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Biol. Unit 1
Info
Asym.Unit (643 KB)
Biol.Unit 1, α-C (1.8 MB)
Biol.Unit 1 (1.8 MB)
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(1)
Title
:
CRYSTAL STRUCTURE AT 3.7 A RESOLUTION OF FULLY GLYCOSYLATED HIV-1 CLADE B JR-FL SOSIP.664 PREFUSION ENV TRIMER IN COMPLEX WITH BROADLY NEUTRALIZING ANTIBODIES PGT122, 35O22 AND VRC01
Authors
:
G. B. E. Stewart-Jones, T. Zhou, P. V. Thomas, P. D. Kwong
Date
:
08 Mar 16 (Deposition) - 27 Apr 16 (Release) - 12 Jul 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.11
Chains
:
Asym. Unit : B,D,E,G,H,L,U,V
Biol. Unit 1: B,D,E,G,H,L,U,V (3x)
Keywords
:
Viral Protein, Hiv, Envelope, Glycan, Trimer
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. B. E. Stewart-Jones, C. Soto, T. Lemmin, G. Y. Chuang, A. Druz, R. Kong, P. V. Thomas, K. Wagh, T. Zhou, A. J. Behrens, T. Bylund, C. W. Choi, J. R. Davison, I. S. Georgiev, M. G. Joyce, Y. D. Kwon, M. Pancera, J. Taft, Y. Yang, B. Zhang, S. S. Shivatare, V. S. Shivatare C. C. D. Lee, C. Y. Wu, C. A. Bewley, D. R. Burton, W. C. Koff, M. Connors, M. Crispin, B. T. Korber, C. H. Wong, J. R. Mascola, P. D. Kwong
Trimeric Hiv-1-Env Structures Define Glycan Shields From Clades A, B And G
Cell(Cambridge, Mass. ) V. 165 813 2016
[
close entry info
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Hetero Components
(3, 390)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
1e: BETA-D-MANNOSE (BMAe)
1f: BETA-D-MANNOSE (BMAf)
1g: BETA-D-MANNOSE (BMAg)
1h: BETA-D-MANNOSE (BMAh)
1i: BETA-D-MANNOSE (BMAi)
1j: BETA-D-MANNOSE (BMAj)
1k: BETA-D-MANNOSE (BMAk)
1l: BETA-D-MANNOSE (BMAl)
1m: BETA-D-MANNOSE (BMAm)
1n: BETA-D-MANNOSE (BMAn)
1o: BETA-D-MANNOSE (BMAo)
1p: BETA-D-MANNOSE (BMAp)
1q: BETA-D-MANNOSE (BMAq)
1r: BETA-D-MANNOSE (BMAr)
2a: ALPHA-D-MANNOSE (MANa)
2aa: ALPHA-D-MANNOSE (MANaa)
2ab: ALPHA-D-MANNOSE (MANab)
2ac: ALPHA-D-MANNOSE (MANac)
2ad: ALPHA-D-MANNOSE (MANad)
2ae: ALPHA-D-MANNOSE (MANae)
2af: ALPHA-D-MANNOSE (MANaf)
2ag: ALPHA-D-MANNOSE (MANag)
2ah: ALPHA-D-MANNOSE (MANah)
2ai: ALPHA-D-MANNOSE (MANai)
2aj: ALPHA-D-MANNOSE (MANaj)
2ak: ALPHA-D-MANNOSE (MANak)
2al: ALPHA-D-MANNOSE (MANal)
2am: ALPHA-D-MANNOSE (MANam)
2an: ALPHA-D-MANNOSE (MANan)
2ao: ALPHA-D-MANNOSE (MANao)
2ap: ALPHA-D-MANNOSE (MANap)
2aq: ALPHA-D-MANNOSE (MANaq)
2ar: ALPHA-D-MANNOSE (MANar)
2as: ALPHA-D-MANNOSE (MANas)
2at: ALPHA-D-MANNOSE (MANat)
2au: ALPHA-D-MANNOSE (MANau)
2av: ALPHA-D-MANNOSE (MANav)
2aw: ALPHA-D-MANNOSE (MANaw)
2ax: ALPHA-D-MANNOSE (MANax)
2ay: ALPHA-D-MANNOSE (MANay)
2az: ALPHA-D-MANNOSE (MANaz)
2b: ALPHA-D-MANNOSE (MANb)
2ba: ALPHA-D-MANNOSE (MANba)
2bb: ALPHA-D-MANNOSE (MANbb)
2bc: ALPHA-D-MANNOSE (MANbc)
2bd: ALPHA-D-MANNOSE (MANbd)
2be: ALPHA-D-MANNOSE (MANbe)
2bf: ALPHA-D-MANNOSE (MANbf)
2bg: ALPHA-D-MANNOSE (MANbg)
2bh: ALPHA-D-MANNOSE (MANbh)
2bi: ALPHA-D-MANNOSE (MANbi)
2bj: ALPHA-D-MANNOSE (MANbj)
2bk: ALPHA-D-MANNOSE (MANbk)
2bl: ALPHA-D-MANNOSE (MANbl)
2bm: ALPHA-D-MANNOSE (MANbm)
2bn: ALPHA-D-MANNOSE (MANbn)
2bo: ALPHA-D-MANNOSE (MANbo)
2c: ALPHA-D-MANNOSE (MANc)
2d: ALPHA-D-MANNOSE (MANd)
2e: ALPHA-D-MANNOSE (MANe)
2f: ALPHA-D-MANNOSE (MANf)
2g: ALPHA-D-MANNOSE (MANg)
2h: ALPHA-D-MANNOSE (MANh)
2i: ALPHA-D-MANNOSE (MANi)
2j: ALPHA-D-MANNOSE (MANj)
2k: ALPHA-D-MANNOSE (MANk)
2l: ALPHA-D-MANNOSE (MANl)
2m: ALPHA-D-MANNOSE (MANm)
2n: ALPHA-D-MANNOSE (MANn)
2o: ALPHA-D-MANNOSE (MANo)
2p: ALPHA-D-MANNOSE (MANp)
2q: ALPHA-D-MANNOSE (MANq)
2r: ALPHA-D-MANNOSE (MANr)
2s: ALPHA-D-MANNOSE (MANs)
2t: ALPHA-D-MANNOSE (MANt)
2u: ALPHA-D-MANNOSE (MANu)
2v: ALPHA-D-MANNOSE (MANv)
2w: ALPHA-D-MANNOSE (MANw)
2x: ALPHA-D-MANNOSE (MANx)
2y: ALPHA-D-MANNOSE (MANy)
2z: ALPHA-D-MANNOSE (MANz)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
3ab: N-ACETYL-D-GLUCOSAMINE (NAGab)
3ac: N-ACETYL-D-GLUCOSAMINE (NAGac)
3ad: N-ACETYL-D-GLUCOSAMINE (NAGad)
3ae: N-ACETYL-D-GLUCOSAMINE (NAGae)
3af: N-ACETYL-D-GLUCOSAMINE (NAGaf)
3ag: N-ACETYL-D-GLUCOSAMINE (NAGag)
3ah: N-ACETYL-D-GLUCOSAMINE (NAGah)
3ai: N-ACETYL-D-GLUCOSAMINE (NAGai)
3aj: N-ACETYL-D-GLUCOSAMINE (NAGaj)
3ak: N-ACETYL-D-GLUCOSAMINE (NAGak)
3al: N-ACETYL-D-GLUCOSAMINE (NAGal)
3am: N-ACETYL-D-GLUCOSAMINE (NAGam)
3an: N-ACETYL-D-GLUCOSAMINE (NAGan)
3ao: N-ACETYL-D-GLUCOSAMINE (NAGao)
3ap: N-ACETYL-D-GLUCOSAMINE (NAGap)
3aq: N-ACETYL-D-GLUCOSAMINE (NAGaq)
3ar: N-ACETYL-D-GLUCOSAMINE (NAGar)
3as: N-ACETYL-D-GLUCOSAMINE (NAGas)
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)
3m: N-ACETYL-D-GLUCOSAMINE (NAGm)
3n: N-ACETYL-D-GLUCOSAMINE (NAGn)
3o: N-ACETYL-D-GLUCOSAMINE (NAGo)
3p: N-ACETYL-D-GLUCOSAMINE (NAGp)
3q: N-ACETYL-D-GLUCOSAMINE (NAGq)
3r: N-ACETYL-D-GLUCOSAMINE (NAGr)
3s: N-ACETYL-D-GLUCOSAMINE (NAGs)
3t: N-ACETYL-D-GLUCOSAMINE (NAGt)
3u: N-ACETYL-D-GLUCOSAMINE (NAGu)
3v: N-ACETYL-D-GLUCOSAMINE (NAGv)
3w: N-ACETYL-D-GLUCOSAMINE (NAGw)
3x: N-ACETYL-D-GLUCOSAMINE (NAGx)
3y: N-ACETYL-D-GLUCOSAMINE (NAGy)
3z: N-ACETYL-D-GLUCOSAMINE (NAGz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
54
Ligand/Ion
BETA-D-MANNOSE
2
MAN
201
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
135
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(25, 25)
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)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO B:609 , ASN B:611 , SER B:613
Binding site for Poly-Saccharide residues NAG B6111 through BMA B6113 bound to ASN B 611
02
AC2
SOFTWARE
ASN B:616 , LYS B:617
Binding site for Mono-Saccharide NAG B6161 bound to ASN B 616
03
AC3
SOFTWARE
ASN B:625 , GLU B:630 , GLN D:1 , TYR D:32
Binding site for Mono-Saccharide NAG B6251 bound to ASN B 625
04
AC4
SOFTWARE
ASN B:637
Binding site for Mono-Saccharide NAG B6371 bound to ASN B 637
05
AC5
SOFTWARE
SER B:528 , ASN D:30 , PHE D:31 , HIS D:33 , SER D:52 , TYR D:53 , SER D:54 , ASP D:56 , LYS D:57 , ASN D:58 , ARG D:98 , ASP D:99 , GLY D:100 , SER D:100A , THR D:100C , HIS E:93 , ASN E:94 , GLU G:87 , ASN G:88
Binding site for Poly-Saccharide residues NAG G 881 through MAN G 888 bound to ASN G 88
06
AC6
SOFTWARE
LYS G:132 , ASP G:133 , ASN G:135
Binding site for Mono-Saccharide NAG G1351 bound to ASN G 135
07
AC7
SOFTWARE
LYS G:132 , ASN G:156 , GLU L:25
Binding site for Poly-Saccharide residues NAG G1561 through MAN G1569 bound to ASN G 156
08
AC8
SOFTWARE
ASN G:160 , VAL G:169 , LYS G:171
Binding site for Poly-Saccharide residues NAG G1601 through MAN G1609A bound to ASN G 160
09
AC9
SOFTWARE
ASN G:187
Binding site for Poly-Saccharide residues NAG G1871 through MAN G1879B bound to ASN G 187
10
BC1
SOFTWARE
GLU G:83 , ASN G:229 , ASN G:241
Binding site for Poly-Saccharide residues NAG G2411 through MAN G2414 bound to ASN G 241
11
BC2
SOFTWARE
VAL G:65 , GLU G:211 , PRO G:212 , ASN G:262 , GLY G:379 , CYS G:445 , SER G:446 , SER G:447
Binding site for Poly-Saccharide residues NAG G2621 through MAN G2629 bound to ASN G 262
12
BC3
SOFTWARE
ASN G:276 , TYR V:28 , ARG V:66 , TRP V:67 , PRO V:69 , TYR V:91
Binding site for Poly-Saccharide residues NAG G2761 through MAN G2769 bound to ASN G 276
13
BC4
SOFTWARE
GLU G:293 , ASN G:295
Binding site for Poly-Saccharide residues NAG G2951 through MAN G2955 bound to ASN G 295
14
BC5
SOFTWARE
ASN G:301 , ILE G:323 , GLN G:442
Binding site for Poly-Saccharide residues NAG G3011 through MAN G3019A bound to ASN G 301
15
BC6
SOFTWARE
HIS G:330 , ASN G:332 , THR G:415 , ARG H:100 , ILE H:100A , TYR H:100B , GLY H:100C , VAL H:100D , SER L:30 , ASN L:50 , ASN L:51 , PRO L:66 , GLY L:67 , SER L:67A
Binding site for Poly-Saccharide residues NAG G3321 through MAN G3329 bound to ASN G 332
16
BC7
SOFTWARE
ASN G:339
Binding site for Poly-Saccharide residues NAG G3391 through MAN G3398 bound to ASN G 339
17
BC8
SOFTWARE
ASN G:355
Binding site for Poly-Saccharide residues NAG G3551 through MAN G3558 bound to ASN G 355
18
BC9
SOFTWARE
VAL G:360 , PHE G:361 , ASN G:362 , ASN G:392 , GLN U:64 , ARG U:82A
Binding site for Poly-Saccharide residues NAG G3621 through MAN G3624 bound to ASN G 362
19
CC1
SOFTWARE
ARG G:151 , MET G:373 , ASN G:386 , THR G:388
Binding site for Poly-Saccharide residues NAG G3861 through MAN G3869B bound to ASN G 386
20
CC2
SOFTWARE
ASN G:392
Binding site for Poly-Saccharide residues NAG G3921 through MAN G3927 bound to ASN G 392
21
CC3
SOFTWARE
GLU G:354 , ASN G:355 , LYS G:357 , THR G:358 , ASN G:397
Binding site for Poly-Saccharide residues NAG G3971 through NAG G3972 bound to ASN G 397
22
CC4
SOFTWARE
SER G:291 , ASN G:448
Binding site for Poly-Saccharide residues NAG G4481 through MAN G4489A bound to ASN G 448
23
CC5
SOFTWARE
ASN G:463
Binding site for Poly-Saccharide residues NAG G4631 through NAG G4632 bound to ASN G 463
24
CC6
SOFTWARE
SER H:7 , ASN H:23
Binding site for Mono-Saccharide NAG H 231 bound to ASN H 23
25
CC7
SOFTWARE
ARG V:66 , ASP V:70 , ASN V:72 , THR V:74
Binding site for Poly-Saccharide residues NAG V 721 through MAN V 728 bound to ASN V 72
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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