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5I8H
Asym. Unit
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Asym.Unit (1.0 MB)
Biol.Unit 1, α-C (1.5 MB)
Biol.Unit 1 (1.5 MB)
Biol.Unit 2, α-C (1.5 MB)
Biol.Unit 2 (1.5 MB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HIV-1 BG505 SOSIP.664 PREFUSION ENV TRIMER IN COMPLEX WITH V3 LOOP-TARGETING ANTIBODY PGT122 FAB AND FUSION PEPTIDE-TARGETING ANTIBODY VRC34.01 FAB
Authors
:
K. Xu, T. Zhou, P. D. Kwong
Date
:
18 Feb 16 (Deposition) - 25 May 16 (Release) - 01 Jun 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
4.30
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,E,F,I,J (3x)
Biol. Unit 2: C,D,G,H,K,L (3x)
Keywords
:
Hiv-1, Envelope, Trimer, Fusion Peptide, Antibody, Neutralizing, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Kong, K. Xu, T. Zhou, P. Acharya, T. Lemmin, K. Liu, G. Ozorowski, C. Soto, J. D. Taft, R. T. Bailer, E. M. Cale, L. Chen, C. W. Choi, G. Y. Chuang, N. A. Doria-Rose, A. Druz, I. S. Georgiev, J. Gorman, J. Huang, M. G. Joyce, M. K. Louder, X. Ma, K. Mckee, S. O'Dell, M. Pancera, Y. Yang, S. C. Blanchard, W. Mothes, D. R. Burton, W. C. Koff M. Connors, A. B. Ward, P. D. Kwong, J. R. Mascola
Fusion Peptide Of Hiv-1 As A Site Of Vulnerability To Neutralizing Antibody.
Science V. 352 828 2016
[
close entry info
]
Hetero Components
(3, 116)
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)
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)
2b: ALPHA-D-MANNOSE (MANb)
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)
3at: N-ACETYL-D-GLUCOSAMINE (NAGat)
3au: N-ACETYL-D-GLUCOSAMINE (NAGau)
3av: N-ACETYL-D-GLUCOSAMINE (NAGav)
3aw: N-ACETYL-D-GLUCOSAMINE (NAGaw)
3ax: N-ACETYL-D-GLUCOSAMINE (NAGax)
3ay: N-ACETYL-D-GLUCOSAMINE (NAGay)
3az: N-ACETYL-D-GLUCOSAMINE (NAGaz)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3ba: N-ACETYL-D-GLUCOSAMINE (NAGba)
3bb: N-ACETYL-D-GLUCOSAMINE (NAGbb)
3bc: N-ACETYL-D-GLUCOSAMINE (NAGbc)
3bd: N-ACETYL-D-GLUCOSAMINE (NAGbd)
3be: N-ACETYL-D-GLUCOSAMINE (NAGbe)
3bf: N-ACETYL-D-GLUCOSAMINE (NAGbf)
3bg: N-ACETYL-D-GLUCOSAMINE (NAGbg)
3bh: N-ACETYL-D-GLUCOSAMINE (NAGbh)
3bi: N-ACETYL-D-GLUCOSAMINE (NAGbi)
3bj: N-ACETYL-D-GLUCOSAMINE (NAGbj)
3bk: N-ACETYL-D-GLUCOSAMINE (NAGbk)
3bl: N-ACETYL-D-GLUCOSAMINE (NAGbl)
3bm: N-ACETYL-D-GLUCOSAMINE (NAGbm)
3bn: N-ACETYL-D-GLUCOSAMINE (NAGbn)
3bo: N-ACETYL-D-GLUCOSAMINE (NAGbo)
3bp: N-ACETYL-D-GLUCOSAMINE (NAGbp)
3bq: N-ACETYL-D-GLUCOSAMINE (NAGbq)
3br: N-ACETYL-D-GLUCOSAMINE (NAGbr)
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
13
Ligand/Ion
BETA-D-MANNOSE
2
MAN
33
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
70
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(43, 43)
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)
31: AF4 (SOFTWARE)
32: AF5 (SOFTWARE)
33: AF6 (SOFTWARE)
34: AF7 (SOFTWARE)
35: AF8 (SOFTWARE)
36: AF9 (SOFTWARE)
37: AG1 (SOFTWARE)
38: AG2 (SOFTWARE)
39: AG3 (SOFTWARE)
40: AG4 (SOFTWARE)
41: AG5 (SOFTWARE)
42: AG6 (SOFTWARE)
43: AG7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:88 , SER B:528 , TYR E:98 , ASN F:31 , TYR F:50 , ARG H:30
binding site for Poly-Saccharide residues NAG A 901 through MAN A 907 bound to ASN A 88
02
AC2
SOFTWARE
ASN A:133 , ASP A:140 , LYS A:155 , LYS A:189
binding site for Mono-Saccharide NAG A 908 bound to ASN A 133
03
AC3
SOFTWARE
ASN A:137 , TYR I:33 , ASN I:58 , HIS I:97 , GLY I:98 , ARG I:100 , ILE I:100A , TRP I:100J , PHE I:100K , THR I:100L
binding site for Poly-Saccharide residues ARG I 99 through MAN I 304 bound to ASN A 137
04
AC4
SOFTWARE
THR A:135 , ASN A:156 , TYR A:173
binding site for Poly-Saccharide residues NAG A 909 through MAN A 913 bound to ASN A 156
05
AC5
SOFTWARE
THR A:128 , GLN A:130 , ASN A:160 , LYS A:169 , LYS A:171
binding site for Poly-Saccharide residues NAG A 914 through NAG A 915 bound to ASN A 160
06
AC6
SOFTWARE
ARG A:192 , ASN A:197 , ARG A:308
binding site for Poly-Saccharide residues NAG A 916 through NAG A 917 bound to ASN A 197
07
AC7
SOFTWARE
ASN A:234 , THR A:236 , SER A:274
binding site for Poly-Saccharide residues NAG A 918 through NAG A 919 bound to ASN A 234
08
AC8
SOFTWARE
ASN A:276 , THR A:278
binding site for Mono-Saccharide NAG A 926 bound to ASN A 276
09
AC9
SOFTWARE
ASN A:295 , SER A:334 , SER A:413
binding site for Poly-Saccharide residues NAG A 927 through BMA A 929 bound to ASN A 295
10
AD1
SOFTWARE
ASN A:301 , ILE A:323
binding site for Poly-Saccharide residues NAG A 930 through NAG A 931 bound to ASN A 301
11
AD2
SOFTWARE
THR A:297 , HIS A:330 , ASN A:332 , ASP A:412 , THR A:415 , ARG I:100 , ILE I:100A , GLY I:100C , VAL I:100D , ASN J:50 , ASN J:51 , ASN J:52 , PRO J:66 , GLY J:67
binding site for Poly-Saccharide residues NAG A 932 through MAN A 941 bound to ASN A 332
12
AD3
SOFTWARE
ASN A:339
binding site for Mono-Saccharide NAG A 952 bound to ASN A 339
13
AD4
SOFTWARE
ASN A:355
binding site for Mono-Saccharide NAG A 942 bound to ASN A 355
14
AD5
SOFTWARE
ASN A:386 , SER A:388 , NAG A:943 , NAG A:944
binding site for Poly-Saccharide residues NAG A 945 through NAG A 946 bound to ASN A 386
15
AD6
SOFTWARE
ASN A:392 , NAG A:943
binding site for Poly-Saccharide residues NAG A 947 through NAG A 948 bound to ASN A 392
16
AD7
SOFTWARE
ASN A:262 , PRO A:291 , ASN A:448 , NAG A:920
binding site for Poly-Saccharide residues NAG A 949 through BMA A 951 bound to ASN A 448
17
AD8
SOFTWARE
ASN B:611 , SER B:613
binding site for Mono-Saccharide NAG B 901 bound to ASN B 611
18
AD9
SOFTWARE
ASN B:618
binding site for Mono-Saccharide NAG B 902 bound to ASN B 618
19
AE1
SOFTWARE
ASN B:637
binding site for Mono-Saccharide NAG B 903 bound to ASN B 637
20
AE2
SOFTWARE
GLU C:87 , ASN C:88 , SER D:528 , GLN F:27 , TYR G:98 , ASN H:31 , TYR H:50 , SER H:67
binding site for Poly-Saccharide residues NAG C 901 through MAN C 907 bound to ASN C 88
21
AE3
SOFTWARE
ASN C:133 , ASP C:140
binding site for Mono-Saccharide NAG C 908 bound to ASN C 133
22
AE4
SOFTWARE
ASN C:137 , PHE K:100K , ASP L:92 , THR L:95B
binding site for Mono-Saccharide NAG C 909 bound to ASN C 137
23
AE5
SOFTWARE
THR C:135 , ASN C:156 , SER C:158 , TYR C:173
binding site for Poly-Saccharide residues NAG C 910 through MAN C 914 bound to ASN C 156
24
AE6
SOFTWARE
THR C:128 , GLN C:130 , ASN C:160 , LYS C:169 , LYS C:171
binding site for Poly-Saccharide residues NAG C 915 through NAG C 916 bound to ASN C 160
25
AE7
SOFTWARE
VAL C:182 , ARG C:192 , ASN C:197 , ARG C:308
binding site for Poly-Saccharide residues NAG C 917 through NAG C 918 bound to ASN C 197
26
AE8
SOFTWARE
ASN C:234 , THR C:236 , SER C:274 , ILE C:277
binding site for Poly-Saccharide residues NAG C 919 through NAG C 920 bound to ASN C 234
27
AE9
SOFTWARE
LYS C:65 , SER C:209 , GLU C:211 , ASN C:262 , ASN C:377 , GLY C:379 , GLN C:440 , VAL C:446 , SER C:447 , NAG C:950
binding site for Poly-Saccharide residues NAG C 921 through MAN C 926 bound to ASN C 262
28
AF1
SOFTWARE
ASN C:276 , THR C:278
binding site for Mono-Saccharide NAG C 927 bound to ASN C 276
29
AF2
SOFTWARE
ASN C:295 , SER C:334 , SER C:413
binding site for Poly-Saccharide residues NAG C 928 through NAG C 929 bound to ASN C 295
30
AF3
SOFTWARE
ASN C:301 , ILE C:323
binding site for Poly-Saccharide residues NAG C 930 through NAG C 931 bound to ASN C 301
31
AF4
SOFTWARE
THR C:297 , ARG C:327 , HIS C:330 , ASN C:332 , THR C:415 , ARG K:100 , ILE K:100A , GLY K:100C , VAL K: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 C 932 through MAN C 941 bound to ASN C 332
32
AF5
SOFTWARE
ASN C:339
binding site for Mono-Saccharide NAG C 953 bound to ASN C 339
33
AF6
SOFTWARE
ASN C:355
binding site for Mono-Saccharide NAG C 942 bound to ASN C 355
34
AF7
SOFTWARE
ASN C:363 , SER C:364 , NAG C:945 , NAG C:946
binding site for Poly-Saccharide residues NAG C 943 through NAG C 944 bound to ASN C 363
35
AF8
SOFTWARE
ASN C:386 , SER C:388 , NAG C:943 , NAG C:944
binding site for Poly-Saccharide residues NAG C 945 through NAG C 946 bound to ASN C 386
36
AF9
SOFTWARE
ASN C:392
binding site for Poly-Saccharide residues NAG C 947 through BMA C 949 bound to ASN C 392
37
AG1
SOFTWARE
ASN C:262 , PRO C:291 , ASN C:448 , NAG C:921
binding site for Poly-Saccharide residues NAG C 950 through BMA C 952 bound to ASN C 448
38
AG2
SOFTWARE
ASN D:611 , SER D:613
binding site for Mono-Saccharide NAG D 901 bound to ASN D 611
39
AG3
SOFTWARE
ASN D:637
binding site for Mono-Saccharide NAG D 902 bound to ASN D 637
40
AG4
SOFTWARE
SER I:7 , ASN I:23
binding site for Mono-Saccharide NAG I 305 bound to ASN I 23
41
AG5
SOFTWARE
SER K:7 , ASN K:23
binding site for Mono-Saccharide NAG K 301 bound to ASN K 23
42
AG6
SOFTWARE
LYS A:65 , SER A:209 , PRO A:212 , ASN A:262 , ASN A:377 , GLY A:379 , GLN A:440 , VAL A:446 , SER A:447 , NAG A:949
binding site for Poly-Saccharide residues NAG A 920 through MAN A 925
43
AG7
SOFTWARE
LYS A:65 , SER A:209 , ASN A:363 , GLY A:379 , SER A:388 , GLN A:440 , NAG A:920 , NAG A:945 , NAG A:946 , NAG A:947
binding site for Poly-Saccharide residues NAG A 943 through NAG A 944
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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