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3PNZ
Biol. Unit 7
Info
Asym.Unit (361 KB)
Biol.Unit 1 (65 KB)
Biol.Unit 2 (64 KB)
Biol.Unit 3 (66 KB)
Biol.Unit 4 (65 KB)
Biol.Unit 5 (66 KB)
Biol.Unit 6 (66 KB)
Biol.Unit 7 (181 KB)
Biol.Unit 8 (179 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE LACTONASE LMO2620 FROM LISTERIA MONOCYTOGENES
Authors
:
A. A. Fedorov, E. V. Fedorov, D. F. Xiang, F. M. Raushel, S. C. Almo
Date
:
20 Nov 10 (Deposition) - 23 Nov 11 (Release) - 23 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: A,C,F (1x)
Biol. Unit 8: B,D,E (1x)
Keywords
:
Amidohydrolase Fold, Hydrolysis Of Phosphorylated Sugar Lactones, Phosphorylated Sugar Lactones, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. A. Fedorov, E. V. Fedorov, D. F. Xiang, F. M. Raushel, S. C. Almo
Crystal Structure Of The Lactonase Lmo2620 From Listeria Monocytogenes
To Be Published
[
close entry info
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Hetero Components
(3, 24)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
1h: GLYCEROL (GOLh)
1i: GLYCEROL (GOLi)
1j: GLYCEROL (GOLj)
1k: GLYCEROL (GOLk)
1l: GLYCEROL (GOLl)
1m: GLYCEROL (GOLm)
1n: GLYCEROL (GOLn)
1o: GLYCEROL (GOLo)
1p: GLYCEROL (GOLp)
1q: GLYCEROL (GOLq)
1r: GLYCEROL (GOLr)
1s: GLYCEROL (GOLs)
1t: GLYCEROL (GOLt)
1u: GLYCEROL (GOLu)
2a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
2b: LYSINE NZ-CARBOXYLIC ACID (KCXb)
2c: LYSINE NZ-CARBOXYLIC ACID (KCXc)
2d: LYSINE NZ-CARBOXYLIC ACID (KCXd)
2e: LYSINE NZ-CARBOXYLIC ACID (KCXe)
2f: LYSINE NZ-CARBOXYLIC ACID (KCXf)
3a: PHOSPHATE ION (PO4a)
3b: PHOSPHATE ION (PO4b)
3c: PHOSPHATE ION (PO4c)
3d: PHOSPHATE ION (PO4d)
3e: PHOSPHATE ION (PO4e)
3f: PHOSPHATE ION (PO4f)
3g: PHOSPHATE ION (PO4g)
3h: PHOSPHATE ION (PO4h)
3i: PHOSPHATE ION (PO4i)
3j: PHOSPHATE ION (PO4j)
3k: PHOSPHATE ION (PO4k)
3l: PHOSPHATE ION (PO4l)
3m: PHOSPHATE ION (PO4m)
3n: PHOSPHATE ION (PO4n)
3o: PHOSPHATE ION (PO4o)
3p: PHOSPHATE ION (PO4p)
3q: PHOSPHATE ION (PO4q)
3r: PHOSPHATE ION (PO4r)
3s: PHOSPHATE ION (PO4s)
3t: PHOSPHATE ION (PO4t)
3u: PHOSPHATE ION (PO4u)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
4e: ZINC ION (ZNe)
4f: ZINC ION (ZNf)
4g: ZINC ION (ZNg)
4h: ZINC ION (ZNh)
4i: ZINC ION (ZNi)
4j: ZINC ION (ZNj)
4k: ZINC ION (ZNk)
4l: ZINC ION (ZNl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
11
Ligand/Ion
GLYCEROL
2
KCX
3
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
3
PO4
10
Ligand/Ion
PHOSPHATE ION
4
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(27, 27)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC4 (SOFTWARE)
03: AC5 (SOFTWARE)
04: AC8 (SOFTWARE)
05: BC1 (SOFTWARE)
06: BC3 (SOFTWARE)
07: BC4 (SOFTWARE)
08: BC6 (SOFTWARE)
09: BC8 (SOFTWARE)
10: BC9 (SOFTWARE)
11: CC2 (SOFTWARE)
12: CC4 (SOFTWARE)
13: CC6 (SOFTWARE)
14: CC9 (SOFTWARE)
15: DC1 (SOFTWARE)
16: DC3 (SOFTWARE)
17: DC6 (SOFTWARE)
18: DC7 (SOFTWARE)
19: DC9 (SOFTWARE)
20: EC3 (SOFTWARE)
21: EC4 (SOFTWARE)
22: EC6 (SOFTWARE)
23: EC9 (SOFTWARE)
24: FC2 (SOFTWARE)
25: FC5 (SOFTWARE)
26: FC6 (SOFTWARE)
27: FC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO C:207 , LEU C:208 , GLU C:209 , THR C:231 , HOH C:1498
BINDING SITE FOR RESIDUE GOL C 331
02
AC4
SOFTWARE
TYR F:8 , SER F:82 , GLY F:86 , GLN F:88 , HOH F:605 , HOH F:864
BINDING SITE FOR RESIDUE GOL F 331
03
AC5
SOFTWARE
HOH A:498 , ILE C:240 , ALA C:241 , GLY C:271 , THR C:273 , TYR C:278 , GLY C:287 , HOH C:730
BINDING SITE FOR RESIDUE GOL C 332
04
AC8
SOFTWARE
GLY F:271 , THR F:273 , TYR F:278 , PRO F:286 , GLY F:287 , HOH F:386 , HOH F:518
BINDING SITE FOR RESIDUE GOL F 332
05
BC1
SOFTWARE
PHE C:18 , LEU C:58 , ALA C:292 , HOH C:1191
BINDING SITE FOR RESIDUE GOL C 333
06
BC3
SOFTWARE
GLU C:189
BINDING SITE FOR RESIDUE GOL C 334
07
BC4
SOFTWARE
LEU A:58 , ALA A:292 , HOH A:953
BINDING SITE FOR RESIDUE GOL A 331
08
BC6
SOFTWARE
LYS C:226 , LYS C:230 , HOH C:822 , HOH C:995 , HOH C:1270
BINDING SITE FOR RESIDUE GOL C 335
09
BC8
SOFTWARE
LYS C:312 , LYS C:316
BINDING SITE FOR RESIDUE GOL C 336
10
BC9
SOFTWARE
PHE F:18 , LEU F:58 , ALA F:292 , HOH F:1440
BINDING SITE FOR RESIDUE GOL F 333
11
CC2
SOFTWARE
GLU A:209 , ARG A:324 , LYS A:329 , HOH A:691 , PRO E:147 , TYR E:148 , HOH E:1495
BINDING SITE FOR RESIDUE GOL A 332
12
CC4
SOFTWARE
HIS A:22 , HIS A:24 , KCX A:154 , ASP A:272 , PO4 A:335
BINDING SITE FOR RESIDUE ZN A 333
13
CC6
SOFTWARE
HIS C:22 , HIS C:24 , KCX C:154 , ASP C:272 , PO4 C:339
BINDING SITE FOR RESIDUE ZN C 337
14
CC9
SOFTWARE
HIS F:22 , HIS F:24 , KCX F:154 , ASP F:272 , PO4 F:336
BINDING SITE FOR RESIDUE ZN F 334
15
DC1
SOFTWARE
ASN A:96 , KCX A:154 , HIS A:187 , HIS A:215 , PO4 A:335
BINDING SITE FOR RESIDUE ZN A 334
16
DC3
SOFTWARE
KCX C:154 , HIS C:187 , HIS C:215 , PO4 C:339
BINDING SITE FOR RESIDUE ZN C 338
17
DC6
SOFTWARE
KCX F:154 , HIS F:187 , HIS F:215 , PO4 F:336
BINDING SITE FOR RESIDUE ZN F 335
18
DC7
SOFTWARE
HIS A:22 , HIS A:24 , TYR A:71 , ASN A:96 , LYS A:97 , KCX A:154 , HIS A:187 , HIS A:215 , ASP A:272 , ZN A:333 , ZN A:334
BINDING SITE FOR RESIDUE PO4 A 335
19
DC9
SOFTWARE
HIS C:22 , HIS C:24 , TYR C:71 , ASN C:96 , LYS C:97 , KCX C:154 , HIS C:187 , HIS C:215 , ASP C:272 , ZN C:337 , ZN C:338 , HOH C:974 , HOH C:1550
BINDING SITE FOR RESIDUE PO4 C 339
20
EC3
SOFTWARE
HIS F:22 , HIS F:24 , TYR F:71 , ASN F:96 , LYS F:97 , KCX F:154 , HIS F:187 , HIS F:215 , ASP F:272 , ZN F:334 , ZN F:335 , HOH F:968
BINDING SITE FOR RESIDUE PO4 F 336
21
EC4
SOFTWARE
LYS A:242 , LYS A:244 , TYR A:245 , ARG A:275 , TYR A:278 , HOH A:1049 , HOH A:1102 , HOH A:1143
BINDING SITE FOR RESIDUE PO4 A 336
22
EC6
SOFTWARE
LYS C:242 , LYS C:244 , TYR C:245 , ARG C:275 , TYR C:278 , HOH C:809 , HOH C:951 , HOH C:974 , HOH C:1103
BINDING SITE FOR RESIDUE PO4 C 340
23
EC9
SOFTWARE
LYS F:242 , LYS F:244 , TYR F:245 , ARG F:275 , TYR F:278 , HOH F:898 , HOH F:968 , HOH F:1055 , HOH F:1428
BINDING SITE FOR RESIDUE PO4 F 337
24
FC2
SOFTWARE
THR C:127 , THR C:128 , HOH C:714
BINDING SITE FOR RESIDUE PO4 C 341
25
FC5
SOFTWARE
THR F:127 , THR F:128 , HOH F:945 , HOH F:1520
BINDING SITE FOR RESIDUE PO4 F 338
26
FC6
SOFTWARE
THR A:127 , THR A:128 , HOH A:1513
BINDING SITE FOR RESIDUE PO4 A 337
27
FC9
SOFTWARE
SER C:82 , GLY C:86 , ILE C:87 , HOH C:419 , HOH C:916 , HOH C:1371
BINDING SITE FOR RESIDUE PO4 C 342
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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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All Exon Boundaries
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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, 6)
Info
All SCOP Domains
1a: SCOP_d3pnza_ (A:)
1b: SCOP_d3pnzb_ (B:)
1c: SCOP_d3pnzc_ (C:)
1d: SCOP_d3pnzd_ (D:)
1e: SCOP_d3pnze_ (E:)
1f: SCOP_d3pnzf_ (F:)
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Protein Domains
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(
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Organisms
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(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Metallo-dependent hydrolases
(273)
Family
:
automated matches
(44)
Protein domain
:
automated matches
(44)
Listeria monocytogenes [TaxId: 267410]
(1)
1a
d3pnza_
A:
1b
d3pnzb_
B:
1c
d3pnzc_
C:
1d
d3pnzd_
D:
1e
d3pnze_
E:
1f
d3pnzf_
F:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
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Sorry, no Info available
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Asymmetric Unit 1
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Biol.Unit 3 (66 KB)
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Biol.Unit 4 (65 KB)
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