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5B35
Asym. Unit
Info
Asym.Unit (48 KB)
Biol.Unit 1 (42 KB)
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Title
:
SERIAL FEMTOSECOND CRYSTALLOGRAPHY (SFX) OF GROUND STATE BACTERIORHODOPSIN CRYSTALLIZED FROM BICELLES DETERMINED USING 7-KEV X-RAY FREE ELECTRON LASER (XFEL) AT SACLA
Authors
:
E. Mizohata, T. Nakane, M. Suzuki
Date
:
10 Feb 16 (Deposition) - 09 Nov 16 (Release) - 30 Nov 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.35
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Membrane Protein, Proton Pump, Transport Protein, Retinal, Proton Transport
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
T. Nakane, S. Hanashima, M. Suzuki, H. Saiki, T. Hayashi, K. Kakinouchi, S. Sugiyama, S. Kawatake, S. Matsuoka, N. Matsumori, E. Nango, J. Kobayashi, T. Shimamura, K. Kimura, C. Mori, N. Kunishima M. Sugahara, Y. Takakyu, S. Inoue, T. Masuda, T. Hosaka, K. Tono, Y. Joti, T. Kameshima, T. Hatsui, M. Yabashi, T. Inoue, O. Nureki, S. Iwata, M. Murata, E. Mizohata
Membrane Protein Structure Determination By Sad, Sir, Or Siras Phasing In Serial Femtosecond Crystallography Using A Iododetergent
Proc. Natl. Acad. Sci. Usa V. 113 13039 2016
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Hetero Components
(8, 17)
Info
All Hetero Components
1a: (3R,5S,7R,8R,9S,10S,12S,13R,14S,17... (4QMa)
2a: DECANE (D10a)
2b: DECANE (D10b)
2c: DECANE (D10c)
2d: DECANE (D10d)
2e: DECANE (D10e)
3a: DODECANE (D12a)
3b: DODECANE (D12b)
3c: DODECANE (D12c)
4a: NONANE (DD9a)
4b: NONANE (DD9b)
5a: HEPTANE (HP6a)
5b: HEPTANE (HP6b)
6a: N-OCTANE (OCTa)
7a: HEXADECANE (R16a)
7b: HEXADECANE (R16b)
8a: RETINAL (RETa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
4QM
1
Ligand/Ion
(3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-10,13-DIMETHYL-17-[(2R)-PENTAN-2-YL]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-TETRADECAHYDRO-1H-CYCLOPENTA[A]PHENANTHRENE-3,7,12-TRIOL
2
D10
5
Ligand/Ion
DECANE
3
D12
3
Ligand/Ion
DODECANE
4
DD9
2
Ligand/Ion
NONANE
5
HP6
2
Ligand/Ion
HEPTANE
6
OCT
1
Ligand/Ion
N-OCTANE
7
R16
2
Ligand/Ion
HEXADECANE
8
RET
1
Ligand/Ion
RETINAL
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Sites
(13, 13)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TRP A:86 , THR A:89 , THR A:90 , LEU A:93 , TRP A:138 , SER A:141 , THR A:142 , TRP A:182 , TYR A:185 , TRP A:189 , ALA A:215 , LYS A:216
binding site for residue RET A 301
02
AC2
SOFTWARE
LEU A:61 , LEU A:99 , ALA A:103 , ILE A:108
binding site for residue 4QM A 302
03
AC3
SOFTWARE
D10 A:307
binding site for residue OCT A 303
04
AC4
SOFTWARE
ARG A:225
binding site for residue D10 A 304
05
AC5
SOFTWARE
ILE A:203
binding site for residue D12 A 305
06
AC6
SOFTWARE
ILE A:198 , OCT A:303
binding site for residue D10 A 307
07
AC7
SOFTWARE
SER A:132 , VAL A:136 , HOH A:428
binding site for residue R16 A 309
08
AC8
SOFTWARE
D12 A:315
binding site for residue D10 A 310
09
AC9
SOFTWARE
LYS A:30 , GLY A:65
binding site for residue HP6 A 312
10
AD1
SOFTWARE
TYR A:147 , DD9 A:316
binding site for residue D12 A 314
11
AD2
SOFTWARE
ALA A:44 , D10 A:310 , R16 A:317
binding site for residue D12 A 315
12
AD3
SOFTWARE
GLY A:106 , LEU A:109 , D12 A:314
binding site for residue DD9 A 316
13
AD4
SOFTWARE
TRP A:10 , ILE A:11 , D12 A:315
binding site for residue R16 A 317
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
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CATH Domains
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Pfam Domains
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Chain A
Asymmetric Unit 1
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Asym.Unit (48 KB)
Header - Asym.Unit
Biol.Unit 1 (42 KB)
Header - Biol.Unit 1
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