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5KC1
Biol. Unit 1
Info
Asym.Unit (112 KB)
Biol.Unit 1 (35 KB)
Biol.Unit 2 (35 KB)
Biol.Unit 3 (35 KB)
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(1)
Title
:
STRUCTURE OF THE C-TERMINAL DIMERIZATION DOMAIN OF ATG38
Authors
:
Y. Ohashi, N. Soler, M. Garcia-Ortegon, L. Zhang, O. Perisic, G. R. Mass C. M. Johnson, R. J. Williams
Date
:
04 Jun 16 (Deposition) - 05 Oct 16 (Release) - 09 Nov 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Biol. Unit 3: I,J,K,L (1x)
Keywords
:
Atg38, Coiled-Coil, Dimerization, Nrbf2, Autophagy, Endocytosis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Ohashi, N. Soler, M. Garcia Ortegon, L. Zhang, M. L. Kirsten, O. Perisic, G. R. Masson, J. E. Burke, A. J. Jakobi, A. A. Apostolakis, C. M. Johnson, M. Ohashi, N. T. Ktistakis, C. Sachse, R. L. Williams
Characterization Of Atg38 And Nrbf2, A Fifth Subunit Of The Autophagic Vps34/Pik3C3 Complex.
Autophagy V. 12 2129 2016
[
close entry info
]
Hetero Components
(2, 10)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
3a: IODIDE ION (IODa)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
4c: SODIUM ION (NAc)
4d: SODIUM ION (NAd)
4e: SODIUM ION (NAe)
4f: SODIUM ION (NAf)
4g: SODIUM ION (NAg)
4h: SODIUM ION (NAh)
4i: SODIUM ION (NAi)
4j: SODIUM ION (NAj)
4k: SODIUM ION (NAk)
4l: SODIUM ION (NAl)
4m: SODIUM ION (NAm)
4n: SODIUM ION (NAn)
5a: AMMONIUM ION (NH4a)
5b: AMMONIUM ION (NH4b)
6a: NITRATE ION (NO3a)
6b: NITRATE ION (NO3b)
6c: NITRATE ION (NO3c)
6d: NITRATE ION (NO3d)
6e: NITRATE ION (NO3e)
6f: NITRATE ION (NO3f)
6g: NITRATE ION (NO3g)
6h: NITRATE ION (NO3h)
6i: NITRATE ION (NO3i)
6j: NITRATE ION (NO3j)
6k: NITRATE ION (NO3k)
6l: NITRATE ION (NO3l)
6m: NITRATE ION (NO3m)
6n: NITRATE ION (NO3n)
6o: NITRATE ION (NO3o)
6p: NITRATE ION (NO3p)
6q: NITRATE ION (NO3q)
6r: NITRATE ION (NO3r)
7a: SULFATE ION (SO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
EDO
4
Ligand/Ion
1,2-ETHANEDIOL
3
IOD
-1
Ligand/Ion
IODIDE ION
4
NA
-1
Ligand/Ion
SODIUM ION
5
NH4
-1
Ligand/Ion
AMMONIUM ION
6
NO3
6
Ligand/Ion
NITRATE ION
7
SO4
-1
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(32, 32)
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)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE3 (SOFTWARE)
21: AE4 (SOFTWARE)
22: AE5 (SOFTWARE)
23: AE7 (SOFTWARE)
24: AE8 (SOFTWARE)
25: AE9 (SOFTWARE)
26: AF2 (SOFTWARE)
27: AF4 (SOFTWARE)
28: AG1 (SOFTWARE)
29: AG3 (SOFTWARE)
30: AG4 (SOFTWARE)
31: AG8 (SOFTWARE)
32: AH1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU C:138 , ASN C:141
binding site for residue NA C 301
02
AC2
SOFTWARE
LEU C:130 , SER C:133 , ILE C:134 , ARG C:137 , ASN G:144 , NO3 G:302
binding site for residue NO3 C 302
03
AC3
SOFTWARE
MET C:132 , ASN I:143
binding site for residue EDO C 303
04
AC4
SOFTWARE
LYS B:171 , NA B:301 , MET C:132 , ASN C:136 , ASN I:136 , PHE I:140 , NA I:301
binding site for residue EDO C 304
05
AC5
SOFTWARE
GLU D:168 , LEU H:165
binding site for residue NA D 301
06
AC6
SOFTWARE
LYS D:162 , LEU F:165
binding site for residue NA D 302
07
AC7
SOFTWARE
MET D:161 , LYS D:162 , ILE D:163 , ASN D:164 , LEU D:165 , GLN H:169 , LYS H:172
binding site for residue NO3 D 303
08
AC8
SOFTWARE
ARG D:166 , ARG G:137 , LEU G:138 , ASN G:141 , ARG H:166 , PHE H:170 , GLU H:173
binding site for residue NO3 D 304
09
AC9
SOFTWARE
GLN D:169 , LYS G:149 , NO3 H:301
binding site for residue CL D 305
10
AD1
SOFTWARE
LYS D:172 , LEU D:176
binding site for residue CL D 306
11
AD2
SOFTWARE
ASN A:136 , NO3 A:303 , GLN F:169 , GLU F:173
binding site for residue NA A 301
12
AD3
SOFTWARE
GLN A:139 , PHE A:140 , ASN A:143 , HOH A:409 , GLN F:169
binding site for residue NO3 A 302
13
AD4
SOFTWARE
MET A:132 , ASN A:136 , GLN A:139 , NA A:301 , LYS D:171 , GLN F:169
binding site for residue NO3 A 303
14
AD5
SOFTWARE
ASN A:127 , LEU F:176 , GLN F:179 , ILE G:126
binding site for residue EDO A 304
15
AD6
SOFTWARE
GLN A:147 , LYS D:162 , LYS F:162
binding site for residue EDO A 305
16
AD7
SOFTWARE
GLU B:168 , LYS B:171 , EDO C:304
binding site for residue NA B 301
17
AD8
SOFTWARE
ARG A:137 , ARG B:166 , PHE B:170 , GLU B:173 , HOH B:401 , ASN K:136
binding site for residue NO3 B 302
18
AD9
SOFTWARE
ASN C:144 , LEU G:130 , SER G:133 , ILE G:134 , ARG G:137 , LYS J:180
binding site for residue NO3 G 301
19
AE1
SOFTWARE
SER C:133 , ASN C:136 , ARG C:137 , NO3 C:302 , PHE G:140 , HOH G:401 , ARG I:137
binding site for residue NO3 G 302
20
AE3
SOFTWARE
LYS D:180 , GLU G:151 , ASN I:144 , LEU I:148
binding site for residue NO3 G 304
21
AE4
SOFTWARE
GLN D:169 , CL D:305 , LYS G:149 , LYS H:162 , ILE H:163 , LEU H:165 , ARG H:166
binding site for residue NO3 H 301
22
AE5
SOFTWARE
HOH A:406 , HOH E:402 , ASP K:145 , SO4 K:309
binding site for residue NA K 301
23
AE7
SOFTWARE
LYS B:180 , ASP K:128
binding site for residue NA K 303
24
AE8
SOFTWARE
LEU B:165 , GLN B:169 , GLN K:139 , PHE K:140 , ASN K:143 , HOH K:404
binding site for residue NO3 K 304
25
AE9
SOFTWARE
LEU B:165 , LYS B:172 , NA K:302
binding site for residue NO3 K 305
26
AF2
SOFTWARE
SER A:133 , SER E:133 , SER K:133 , HOH K:403
binding site for residue NH4 K 307
27
AF4
SOFTWARE
ARG A:137 , PHE A:140 , ASN A:141 , ARG E:137 , PHE E:140 , ASN E:141 , ARG K:137 , PHE K:140 , ASN K:141 , NA K:301
binding site for residue SO4 K 309
28
AG1
SOFTWARE
ASN A:136 , ARG E:137 , ARG F:166 , GLU F:173
binding site for residue NO3 F 304
29
AG3
SOFTWARE
EDO C:304 , MET I:132 , ASN I:136
binding site for residue NA I 301
30
AG4
SOFTWARE
PHE C:140 , ARG G:137 , PHE G:140 , ARG I:137
binding site for residue NO3 I 303
31
AG8
SOFTWARE
GLU C:151 , MET J:187
binding site for residue NH4 J 302
32
AH1
SOFTWARE
PHE C:140 , ASN C:144 , GLU J:173 , LYS J:180
binding site for residue EDO J 304
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
[
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]
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Protein & NOT Site
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Chain D
Asymmetric Unit 1
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Asym.Unit (112 KB)
Header - Asym.Unit
Biol.Unit 1 (35 KB)
Header - Biol.Unit 1
Biol.Unit 2 (35 KB)
Header - Biol.Unit 2
Biol.Unit 3 (35 KB)
Header - Biol.Unit 3
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