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3ZUK
Biol. Unit 2
Info
Asym.Unit (445 KB)
Biol.Unit 1 (221 KB)
Biol.Unit 2 (220 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS ZINC METALLOPROTEASE ZMP1 IN COMPLEX WITH INHIBITOR
Authors
:
D. M. Ferraris, D. Sbardella, A. Petrera, S. Marini, B. Amstutz, M. Cole P. Sander, M. Rizzi
Date
:
19 Jul 11 (Deposition) - 03 Aug 11 (Release) - 21 Sep 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Hydrolase-Inhibitor Complex, Pathogenicity, Phagosome Maturation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. M. Ferraris, D. Sbardella, A. Petrera, S. Marini, B. Amstutz, M. Coletta, P. Sander, M. Rizzi
Crystal Structure Of Mycobacterium Tuberculosis Zinc-Dependent Metalloprotease-1 (Zmp1), A Metalloprotease Involved In Pathogenicity.
J. Biol. Chem. V. 286 32475 2011
[
close entry info
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Hetero Components
(6, 34)
Info
All Hetero Components
1a: 2,2',2''-NITRILOTRIETHANOL (211a)
2a: ACETATE ION (ACTa)
2b: ACETATE ION (ACTb)
2c: ACETATE ION (ACTc)
2d: ACETATE ION (ACTd)
2e: ACETATE ION (ACTe)
2f: ACETATE ION (ACTf)
2g: ACETATE ION (ACTg)
2h: ACETATE ION (ACTh)
2i: ACETATE ION (ACTi)
2j: ACETATE ION (ACTj)
2k: ACETATE ION (ACTk)
2l: ACETATE ION (ACTl)
2m: ACETATE ION (ACTm)
3a: CALCIUM ION (CAa)
4a: CHLORIDE ION (CLa)
4b: CHLORIDE ION (CLb)
4c: CHLORIDE ION (CLc)
5a: DI(HYDROXYETHYL)ETHER (PEGa)
5aa: DI(HYDROXYETHYL)ETHER (PEGaa)
5ab: DI(HYDROXYETHYL)ETHER (PEGab)
5ac: DI(HYDROXYETHYL)ETHER (PEGac)
5ad: DI(HYDROXYETHYL)ETHER (PEGad)
5b: DI(HYDROXYETHYL)ETHER (PEGb)
5c: DI(HYDROXYETHYL)ETHER (PEGc)
5d: DI(HYDROXYETHYL)ETHER (PEGd)
5e: DI(HYDROXYETHYL)ETHER (PEGe)
5f: DI(HYDROXYETHYL)ETHER (PEGf)
5g: DI(HYDROXYETHYL)ETHER (PEGg)
5h: DI(HYDROXYETHYL)ETHER (PEGh)
5i: DI(HYDROXYETHYL)ETHER (PEGi)
5j: DI(HYDROXYETHYL)ETHER (PEGj)
5k: DI(HYDROXYETHYL)ETHER (PEGk)
5l: DI(HYDROXYETHYL)ETHER (PEGl)
5m: DI(HYDROXYETHYL)ETHER (PEGm)
5n: DI(HYDROXYETHYL)ETHER (PEGn)
5o: DI(HYDROXYETHYL)ETHER (PEGo)
5p: DI(HYDROXYETHYL)ETHER (PEGp)
5q: DI(HYDROXYETHYL)ETHER (PEGq)
5r: DI(HYDROXYETHYL)ETHER (PEGr)
5s: DI(HYDROXYETHYL)ETHER (PEGs)
5t: DI(HYDROXYETHYL)ETHER (PEGt)
5u: DI(HYDROXYETHYL)ETHER (PEGu)
5v: DI(HYDROXYETHYL)ETHER (PEGv)
5w: DI(HYDROXYETHYL)ETHER (PEGw)
5x: DI(HYDROXYETHYL)ETHER (PEGx)
5y: DI(HYDROXYETHYL)ETHER (PEGy)
5z: DI(HYDROXYETHYL)ETHER (PEGz)
6a: TETRAETHYLENE GLYCOL (PG4a)
6b: TETRAETHYLENE GLYCOL (PG4b)
6c: TETRAETHYLENE GLYCOL (PG4c)
6d: TETRAETHYLENE GLYCOL (PG4d)
7a: TRIETHYLENE GLYCOL (PGEa)
7b: TRIETHYLENE GLYCOL (PGEb)
7c: TRIETHYLENE GLYCOL (PGEc)
7d: TRIETHYLENE GLYCOL (PGEd)
7e: TRIETHYLENE GLYCOL (PGEe)
7f: TRIETHYLENE GLYCOL (PGEf)
7g: TRIETHYLENE GLYCOL (PGEg)
7h: TRIETHYLENE GLYCOL (PGEh)
8a: N-ALPHA-L-RHAMNOPYRANOSYLOXY(HYDRO... (RDFa)
8b: N-ALPHA-L-RHAMNOPYRANOSYLOXY(HYDRO... (RDFb)
9a: SULFATE ION (SO4a)
9b: SULFATE ION (SO4b)
9c: SULFATE ION (SO4c)
9d: SULFATE ION (SO4d)
9e: SULFATE ION (SO4e)
9f: SULFATE ION (SO4f)
10a: ZINC ION (ZNa)
10b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
211
-1
Ligand/Ion
2,2',2''-NITRILOTRIETHANOL
2
ACT
8
Ligand/Ion
ACETATE ION
3
CA
-1
Ligand/Ion
CALCIUM ION
4
CL
-1
Ligand/Ion
CHLORIDE ION
5
PEG
15
Ligand/Ion
DI(HYDROXYETHYL)ETHER
6
PG4
3
Ligand/Ion
TETRAETHYLENE GLYCOL
7
PGE
3
Ligand/Ion
TRIETHYLENE GLYCOL
8
RDF
1
Ligand/Ion
N-ALPHA-L-RHAMNOPYRANOSYLOXY(HYDROXYPHOSPHINYL)-L-LEUCYL-L-TRYPTOPHAN
9
SO4
4
Ligand/Ion
SULFATE ION
10
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(44, 44)
Info
All Sites
01: AC2 (SOFTWARE)
02: AC3 (SOFTWARE)
03: AC6 (SOFTWARE)
04: AC8 (SOFTWARE)
05: BC1 (SOFTWARE)
06: BC5 (SOFTWARE)
07: BC6 (SOFTWARE)
08: BC7 (SOFTWARE)
09: BC8 (SOFTWARE)
10: BC9 (SOFTWARE)
11: CC1 (SOFTWARE)
12: CC2 (SOFTWARE)
13: CC4 (SOFTWARE)
14: CC9 (SOFTWARE)
15: DC1 (SOFTWARE)
16: DC2 (SOFTWARE)
17: DC3 (SOFTWARE)
18: DC4 (SOFTWARE)
19: DC5 (SOFTWARE)
20: DC6 (SOFTWARE)
21: DC8 (SOFTWARE)
22: DC9 (SOFTWARE)
23: EC1 (SOFTWARE)
24: EC2 (SOFTWARE)
25: EC5 (SOFTWARE)
26: EC6 (SOFTWARE)
27: EC8 (SOFTWARE)
28: FC1 (SOFTWARE)
29: FC2 (SOFTWARE)
30: FC3 (SOFTWARE)
31: FC5 (SOFTWARE)
32: FC7 (SOFTWARE)
33: FC8 (SOFTWARE)
34: FC9 (SOFTWARE)
35: GC1 (SOFTWARE)
36: GC2 (SOFTWARE)
37: GC4 (SOFTWARE)
38: GC5 (SOFTWARE)
39: GC7 (SOFTWARE)
40: GC9 (SOFTWARE)
41: HC1 (SOFTWARE)
42: HC3 (SOFTWARE)
43: HC4 (SOFTWARE)
44: HC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC2
SOFTWARE
HIS B:493 , HIS B:497 , GLU B:560 , RDF B:1665
BINDING SITE FOR RESIDUE ZN B1664
02
AC3
SOFTWARE
PHE B:48 , ASN B:452 , ALA B:453 , TYR B:454 , ILE B:468 , HIS B:493 , GLU B:494 , HIS B:497 , GLU B:560 , HIS B:622 , ARG B:628 , ZN B:1664 , ACT B:1691 , HOH B:2071 , HOH B:2171
BINDING SITE FOR RESIDUE RDF B1665
03
AC6
SOFTWARE
ARG B:126 , THR B:248 , ALA B:249
BINDING SITE FOR RESIDUE PEG B1666
04
AC8
SOFTWARE
GLN B:153 , SER B:154 , GLY B:155 , ILE B:156 , ARG B:219 , HOH B:2051
BINDING SITE FOR RESIDUE PEG B1667
05
BC1
SOFTWARE
SER B:162 , ASP B:166 , HIS B:169 , ILE B:614 , LEU B:617 , ALA B:618 , HOH B:2140
BINDING SITE FOR RESIDUE PEG B1668
06
BC5
SOFTWARE
GLN A:641 , ASP A:644 , VAL A:645 , PGE A:1683 , GLN B:576 , LEU B:577 , ASN B:580 , GLY B:581
BINDING SITE FOR RESIDUE PEG A1672
07
BC6
SOFTWARE
GLN B:576 , ALA B:638
BINDING SITE FOR RESIDUE PEG B1669
08
BC7
SOFTWARE
GLN A:534 , ARG A:634 , ARG A:657 , PEG A:1679 , ASP B:545 , PRO B:547 , GLY B:548
BINDING SITE FOR RESIDUE PEG B1670
09
BC8
SOFTWARE
THR B:123 , ARG B:126 , ALA B:127 , ALA B:425
BINDING SITE FOR RESIDUE PEG B1671
10
BC9
SOFTWARE
ASP B:15
BINDING SITE FOR RESIDUE PEG B1672
11
CC1
SOFTWARE
ASP A:479 , GLU A:480 , HOH A:2117 , HOH A:2139 , ILE B:5 , ASP B:479
BINDING SITE FOR RESIDUE PEG A1673
12
CC2
SOFTWARE
ASP B:138 , THR B:139 , SER B:141 , ASN B:456 , PRO B:457 , GLY B:458 , TYR B:506
BINDING SITE FOR RESIDUE PEG B1673
13
CC4
SOFTWARE
LYS B:354 , ASP B:358 , ALA B:395 , LYS B:396 , VAL B:397 , TYR B:399 , ILE B:401 , TRP B:444
BINDING SITE FOR RESIDUE PEG B1674
14
CC9
SOFTWARE
ASN A:582 , ALA B:4 , SER B:7 , ASP B:588
BINDING SITE FOR RESIDUE PEG B1675
15
DC1
SOFTWARE
VAL A:544 , ASP A:545 , ASP B:22 , ARG B:541 , GLU B:626 , PHE B:627 , ASN B:630 , LEU B:651
BINDING SITE FOR RESIDUE PEG B1676
16
DC2
SOFTWARE
GLU A:533 , GLN A:534 , ARG A:657 , PEG B:1670
BINDING SITE FOR RESIDUE PEG A1679
17
DC3
SOFTWARE
VAL B:216 , ARG B:220 , ACT B:1694 , SO4 B:1697
BINDING SITE FOR RESIDUE PEG B1677
18
DC4
SOFTWARE
LYS B:392 , ASP B:507 , GLY B:508 , VAL B:513 , HOH B:2105
BINDING SITE FOR RESIDUE PEG B1678
19
DC5
SOFTWARE
ASP A:22 , PEG A:1678 , ASP B:545
BINDING SITE FOR RESIDUE PEG A1680
20
DC6
SOFTWARE
GLU A:116 , ASN B:227 , ARG B:229
BINDING SITE FOR RESIDUE PEG B1679
21
DC8
SOFTWARE
PHE B:349 , ALA B:353 , LYS B:354
BINDING SITE FOR RESIDUE PEG B1680
22
DC9
SOFTWARE
ASN A:580 , HIS B:27 , GLY B:589 , GLN B:594 , PG4 B:1685
BINDING SITE FOR RESIDUE PGE B1681
23
EC1
SOFTWARE
GLU A:374 , LEU A:573 , ASP B:637 , ARG B:658 , HOH B:2161 , HOH B:2163
BINDING SITE FOR RESIDUE PGE A1682
24
EC2
SOFTWARE
ASP B:221 , ASP B:501 , LYS B:505 , ASP B:514 , TRP B:516
BINDING SITE FOR RESIDUE PGE B1682
25
EC5
SOFTWARE
LEU A:579 , ALA A:584 , HOH A:2144 , LEU B:579 , ALA B:584 , ACT B:1687 , HOH B:2150
BINDING SITE FOR RESIDUE PGE B1683
26
EC6
SOFTWARE
GLN A:319 , LYS A:607 , ARG A:609 , ASP B:648
BINDING SITE FOR RESIDUE PGE A1685
27
EC8
SOFTWARE
PRO B:540 , ASP B:542 , GLN B:553 , THR B:557 , ALA B:613 , ARG B:616 , LEU B:617 , ASP B:620 , HIS B:622 , PRO B:624 , GLU B:626 , HOH B:2153
BINDING SITE FOR RESIDUE PG4 B1684
28
FC1
SOFTWARE
LEU B:11 , ALA B:16 , ARG B:19 , HIS B:27 , PGE B:1681 , HOH B:2010 , HOH B:2149
BINDING SITE FOR RESIDUE PG4 B1685
29
FC2
SOFTWARE
VAL A:544 , ASP A:545 , HIS A:546 , HOH A:2133 , GLN B:534 , TYR B:538 , ARG B:634 , ARG B:657
BINDING SITE FOR RESIDUE PG4 B1686
30
FC3
SOFTWARE
GLY A:581 , THR B:591 , MET B:593 , PGE B:1683 , HOH B:2150 , HOH B:2173
BINDING SITE FOR RESIDUE ACT B1687
31
FC5
SOFTWARE
TYR B:147 , ALA B:256 , MET B:257 , THR B:258
BINDING SITE FOR RESIDUE ACT B1688
32
FC7
SOFTWARE
ASP B:15 , GLY B:30
BINDING SITE FOR RESIDUE ACT B1689
33
FC8
SOFTWARE
ASP B:10
BINDING SITE FOR RESIDUE ACT B1690
34
FC9
SOFTWARE
TYR B:455 , HIS B:497 , RDF B:1665 , ACT B:1694
BINDING SITE FOR RESIDUE ACT B1691
35
GC1
SOFTWARE
GLN B:125 , GLY B:134 , VAL B:135
BINDING SITE FOR RESIDUE ACT B1692
36
GC2
SOFTWARE
ACT A:1691 , ASP B:479 , TYR B:575 , LEU B:579 , PRO B:585
BINDING SITE FOR RESIDUE ACT B1693
37
GC4
SOFTWARE
ILE A:5 , ASN B:582 , ACT B:1693
BINDING SITE FOR RESIDUE ACT A1691
38
GC5
SOFTWARE
HIS B:497 , PEG B:1677 , ACT B:1691 , HOH B:2073
BINDING SITE FOR RESIDUE ACT B1694
39
GC7
SOFTWARE
LEU A:577 , ASN A:580 , ASP B:644 , VAL B:645 , HOH B:2163
BINDING SITE FOR RESIDUE SO4 B1695
40
GC9
SOFTWARE
ILE B:532 , HIS B:536 , GLN B:553 , GLY B:554 , ALA B:555
BINDING SITE FOR RESIDUE SO4 B1696
41
HC1
SOFTWARE
THR B:152 , ARG B:219 , ARG B:263 , PEG B:1677 , HOH B:2045
BINDING SITE FOR RESIDUE SO4 B1697
42
HC3
SOFTWARE
ARG B:42 , ALA B:43 , THR B:44 , ARG B:49
BINDING SITE FOR RESIDUE SO4 B1698
43
HC4
SOFTWARE
ASP B:242 , ILE B:411
BINDING SITE FOR RESIDUE CL B1699
44
HC6
SOFTWARE
ASP B:113 , GLU B:116 , ASP B:412 , ASP B:414
BINDING SITE FOR RESIDUE CA B1700
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
Info
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3zuka_ (A:)
1b: SCOP_d3zukb_ (B:)
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Protein Domains
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(
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Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Zincin-like
(701)
Superfamily
:
Metalloproteases (zincins), catalytic domain
(647)
Family
:
automated matches
(37)
Protein domain
:
automated matches
(37)
Mycobacterium tuberculosis [TaxId: 83332]
(1)
1a
d3zuka_
A:
1b
d3zukb_
B:
[
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
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