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4U1L
Asym. Unit
Info
Asym.Unit (216 KB)
Biol.Unit 1 (141 KB)
Biol.Unit 2 (72 KB)
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(1)
Title
:
HLA CLASS I MICROPOLYMORPHISMS DETERMINE PEPTIDE-HLA LANDSCAPE AND DICTATE DIFFERENTIAL HIV-1 ESCAPE THROUGH IDENTICAL EPITOPES
Authors
:
P. J. Rizkallah, D. K. Cole, A. Fuller, A. K. Sewell
Date
:
15 Jul 14 (Deposition) - 08 Apr 15 (Release) - 08 Apr 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.06
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Immunoglobulin, Hla, Hiv, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. N. Klverpris, D. K. Cole, A. Fuller, J. Carlson, K. Beck, A. J. Schauenburg, P. J. Rizkallah, S. Buus, A. K. Sewell, P. Goulder
A Molecular Switch In Immunodominant Hiv-1-Specific Cd8 T-Cell Epitopes Shapes Differential Hla-Restricted Escape.
Retrovirology V. 12 20 2015
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Hetero Components
(3, 23)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
1n: 1,2-ETHANEDIOL (EDOn)
1o: 1,2-ETHANEDIOL (EDOo)
1p: 1,2-ETHANEDIOL (EDOp)
1q: 1,2-ETHANEDIOL (EDOq)
1r: 1,2-ETHANEDIOL (EDOr)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
View:
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Label:
No.
Name
Count
Type
Full Name
1
EDO
18
Ligand/Ion
1,2-ETHANEDIOL
2
GOL
3
Ligand/Ion
GLYCEROL
3
SO4
2
Ligand/Ion
SULFATE 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: 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: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:44 , GLU A:45 , PRO A:57 , TRP A:60 , ASP A:61 , THR A:64 , HOH A:716 , GLN D:72 , ARG D:75 , EDO D:310 , HOH D:452
binding site for residue GOL A 301
02
AC2
SOFTWARE
ASN A:80 , GLY A:83 , TYR A:84 , LYS A:146 , GLU D:154 , ARG D:157 , ALA D:158 , GLU D:161
binding site for residue GOL A 302
03
AC3
SOFTWARE
GLN A:70 , SER A:97 , TYR A:99 , ASN A:114 , TYR A:116 , EDO A:306 , HOH A:641 , HOH A:660 , GLN C:3
binding site for residue EDO A 303
04
AC4
SOFTWARE
ARG A:62 , GLN A:65
binding site for residue EDO A 304
05
AC5
SOFTWARE
ARG A:62 , HOH A:603 , GLN D:144 , ARG D:145 , GLU D:148
binding site for residue EDO A 305
06
AC6
SOFTWARE
THR A:73 , ASP A:74 , SER A:77 , EDO A:303 , HOH A:641 , ARG C:7
binding site for residue EDO A 306
07
AC7
SOFTWARE
GLN A:115 , TYR A:116 , ASP A:122 , ILE A:124 , ALA A:125 , THR A:134 , TRP B:60
binding site for residue EDO A 307
08
AC8
SOFTWARE
ALA A:150 , ARG A:151 , HOH A:623 , GLY D:83 , TYR D:84 , TYR D:85 , ASN D:86
binding site for residue SO4 A 308
09
AC9
SOFTWARE
PHE A:8 , TYR A:27 , ASP A:29 , ASP A:30 , HOH B:413
binding site for residue SO4 A 309
10
AD1
SOFTWARE
PHE A:8 , MET A:98 , GLN A:115 , SER B:57 , LYS B:58 , HOH B:418
binding site for residue EDO B 101
11
AD2
SOFTWARE
PRO A:57 , HOH A:695 , SER D:38 , LYS D:68 , ALA D:71 , GLN D:72 , ARG D:75 , HOH D:441 , HOH D:450
binding site for residue GOL D 301
12
AD3
SOFTWARE
ARG D:62 , GLN D:65 , HOH D:518
binding site for residue EDO D 302
13
AD4
SOFTWARE
GLN D:70 , TYR D:99 , ASN D:114 , TYR D:116 , HOH D:463 , HOH D:467 , GLN F:3
binding site for residue EDO D 303
14
AD5
SOFTWARE
ASP A:61 , ARG D:14 , PRO D:20 , ARG D:21 , SER D:38 , ASP D:39 , ARG D:75 , HOH D:444
binding site for residue EDO D 304
15
AD6
SOFTWARE
THR D:73 , ASP D:74 , SER D:77 , LEU D:95 , HOH D:463 , ARG F:7
binding site for residue EDO D 305
16
AD7
SOFTWARE
TYR D:27 , ASP D:29 , ASP D:30 , HOH D:490
binding site for residue EDO D 306
17
AD8
SOFTWARE
ASP D:122 , ALA D:125 , THR D:134 , HOH D:521
binding site for residue EDO D 307
18
AD9
SOFTWARE
LYS A:68 , SER D:13 , GLU D:19 , HOH D:457 , HOH D:464 , HOH D:499
binding site for residue EDO D 308
19
AE1
SOFTWARE
GLY A:83 , TYR A:84 , ASN A:86 , ALA D:150 , ARG D:151 , ARG F:7
binding site for residue EDO D 309
20
AE2
SOFTWARE
GOL A:301 , GLU D:19 , PRO D:20 , ARG D:79 , HOH D:475 , HOH D:494
binding site for residue EDO D 310
21
AE3
SOFTWARE
VAL D:12 , SER D:92 , PRO E:32 , SER E:33 , ASP E:34 , HOH E:211
binding site for residue EDO E 101
22
AE4
SOFTWARE
ARG D:21 , SER E:33 , ASP E:34 , HOH E:204
binding site for residue EDO E 102
23
AE5
SOFTWARE
GLU D:55 , GLU D:58 , TYR D:59 , ARG F:1
binding site for residue EDO F 101
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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
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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
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CATH Domains
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Pfam Domains
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Asymmetric Unit 1
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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'
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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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Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
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In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
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Asym.Unit (216 KB)
Header - Asym.Unit
Biol.Unit 1 (141 KB)
Header - Biol.Unit 1
Biol.Unit 2 (72 KB)
Header - Biol.Unit 2
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