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2WYL
Asym. Unit
Info
Asym.Unit (310 KB)
Biol.Unit 1 (300 KB)
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(1)
Title
:
APO 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
:
2.59
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
(3, 70)
Info
All Hetero Components
1a: FORMYL GROUP (FORa)
1b: FORMYL GROUP (FORb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
2h: GLYCEROL (GOLh)
2i: GLYCEROL (GOLi)
2j: GLYCEROL (GOLj)
2k: GLYCEROL (GOLk)
2l: GLYCEROL (GOLl)
2m: GLYCEROL (GOLm)
2n: GLYCEROL (GOLn)
2o: GLYCEROL (GOLo)
2p: GLYCEROL (GOLp)
2q: GLYCEROL (GOLq)
2r: GLYCEROL (GOLr)
2s: GLYCEROL (GOLs)
2t: GLYCEROL (GOLt)
3a: SELENOMETHIONINE (MSEa)
3aa: SELENOMETHIONINE (MSEaa)
3ab: SELENOMETHIONINE (MSEab)
3ac: SELENOMETHIONINE (MSEac)
3ad: SELENOMETHIONINE (MSEad)
3ae: SELENOMETHIONINE (MSEae)
3af: SELENOMETHIONINE (MSEaf)
3ag: SELENOMETHIONINE (MSEag)
3ah: SELENOMETHIONINE (MSEah)
3ai: SELENOMETHIONINE (MSEai)
3aj: SELENOMETHIONINE (MSEaj)
3ak: SELENOMETHIONINE (MSEak)
3al: SELENOMETHIONINE (MSEal)
3am: SELENOMETHIONINE (MSEam)
3an: SELENOMETHIONINE (MSEan)
3ao: SELENOMETHIONINE (MSEao)
3ap: SELENOMETHIONINE (MSEap)
3aq: SELENOMETHIONINE (MSEaq)
3ar: SELENOMETHIONINE (MSEar)
3as: SELENOMETHIONINE (MSEas)
3at: SELENOMETHIONINE (MSEat)
3au: SELENOMETHIONINE (MSEau)
3av: SELENOMETHIONINE (MSEav)
3b: SELENOMETHIONINE (MSEb)
3c: SELENOMETHIONINE (MSEc)
3d: SELENOMETHIONINE (MSEd)
3e: SELENOMETHIONINE (MSEe)
3f: SELENOMETHIONINE (MSEf)
3g: SELENOMETHIONINE (MSEg)
3h: SELENOMETHIONINE (MSEh)
3i: SELENOMETHIONINE (MSEi)
3j: SELENOMETHIONINE (MSEj)
3k: SELENOMETHIONINE (MSEk)
3l: SELENOMETHIONINE (MSEl)
3m: SELENOMETHIONINE (MSEm)
3n: SELENOMETHIONINE (MSEn)
3o: SELENOMETHIONINE (MSEo)
3p: SELENOMETHIONINE (MSEp)
3q: SELENOMETHIONINE (MSEq)
3r: SELENOMETHIONINE (MSEr)
3s: SELENOMETHIONINE (MSEs)
3t: SELENOMETHIONINE (MSEt)
3u: SELENOMETHIONINE (MSEu)
3v: SELENOMETHIONINE (MSEv)
3w: SELENOMETHIONINE (MSEw)
3x: SELENOMETHIONINE (MSEx)
3y: SELENOMETHIONINE (MSEy)
3z: SELENOMETHIONINE (MSEz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FOR
2
Mod. Residue
FORMYL GROUP
2
GOL
20
Ligand/Ion
GLYCEROL
3
MSE
48
Mod. Amino Acid
SELENOMETHIONINE
[
close Hetero Component info
]
Sites
(22, 22)
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)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TRP A:23 , GLU A:27 , GLY A:318 , TYR A:332 , PRO A:335 , HOH A:2068 , LEU F:95
BINDING SITE FOR RESIDUE GOL A1339
02
AC2
SOFTWARE
ASP A:61 , PHE A:62 , LEU A:114 , HIS A:122 , ILE A:123 , ASP A:124 , VAL A:127 , TRP A:151
BINDING SITE FOR RESIDUE GOL A1340
03
AC3
SOFTWARE
ASP A:149 , ASN C:126 , ILE D:7 , SER D:11 , SER D:15
BINDING SITE FOR RESIDUE GOL A1341
04
AC4
SOFTWARE
TRP B:23 , GLU B:27 , GLY B:318 , PRO B:335 , HOH B:2059 , PRO E:93
BINDING SITE FOR RESIDUE GOL B1338
05
AC5
SOFTWARE
ASP B:61 , PHE B:62 , LEU B:114 , ALA B:115 , HIS B:122 , ILE B:123 , ASP B:124 , VAL B:127 , ALA B:128 , TRP B:151 , HOH B:2009
BINDING SITE FOR RESIDUE GOL B1339
06
AC6
SOFTWARE
MSE C:1 , SER E:15
BINDING SITE FOR RESIDUE FOR C1337
07
AC7
SOFTWARE
ASN C:25 , GLU C:29 , ILE C:107 , ARG C:108 , GLN C:109
BINDING SITE FOR RESIDUE GOL C1338
08
AC8
SOFTWARE
TRP C:23 , GLU C:27 , GLY C:318 , TYR C:334 , PRO C:335 , HOH C:2071 , PRO D:93 , LEU D:95
BINDING SITE FOR RESIDUE GOL C1339
09
AC9
SOFTWARE
ASP C:61 , PHE C:62 , LEU C:114 , ALA C:115 , HIS C:122 , ILE C:123 , ASP C:124 , TRP C:151 , HOH C:2011
BINDING SITE FOR RESIDUE GOL C1340
10
BC1
SOFTWARE
LYS C:275 , GLY C:309 , LYS C:311 , LYS C:327
BINDING SITE FOR RESIDUE GOL C1341
11
BC2
SOFTWARE
ASN D:25 , TRP D:49 , ALA D:106 , ILE D:107 , ARG D:108 , GLN D:109
BINDING SITE FOR RESIDUE GOL D1340
12
BC3
SOFTWARE
HOH D:2086
BINDING SITE FOR RESIDUE GOL D1341
13
BC4
SOFTWARE
LEU C:95 , TRP D:23 , LEU D:24 , GLU D:27 , GLY D:318 , TYR D:332 , PRO D:335 , HOH D:2084
BINDING SITE FOR RESIDUE GOL D1342
14
BC5
SOFTWARE
ASP D:61 , PHE D:62 , LEU D:114 , ALA D:115 , HIS D:122 , ILE D:123 , ASP D:124 , VAL D:127 , TRP D:151
BINDING SITE FOR RESIDUE GOL D1343
15
BC6
SOFTWARE
ASP E:61 , PHE E:62 , VAL E:113 , LEU E:114 , ALA E:115 , HIS E:122 , ILE E:123 , ASP E:124 , VAL E:127 , ALA E:128 , TRP E:151
BINDING SITE FOR RESIDUE GOL E1339
16
BC7
SOFTWARE
ASN E:25 , GLU E:29 , TRP E:49 , ASN E:57 , ILE E:107 , ARG E:108 , GLN E:109
BINDING SITE FOR RESIDUE GOL E1340
17
BC8
SOFTWARE
GLY E:309 , PHE E:310 , LYS E:311 , LYS E:327
BINDING SITE FOR RESIDUE GOL E1341
18
BC9
SOFTWARE
ARG A:305 , GLN B:316 , HOH B:2038 , GLN E:289 , ALA E:290 , ASP E:291
BINDING SITE FOR RESIDUE GOL E1342
19
CC1
SOFTWARE
SER C:15 , MSE F:1
BINDING SITE FOR RESIDUE FOR F1338
20
CC2
SOFTWARE
ASP F:61 , PHE F:62 , LEU F:114 , HIS F:122 , ASP F:124 , VAL F:127 , TRP F:151
BINDING SITE FOR RESIDUE GOL F1339
21
CC3
SOFTWARE
LYS F:275 , GLY F:309 , LYS F:311 , LYS F:327 , ASP F:328
BINDING SITE FOR RESIDUE GOL F1340
22
CC4
SOFTWARE
GLN A:293 , GLU A:331 , GLN F:289 , ALA F:290 , ASP F:291
BINDING SITE FOR RESIDUE GOL F1341
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
[
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
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
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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]
CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_2wylC00 (C:2-337)
1b: CATH_2wylD00 (D:2-339)
1c: CATH_2wylB00 (B:2-337)
1d: CATH_2wylE00 (E:2-338)
1e: CATH_2wylF00 (F:2-338)
1f: CATH_2wylA00 (A:2-338)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
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
2wylC00
C:2-337
1b
2wylD00
D:2-339
1c
2wylB00
B:2-337
1d
2wylE00
E:2-338
1e
2wylF00
F:2-338
1f
2wylA00
A:2-338
[
close CATH info
]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_Lactamase_B_2_2wylF01 (F:56-282)
1b: PFAM_Lactamase_B_2_2wylF02 (F:56-282)
1c: PFAM_Lactamase_B_2_2wylF03 (F:56-282)
1d: PFAM_Lactamase_B_2_2wylF04 (F:56-282)
1e: PFAM_Lactamase_B_2_2wylF05 (F:56-282)
1f: PFAM_Lactamase_B_2_2wylF06 (F:56-282)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Metallo-HOrase
(67)
Family
:
Lactamase_B_2
(12)
Escherichia coli (strain K12)
(3)
1a
Lactamase_B_2-2wylF01
F:56-282
1b
Lactamase_B_2-2wylF02
F:56-282
1c
Lactamase_B_2-2wylF03
F:56-282
1d
Lactamase_B_2-2wylF04
F:56-282
1e
Lactamase_B_2-2wylF05
F:56-282
1f
Lactamase_B_2-2wylF06
F:56-282
[
close Pfam info
]
Atom Selection
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all
)
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Chain C
Chain D
Chain E
Chain F
Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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