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5CBM
Biol. Unit 1
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Asym.Unit (1.0 MB)
Biol.Unit 1 (520 KB)
Biol.Unit 2 (518 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PFA-M17 WITH VIRTUAL LIGAND INHIBITOR
Authors
:
C. Ruggeri, N. Drinkwater, S. Mcgowan
Date
:
01 Jul 15 (Deposition) - 07 Oct 15 (Release) - 07 Oct 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
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
:
M17 Leucyl-Aminopeptidase, Protease, Inhibitor, Hydroxamic Acid, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Ruggeri, N. Drinkwater, K. K. Sivaraman, R. S. Bamert, S. Mcgowan, A. Paiardini
Identification And Validation Of A Potent Dual Inhibitor Of The P. Falciparum M1 And M17 Aminopeptidases Using Virtual Screening.
Plos One V. 10 38957 2015
[
close entry info
]
Hetero Components
(5, 41)
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)
1p: PENTAETHYLENE GLYCOL (1PEp)
1q: PENTAETHYLENE GLYCOL (1PEq)
1r: PENTAETHYLENE GLYCOL (1PEr)
1s: PENTAETHYLENE GLYCOL (1PEs)
1t: PENTAETHYLENE GLYCOL (1PEt)
1u: PENTAETHYLENE GLYCOL (1PEu)
1v: PENTAETHYLENE GLYCOL (1PEv)
1w: PENTAETHYLENE GLYCOL (1PEw)
1x: PENTAETHYLENE GLYCOL (1PEx)
1y: PENTAETHYLENE GLYCOL (1PEy)
2a: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNa)
2b: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNb)
2c: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNc)
2d: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNd)
2e: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNe)
2f: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNf)
2g: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNg)
2h: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNh)
2i: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNi)
2j: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNj)
2k: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNk)
2l: (2S)-2-{[(R)-[(R)-AMINO(PHENYL)MET... (4ZNl)
3a: CARBONATE ION (CO3a)
3b: CARBONATE ION (CO3b)
3c: CARBONATE ION (CO3c)
3d: CARBONATE ION (CO3d)
3e: CARBONATE ION (CO3e)
3f: CARBONATE ION (CO3f)
3g: CARBONATE ION (CO3g)
3h: CARBONATE ION (CO3h)
3i: CARBONATE ION (CO3i)
3j: CARBONATE ION (CO3j)
3k: CARBONATE ION (CO3k)
3l: CARBONATE ION (CO3l)
4a: GLYCEROL (GOLa)
5a: SULFATE ION (SO4a)
5aa: SULFATE ION (SO4aa)
5ab: SULFATE ION (SO4ab)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
5g: SULFATE ION (SO4g)
5h: SULFATE ION (SO4h)
5i: SULFATE ION (SO4i)
5j: SULFATE ION (SO4j)
5k: SULFATE ION (SO4k)
5l: SULFATE ION (SO4l)
5m: SULFATE ION (SO4m)
5n: SULFATE ION (SO4n)
5o: SULFATE ION (SO4o)
5p: SULFATE ION (SO4p)
5q: SULFATE ION (SO4q)
5r: SULFATE ION (SO4r)
5s: SULFATE ION (SO4s)
5t: SULFATE ION (SO4t)
5u: SULFATE ION (SO4u)
5v: SULFATE ION (SO4v)
5w: SULFATE ION (SO4w)
5x: SULFATE ION (SO4x)
5y: SULFATE ION (SO4y)
5z: SULFATE ION (SO4z)
6a: ZINC ION (ZNa)
6b: ZINC ION (ZNb)
6c: ZINC ION (ZNc)
6d: ZINC ION (ZNd)
6e: ZINC ION (ZNe)
6f: ZINC ION (ZNf)
6g: ZINC ION (ZNg)
6h: ZINC ION (ZNh)
6i: ZINC ION (ZNi)
6j: ZINC ION (ZNj)
6k: ZINC ION (ZNk)
6l: ZINC ION (ZNl)
6m: ZINC ION (ZNm)
6n: ZINC ION (ZNn)
6o: ZINC ION (ZNo)
6p: ZINC ION (ZNp)
6q: ZINC ION (ZNq)
6r: ZINC ION (ZNr)
6s: ZINC ION (ZNs)
6t: ZINC ION (ZNt)
6u: ZINC ION (ZNu)
6v: ZINC ION (ZNv)
6w: ZINC ION (ZNw)
6x: ZINC ION (ZNx)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1PE
11
Ligand/Ion
PENTAETHYLENE GLYCOL
2
4ZN
6
Ligand/Ion
(2S)-2-{[(R)-[(R)-AMINO(PHENYL)METHYL](HYDROXY)PHOSPHORYL]METHYL}-4-METHYLPENTANOIC ACID
3
CO3
6
Ligand/Ion
CARBONATE ION
4
GOL
1
Ligand/Ion
GLYCEROL
5
SO4
17
Ligand/Ion
SULFATE ION
6
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(56, 56)
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)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
25: AE7 (SOFTWARE)
26: AE8 (SOFTWARE)
27: AE9 (SOFTWARE)
28: AF1 (SOFTWARE)
29: AF2 (SOFTWARE)
30: AF3 (SOFTWARE)
31: AF4 (SOFTWARE)
32: AF5 (SOFTWARE)
33: AF6 (SOFTWARE)
34: AF7 (SOFTWARE)
35: AF8 (SOFTWARE)
36: AF9 (SOFTWARE)
37: AG1 (SOFTWARE)
38: AG2 (SOFTWARE)
39: AG3 (SOFTWARE)
40: AG4 (SOFTWARE)
41: AG5 (SOFTWARE)
42: AG6 (SOFTWARE)
43: AG7 (SOFTWARE)
44: AG8 (SOFTWARE)
45: AG9 (SOFTWARE)
46: AH1 (SOFTWARE)
47: AH2 (SOFTWARE)
48: AH3 (SOFTWARE)
49: AH4 (SOFTWARE)
50: AH5 (SOFTWARE)
51: AH6 (SOFTWARE)
52: AH7 (SOFTWARE)
53: AH8 (SOFTWARE)
54: AI5 (SOFTWARE)
55: AI6 (SOFTWARE)
56: AJ7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:374 , ALA A:460 , GLU A:461 , GLY A:462 , ARG A:463 , LEU A:487 , 4ZN A:704 , HOH A:924
binding site for residue CO3 A 701
02
AC2
SOFTWARE
LYS A:374 , ASP A:379 , ASP A:399 , GLU A:461 , ZN A:703 , 4ZN A:704
binding site for residue ZN A 702
03
AC3
SOFTWARE
ASP A:379 , LYS A:386 , ASP A:459 , GLU A:461 , ZN A:702 , 4ZN A:704
binding site for residue ZN A 703
04
AC4
SOFTWARE
LYS A:374 , ASP A:379 , LYS A:386 , MET A:396 , PHE A:398 , ASP A:399 , ASP A:459 , GLU A:461 , THR A:486 , LEU A:487 , THR A:488 , GLY A:489 , CO3 A:701 , ZN A:702 , ZN A:703 , HOH A:804 , HOH A:924
binding site for residue 4ZN A 704
05
AC5
SOFTWARE
TYR A:103 , ASN A:104 , HIS A:108 , TYR A:411
binding site for residue 1PE A 705
06
AC6
SOFTWARE
GLU A:316 , LYS A:320 , SO4 A:708
binding site for residue 1PE A 706
07
AC7
SOFTWARE
ASN A:505 , ASN A:506 , ASN A:568 , ALA A:570
binding site for residue GOL A 707
08
AC8
SOFTWARE
TYR A:103 , ASN A:104 , 1PE A:706
binding site for residue SO4 A 708
09
AC9
SOFTWARE
GLY A:390 , SER A:391 , MET A:392
binding site for residue SO4 A 709
10
AD1
SOFTWARE
GLY A:126 , LEU A:219 , SER A:220 , HOH A:878
binding site for residue SO4 A 710
11
AD2
SOFTWARE
MET A:392 , LEU A:492 , PHE A:583 , LYS F:552
binding site for residue SO4 A 711
12
AD3
SOFTWARE
ARG A:463 , GLN A:546 , ILE A:547 , SER A:548 , SER A:554 , VAL A:557 , HOH A:900
binding site for residue SO4 A 712
13
AD4
SOFTWARE
ALA B:460 , GLU B:461 , GLY B:462 , ARG B:463 , LEU B:487 , 4ZN B:704 , HOH B:955
binding site for residue CO3 B 701
14
AD5
SOFTWARE
LYS B:374 , ASP B:379 , ASP B:399 , GLU B:461 , ZN B:703 , 4ZN B:704
binding site for residue ZN B 702
15
AD6
SOFTWARE
ASP B:379 , ASP B:459 , GLU B:461 , ZN B:702 , 4ZN B:704
binding site for residue ZN B 703
16
AD7
SOFTWARE
LYS B:374 , ASP B:379 , LYS B:386 , MET B:396 , PHE B:398 , ASP B:399 , ASP B:459 , GLU B:461 , THR B:486 , LEU B:487 , GLY B:489 , CO3 B:701 , ZN B:702 , ZN B:703 , HOH B:955
binding site for residue 4ZN B 704
17
AD8
SOFTWARE
TYR B:103 , ASN B:104 , HIS B:108 , LYS B:320 , 1PE B:706
binding site for residue 1PE B 705
18
AD9
SOFTWARE
TYR B:103 , GLU B:316 , LYS B:320 , 1PE B:705 , 1PE H:706
binding site for residue 1PE B 706
19
AE1
SOFTWARE
SER A:435 , LYS A:436 , SER B:435 , LYS B:436 , SER C:435 , LYS C:436
binding site for residue SO4 B 707
20
AE2
SOFTWARE
LYS C:374 , ALA C:460 , GLU C:461 , GLY C:462 , ARG C:463 , LEU C:487 , 4ZN C:704
binding site for residue CO3 C 701
21
AE3
SOFTWARE
LYS C:374 , ASP C:379 , ASP C:399 , GLU C:461 , ZN C:703 , 4ZN C:704
binding site for residue ZN C 702
22
AE4
SOFTWARE
ASP C:379 , ASP C:459 , GLU C:461 , ZN C:702 , 4ZN C:704
binding site for residue ZN C 703
23
AE5
SOFTWARE
LYS C:374 , ASP C:379 , LYS C:386 , MET C:396 , ASP C:399 , ASP C:459 , GLU C:461 , THR C:486 , LEU C:487 , GLY C:489 , CO3 C:701 , ZN C:702 , ZN C:703 , HOH C:807 , HOH C:812 , HOH C:912 , HOH C:1002
binding site for residue 4ZN C 704
24
AE6
SOFTWARE
TYR C:103 , GLU C:316 , GLN C:319 , LYS C:320
binding site for residue 1PE C 705
25
AE7
SOFTWARE
TYR C:103 , ASN C:104 , HIS C:108 , TYR C:411 , HOH C:938 , HOH C:974
binding site for residue 1PE C 706
26
AE8
SOFTWARE
GLU C:102 , TYR C:103 , ASN C:104 , HOH C:831 , HOH C:947
binding site for residue SO4 C 707
27
AE9
SOFTWARE
ALA C:388 , PRO C:389 , GLY C:390 , SER C:391 , MET C:392 , HOH C:804
binding site for residue SO4 C 708
28
AF1
SOFTWARE
MET C:392 , LEU C:492 , PHE C:583 , HOH C:927 , LYS D:552
binding site for residue SO4 C 709
29
AF2
SOFTWARE
ILE C:529 , ILE C:530 , ASN C:531 , GLU C:532 , HOH C:820 , TYR D:499 , HOH D:957
binding site for residue SO4 C 710
30
AF3
SOFTWARE
ARG C:463 , GLN C:546 , ILE C:547 , SER C:548 , VAL C:551 , SER C:554 , VAL C:557 , HOH C:814
binding site for residue SO4 C 711
31
AF4
SOFTWARE
LYS D:374 , ALA D:460 , GLU D:461 , GLY D:462 , ARG D:463 , LEU D:487 , 4ZN D:704
binding site for residue CO3 D 701
32
AF5
SOFTWARE
LYS D:374 , ASP D:379 , ASP D:399 , GLU D:461 , ZN D:703 , 4ZN D:704
binding site for residue ZN D 702
33
AF6
SOFTWARE
ASP D:379 , ASP D:459 , GLU D:461 , ZN D:702 , 4ZN D:704
binding site for residue ZN D 703
34
AF7
SOFTWARE
LYS D:374 , ASP D:379 , LYS D:386 , MET D:392 , PHE D:398 , ASP D:399 , ASP D:459 , GLU D:461 , ARG D:463 , THR D:486 , LEU D:487 , THR D:488 , GLY D:489 , SER D:554 , CO3 D:701 , ZN D:702 , ZN D:703 , HOH D:803 , HOH D:833
binding site for residue 4ZN D 704
35
AF8
SOFTWARE
TYR D:103 , GLU D:316 , LYS D:320
binding site for residue 1PE D 705
36
AF9
SOFTWARE
TYR D:103 , ASN D:104 , HIS D:108 , TYR D:411
binding site for residue 1PE D 706
37
AG1
SOFTWARE
ILE D:101 , GLU D:102 , TYR D:103 , ASN D:104
binding site for residue SO4 D 707
38
AG2
SOFTWARE
LYS E:374 , ALA E:460 , GLU E:461 , GLY E:462 , ARG E:463 , LEU E:487 , 4ZN E:704
binding site for residue CO3 E 701
39
AG3
SOFTWARE
LYS E:374 , ASP E:379 , ASP E:399 , GLU E:461 , ZN E:703 , 4ZN E:704
binding site for residue ZN E 702
40
AG4
SOFTWARE
ASP E:379 , ASP E:459 , GLU E:461 , ZN E:702 , 4ZN E:704
binding site for residue ZN E 703
41
AG5
SOFTWARE
LYS E:374 , ASP E:379 , LYS E:386 , MET E:396 , PHE E:398 , ASP E:399 , ASP E:459 , ALA E:460 , GLU E:461 , THR E:486 , LEU E:487 , THR E:488 , GLY E:489 , CO3 E:701 , ZN E:702 , ZN E:703 , HOH E:963 , HOH E:1004
binding site for residue 4ZN E 704
42
AG6
SOFTWARE
TYR E:103 , GLU E:316 , GLN E:319 , LYS E:320
binding site for residue 1PE E 705
43
AG7
SOFTWARE
TYR E:103 , PHE E:289 , TYR E:411
binding site for residue 1PE E 706
44
AG8
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 707
45
AG9
SOFTWARE
GLU E:102 , TYR E:103 , ASN E:104
binding site for residue SO4 E 708
46
AH1
SOFTWARE
HIS E:215 , TYR E:246 , GLU E:262 , TYR E:263 , HOH E:996
binding site for residue SO4 E 709
47
AH2
SOFTWARE
LYS F:374 , ALA F:460 , GLY F:462 , ARG F:463 , LEU F:487 , 4ZN F:704
binding site for residue CO3 F 701
48
AH3
SOFTWARE
LYS F:374 , ASP F:379 , ASP F:399 , GLU F:461 , ZN F:703 , 4ZN F:704
binding site for residue ZN F 702
49
AH4
SOFTWARE
ASP F:379 , ASP F:459 , GLU F:461 , ZN F:702 , 4ZN F:704
binding site for residue ZN F 703
50
AH5
SOFTWARE
LYS F:374 , ASP F:379 , LYS F:386 , PHE F:398 , ASP F:399 , ASP F:459 , GLU F:461 , THR F:486 , LEU F:487 , THR F:488 , GLY F:489 , CO3 F:701 , ZN F:702 , ZN F:703 , HOH F:837
binding site for residue 4ZN F 704
51
AH6
SOFTWARE
TYR F:103 , HIS F:108 , TYR F:411
binding site for residue 1PE F 705
52
AH7
SOFTWARE
GLU F:102 , TYR F:103 , ASN F:104 , HOH F:808 , HOH F:852 , HOH F:954
binding site for residue SO4 F 706
53
AH8
SOFTWARE
HIS F:215 , TYR F:246 , GLU F:262 , HOH F:811
binding site for residue SO4 F 707
54
AI5
SOFTWARE
TYR A:115 , ASN A:122 , TYR A:270 , TYR G:115 , ASN G:122 , TYR G:270 , 1PE G:707
binding site for residue 1PE G 706
55
AI6
SOFTWARE
ASN A:122 , ASN G:122 , 1PE G:706 , HOH G:983
binding site for residue 1PE G 707
56
AJ7
SOFTWARE
1PE B:706 , TYR H:103 , LYS H:320 , TYR H:411
binding site for residue 1PE H 706
[
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SAPs(SNPs)/Variants
(0, 0)
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Exons
(0, 0)
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