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5CBM
Biol. Unit 2
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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
(4, 37)
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
14
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
11
Ligand/Ion
SULFATE ION
6
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(50, 50)
Info
All Sites
01: AD9 (SOFTWARE)
02: AH9 (SOFTWARE)
03: AI1 (SOFTWARE)
04: AI2 (SOFTWARE)
05: AI3 (SOFTWARE)
06: AI4 (SOFTWARE)
07: AI5 (SOFTWARE)
08: AI6 (SOFTWARE)
09: AI7 (SOFTWARE)
10: AI8 (SOFTWARE)
11: AI9 (SOFTWARE)
12: AJ1 (SOFTWARE)
13: AJ2 (SOFTWARE)
14: AJ3 (SOFTWARE)
15: AJ4 (SOFTWARE)
16: AJ5 (SOFTWARE)
17: AJ6 (SOFTWARE)
18: AJ7 (SOFTWARE)
19: AJ8 (SOFTWARE)
20: AJ9 (SOFTWARE)
21: AK1 (SOFTWARE)
22: AK2 (SOFTWARE)
23: AK3 (SOFTWARE)
24: AK4 (SOFTWARE)
25: AK5 (SOFTWARE)
26: AK6 (SOFTWARE)
27: AK7 (SOFTWARE)
28: AK8 (SOFTWARE)
29: AK9 (SOFTWARE)
30: AL1 (SOFTWARE)
31: AL2 (SOFTWARE)
32: AL3 (SOFTWARE)
33: AL4 (SOFTWARE)
34: AL5 (SOFTWARE)
35: AL6 (SOFTWARE)
36: AL7 (SOFTWARE)
37: AL8 (SOFTWARE)
38: AL9 (SOFTWARE)
39: AM1 (SOFTWARE)
40: AM2 (SOFTWARE)
41: AM3 (SOFTWARE)
42: AM4 (SOFTWARE)
43: AM5 (SOFTWARE)
44: AM6 (SOFTWARE)
45: AM7 (SOFTWARE)
46: AM8 (SOFTWARE)
47: AM9 (SOFTWARE)
48: AN1 (SOFTWARE)
49: AN2 (SOFTWARE)
50: AN3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AD9
SOFTWARE
TYR B:103 , GLU B:316 , LYS B:320 , 1PE B:705 , 1PE H:706
binding site for residue 1PE B 706
02
AH9
SOFTWARE
LYS G:374 , ALA G:460 , GLU G:461 , GLY G:462 , ARG G:463 , LEU G:487 , 4ZN G:704 , HOH G:920
binding site for residue CO3 G 701
03
AI1
SOFTWARE
LYS G:374 , ASP G:379 , ASP G:399 , GLU G:461 , ZN G:703 , 4ZN G:704
binding site for residue ZN G 702
04
AI2
SOFTWARE
ASP G:379 , ASP G:459 , GLU G:461 , ZN G:702 , 4ZN G:704
binding site for residue ZN G 703
05
AI3
SOFTWARE
LYS G:374 , ASP G:379 , LYS G:386 , MET G:396 , ASP G:399 , ASP G:459 , GLU G:461 , THR G:486 , LEU G:487 , GLY G:489 , ALA G:577 , CO3 G:701 , ZN G:702 , ZN G:703 , HOH G:920 , HOH G:949
binding site for residue 4ZN G 704
06
AI4
SOFTWARE
TYR G:103 , ASN G:104 , HIS G:108 , TYR G:411
binding site for residue 1PE G 705
07
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
08
AI6
SOFTWARE
ASN A:122 , ASN G:122 , 1PE G:706 , HOH G:983
binding site for residue 1PE G 707
09
AI7
SOFTWARE
ILE G:101 , GLU G:102 , TYR G:103 , ASN G:104
binding site for residue SO4 G 708
10
AI8
SOFTWARE
SER G:435 , LYS G:436 , SER H:435 , LYS H:436 , SER I:435 , LYS I:436
binding site for residue SO4 G 709
11
AI9
SOFTWARE
GLY G:126 , LYS G:218 , LEU G:219 , SER G:220 , LYS J:164
binding site for residue SO4 G 710
12
AJ1
SOFTWARE
ARG G:463 , GLN G:546 , ILE G:547 , SER G:548 , SER G:554 , VAL G:557
binding site for residue SO4 G 711
13
AJ2
SOFTWARE
LYS H:374 , ALA H:460 , GLU H:461 , GLY H:462 , ARG H:463 , LEU H:487 , 4ZN H:704 , HOH H:944
binding site for residue CO3 H 701
14
AJ3
SOFTWARE
LYS H:374 , ASP H:379 , ASP H:399 , GLU H:461 , ZN H:703 , 4ZN H:704
binding site for residue ZN H 702
15
AJ4
SOFTWARE
ASP H:379 , ASP H:459 , GLU H:461 , ZN H:702 , 4ZN H:704
binding site for residue ZN H 703
16
AJ5
SOFTWARE
LYS H:374 , ASP H:379 , LYS H:386 , MET H:396 , ASP H:399 , ASP H:459 , GLU H:461 , THR H:486 , LEU H:487 , THR H:488 , GLY H:489 , CO3 H:701 , ZN H:702 , ZN H:703 , HOH H:832
binding site for residue 4ZN H 704
17
AJ6
SOFTWARE
TYR H:103 , GLU H:316 , LYS H:320
binding site for residue 1PE H 705
18
AJ7
SOFTWARE
1PE B:706 , TYR H:103 , LYS H:320 , TYR H:411
binding site for residue 1PE H 706
19
AJ8
SOFTWARE
LYS I:374 , ALA I:460 , GLU I:461 , GLY I:462 , ARG I:463 , LEU I:487 , 4ZN I:704
binding site for residue CO3 I 701
20
AJ9
SOFTWARE
LYS I:374 , ASP I:379 , ASP I:399 , GLU I:461 , ZN I:703 , 4ZN I:704
binding site for residue ZN I 702
21
AK1
SOFTWARE
ASP I:379 , ASP I:459 , GLU I:461 , ZN I:702 , 4ZN I:704
binding site for residue ZN I 703
22
AK2
SOFTWARE
LYS I:374 , ASP I:379 , LYS I:386 , MET I:392 , MET I:396 , PHE I:398 , ASP I:399 , ASP I:459 , GLU I:461 , THR I:486 , LEU I:487 , GLY I:489 , CO3 I:701 , ZN I:702 , ZN I:703 , HOH I:985 , HOH I:1004
binding site for residue 4ZN I 704
23
AK3
SOFTWARE
TYR I:103 , GLU I:316 , LYS I:320
binding site for residue 1PE I 705
24
AK4
SOFTWARE
TYR I:103 , ASN I:104 , HIS I:108 , PHE I:289 , TYR I:411 , HOH I:973 , HOH I:974
binding site for residue 1PE I 706
25
AK5
SOFTWARE
ILE I:101 , GLU I:102 , TYR I:103 , ASN I:104
binding site for residue SO4 I 707
26
AK6
SOFTWARE
GLY I:126 , SER I:220
binding site for residue SO4 I 708
27
AK7
SOFTWARE
LYS J:374 , ALA J:460 , GLU J:461 , GLY J:462 , ARG J:463 , LEU J:487 , 4ZN J:704
binding site for residue CO3 J 701
28
AK8
SOFTWARE
LYS J:374 , ASP J:379 , ASP J:399 , GLU J:461 , ZN J:703 , 4ZN J:704
binding site for residue ZN J 702
29
AK9
SOFTWARE
ASP J:379 , LYS J:386 , ASP J:459 , GLU J:461 , ZN J:702 , 4ZN J:704
binding site for residue ZN J 703
30
AL1
SOFTWARE
LYS J:374 , ASP J:379 , LYS J:386 , MET J:392 , MET J:396 , PHE J:398 , ASP J:399 , ASP J:459 , GLU J:461 , THR J:486 , LEU J:487 , THR J:488 , GLY J:489 , CO3 J:701 , ZN J:702 , ZN J:703 , HOH J:831 , HOH J:849 , HOH J:1000 , HOH J:1050
binding site for residue 4ZN J 704
31
AL2
SOFTWARE
SER J:254 , ASN L:449 , LYS L:451 , ASP L:543 , GLN L:567
binding site for residue 1PE J 705
32
AL3
SOFTWARE
TYR J:103 , GLU J:316 , LYS J:320
binding site for residue 1PE J 706
33
AL4
SOFTWARE
TYR J:103 , ASN J:104 , HIS J:108 , LYS J:320 , TYR J:411
binding site for residue 1PE J 707
34
AL5
SOFTWARE
SER J:435 , LYS J:436 , SER K:435 , LYS K:436 , SER L:435 , LYS L:436
binding site for residue SO4 J 708
35
AL6
SOFTWARE
ILE J:101 , TYR J:103 , ASN J:104
binding site for residue SO4 J 709
36
AL7
SOFTWARE
LYS K:374 , ALA K:460 , GLU K:461 , GLY K:462 , ARG K:463 , LEU K:487 , 4ZN K:704
binding site for residue CO3 K 701
37
AL8
SOFTWARE
LYS K:374 , ASP K:379 , ASP K:399 , GLU K:461 , ZN K:703 , 4ZN K:704
binding site for residue ZN K 702
38
AL9
SOFTWARE
ASP K:379 , ASP K:459 , GLU K:461 , ZN K:702 , 4ZN K:704
binding site for residue ZN K 703
39
AM1
SOFTWARE
LYS K:374 , ASP K:379 , LYS K:386 , MET K:396 , PHE K:398 , ASP K:399 , ASP K:459 , GLU K:461 , THR K:486 , LEU K:487 , GLY K:489 , CO3 K:701 , ZN K:702 , ZN K:703 , HOH K:943 , HOH K:1004
binding site for residue 4ZN K 704
40
AM2
SOFTWARE
TYR K:103 , GLU K:316 , GLN K:319 , LYS K:320 , SO4 K:707 , HOH K:1046
binding site for residue 1PE K 705
41
AM3
SOFTWARE
TYR K:103 , TYR K:411
binding site for residue 1PE K 706
42
AM4
SOFTWARE
ILE K:101 , GLU K:102 , TYR K:103 , ASN K:104 , 1PE K:705
binding site for residue SO4 K 707
43
AM5
SOFTWARE
GLY K:390 , SER K:391 , MET K:392
binding site for residue SO4 K 708
44
AM6
SOFTWARE
LYS L:374 , ALA L:460 , GLU L:461 , GLY L:462 , ARG L:463 , LEU L:487 , 4ZN L:704
binding site for residue CO3 L 701
45
AM7
SOFTWARE
LYS L:374 , ASP L:379 , ASP L:399 , GLU L:461 , ZN L:703 , 4ZN L:704
binding site for residue ZN L 702
46
AM8
SOFTWARE
ASP L:379 , LYS L:386 , ASP L:459 , GLU L:461 , ZN L:702 , 4ZN L:704
binding site for residue ZN L 703
47
AM9
SOFTWARE
LYS L:374 , ASP L:379 , LYS L:386 , PHE L:398 , ASP L:399 , ASP L:459 , GLU L:461 , THR L:486 , LEU L:487 , THR L:488 , GLY L:489 , CO3 L:701 , ZN L:702 , ZN L:703 , HOH L:859
binding site for residue 4ZN L 704
48
AN1
SOFTWARE
GLU G:200 , SER G:498 , TYR G:499 , ILE L:529 , ILE L:530 , ASN L:531 , GLU L:532
binding site for residue 1PE L 705
49
AN2
SOFTWARE
TYR L:103 , ASN L:104 , HIS L:108 , TYR L:411 , HOH L:830
binding site for residue 1PE L 706
50
AN3
SOFTWARE
GLU L:102 , TYR L:103 , ASN L:104
binding site for residue SO4 L 707
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