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5TE4
Asym. Unit
Info
Asym.Unit (280 KB)
Biol.Unit 1 (270 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF BROADLY NEUTRALIZING VRC01-CLASS ANTIBODY N6 IN COMPLEX WITH HIV-1 CLADE G STRAIN X2088 GP120 CORE
Authors
:
T. Zhou, P. D. Kwong
Date
:
20 Sep 16 (Deposition) - 23 Nov 16 (Release) - 30 Nov 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.75
Chains
:
Asym. Unit : G,H,L
Biol. Unit 1: G,H,L (1x)
Keywords
:
Hiv-1, Vrc01-Class Antibody, N6, Cd4-Binding Site, Gp120, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Huang, B. H. Kang, E. Ishida, T. Zhou, T. Griesman, Z. Sheng, F. Wu, N. A. Doria-Rose, B. Zhang, K. Mckee, S. O'Dell, G. Y. Chuang, A. Druz, I. S. Georgiev, C. A. Schramm, A. Zheng, M. G. Joyce, M. Asokan, A. Ransier, S. Darko, S. A. Migueles, R. T. Bailer, M. K. Louder, S. M. Alam, R. Parks, G. Kelsoe, T. Von Holle, B. F. Haynes, D. C. Douek, V. Hirsch, M. S. Seaman, L. Shapiro, J. R. Mascola, P. D. Kwong, M. Connors
Identification Of A Cd4-Binding-Site Antibody To Hiv That Evolved Near-Pan Neutralization Breadth.
Immunity V. 45 1108 2016
[
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Hetero Components
(4, 22)
Info
All Hetero Components
1a: (R,R)-2,3-BUTANEDIOL (BU3a)
2a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
3e: N-ACETYL-D-GLUCOSAMINE (NAGe)
3f: N-ACETYL-D-GLUCOSAMINE (NAGf)
3g: N-ACETYL-D-GLUCOSAMINE (NAGg)
3h: N-ACETYL-D-GLUCOSAMINE (NAGh)
3i: N-ACETYL-D-GLUCOSAMINE (NAGi)
3j: N-ACETYL-D-GLUCOSAMINE (NAGj)
3k: N-ACETYL-D-GLUCOSAMINE (NAGk)
3l: N-ACETYL-D-GLUCOSAMINE (NAGl)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
4e: SULFATE ION (SO4e)
4f: SULFATE ION (SO4f)
4g: SULFATE ION (SO4g)
4h: SULFATE ION (SO4h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BU3
1
Ligand/Ion
(R,R)-2,3-BUTANEDIOL
2
MPD
1
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
3
NAG
12
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
SO4
8
Ligand/Ion
SULFATE ION
[
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Sites
(22, 22)
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)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PHE G:53 , ARG G:327 , LYS G:421 , GLN G:422 , ILE G:423 , HOH G:603
binding site for residue SO4 G 512
02
AC2
SOFTWARE
HIS G:216 , HIS G:249 , GLY G:250
binding site for residue SO4 G 513
03
AC3
SOFTWARE
ASN G:362 , ARG G:469
binding site for residue SO4 G 514
04
AC4
SOFTWARE
TRP G:112 , VAL G:255 , SER G:375 , TYR G:384 , ARG G:425 , TYR H:54
binding site for residue BU3 G 515
05
AC5
SOFTWARE
TYR H:27 , THR H:28 , HIS H:32 , TYR H:98
binding site for residue SO4 H 301
06
AC6
SOFTWARE
SER H:7 , GLY H:8
binding site for residue SO4 H 302
07
AC7
SOFTWARE
ARG H:96
binding site for residue MPD H 303
08
AC8
SOFTWARE
LYS H:12 , VAL H:18 , ARG H:19
binding site for residue SO4 H 304
09
AC9
SOFTWARE
SER L:12 , LYS L:107 , TYR L:140
binding site for residue SO4 L 302
10
AD1
SOFTWARE
THR G:462 , ARG L:211
binding site for residue SO4 L 303
11
AD2
SOFTWARE
ASN G:234 , THR G:236 , SER G:274 , THR G:355A , NAG G:504
binding site for Mono-Saccharide NAG G 501 bound to ASN G 234
12
AD3
SOFTWARE
GLU G:87 , ARG G:229 , ASN G:241 , LYS G:267
binding site for Mono-Saccharide NAG G 502 bound to ASN G 241
13
AD4
SOFTWARE
GLU G:211 , PRO G:212 , LYS G:252 , VAL G:254 , LEU G:261 , ASN G:262 , CYS G:445 , SER G:447 , NAG G:511
binding site for Mono-Saccharide NAG G 503 bound to ASN G 262
14
AD5
SOFTWARE
ASN G:276 , NAG G:501 , GLN L:27 , GLY L:28 , VAL L:29 , ASP L:32
binding site for Mono-Saccharide NAG G 504 bound to ASN G 276
15
AD6
SOFTWARE
ILE G:297 , HIS G:330 , ASN G:332 , ASN G:413 , THR G:415 , NAG G:510
binding site for Mono-Saccharide NAG G 505 bound to ASN G 332
16
AD7
SOFTWARE
THR G:355A , ASN G:355C , SER L:26 , GLN L:27
binding site for Mono-Saccharide NAG G 506 bound to ASN G 355C
17
AD8
SOFTWARE
ASN G:357 , ASP G:463A , GLU G:464
binding site for Mono-Saccharide NAG G 507 bound to ASN G 357
18
AD9
SOFTWARE
LYS G:117 , THR G:373 , ASN G:386 , SER G:388 , HOH G:605
binding site for Mono-Saccharide NAG G 508 bound to ASN G 386
19
AE1
SOFTWARE
LYS G:202 , GLN G:203 , ASN G:392 , THR G:394
binding site for Mono-Saccharide NAG G 509 bound to ASN G 392
20
AE2
SOFTWARE
ASN G:332 , GLU G:412 , ASN G:413 , NAG G:505
binding site for Mono-Saccharide NAG G 510 bound to ASN G 413
21
AE3
SOFTWARE
ASN G:262 , ASN G:448 , NAG G:503
binding site for Mono-Saccharide NAG G 511 bound to ASN G 448
22
AE4
SOFTWARE
ASN L:72 , SER L:168 , LYS L:169
binding site for Mono-Saccharide NAG L 301 bound to ASN L 72
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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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Asym.Unit (280 KB)
Header - Asym.Unit
Biol.Unit 1 (270 KB)
Header - Biol.Unit 1
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