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Biol. Unit 2
Info
Asym.Unit (302 KB)
Biol.Unit 1 (283 KB)
Biol.Unit 2 (283 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CD4-MIMETIC MINIPROTEIN M48U1 IN COMPLEX WITH HIV-1 YU2 GP120 IN P212121 SPACE GROUP
Authors
:
P. Acharya, P. D. Kwong
Date
:
03 Apr 13 (Deposition) - 12 Jun 13 (Release) - 10 Jul 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.78
Chains
:
Asym. Unit : A,G,M,R
Biol. Unit 1: A,G,M (1x)
Biol. Unit 2: A,G,R (1x)
Keywords
:
Glycoprotein, Hiv-1 Attachment Glycoprotein, Cd4-Mimetic Miniprotein, Cd4, Hiv-1 Envelope, Viral Protein-Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Acharya, T. S. Luongo, M. K. Louder, K. Mckee, Y. Yang, Y. Do Kwon, J. R. Mascola, P. Kessler, L. Martin, P. D. Kwong
Structural Basis For Highly Effective Hiv-1 Neutralization By Cd4-Mimetic Miniproteins Revealed By 1. 5 A Cocrystal Structure Of Gp120 And M48U1.
Structure V. 21 1018 2013
[
close entry info
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Hetero Components
(8, 33)
Info
All Hetero Components
1a: D-PROLINE (DPRa)
1b: D-PROLINE (DPRb)
2a: 1,2-ETHANEDIOL (EDOa)
3a: ISOPROPYL ALCOHOL (IPAa)
3b: ISOPROPYL ALCOHOL (IPAb)
3c: ISOPROPYL ALCOHOL (IPAc)
3d: ISOPROPYL ALCOHOL (IPAd)
3e: ISOPROPYL ALCOHOL (IPAe)
3f: ISOPROPYL ALCOHOL (IPAf)
3g: ISOPROPYL ALCOHOL (IPAg)
3h: ISOPROPYL ALCOHOL (IPAh)
4a: BETA-MERCAPTOPROPIONIC ACID (MPTa)
4b: BETA-MERCAPTOPROPIONIC ACID (MPTb)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5e: N-ACETYL-D-GLUCOSAMINE (NAGe)
5f: N-ACETYL-D-GLUCOSAMINE (NAGf)
5g: N-ACETYL-D-GLUCOSAMINE (NAGg)
5h: N-ACETYL-D-GLUCOSAMINE (NAGh)
5i: N-ACETYL-D-GLUCOSAMINE (NAGi)
5j: N-ACETYL-D-GLUCOSAMINE (NAGj)
5k: N-ACETYL-D-GLUCOSAMINE (NAGk)
5l: N-ACETYL-D-GLUCOSAMINE (NAGl)
5m: N-ACETYL-D-GLUCOSAMINE (NAGm)
5n: N-ACETYL-D-GLUCOSAMINE (NAGn)
5o: N-ACETYL-D-GLUCOSAMINE (NAGo)
5p: N-ACETYL-D-GLUCOSAMINE (NAGp)
5q: N-ACETYL-D-GLUCOSAMINE (NAGq)
5r: N-ACETYL-D-GLUCOSAMINE (NAGr)
6a: AMINO GROUP (NH2a)
6b: AMINO GROUP (NH2b)
7a: SULFATE ION (SO4a)
7b: SULFATE ION (SO4b)
8a: O-(CYCLOHEXYLMETHYL)-L-TYROSINE (U2Xa)
8b: O-(CYCLOHEXYLMETHYL)-L-TYROSINE (U2Xb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DPR
1
Mod. Amino Acid
D-PROLINE
2
EDO
1
Ligand/Ion
1,2-ETHANEDIOL
3
IPA
8
Ligand/Ion
ISOPROPYL ALCOHOL
4
MPT
1
Mod. Amino Acid
BETA-MERCAPTOPROPIONIC ACID
5
NAG
18
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
NH2
1
Mod. Amino Acid
AMINO GROUP
7
SO4
2
Ligand/Ion
SULFATE ION
8
U2X
1
Mod. Amino Acid
O-(CYCLOHEXYLMETHYL)-L-TYROSINE
[
close Hetero Component info
]
Sites
(31, 31)
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)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO A:76 , ASP A:78 , HOH A:696 , HOH A:888
BINDING SITE FOR RESIDUE IPA A 510
02
AC2
SOFTWARE
ASN A:262 , SER A:446 , ASN A:448 , NAG A:505 , NAG A:509
BINDING SITE FOR RESIDUE IPA A 511
03
AC3
SOFTWARE
HIS A:72 , ILE A:423 , LYS A:432 , MET A:434
BINDING SITE FOR RESIDUE IPA A 512
04
AC4
SOFTWARE
LYS A:421 , GLN A:422 , ILE A:423 , HOH A:880 , HOH A:929 , HOH A:1001
BINDING SITE FOR RESIDUE SO4 A 513
05
AC5
SOFTWARE
ALA G:73 , HOH G:1014
BINDING SITE FOR RESIDUE IPA G 509
06
AC6
SOFTWARE
VAL G:200 , HOH G:873
BINDING SITE FOR RESIDUE IPA G 510
07
AC7
SOFTWARE
SER G:446 , NAG G:502 , NAG G:508
BINDING SITE FOR RESIDUE IPA G 511
08
AC8
SOFTWARE
GLU A:268 , NAG A:514 , HOH G:899
BINDING SITE FOR RESIDUE EDO G 512
09
AC9
SOFTWARE
LYS G:421 , GLN G:422 , ILE G:423 , HOH G:875 , HOH G:1011 , HOH G:1022
BINDING SITE FOR RESIDUE SO4 G 513
10
BC1
SOFTWARE
GLY M:14 , LEU M:15 , LEU M:16 , HOH M:214 , SER R:12
BINDING SITE FOR RESIDUE IPA A 515
11
BC2
SOFTWARE
GLY A:367 , ARG R:9
BINDING SITE FOR RESIDUE IPA A 516
12
BC3
SOFTWARE
ASN A:276 , THR A:278 , ASN A:279 , HOH A:658 , HOH A:799 , HOH A:804 , HOH A:876 , LYS G:46 , ASN G:92 , HOH G:647
BINDING SITE FOR MONO-SACCHARIDE NAG A 502 BOUND TO ASN A 234
13
BC4
SOFTWARE
ASN A:234 , THR A:236 , SER A:274 , HOH A:744 , HOH A:997
BINDING SITE FOR MONO-SACCHARIDE NAG A 503 BOUND TO ASN A 234
14
BC5
SOFTWARE
ASN A:229 , ASN A:241 , HOH A:844 , THR G:240
BINDING SITE FOR MONO-SACCHARIDE NAG A 504 BOUND TO ASN A 241
15
BC6
SOFTWARE
GLU A:211 , PRO A:212 , ASN A:262 , CYS A:445 , SER A:446 , SER A:447 , NAG A:509 , IPA A:511 , HOH A:704 , HOH A:758 , HOH A:791 , HOH A:815 , HOH A:993
BINDING SITE FOR MONO-SACCHARIDE NAG A 505 BOUND TO ASN A 262
16
BC7
SOFTWARE
ASN A:356 , LYS A:357 , HOH A:1011
BINDING SITE FOR MONO-SACCHARIDE NAG A 501 BOUND TO ASN A 276
17
BC8
SOFTWARE
GLU A:268 , GLU A:269 , ASN A:289 , GLU A:290 , GLU G:351 , HOH G:879
BINDING SITE FOR MONO-SACCHARIDE NAG A 506 BOUND TO ASN A 289
18
BC9
SOFTWARE
ASN A:295 , LEU A:333 , ASN A:413 , ARG A:444 , HOH A:823 , HOH A:847 , HOH A:962 , PRO G:79 , ASN G:80
BINDING SITE FOR MONO-SACCHARIDE NAG A 507 BOUND TO ASN A 295
19
CC1
SOFTWARE
ASN A:386 , THR A:388 , HOH A:970 , HOH A:1034 , HOH A:1038
BINDING SITE FOR MONO-SACCHARIDE NAG A 508 BOUND TO ASN A 386
20
CC2
SOFTWARE
ARG A:252 , ASN A:262 , ASN A:448 , NAG A:505 , IPA A:511 , HOH A:702 , HOH A:708 , HOH A:714 , HOH A:768 , HOH A:995 , HOH A:996
BINDING SITE FOR MONO-SACCHARIDE NAG A 509 BOUND TO ASN A 448
21
CC3
SOFTWARE
ASN G:234 , THR G:236 , SER G:274 , EDO G:512 , HOH G:849
BINDING SITE FOR MONO-SACCHARIDE NAG A 514 BOUND TO ASN G 234
22
CC4
SOFTWARE
THR A:240 , ASN G:229 , ASN G:241
BINDING SITE FOR MONO-SACCHARIDE NAG G 501 BOUND TO ASN G 241
23
CC5
SOFTWARE
GLU G:211 , PRO G:212 , LEU G:261 , ASN G:262 , CYS G:445 , SER G:446 , SER G:447 , NAG G:508 , IPA G:511 , HOH G:677 , HOH G:699 , HOH G:753 , HOH G:1039
BINDING SITE FOR MONO-SACCHARIDE NAG G 502 BOUND TO ASN G 241
24
CC6
SOFTWARE
LYS A:46 , ASN A:92 , HOH A:895 , ASN G:276 , THR G:278 , ASN G:279 , HOH G:797 , HOH G:826 , HOH G:853 , HOH G:870 , HOH G:872
BINDING SITE FOR MONO-SACCHARIDE NAG G 503 BOUND TO ASN G 262
25
CC7
SOFTWARE
GLU A:351 , GLU G:268 , GLU G:269 , ASN G:289 , GLU G:290 , GLN G:344
BINDING SITE FOR MONO-SACCHARIDE NAG G 504 BOUND TO ASN G 276
26
CC8
SOFTWARE
PRO A:79 , ASN A:80 , ASN G:295 , ASN G:332 , LEU G:333 , ASN G:413 , ARG G:444 , HOH G:828 , HOH G:998
BINDING SITE FOR MONO-SACCHARIDE NAG G 505 BOUND TO ASN G 289
27
CC9
SOFTWARE
ASN G:386 , THR G:388 , HOH G:640 , HOH G:724 , HOH G:902 , HOH G:931 , HOH G:1031
BINDING SITE FOR MONO-SACCHARIDE NAG G 506 BOUND TO ASN G 295
28
DC1
SOFTWARE
ASN G:394 , ARG G:397 , HOH G:1037
BINDING SITE FOR MONO-SACCHARIDE NAG G 507 BOUND TO ASN G 386
29
DC2
SOFTWARE
ASN G:262 , SER G:291 , ASN G:448 , NAG G:502 , IPA G:511 , HOH G:651 , HOH G:681 , HOH G:759 , HOH G:856 , HOH G:916
BINDING SITE FOR MONO-SACCHARIDE NAG G 508 BOUND TO ASN G 394
30
DC3
SOFTWARE
LYS A:207 , ARG A:440 , IPA A:515 , HOH A:774 , HOH A:793 , HOH A:827 , ALA G:60 , VAL G:255 , ALA G:281 , SER G:365 , GLY G:366 , GLY G:367 , ASP G:368 , GLU G:370 , ILE G:371 , SER G:375 , PHE G:382 , ASN G:425 , MET G:426 , TRP G:427 , GLU G:429 , VAL G:430 , GLY G:472 , GLY G:473 , MET G:475 , HOH G:611 , HOH G:669 , HOH G:675 , HOH M:204 , HOH M:205 , HOH M:206 , HOH M:207 , HOH M:208 , HOH M:209 , HOH M:210 , HOH M:211 , HOH M:212 , HOH M:220 , HOH M:222 , LYS R:11 , SER R:12 , GLY R:14
BINDING SITE FOR CHAIN M OF CD4-MIMETIC MINIPROTEIN M48U1
31
DC4
SOFTWARE
ALA A:60 , VAL A:255 , ALA A:281 , SER A:365 , GLY A:366 , GLY A:367 , ASP A:368 , GLU A:370 , ILE A:371 , SER A:375 , PHE A:382 , ASN A:425 , MET A:426 , TRP A:427 , GLU A:429 , GLY A:472 , GLY A:473 , MET A:475 , IPA A:515 , IPA A:516 , HOH A:603 , HOH A:607 , HOH A:624 , LYS G:207 , ARG G:440 , HOH G:809 , HOH G:953 , LYS M:11 , SER M:12 , GLY M:14 , HOH R:201 , HOH R:204 , HOH R:206 , HOH R:207 , HOH R:208 , HOH R:209 , HOH R:210 , HOH R:213 , HOH R:214 , HOH R:215 , HOH R:216 , HOH R:219 , HOH R:220 , HOH R:221 , HOH R:223
BINDING SITE FOR CHAIN R OF CD4-MIMETIC MINIPROTEIN M48U1
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(0, 0)
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