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4P4E
Biol. Unit 1
Info
Asym.Unit (284 KB)
Biol.Unit 1 (549 KB)
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(1)
Title
:
X-RAY STRUCTURE OF HUMAN GLUTAMATE CARBOXYPEPTIDASE II (GCPII) IN COMPLEX WITH A PHOSPHORAMIDATE INHIBITOR MP1D
Authors
:
C. Barinka
Date
:
12 Mar 14 (Deposition) - 20 May 15 (Release) - 20 Jan 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.67
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Keywords
:
Glutamate Carboxypeptidase Ii (Gcpii); Naaladase; Prostate-Specific Membrane Antigen; Phosphoramidate, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Z. Novakova, J. Cerny, C. J. Choy, J. R. Nedrow, J. K. Choi, J. Lubkowski C. E. Berkman, C. Barinka
Design Of Composite Inhibitors Targeting Glutamate Carboxypeptidase Ii: The Importance Of Effector Functionalities.
Febs J. V. 283 130 2016
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Hetero Components
(5, 36)
Info
All Hetero Components
1a: N-[(S)-HYDROXY(4-PHENYLBUTOXY)PHOS... (2G4a)
2a: BETA-D-MANNOSE (BMAa)
2b: BETA-D-MANNOSE (BMAb)
3a: CALCIUM ION (CAa)
4a: CHLORIDE ION (CLa)
5a: ALPHA-L-FUCOSE (FUCa)
5b: ALPHA-L-FUCOSE (FUCb)
6a: ALPHA-D-MANNOSE (MANa)
7a: N-ACETYL-D-GLUCOSAMINE (NAGa)
7b: N-ACETYL-D-GLUCOSAMINE (NAGb)
7c: N-ACETYL-D-GLUCOSAMINE (NAGc)
7d: N-ACETYL-D-GLUCOSAMINE (NAGd)
7e: N-ACETYL-D-GLUCOSAMINE (NAGe)
7f: N-ACETYL-D-GLUCOSAMINE (NAGf)
7g: N-ACETYL-D-GLUCOSAMINE (NAGg)
7h: N-ACETYL-D-GLUCOSAMINE (NAGh)
7i: N-ACETYL-D-GLUCOSAMINE (NAGi)
7j: N-ACETYL-D-GLUCOSAMINE (NAGj)
7k: N-ACETYL-D-GLUCOSAMINE (NAGk)
7l: N-ACETYL-D-GLUCOSAMINE (NAGl)
8a: ZINC ION (ZNa)
8b: ZINC ION (ZNb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
2G4
2
Ligand/Ion
N-[(S)-HYDROXY(4-PHENYLBUTOXY)PHOSPHORYL]-L-GLUTAMICACID
2
BMA
4
Ligand/Ion
BETA-D-MANNOSE
3
CA
-1
Ligand/Ion
CALCIUM ION
4
CL
-1
Ligand/Ion
CHLORIDE ION
5
FUC
4
Ligand/Ion
ALPHA-L-FUCOSE
6
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
7
NAG
24
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
8
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(12, 12)
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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:387 , GLU A:425 , HIS A:553 , 2G4 A:822
binding site for residue ZN A 818
02
AC2
SOFTWARE
HIS A:377 , ASP A:387 , GLU A:425 , ASP A:453 , 2G4 A:822
binding site for residue ZN A 819
03
AC3
SOFTWARE
THR A:269 , TYR A:272 , GLU A:433 , GLU A:436 , HOH A:949
binding site for residue CA A 820
04
AC4
SOFTWARE
ASN A:451 , ASP A:453 , ARG A:534
binding site for residue CL A 821
05
AC5
SOFTWARE
ARG A:210 , ASN A:257 , HIS A:377 , ASP A:387 , GLU A:424 , GLU A:425 , GLY A:427 , LEU A:428 , ASP A:453 , GLU A:457 , GLY A:518 , ASN A:519 , LYS A:545 , GLY A:548 , TYR A:549 , TYR A:552 , HIS A:553 , LYS A:699 , TYR A:700 , ZN A:818 , ZN A:819 , HOH A:985 , HOH A:992 , HOH A:1010
binding site for residue 2G4 A 822
06
AC6
SOFTWARE
ASN A:76 , GLN A:79 , GLN A:99 , HOH A:1194 , HOH A:1404 , HOH A:1430
binding site for Poly-Saccharide residues NAG A 801 through NAG A 802 bound to ASN A 76
07
AC7
SOFTWARE
ASN A:121 , THR A:123 , HIS A:124
binding site for Poly-Saccharide residues NAG A 803 through FUC A 805 bound to ASN A 121
08
AC8
SOFTWARE
TYR A:127 , GLU A:137 , ILE A:138 , ASN A:140 , HOH A:1113
binding site for Poly-Saccharide residues NAG A 806 through FUC A 808 bound to ASN A 140
09
AC9
SOFTWARE
ASN A:195
binding site for Mono-Saccharide NAG A 809 bound to ASN A 195
10
AD1
SOFTWARE
TRP A:246 , ASN A:459 , PHE A:565 , TYR A:566 , HOH A:948 , HOH A:1094 , HOH A:1269 , HOH A:1272
binding site for Mono-Saccharide NAG A 810 bound to ASN A 459
11
AD2
SOFTWARE
SER A:472 , ASN A:476 , PRO A:594 , GLN A:651 , HOH A:1165 , HOH A:1244 , HOH A:1300 , HOH A:1324
binding site for Poly-Saccharide residues NAG A 811 through BMA A 813 bound to ASN A 476
12
AD3
SOFTWARE
HIS A:112 , PHE A:235 , LYS A:240 , SER A:241 , GLU A:276 , ARG A:354 , SER A:631 , SER A:634 , ASN A:638 , GLN A:740 , HOH A:905 , HOH A:911 , HOH A:916 , HOH A:921 , HOH A:1162 , HOH A:1201 , HOH A:1277 , HOH A:1285
binding site for Poly-Saccharide residues NAG A 814 through MAN A 817 bound to ASN A 638
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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SCOP Domains
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