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5U6E
Biol. Unit 1
Info
Asym.Unit (253 KB)
Biol.Unit 1 (123 KB)
Biol.Unit 2 (123 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CLADE A/E HIV-1 GP120 CORE IN COMPLEX WITH NBD-14010
Authors
:
Y. D. Kwon, A. K. Debnath, P. D. Kwong
Date
:
07 Dec 16 (Deposition) - 22 Mar 17 (Release) - 26 Apr 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Hiv-1, Nbd-14010, Virus Entry Antagonist, Small Molecule, Viral Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Curreli, Y. D. Kwon, D. S. Belov, R. R. Ramesh, A. V. Kurkin, A. Altieri, P. D. Kwong, A. K. Debnath
Synthesis, Antiviral Potency, In Vitro Admet, And X-Ray Structure Of Potent Cd4 Mimics As Entry Inhibitors That Target The Phe43 Cavity Of Hiv-1 Gp120.
J. Med. Chem. V. 60 3124 2017
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Hetero Components
(3, 13)
Info
All Hetero Components
1a: N-{(1S)-2-AMINO-1-[5-(HYDROXYMETHY... (82Ma)
1b: N-{(1S)-2-AMINO-1-[5-(HYDROXYMETHY... (82Mb)
2a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
2b: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEb)
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)
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)
View:
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Label:
No.
Name
Count
Type
Full Name
1
82M
1
Ligand/Ion
N-{(1S)-2-AMINO-1-[5-(HYDROXYMETHYL)-4-METHYL-1,3-THIAZOL-2-YL]ETHYL}-5-(4-CHLORO-3-FLUOROPHENYL)-1H-PYRROLE-2-CARBOXAMIDE
2
EPE
1
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3
NAG
11
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(14, 14)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC5 (SOFTWARE)
04: AC6 (SOFTWARE)
05: AC7 (SOFTWARE)
06: AC8 (SOFTWARE)
07: AC9 (SOFTWARE)
08: AD1 (SOFTWARE)
09: AD2 (SOFTWARE)
10: AD3 (SOFTWARE)
11: AD4 (SOFTWARE)
12: AD5 (SOFTWARE)
13: AD6 (SOFTWARE)
14: AD9 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
VAL A:255 , SER A:256 , THR A:257 , ASP A:368 , GLU A:370 , SER A:375 , PHE A:376 , PHE A:382 , ASN A:425 , MET A:426 , TRP A:427 , GLY A:429 , GLY A:473 , HOH A:683 , HOH A:684
binding site for residue 82M A 512
02
AC2
SOFTWARE
LEU A:52 , CYS A:54 , HIS A:72 , ALA A:73 , GLN A:103 , ASP A:107 , HOH A:611
binding site for residue EPE A 513
03
AC5
SOFTWARE
ASN A:234 , SER A:274 , HIS A:352 , HOH A:663
binding site for Mono-Saccharide NAG A 501 bound to ASN A 234
04
AC6
SOFTWARE
ASP A:230 , LYS A:231 , ASN A:241
binding site for Mono-Saccharide NAG A 502 bound to ASN A 241
05
AC7
SOFTWARE
LEU A:261 , ASN A:262 , ARG A:379 , CYS A:445 , VAL A:446 , SER A:447 , HOH A:616 , HOH A:635 , HOH A:681
binding site for Mono-Saccharide NAG A 503 bound to ASN A 262
06
AC8
SOFTWARE
ASN A:276 , ASN A:279 , HIS B:61 , HOH B:620
binding site for Mono-Saccharide NAG A 504 bound to ASN A 276
07
AC9
SOFTWARE
GLU A:268 , GLU A:269 , ILE A:270 , ASN A:289 , LYS A:348 , HOH A:631
binding site for Mono-Saccharide NAG A 505 bound to ASN A 289
08
AD1
SOFTWARE
ASN A:295 , TYR A:330 , GLU A:332 , HOH A:658
binding site for Mono-Saccharide NAG A 506 bound to ASN A 295
09
AD2
SOFTWARE
ASN A:334 , LYS A:337 , HOH A:633
binding site for Mono-Saccharide NAG A 507 bound to ASN A 334
10
AD3
SOFTWARE
GLU A:351 , ASN A:354 , ASN A:355 , PRO B:214 , LYS B:252
binding site for Mono-Saccharide NAG A 508 bound to ASN A 355
11
AD4
SOFTWARE
ASN A:386 , THR A:388 , HOH A:692
binding site for Mono-Saccharide NAG A 509 bound to ASN A 386
12
AD5
SOFTWARE
SER A:291 , ASN A:448 , HOH A:685
binding site for Mono-Saccharide NAG A 510 bound to ASN A 448
13
AD6
SOFTWARE
THR A:278 , ASN A:461 , GLU B:62 , HOH B:620
binding site for Mono-Saccharide NAG A 511 bound to ASN A 461
14
AD9
SOFTWARE
ASN A:354 , ASN A:355 , SER A:464 , LYS B:252 , ASN B:262 , ARG B:379 , CYS B:445 , VAL B:446 , SER B:447 , HOH B:611 , HOH B:628 , HOH B:630 , HOH B:634
binding site for Mono-Saccharide NAG B 503 bound to ASN B 262
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SAPs(SNPs)/Variants
(0, 0)
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PROSITE Patterns/Profiles
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Exons
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SCOP Domains
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Chain A
Asymmetric Unit 1
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Asym.Unit (253 KB)
Header - Asym.Unit
Biol.Unit 1 (123 KB)
Header - Biol.Unit 1
Biol.Unit 2 (123 KB)
Header - Biol.Unit 2
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