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5T4B
Asym. Unit
Info
Asym.Unit (302 KB)
Biol.Unit 1 (293 KB)
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(1)
Title
:
HUMAN DPP4 IN COMPLEX WITH A LIGAND 34A
Authors
:
G. Scapin
Date
:
29 Aug 16 (Deposition) - 05 Oct 16 (Release) - 26 Oct 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.76
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Structure-Based Drug Design, Diabetes, Dpp4 Inhibitors, Hydrolase, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. A. Pissarnitski, Z. Zhao, D. Cole, W. L. Wu, M. Domalski, J. W. Clader G. Scapin, J. Voigt, A. Soriano, T. Kelly, M. A. Powles, Z. Yao, D. A. Burnett
Scaffold-Hopping From Xanthines To Tricyclic Guanines: A Case Study Of Dipeptidyl Peptidase 4 (Dpp4) Inhibitors.
Bioorg. Med. Chem. V. 24 5534 2016
[
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Hetero Components
(3, 22)
Info
All Hetero Components
1a: 2-[(3R)-3-AMINOPIPERIDIN-1-YL]-3-(... (75Na)
1b: 2-[(3R)-3-AMINOPIPERIDIN-1-YL]-3-(... (75Nb)
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)
3s: N-ACETYL-D-GLUCOSAMINE (NAGs)
2a: SODIUM ION (NAa)
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Label:
No.
Name
Count
Type
Full Name
1
75N
2
Ligand/Ion
2-[(3R)-3-AMINOPIPERIDIN-1-YL]-3-(BUT-2-YN-1-YL)-5-[(4-METHYLQUINAZOLIN-2-YL)METHYL]-3H-IMIDAZO[2,1-B]PURIN-4(5H)-ONE
2
NA
1
Ligand/Ion
SODIUM ION
3
NAG
19
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(15, 15)
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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:205 , GLU A:206 , TYR A:547 , TRP A:629 , SER A:630 , TYR A:631 , VAL A:656 , TYR A:662 , TYR A:666 , VAL A:711 , HIS A:740 , HOH A:926 , HOH A:1247 , HOH A:1525
binding site for residue 75N A 810
02
AC2
SOFTWARE
GLY A:490 , LEU A:491 , LEU B:276 , VAL B:279 , HOH B:1126
binding site for residue NA A 811
03
AC3
SOFTWARE
GLU B:205 , GLU B:206 , TYR B:547 , TRP B:629 , SER B:630 , TYR B:631 , VAL B:656 , TYR B:662 , TYR B:666 , HOH B:921 , HOH B:1384 , HOH B:1467 , HOH B:1531
binding site for residue 75N B 811
04
AC4
SOFTWARE
GLU A:67 , VAL A:78 , ASN A:85 , SER A:86 , SER A:87 , HOH A:1080 , HOH A:1208
binding site for Mono-Saccharide NAG A 801 bound to ASN A 85
05
AC5
SOFTWARE
ARG A:147 , ILE A:148 , PRO A:149 , ASN A:150 , HOH A:1420
binding site for Poly-Saccharide residues NAG A 802 through NAG A 803 bound to ASN A 150
06
AC6
SOFTWARE
ASN A:219 , THR A:221 , PHE A:222 , ASN A:272 , GLN A:308 , GLU A:309 , TYR A:330 , GLU A:332 , HOH A:929 , HOH A:1088 , HOH A:1112 , HOH A:1399 , HOH A:1417 , HOH A:1541
binding site for Poly-Saccharide residues NAG A 804 through NAG A 805 bound to ASN A 219
07
AC7
SOFTWARE
ILE A:194 , ASN A:229 , THR A:231 , GLU A:232 , HOH A:913 , HOH A:1252 , HOH A:1422
binding site for Mono-Saccharide NAG A 806 bound to ASN A 229
08
AC8
SOFTWARE
TRP A:187 , VAL A:279 , ASN A:281 , HOH A:1554
binding site for Mono-Saccharide NAG A 807 bound to ASN A 281
09
AC9
SOFTWARE
ASN A:321 , SER A:349 , THR A:350 , ARG A:596 , HOH A:1524 , HOH A:1812
binding site for Poly-Saccharide residues NAG A 808 through NAG A 809 bound to ASN A 321
10
AD1
SOFTWARE
GLU B:67 , VAL B:78 , ASN B:85 , SER B:86 , SER B:87 , HOH B:1023
binding site for Poly-Saccharide residues NAG B 801 through NAG B 802 bound to ASN B 85
11
AD2
SOFTWARE
ARG B:147 , ILE B:148 , ASN B:150 , HOH B:1221
binding site for Mono-Saccharide NAG B 803 bound to ASN B 150
12
AD3
SOFTWARE
ASN B:219 , THR B:221 , PHE B:222 , ASN B:272 , GLN B:308 , GLU B:309 , TYR B:330 , GLU B:332 , HOH B:902 , HOH B:976 , HOH B:1121 , HOH B:1132 , HOH B:1269 , HOH B:1359 , HOH B:1451 , HOH B:1587
binding site for Poly-Saccharide residues NAG B 804 through NAG B 805 bound to ASN B 219
13
AD4
SOFTWARE
ILE B:194 , ASN B:229 , THR B:231 , GLU B:232 , HOH B:930 , HOH B:1094 , HOH B:1504 , HOH B:1528 , HOH B:1572 , HOH B:1588
binding site for Poly-Saccharide residues NAG B 806 through NAG B 807 bound to ASN B 229
14
AD5
SOFTWARE
ASN A:450 , TRP B:187 , THR B:188 , ASN B:281 , HOH B:935 , HOH B:1059 , HOH B:1207 , HOH B:1374 , HOH B:1411 , HOH B:1497 , HOH B:1583
binding site for Poly-Saccharide residues NAG B 808 through NAG B 809 bound to ASN B 281
15
AD6
SOFTWARE
ILE B:319 , ASN B:321 , MET B:348 , SER B:349 , THR B:350 , HOH B:944 , HOH B:1300
binding site for Mono-Saccharide NAG B 810 bound to ASN B 321
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (302 KB)
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Biol.Unit 1 (293 KB)
Header - Biol.Unit 1
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