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4NN0
Asym. Unit
Info
Asym.Unit (159 KB)
Biol.Unit 1 (157 KB)
Biol.Unit 2 (160 KB)
Biol.Unit 3 (143 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE C1QTNF5 GLOBULAR DOMAIN IN SPACE GROUP P63
Authors
:
X. Tu, K. Palczewski
Date
:
15 Nov 13 (Deposition) - 26 Mar 14 (Release) - 23 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.42
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (3x)
Biol. Unit 2: B (3x)
Biol. Unit 3: C (3x)
Keywords
:
L-Ormd, Late Onset Retinal Macular Degeneration, S163R, 10-Strand Jelly-Roll Fold, Cellular Adhesion, Cell Adhesion
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
X. Tu, K. Palczewski
The Macular Degeneration-Linked C1Qtnf5 (S163) Mutation Causes Higher-Order Structural Rearrangements.
J. Struct. Biol. V. 186 86 2014
[
close entry info
]
Hetero Components
(3, 23)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
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)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
2r: 1,2-ETHANEDIOL (EDOr)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
2
Ligand/Ion
ACETATE ION
2
EDO
18
Ligand/Ion
1,2-ETHANEDIOL
3
SO4
3
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
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
ALA A:157 , SER A:190 , LEU A:191 , SER A:192 , HOH A:514
BINDING SITE FOR RESIDUE EDO A 301
02
AC2
SOFTWARE
PHE A:179 , PRO A:188 , EDO A:305 , EDO A:309 , HOH A:416
BINDING SITE FOR RESIDUE EDO A 302
03
AC3
SOFTWARE
LYS A:187 , EDO A:305 , HOH A:459 , HOH A:520 , TYR B:214 , EDO B:301
BINDING SITE FOR RESIDUE EDO A 303
04
AC4
SOFTWARE
PRO A:118 , SER A:119 , ASP A:120 , HOH A:460 , HOH A:470
BINDING SITE FOR RESIDUE EDO A 304
05
AC5
SOFTWARE
TYR A:214 , EDO A:302 , EDO A:303 , HOH A:517 , LYS B:187
BINDING SITE FOR RESIDUE EDO A 305
06
AC6
SOFTWARE
LYS A:142 , GLN A:204 , HOH A:458
BINDING SITE FOR RESIDUE EDO A 306
07
AC7
SOFTWARE
ALA A:102 , TRP A:236 , SER C:234 , ASP C:235 , TRP C:236
BINDING SITE FOR RESIDUE EDO A 307
08
AC8
SOFTWARE
ALA A:102 , ARG A:103 , HOH A:489 , EDO C:301
BINDING SITE FOR RESIDUE EDO A 308
09
AC9
SOFTWARE
TYR A:160 , PRO A:186 , PRO A:188 , TYR A:218 , EDO A:302
BINDING SITE FOR RESIDUE EDO A 309
10
BC1
SOFTWARE
LYS A:109 , VAL A:128
BINDING SITE FOR RESIDUE EDO A 310
11
BC2
SOFTWARE
SER A:234 , ASP A:235 , TRP A:236 , ALA C:102 , TRP C:236
BINDING SITE FOR RESIDUE EDO A 311
12
BC3
SOFTWARE
ARG A:161 , HOH A:421 , ARG B:161 , TYR B:218 , HOH B:512
BINDING SITE FOR RESIDUE EDO A 312
13
BC4
SOFTWARE
TRP A:185 , HOH A:427 , HOH A:429 , HOH A:432
BINDING SITE FOR RESIDUE SO4 A 313
14
BC5
SOFTWARE
SER A:113 , ARG A:161 , TYR A:218 , HOH A:526 , HOH A:533 , ARG B:114
BINDING SITE FOR RESIDUE ACT A 314
15
BC6
SOFTWARE
EDO A:303 , HOH B:420 , HOH B:516
BINDING SITE FOR RESIDUE EDO B 301
16
BC7
SOFTWARE
ALA B:102 , ARG B:103
BINDING SITE FOR RESIDUE EDO B 302
17
BC8
SOFTWARE
ALA B:157 , SER B:190 , LEU B:191 , SER B:192 , HOH B:503
BINDING SITE FOR RESIDUE EDO B 303
18
BC9
SOFTWARE
PRO B:118 , ALA B:121 , PRO B:122 , LEU B:123 , PRO B:124 , HOH B:414 , HOH B:470 , HOH B:493
BINDING SITE FOR RESIDUE EDO B 304
19
CC1
SOFTWARE
LYS B:142 , GLN B:204 , HOH B:457
BINDING SITE FOR RESIDUE EDO B 305
20
CC2
SOFTWARE
TRP B:185 , HOH B:427 , HOH B:429 , HOH B:435
BINDING SITE FOR RESIDUE SO4 B 306
21
CC3
SOFTWARE
ALA B:102 , ARG B:103 , ARG C:114
BINDING SITE FOR RESIDUE SO4 B 307
22
CC4
SOFTWARE
ARG A:114 , SER B:113 , ARG B:161 , TYR B:218 , HOH B:525 , HOH B:526
BINDING SITE FOR RESIDUE ACT B 308
23
CC5
SOFTWARE
EDO A:308 , ALA C:102 , ARG C:103 , HOH C:410
BINDING SITE FOR RESIDUE EDO C 301
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
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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
(1, 3)
Info
All SCOP Domains
1a: SCOP_d4nn0a_ (A:)
1b: SCOP_d4nn0b_ (B:)
1c: SCOP_d4nn0c_ (C:)
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Classes
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Protein Domains
(
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(
)
Organisms
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)
(
)
Class
:
All beta proteins
(24004)
Fold
:
TNF-like
(100)
Superfamily
:
TNF-like
(100)
Family
:
automated matches
(18)
Protein domain
:
automated matches
(18)
Human (Homo sapiens) [TaxId: 9606]
(18)
1a
d4nn0a_
A:
1b
d4nn0b_
B:
1c
d4nn0c_
C:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
[
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]
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Protein
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Asymmetric Unit 1
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Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Show PDB file:
Asym.Unit (159 KB)
Header - Asym.Unit
Biol.Unit 1 (157 KB)
Header - Biol.Unit 1
Biol.Unit 2 (160 KB)
Header - Biol.Unit 2
Biol.Unit 3 (143 KB)
Header - Biol.Unit 3
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