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5CEZ
Asym. Unit
Info
Asym.Unit (265 KB)
Biol.Unit 1 (159 KB)
Biol.Unit 2 (102 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE BG505 SOSIP GP140 HIV-1 ENV TRIMER IN COMPLEX WITH AN EARLY PUTATIVE PRECURSOR OF THE PGT121 FAMILY AT 3.0 ANGSTROM
Authors
:
I. A. Wilson, F. Garces
Date
:
08 Jul 15 (Deposition) - 23 Dec 15 (Release) - 28 Jun 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.03
Chains
:
Asym. Unit : B,D,E,G,H,L
Biol. Unit 1: G,H,L (1x)
Biol. Unit 2: B,D,E (1x)
Keywords
:
Hiv-1, Antibody, Immune System, Viral Protein-Immune System Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Garces, J. H. Lee, N. De Val, A. Torrents De La Pena, L. Kong, C. Puchades, Y. Hua, R. L. Stanfield, D. R. Burton, J. P. Moore, R. W. Sanders, A. B. Ward, I. A. Wilson
Affinity Maturation Of A Potent Family Of Hiv Antibodies Is Primarily Focused On Accommodating Or Avoiding Glycans.
Immunity V. 43 1053 2015
[
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Hetero Components
(3, 51)
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)
2a: ALPHA-D-MANNOSE (MANa)
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)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
3ab: N-ACETYL-D-GLUCOSAMINE (NAGab)
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
5
Ligand/Ion
BETA-D-MANNOSE
2
MAN
18
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
28
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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]
Sites
(19, 19)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
BMA L:303 , MAN L:304
binding site for residue MAN H 301
02
AC2
SOFTWARE
ASP D:56 , LYS D:57 , ASN D:58 , MAN G:636
binding site for residue MAN D 301
03
AC3
SOFTWARE
ASN B:611 , SER B:613
binding site for Mono-Saccharide NAG B 703 bound to ASN B 611
04
AC4
SOFTWARE
ASN B:616 , ASN B:618
binding site for Mono-Saccharide NAG B 702 bound to ASN B 618
05
AC5
SOFTWARE
ASN B:637
binding site for Mono-Saccharide NAG B 701 bound to ASN B 637
06
AC6
SOFTWARE
GLY B:527 , SER B:528 , ASN D:30 , PHE D:31 , HIS D:33 , SER D:52 , ASP D:56 , ARG D:98 , ASP D:99 , GLY D:100 , SER D:100A , THR D:100C , MAN D:301 , HIS E:95 , ASN E:96 , GLU G:87 , ASN G:88
binding site for Poly-Saccharide residues NAG G 632 through MAN G 637 bound to ASN G 88
07
AC7
SOFTWARE
ASN G:133
binding site for Poly-Saccharide residues NAG G 621 through NAG G 622 bound to ASN G 133
08
AC8
SOFTWARE
VAL G:134 , ASN G:156 , TYR G:173
binding site for Poly-Saccharide residues NAG G 623 through MAN G 627 bound to ASN G 156
09
AC9
SOFTWARE
THR G:128 , GLN G:130 , SER G:158 , ASN G:160
binding site for Mono-Saccharide NAG G 610 bound to ASN G 160
10
AD1
SOFTWARE
ARG G:192 , ILE G:194 , ASN G:197
binding site for Poly-Saccharide residues NAG G 619 through NAG G 620 bound to ASN G 197
11
AD2
SOFTWARE
VAL D:72E , ASN G:234 , THR G:236 , SER G:274
binding site for Poly-Saccharide residues NAG G 617 through NAG G 618 bound to ASN G 234
12
AD3
SOFTWARE
THR G:63 , GLU G:64 , SER G:209 , PRO G:212 , ASN G:262 , ASN G:377 , CYS G:378 , GLY G:379 , CYS G:445 , VAL G:446 , SER G:447 , NAG G:608
binding site for Poly-Saccharide residues NAG G 601 through MAN G 607 bound to ASN G 262
13
AD4
SOFTWARE
ASN G:276 , THR G:278 , ASN G:279
binding site for Mono-Saccharide NAG G 611 bound to ASN G 276
14
AD5
SOFTWARE
ASN G:295 , ASN G:332 , SER G:334 , ARG G:444
binding site for Poly-Saccharide residues NAG G 612 through NAG G 613 bound to ASN G 295
15
AD6
SOFTWARE
ASN G:301 , ILE G:323 , VAL G:442
binding site for Poly-Saccharide residues NAG G 628 through MAN G 631 bound to ASN G 301
16
AD7
SOFTWARE
ARG G:327 , HIS G:330 , ASN G:332 , ARG G:444 , ARG H:100 , ILE H:100A , GLY H:100C , MET H:100D , VAL H:100E , MAN H:301 , SER L:30 , ASN L:50 , ASN L:51 , ASP L:53 , PRO L:66 , ASP L:67 , ILE L:67A
binding site for Poly-Saccharide residues GLN L 52 through MAN L 309 bound to ASN G 332
17
AD8
SOFTWARE
ASN G:363 , SER G:364 , ASN G:386 , SER G:388 , NAG G:614
binding site for Mono-Saccharide NAG G 616 bound to ASN G 363
18
AD9
SOFTWARE
ASN G:386 , NAG G:616
binding site for Poly-Saccharide residues NAG G 614 through NAG G 615 bound to ASN G 386
19
AE1
SOFTWARE
PRO G:291 , ASN G:448 , NAG G:601
binding site for Poly-Saccharide residues NAG G 608 through NAG G 609 bound to ASN G 448
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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
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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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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
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Protein & NOT Site
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Chain B
Chain D
Chain E
Chain G
Chain H
Chain L
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (265 KB)
Header - Asym.Unit
Biol.Unit 1 (159 KB)
Header - Biol.Unit 1
Biol.Unit 2 (102 KB)
Header - Biol.Unit 2
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