PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
4R76
Biol. Unit 1
Info
Asym.Unit (1.9 MB)
Biol.Unit 1 (988 KB)
Biol.Unit 2 (990 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF THE M17 LEUCYL AMINOPEPTIDASE FROM MALARIA COMPLEXED WITH A HYDROXAMIC ACID-BASED INHIBITOR
Authors
:
N. Drinkwater, S. Mcgowan
Date
:
27 Aug 14 (Deposition) - 29 Oct 14 (Release) - 26 Nov 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: G,H,I,J,K,L (1x)
Keywords
:
Protease, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. N. Mistry, N. Drinkwater, C. Ruggeri, K. K. Sivaraman, S. Loganathan, S. Fletcher, M. Drag, A. Paiardini, V. M. Avery, P. J. Scammells, S. Mcgowan
Two-Pronged Attack: Dual Inhibition Of Plasmodium Falciparu M1 And M17 Metalloaminopeptidases By A Novel Series Of Hydroxamic Acid-Based Inhibitors.
J. Med. Chem. V. 57 9168 2014
[
close entry info
]
Hetero Components
(4, 24)
Info
All Hetero Components
1a: PENTAETHYLENE GLYCOL (1PEa)
1b: PENTAETHYLENE GLYCOL (1PEb)
1c: PENTAETHYLENE GLYCOL (1PEc)
1d: PENTAETHYLENE GLYCOL (1PEd)
1e: PENTAETHYLENE GLYCOL (1PEe)
1f: PENTAETHYLENE GLYCOL (1PEf)
1g: PENTAETHYLENE GLYCOL (1PEg)
1h: PENTAETHYLENE GLYCOL (1PEh)
1i: PENTAETHYLENE GLYCOL (1PEi)
1j: PENTAETHYLENE GLYCOL (1PEj)
1k: PENTAETHYLENE GLYCOL (1PEk)
1l: PENTAETHYLENE GLYCOL (1PEl)
1m: PENTAETHYLENE GLYCOL (1PEm)
1n: PENTAETHYLENE GLYCOL (1PEn)
1o: PENTAETHYLENE GLYCOL (1PEo)
2a: CARBONATE ION (CO3a)
2b: CARBONATE ION (CO3b)
2c: CARBONATE ION (CO3c)
2d: CARBONATE ION (CO3d)
2e: CARBONATE ION (CO3e)
2f: CARBONATE ION (CO3f)
2g: CARBONATE ION (CO3g)
2h: CARBONATE ION (CO3h)
2i: CARBONATE ION (CO3i)
2j: CARBONATE ION (CO3j)
2k: CARBONATE ION (CO3k)
2l: CARBONATE ION (CO3l)
3a: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xa)
3b: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xb)
3c: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xc)
3d: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xd)
3e: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xe)
3f: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xf)
3g: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xg)
3h: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xh)
3i: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xi)
3j: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xj)
3k: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xk)
3l: 3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2... (R5Xl)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
4e: SULFATE ION (SO4e)
4f: SULFATE ION (SO4f)
4g: SULFATE ION (SO4g)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
5e: ZINC ION (ZNe)
5f: ZINC ION (ZNf)
5g: ZINC ION (ZNg)
5h: ZINC ION (ZNh)
5i: ZINC ION (ZNi)
5j: ZINC ION (ZNj)
5k: ZINC ION (ZNk)
5l: ZINC ION (ZNl)
5m: ZINC ION (ZNm)
5n: ZINC ION (ZNn)
5o: ZINC ION (ZNo)
5p: ZINC ION (ZNp)
5q: ZINC ION (ZNq)
5r: ZINC ION (ZNr)
5s: ZINC ION (ZNs)
5t: ZINC ION (ZNt)
5u: ZINC ION (ZNu)
5v: ZINC ION (ZNv)
5w: ZINC ION (ZNw)
5x: ZINC ION (ZNx)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1PE
7
Ligand/Ion
PENTAETHYLENE GLYCOL
2
CO3
6
Ligand/Ion
CARBONATE ION
3
R5X
6
Ligand/Ion
3-AMINO-N-{(1R)-2-(HYDROXYAMINO)-2-OXO-1-[4-(1H-PYRAZOL-1-YL)PHENYL]ETHYL}BENZAMIDE
4
SO4
5
Ligand/Ion
SULFATE ION
5
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(36, 36)
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)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:374 , ASP A:379 , ASP A:399 , GLU A:461 , ZN A:1003 , R5X A:1004 , HOH A:1270
BINDING SITE FOR RESIDUE ZN A 1001
02
AC2
SOFTWARE
LYS A:374 , ALA A:460 , GLY A:462 , ARG A:463 , LEU A:487 , R5X A:1004
BINDING SITE FOR RESIDUE CO3 A 1002
03
AC3
SOFTWARE
ASP A:379 , ASP A:459 , GLU A:461 , ZN A:1001 , R5X A:1004
BINDING SITE FOR RESIDUE ZN A 1003
04
AC4
SOFTWARE
LYS A:374 , ASP A:379 , LYS A:386 , MET A:392 , ASP A:459 , GLU A:461 , LEU A:487 , THR A:488 , GLY A:489 , LEU A:492 , ALA A:577 , ZN A:1001 , CO3 A:1002 , ZN A:1003 , HOH A:1144 , HOH A:1270
BINDING SITE FOR RESIDUE R5X A 1004
05
AC5
SOFTWARE
SER A:435 , LYS A:436 , SER B:435 , LYS B:436 , SER C:435 , LYS C:436
BINDING SITE FOR RESIDUE SO4 A 1005
06
AC6
SOFTWARE
TYR A:244 , ASP A:249 , TYR A:292 , SER A:295 , HOH A:1174 , TYR C:541
BINDING SITE FOR RESIDUE SO4 A 1006
07
AC7
SOFTWARE
LYS B:374 , ASP B:379 , ASP B:399 , GLU B:461 , ZN B:1003 , R5X B:1004 , HOH B:1225
BINDING SITE FOR RESIDUE ZN B 1001
08
AC8
SOFTWARE
LYS B:374 , ALA B:460 , GLU B:461 , GLY B:462 , ARG B:463 , LEU B:487 , R5X B:1004
BINDING SITE FOR RESIDUE CO3 B 1002
09
AC9
SOFTWARE
ASP B:379 , ASP B:459 , GLU B:461 , ZN B:1001 , R5X B:1004
BINDING SITE FOR RESIDUE ZN B 1003
10
BC1
SOFTWARE
LYS B:374 , ASP B:379 , LYS B:386 , PHE B:398 , ASN B:457 , ASP B:459 , GLU B:461 , LEU B:487 , THR B:488 , GLY B:489 , ALA B:577 , ZN B:1001 , CO3 B:1002 , ZN B:1003 , HOH B:1134 , HOH B:1225
BINDING SITE FOR RESIDUE R5X B 1004
11
BC2
SOFTWARE
TYR B:103 , GLU B:316 , LYS B:320 , 1PE B:1006
BINDING SITE FOR RESIDUE 1PE B 1005
12
BC3
SOFTWARE
TYR B:103 , HIS B:108 , PHE B:289 , LYS B:320 , TYR B:411 , 1PE B:1005
BINDING SITE FOR RESIDUE 1PE B 1006
13
BC4
SOFTWARE
LYS C:374 , ASP C:379 , ASP C:399 , GLU C:461 , ZN C:1003 , R5X C:1004 , HOH C:1255
BINDING SITE FOR RESIDUE ZN C 1001
14
BC5
SOFTWARE
LYS C:374 , ALA C:460 , GLY C:462 , ARG C:463 , LEU C:487 , R5X C:1004
BINDING SITE FOR RESIDUE CO3 C 1002
15
BC6
SOFTWARE
ASP C:379 , ASP C:459 , GLU C:461 , ZN C:1001 , R5X C:1004
BINDING SITE FOR RESIDUE ZN C 1003
16
BC7
SOFTWARE
LYS C:374 , ASP C:379 , LYS C:386 , MET C:392 , PHE C:398 , ASN C:457 , ASP C:459 , GLU C:461 , LEU C:487 , THR C:488 , GLY C:489 , SER C:554 , ALA C:577 , ZN C:1001 , CO3 C:1002 , ZN C:1003 , HOH C:1251 , HOH C:1255
BINDING SITE FOR RESIDUE R5X C 1004
17
BC8
SOFTWARE
LYS D:374 , ASP D:379 , ASP D:399 , GLU D:461 , ZN D:1003 , R5X D:1004 , HOH D:1274
BINDING SITE FOR RESIDUE ZN D 1001
18
BC9
SOFTWARE
LYS D:374 , ALA D:460 , GLY D:462 , ARG D:463 , LEU D:487 , R5X D:1004
BINDING SITE FOR RESIDUE CO3 D 1002
19
CC1
SOFTWARE
ASP D:379 , ASP D:459 , GLU D:461 , ZN D:1001 , R5X D:1004
BINDING SITE FOR RESIDUE ZN D 1003
20
CC2
SOFTWARE
LYS D:374 , ASP D:379 , LYS D:386 , ASN D:457 , ASP D:459 , GLU D:461 , LEU D:487 , THR D:488 , GLY D:489 , LEU D:492 , SER D:554 , ALA D:577 , ZN D:1001 , CO3 D:1002 , ZN D:1003 , HOH D:1274
BINDING SITE FOR RESIDUE R5X D 1004
21
CC3
SOFTWARE
LYS E:374 , ASP E:379 , ASP E:399 , GLU E:461 , ZN E:1003 , R5X E:1004 , HOH E:1157
BINDING SITE FOR RESIDUE ZN E 1001
22
CC4
SOFTWARE
LYS E:374 , ALA E:460 , GLY E:462 , ARG E:463 , LEU E:487 , R5X E:1004
BINDING SITE FOR RESIDUE CO3 E 1002
23
CC5
SOFTWARE
ASP E:379 , LYS E:386 , ASP E:459 , GLU E:461 , ZN E:1001 , R5X E:1004
BINDING SITE FOR RESIDUE ZN E 1003
24
CC6
SOFTWARE
LYS E:374 , ASP E:379 , LYS E:386 , PHE E:398 , ASN E:457 , ASP E:459 , GLU E:461 , LEU E:487 , THR E:488 , GLY E:489 , ZN E:1001 , CO3 E:1002 , ZN E:1003 , HOH E:1141 , HOH E:1157
BINDING SITE FOR RESIDUE R5X E 1004
25
CC7
SOFTWARE
SER D:435 , LYS D:436 , SER E:435 , LYS E:436 , SER F:435 , LYS F:436
BINDING SITE FOR RESIDUE SO4 E 1005
26
CC8
SOFTWARE
TYR E:103 , HIS E:108 , LEU E:321 , TYR E:411
BINDING SITE FOR RESIDUE 1PE E 1006
27
CC9
SOFTWARE
ASN E:511
BINDING SITE FOR RESIDUE 1PE E 1007
28
DC1
SOFTWARE
LYS F:374 , ASP F:379 , ASP F:399 , GLU F:461 , ZN F:1003 , R5X F:1004 , HOH F:1219
BINDING SITE FOR RESIDUE ZN F 1001
29
DC2
SOFTWARE
GLU E:102 , TYR E:103 , ASN E:104 , HOH E:1178
BINDING SITE FOR RESIDUE SO4 E 1008
30
DC3
SOFTWARE
LYS F:374 , ALA F:460 , GLY F:462 , ARG F:463 , LEU F:487 , R5X F:1004
BINDING SITE FOR RESIDUE CO3 F 1002
31
DC4
SOFTWARE
ASP F:379 , ASP F:459 , GLU F:461 , ZN F:1001 , R5X F:1004
BINDING SITE FOR RESIDUE ZN F 1003
32
DC5
SOFTWARE
LYS F:374 , ASP F:379 , LYS F:386 , MET F:392 , PHE F:398 , ASN F:457 , ASP F:459 , GLU F:461 , LEU F:487 , THR F:488 , GLY F:489 , LEU F:492 , ALA F:577 , ZN F:1001 , CO3 F:1002 , ZN F:1003 , HOH F:1219
BINDING SITE FOR RESIDUE R5X F 1004
33
DC6
SOFTWARE
TYR F:103 , LYS F:320 , SO4 F:1008
BINDING SITE FOR RESIDUE 1PE F 1005
34
DC7
SOFTWARE
TYR F:103 , ASN F:104 , HIS F:108 , LYS F:320 , TYR F:411 , HOH F:1142
BINDING SITE FOR RESIDUE 1PE F 1006
35
DC8
SOFTWARE
SER F:93 , LEU F:94 , ASP F:95
BINDING SITE FOR RESIDUE 1PE F 1007
36
DC9
SOFTWARE
ILE F:101 , TYR F:103 , ASN F:104 , 1PE F:1005 , HOH F:1172
BINDING SITE FOR RESIDUE SO4 F 1008
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Chain E
Chain F
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (1.9 MB)
Header - Asym.Unit
Biol.Unit 1 (988 KB)
Header - Biol.Unit 1
Biol.Unit 2 (990 KB)
Header - Biol.Unit 2
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
4R76
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help