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Asym. Unit
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Asym.Unit (292 KB)
Biol.Unit 1 (284 KB)
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(1)
Title
:
STRUCTURAL BASIS OF A NOVEL PROTON-COORDINATION TYPE IN AN F1FO-ATP SYNTHASE ROTOR RING
Authors
:
L. Preiss, O. Yildiz, D. B. Hicks, T. A. Krulwich, T. Meier
Date
:
18 Jan 10 (Deposition) - 18 Aug 10 (Release) - 15 Sep 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M (1x)
Keywords
:
Membrane Protein, Ion Transport, Atp Synthesis, Transmembrane, Cf(0), Membrane, Transport, C-Ring Rotor, Hydronium Ion, Ion Binding Pocket, Hydrogen Ion Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Preiss, O. Yildiz, D. B. Hicks, T. A. Krulwich, T. Meier
A New Type Of Proton Coordination In An F(1)F(O)- Atp Synthase Rotor Ring.
Plos Biol. V. 8 443 2010
[
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Hetero Components
(3, 36)
Info
All Hetero Components
1a: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVa)
1b: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVb)
1c: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVc)
1d: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVd)
1e: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVe)
1f: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVf)
1g: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVg)
1h: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVh)
1i: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVi)
1j: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVj)
1k: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVk)
1l: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVl)
1m: DODECYL 2-(TRIMETHYLAMMONIO)ETHYL ... (DPVm)
2a: N-FORMYLMETHIONINE (FMEa)
2b: N-FORMYLMETHIONINE (FMEb)
2c: N-FORMYLMETHIONINE (FMEc)
2d: N-FORMYLMETHIONINE (FMEd)
2e: N-FORMYLMETHIONINE (FMEe)
2f: N-FORMYLMETHIONINE (FMEf)
2g: N-FORMYLMETHIONINE (FMEg)
2h: N-FORMYLMETHIONINE (FMEh)
2i: N-FORMYLMETHIONINE (FMEi)
2j: N-FORMYLMETHIONINE (FMEj)
2k: N-FORMYLMETHIONINE (FMEk)
2l: N-FORMYLMETHIONINE (FMEl)
2m: N-FORMYLMETHIONINE (FMEm)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
3e: SODIUM ION (NAe)
3f: SODIUM ION (NAf)
3g: SODIUM ION (NAg)
3h: SODIUM ION (NAh)
3i: SODIUM ION (NAi)
3j: SODIUM ION (NAj)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DPV
13
Ligand/Ion
DODECYL 2-(TRIMETHYLAMMONIO)ETHYL PHOSPHATE
2
FME
13
Mod. Amino Acid
N-FORMYLMETHIONINE
3
NA
10
Ligand/Ion
SODIUM ION
[
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Sites
(23, 23)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:26 , HOH A:2005 , LYS B:26 , DPV B:200 , DPV M:200
BINDING SITE FOR RESIDUE DPV A 200
02
AC2
SOFTWARE
ALA B:27 , GLU B:30 , HOH B:2002 , HOH B:2006 , GLU C:30
BINDING SITE FOR RESIDUE NA B 101
03
AC3
SOFTWARE
DPV A:200 , ILE B:23 , LYS B:26 , GLU B:30 , HOH B:2001 , HOH B:2006 , LYS C:26 , GLU C:30 , DPV C:200
BINDING SITE FOR RESIDUE DPV B 200
04
AC4
SOFTWARE
ALA C:27 , GLU C:30 , HOH C:2002 , GLU D:30
BINDING SITE FOR RESIDUE NA C 101
05
AC5
SOFTWARE
DPV B:200 , LYS C:26 , LYS D:26 , DPV D:200
BINDING SITE FOR RESIDUE DPV C 200
06
AC6
SOFTWARE
ALA D:27 , GLU D:30 , HOH D:2001 , GLU E:30
BINDING SITE FOR RESIDUE NA D 101
07
AC7
SOFTWARE
DPV C:200 , LYS D:26 , GLU D:30 , HOH D:2004 , LYS E:26 , GLU E:30 , DPV E:200
BINDING SITE FOR RESIDUE DPV D 200
08
AC8
SOFTWARE
ALA E:27 , GLU E:30 , GLU F:30
BINDING SITE FOR RESIDUE NA E 101
09
AC9
SOFTWARE
DPV D:200 , LYS E:26 , HOH E:2008 , LYS F:26 , DPV F:200
BINDING SITE FOR RESIDUE DPV E 200
10
BC1
SOFTWARE
ALA F:27 , GLU F:30 , HOH F:2002 , GLU G:30
BINDING SITE FOR RESIDUE NA F 101
11
BC2
SOFTWARE
DPV E:200 , ILE F:23 , LYS F:26 , HOH F:2001 , LYS G:26 , DPV G:200
BINDING SITE FOR RESIDUE DPV F 200
12
BC3
SOFTWARE
VAL F:15 , DPV F:200 , ILE G:19 , LYS G:26 , GLU G:30 , LYS H:26 , GLU H:30 , DPV H:200
BINDING SITE FOR RESIDUE DPV G 200
13
BC4
SOFTWARE
ALA H:27 , GLU H:30 , HOH H:2001 , GLU I:30
BINDING SITE FOR RESIDUE NA H 101
14
BC5
SOFTWARE
DPV G:200 , ILE H:23 , LYS H:26 , GLU H:30 , LYS I:26 , DPV I:200
BINDING SITE FOR RESIDUE DPV H 200
15
BC6
SOFTWARE
ALA I:27 , GLU I:30 , HOH I:2001 , HOH I:2002 , GLU J:30
BINDING SITE FOR RESIDUE NA I 101
16
BC7
SOFTWARE
DPV H:200 , LYS I:26 , HOH I:2011 , LYS J:26 , DPV J:200
BINDING SITE FOR RESIDUE DPV I 200
17
BC8
SOFTWARE
ALA J:27 , GLU J:30 , HOH J:2002 , GLU K:30
BINDING SITE FOR RESIDUE NA J 101
18
BC9
SOFTWARE
DPV I:200 , ILE J:23 , LYS J:26 , GLU J:30 , HOH J:2009 , LYS K:26 , GLU K:30 , DPV K:200
BINDING SITE FOR RESIDUE DPV J 200
19
CC1
SOFTWARE
GLU K:30 , HOH K:2003 , LYS L:26 , GLU L:30
BINDING SITE FOR RESIDUE NA K 101
20
CC2
SOFTWARE
DPV J:200 , LYS K:26 , GLU K:30 , HOH K:2002 , LYS L:26 , DPV L:200
BINDING SITE FOR RESIDUE DPV K 200
21
CC3
SOFTWARE
GLU L:30 , HOH L:2003 , LYS M:26 , GLU M:30
BINDING SITE FOR RESIDUE NA L 101
22
CC4
SOFTWARE
VAL K:15 , DPV K:200 , ILE L:23 , LYS L:26 , DPV M:200
BINDING SITE FOR RESIDUE DPV L 200
23
CC5
SOFTWARE
LYS A:26 , GLU A:30 , DPV A:200 , DPV L:200 , ILE M:23 , LYS M:26 , GLU M:30 , HOH M:2005
BINDING SITE FOR RESIDUE DPV M 200
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 13)
Info
All PROSITE Patterns/Profiles
1: ATPASE_C (A:33-54,B:33-54,C:33-54,D:33-54,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ATPASE_C
PS00605
ATP synthase c subunit signature.
ATPL_BACPE
33-54
13
A:33-54
B:33-54
C:33-54
D:33-54
E:33-54
F:33-54
G:33-54
H:33-54
I:33-54
J:33-54
K:33-54
L:33-54
M:33-54
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
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CATH Domains
(1, 13)
Info
all CATH domains
1a: CATH_2x2vA00 (A:2-69)
1b: CATH_2x2vB00 (B:2-69)
1c: CATH_2x2vK00 (K:2-69)
1d: CATH_2x2vL00 (L:2-69)
1e: CATH_2x2vM00 (M:2-69)
1f: CATH_2x2vC00 (C:2-69)
1g: CATH_2x2vD00 (D:2-69)
1h: CATH_2x2vE00 (E:2-69)
1i: CATH_2x2vF00 (F:2-69)
1j: CATH_2x2vG00 (G:2-69)
1k: CATH_2x2vH00 (H:2-69)
1l: CATH_2x2vI00 (I:2-69)
1m: CATH_2x2vJ00 (J:2-69)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
F1FO ATP Synthase
(13)
Homologous Superfamily
:
F1FO ATP Synthase
(13)
Bacillus pseudofirmus of4. Organism_taxid: 398511
(1)
1a
2x2vA00
A:2-69
1b
2x2vB00
B:2-69
1c
2x2vK00
K:2-69
1d
2x2vL00
L:2-69
1e
2x2vM00
M:2-69
1f
2x2vC00
C:2-69
1g
2x2vD00
D:2-69
1h
2x2vE00
E:2-69
1i
2x2vF00
F:2-69
1j
2x2vG00
G:2-69
1k
2x2vH00
H:2-69
1l
2x2vI00
I:2-69
1m
2x2vJ00
J:2-69
[
close CATH info
]
Pfam Domains
(1, 13)
Info
all PFAM domains
1a: PFAM_ATP_synt_C_2x2vM01 (M:1-69)
1b: PFAM_ATP_synt_C_2x2vM02 (M:1-69)
1c: PFAM_ATP_synt_C_2x2vM03 (M:1-69)
1d: PFAM_ATP_synt_C_2x2vM04 (M:1-69)
1e: PFAM_ATP_synt_C_2x2vM05 (M:1-69)
1f: PFAM_ATP_synt_C_2x2vM06 (M:1-69)
1g: PFAM_ATP_synt_C_2x2vM07 (M:1-69)
1h: PFAM_ATP_synt_C_2x2vM08 (M:1-69)
1i: PFAM_ATP_synt_C_2x2vM09 (M:1-69)
1j: PFAM_ATP_synt_C_2x2vM10 (M:1-69)
1k: PFAM_ATP_synt_C_2x2vM11 (M:1-69)
1l: PFAM_ATP_synt_C_2x2vM12 (M:1-69)
1m: PFAM_ATP_synt_C_2x2vM13 (M:1-69)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: ATP-synt_C]
(9)
Family
:
ATP-synt_C
(9)
Bacillus pseudofirmus (strain OF4)
(1)
1a
ATP-synt_C-2x2vM01
M:1-69
1b
ATP-synt_C-2x2vM02
M:1-69
1c
ATP-synt_C-2x2vM03
M:1-69
1d
ATP-synt_C-2x2vM04
M:1-69
1e
ATP-synt_C-2x2vM05
M:1-69
1f
ATP-synt_C-2x2vM06
M:1-69
1g
ATP-synt_C-2x2vM07
M:1-69
1h
ATP-synt_C-2x2vM08
M:1-69
1i
ATP-synt_C-2x2vM09
M:1-69
1j
ATP-synt_C-2x2vM10
M:1-69
1k
ATP-synt_C-2x2vM11
M:1-69
1l
ATP-synt_C-2x2vM12
M:1-69
1m
ATP-synt_C-2x2vM13
M:1-69
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