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Getting 'Biological Unit' information from database.
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4U1M
Asym. Unit
Info
Asym.Unit (155 KB)
Biol.Unit 1 (148 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
:
1.18
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (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
(2, 30)
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)
1s: 1,2-ETHANEDIOL (EDOs)
1t: 1,2-ETHANEDIOL (EDOt)
1u: 1,2-ETHANEDIOL (EDOu)
1v: 1,2-ETHANEDIOL (EDOv)
1w: 1,2-ETHANEDIOL (EDOw)
1x: 1,2-ETHANEDIOL (EDOx)
1y: 1,2-ETHANEDIOL (EDOy)
1z: 1,2-ETHANEDIOL (EDOz)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
26
Ligand/Ion
1,2-ETHANEDIOL
2
GOL
4
Ligand/Ion
GLYCEROL
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Sites
(30, 30)
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)
24: AE6 (SOFTWARE)
25: AE7 (SOFTWARE)
26: AE8 (SOFTWARE)
27: AE9 (SOFTWARE)
28: AF1 (SOFTWARE)
29: AF2 (SOFTWARE)
30: AF3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:122 , TYR A:123 , ALA A:125 , THR A:134 , ALA A:136 , HOH A:442 , HOH A:478 , HOH A:523
binding site for residue EDO A 301
02
AC2
SOFTWARE
ARG A:35 , GLU A:46 , PRO A:47 , ARG A:48 , HOH A:681
binding site for residue EDO A 302
03
AC3
SOFTWARE
SER A:38 , SER A:195 , ASP A:196 , EDO A:314 , HOH A:401 , HOH A:425 , HOH A:431
binding site for residue EDO A 303
04
AC4
SOFTWARE
GLU A:166 , TRP A:167 , ARG A:170 , EDO A:305 , HOH A:784
binding site for residue EDO A 304
05
AC5
SOFTWARE
THR A:163 , GLU A:166 , TRP A:167 , EDO A:304 , HOH A:659
binding site for residue EDO A 305
06
AC6
SOFTWARE
ASP A:227 , GLU A:229 , ALA A:246 , VAL A:247 , HOH A:587 , HOH A:770
binding site for residue EDO A 306
07
AC7
SOFTWARE
GLU A:58 , TYR A:59 , ARG A:62 , HOH A:807 , ARG C:1
binding site for residue EDO A 307
08
AC8
SOFTWARE
TYR A:85 , TYR A:118 , LYS A:121 , ASP A:122 , ASP A:137 , HOH A:767 , HOH A:785
binding site for residue EDO A 308
09
AC9
SOFTWARE
GLU A:148 , ARG A:151 , GLU A:154 , HOH A:445 , HOH A:533 , HOH A:712
binding site for residue EDO A 309
10
AD1
SOFTWARE
GLY A:207 , ALA A:236 , ASP A:238 , THR A:240 , PHE A:241 , GLN A:242 , HOH A:423 , ARG B:12
binding site for residue EDO A 310
11
AD2
SOFTWARE
THR A:73 , HOH A:598 , HOH A:711 , PRO C:5 , LEU C:6
binding site for residue EDO A 311
12
AD3
SOFTWARE
ALA A:149 , ARG A:151 , ASP B:38 , ARG B:45 , ARG B:81 , GOL B:309
binding site for residue EDO A 312
13
AD4
SOFTWARE
ALA A:135 , ASP A:137 , GLN A:141 , GLN A:144 , HOH A:541 , HOH A:686
binding site for residue EDO A 313
14
AD5
SOFTWARE
LYS A:68 , GLN A:72 , ILE A:194 , SER A:195 , EDO A:303 , HOH A:401 , HOH A:457 , HOH A:590
binding site for residue EDO A 314
15
AD6
SOFTWARE
GLN A:70 , THR A:73 , ASP A:74 , SER A:77 , GOL A:319 , ARG C:7 , HOH C:204
binding site for residue EDO A 315
16
AD7
SOFTWARE
HIS A:188 , VAL A:189 , LEU A:272 , ARG A:273 , GLU A:275 , HOH A:584
binding site for residue EDO A 316
17
AD8
SOFTWARE
ARG A:21 , ARG A:131 , HOH A:786 , HIS B:51 , HOH B:417 , HOH B:435
binding site for residue EDO A 317
18
AD9
SOFTWARE
HIS A:3 , ASP A:29 , LEU A:179 , GLU A:180 , ARG A:181 , ALA A:182 , PRO A:210 , GLU A:264 , HOH A:540 , HOH A:624 , HOH A:641 , HOH A:717
binding site for residue GOL A 318
19
AE1
SOFTWARE
ASN A:114 , TYR A:116 , TRP A:147 , VAL A:152 , ASP A:156 , EDO A:315 , LEU C:6 , ARG C:7 , EDO C:101
binding site for residue GOL A 319
20
AE2
SOFTWARE
LEU A:206 , ARG A:234 , GLN A:242 , TYR B:10 , SER B:11 , HIS B:13 , PRO B:14 , HOH B:455 , HOH B:505 , HOH B:509
binding site for residue EDO B 301
21
AE3
SOFTWARE
LYS B:94 , TRP B:95 , HOH B:488
binding site for residue EDO B 302
22
AE4
SOFTWARE
ARG A:151 , GLU B:36 , ASP B:38 , ARG B:81 , ASN B:83 , PRO B:90
binding site for residue EDO B 303
23
AE5
SOFTWARE
TYR A:27 , PRO A:235 , SER B:52 , TYR B:63 , LEU B:65 , HOH B:434 , HOH B:479 , HOH B:498
binding site for residue EDO B 304
24
AE6
SOFTWARE
ASN B:17 , GLY B:18 , THR B:73 , GLU B:74
binding site for residue EDO B 305
25
AE7
SOFTWARE
ASP A:37 , ASP B:53 , LEU B:54 , HOH B:435
binding site for residue EDO B 306
26
AE8
SOFTWARE
GLN B:8 , VAL B:9 , LYS B:94 , ASP B:96 , HOH B:478 , HOH B:506
binding site for residue EDO B 307
27
AE9
SOFTWARE
SER A:92 , ARG A:157 , ASP B:34 , HOH B:401 , HOH B:416
binding site for residue EDO B 308
28
AF1
SOFTWARE
EDO A:312 , GLY B:43 , ARG B:45 , ARG B:81
binding site for residue GOL B 309
29
AF2
SOFTWARE
SER A:88 , ARG A:108 , ARG B:12 , HIS B:13 , PHE B:22 , HOH B:403 , HOH B:407 , HOH B:409
binding site for residue GOL B 310
30
AF3
SOFTWARE
GLN A:70 , GOL A:319 , GLN C:3 , VAL C:4 , PRO C:5 , LEU C:6 , HOH C:204
binding site for residue EDO C 101
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all 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'
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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Asym.Unit (155 KB)
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