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2WYM
Asym. Unit
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Asym.Unit (300 KB)
Biol.Unit 1 (292 KB)
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(1)
Title
:
STRUCTURE OF A METALLO-B-LACTAMASE
Authors
:
F. Garces, F. J. Fernandez, E. Penya-Soler, J. Aguilar, L. Baldoma, M. Coll, J. Badia, M. C. Vega
Date
:
16 Nov 09 (Deposition) - 14 Apr 10 (Release) - 19 May 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Garces, F. J. Fernandez, C. Montella, E. Penya-Soler, R. Prohens, J. Aguilar, L. Baldoma, M. Coll, J. Badia, M. C. Vega
Molecular Architecture Of The Mn(2+)Dependent Lactonase Ulag Reveals An Rnase-Like Metallo-Beta- Lactamase Fold And A Novel Quaternary Structure.
J. Mol. Biol. V. 398 715 2010
(for further references see the
PDB file header
)
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Hetero Components
(4, 16)
Info
All Hetero Components
1a: CITRATE ANION (FLCa)
2a: N-FORMYLMETHIONINE (FMEa)
2b: N-FORMYLMETHIONINE (FMEb)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
4a: MANGANESE (II) ION (MNa)
4b: MANGANESE (II) ION (MNb)
4c: MANGANESE (II) ION (MNc)
4d: MANGANESE (II) ION (MNd)
4e: MANGANESE (II) ION (MNe)
4f: MANGANESE (II) ION (MNf)
View:
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Label:
No.
Name
Count
Type
Full Name
1
FLC
1
Ligand/Ion
CITRATE ANION
2
FME
2
Mod. Amino Acid
N-FORMYLMETHIONINE
3
GOL
7
Ligand/Ion
GLYCEROL
4
MN
6
Ligand/Ion
MANGANESE (II) ION
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Sites
(14, 14)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:121 , HIS A:122 , ASP A:226 , HIS A:281
BINDING SITE FOR RESIDUE MN A1341
02
AC2
SOFTWARE
ARG A:296 , GLU A:300 , LYS A:303 , PHE A:330 , HOH A:2038 , LYS D:303 , ASP D:304
BINDING SITE FOR RESIDUE GOL A1342
03
AC3
SOFTWARE
ASN A:25 , GLU A:29 , ILE A:107 , ARG A:108 , GLN A:109
BINDING SITE FOR RESIDUE GOL A1343
04
AC4
SOFTWARE
ASP B:121 , HIS B:122 , ASP B:226 , HIS B:281
BINDING SITE FOR RESIDUE MN B1338
05
AC5
SOFTWARE
VAL B:169
BINDING SITE FOR RESIDUE GOL B1339
06
AC6
SOFTWARE
HIS C:119 , ASP C:121 , HIS C:122 , ASP C:226 , HIS C:281
BINDING SITE FOR RESIDUE MN C1338
07
AC7
SOFTWARE
ASP C:168 , VAL C:169 , HOH C:2036
BINDING SITE FOR RESIDUE GOL C1339
08
AC8
SOFTWARE
ASP D:121 , HIS D:122 , ASP D:226 , HIS D:281
BINDING SITE FOR RESIDUE MN D1340
09
AC9
SOFTWARE
VAL D:169 , LYS D:171 , HOH D:2050 , HOH D:2051 , HOH D:2052
BINDING SITE FOR RESIDUE FLC D1341
10
BC1
SOFTWARE
ARG B:305 , GLN C:289 , GLN D:293 , GLN D:316 , GLU D:331
BINDING SITE FOR RESIDUE GOL D1342
11
BC2
SOFTWARE
HIS E:119 , ASP E:121 , HIS E:122 , ASP E:226 , HIS E:281
BINDING SITE FOR RESIDUE MN E1339
12
BC3
SOFTWARE
LYS C:307 , PHE E:313 , LYS E:320 , ASP E:326 , ASN E:329 , GLU E:331 , TYR E:332 , HIS E:333
BINDING SITE FOR RESIDUE GOL E1340
13
BC4
SOFTWARE
ASP F:121 , HIS F:122 , ASP F:226 , HIS F:281
BINDING SITE FOR RESIDUE MN F1339
14
BC5
SOFTWARE
GLN A:316 , GLN F:289 , ALA F:290 , PRO F:292
BINDING SITE FOR RESIDUE GOL F1340
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_2wymC00 (C:2-337)
1b: CATH_2wymE00 (E:1-338)
1c: CATH_2wymA00 (A:1-340)
1d: CATH_2wymF00 (F:2-338)
1e: CATH_2wymB00 (B:1-337)
1f: CATH_2wymD00 (D:1-339)
View:
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Classes
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)
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Topologies
(
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(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
4-Layer Sandwich
(459)
Topology
:
Metallo-beta-lactamase; Chain A
(92)
Homologous Superfamily
:
Metallo-beta-lactamase, chain A
(92)
Escherichia coli. Organism_taxid: 562.
(3)
1a
2wymC00
C:2-337
1b
2wymE00
E:1-338
1c
2wymA00
A:1-340
1d
2wymF00
F:2-338
1e
2wymB00
B:1-337
1f
2wymD00
D:1-339
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Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_Lactamase_B_2_2wymF01 (F:56-282)
1b: PFAM_Lactamase_B_2_2wymF02 (F:56-282)
1c: PFAM_Lactamase_B_2_2wymF03 (F:56-282)
1d: PFAM_Lactamase_B_2_2wymF04 (F:56-282)
1e: PFAM_Lactamase_B_2_2wymF05 (F:56-282)
1f: PFAM_Lactamase_B_2_2wymF06 (F:56-282)
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)
Clan
:
Metallo-HOrase
(67)
Family
:
Lactamase_B_2
(12)
Escherichia coli (strain K12)
(3)
1a
Lactamase_B_2-2wymF01
F:56-282
1b
Lactamase_B_2-2wymF02
F:56-282
1c
Lactamase_B_2-2wymF03
F:56-282
1d
Lactamase_B_2-2wymF04
F:56-282
1e
Lactamase_B_2-2wymF05
F:56-282
1f
Lactamase_B_2-2wymF06
F:56-282
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Asymmetric Unit 1
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