural basis for inhibition of bacterial ATP synthase by subunit epsilon of the rotor stalk

Cingolani, G., Duncan, T.M.

To be published.

Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit alpha
A,
B,
C,
I,
J,
A,
B,
C,
I,
J,
K,
Q,
R,
S,
Y,
Z,
AA [auth a]
513Escherichia coli DH1Mutation(s): 0 
Gene Names: atpA, EcDH1_4233
EC: 3.6.3.14 (PDB Primary Data), 7.1.2.2 (UniProt)
Membrane Entity: Yes 
UniProt
Find proteins for P0ABB0 (Escherichia coli (strain K12))
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Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0ABB0
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit beta
D,
E,
F,
L,
M,
459Escherichia coli DH1Mutation(s): 1 
Gene Names: atpD, EcDH1_4235
EC: 3.6.3.14 (PDB Primary Data), 7.1.2.2 (UniProt)
Membrane Entity: Yes 
UniProt
Find proteins for P0ABB4 (Escherichia coli (strain K12))
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UniProt GroupP0ABB4
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase gamma chainG,
O,
W,
EA [auth e]		286Escherichia coli DH1Mutation(s): 0 
Gene Names: EcDH1_4234
Membrane Entity: Yes 
UniProt
Find proteins for P0ABA6 (Escherichia coli (strain K12))
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UniProt GroupP0ABA6
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase epsilon chainH,
P,
X,
FA [auth f]		138Escherichia coli DH1Mutation(s): 0 
Gene Names: atpC, EcDH1_4236
Membrane Entity: Yes 
UniProt
Find proteins for P0A6E6 (Escherichia coli (strain K12))
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UniProt GroupP0A6E6
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Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ANP
Query on ANP
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GA [auth A],
GB [auth Q],
IA [auth B],
IB [auth R],
KA [auth C],
GA [auth A],
GB [auth Q],
IA [auth B],
IB [auth R],
KA [auth C],
KB [auth S],
SB [auth Y],
TA [auth I],
UB [auth Z],
VA [auth J],
WB [auth a],
XA [auth K]
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
C10 H17 N6 O12 P3
PVKSNHVPLWYQGJ-KQYNXXCUSA-N		 Ligand Interaction
ADP
Query on ADP
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MA [auth D],
MB [auth T],
YB [auth b],
ZA [auth L]		ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N		 Ligand Interaction
SO4
Query on SO4
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AC [auth b],
BB [auth L],
BC [auth c],
CB [auth M],
CC [auth d],
AC [auth b],
BB [auth L],
BC [auth c],
CB [auth M],
CC [auth d],
DB [auth N],
EB [auth O],
FB [auth P],
OA [auth D],
OB [auth T],
PA [auth E],
PB [auth U],
QA [auth F],
QB [auth V],
RA [auth G],
RB [auth W],
SA [auth H]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L		 Ligand Interaction
MG
Query on MG
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AB [auth L],
HA [auth A],
HB [auth Q],
JA [auth B],
JB [auth R],
AB [auth L],
HA [auth A],
HB [auth Q],
JA [auth B],
JB [auth R],
LA [auth C],
LB [auth S],
NA [auth D],
NB [auth T],
TB [auth Y],
UA [auth I],
VB [auth Z],
WA [auth J],
XB [auth a],
YA [auth K],
ZB [auth b]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.26 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.243 
  • R-Value Observed: 0.243 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 435.97α = 90
b = 183β = 108.99
c = 225.39γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-05-25
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance