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3ZFZ
Biol. Unit 1
Info
Asym.Unit (454 KB)
Biol.Unit 1 (225 KB)
Biol.Unit 2 (227 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CEFTAROLINE ACYL-PBP2A FROM MRSA WITH NON-COVALENTLY BOUND CEFTAROLINE AND MURAMIC ACID AT ALLOSTERIC SITE OBTAINED BY SOAKING
Authors
:
L. H. Otero, A. Rojas-Altuve, J. A. Hermoso
Date
:
13 Dec 12 (Deposition) - 09 Oct 13 (Release) - 30 Oct 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Hydrolase, Penicillin Binding Proteins, Mrsa, Allosteric Site, B- Lactam Antibiotics
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. H. Otero, A. Rojas-Altuve, L. I. Llarrull, C. Carrasco-Lopez, M. Kumarasiri, E. Lastochkin, J. Fishovitz, M. Dawley, D. Hesek, M. Lee, J. W. Johnson, J. F. Fisher, M. Chang, S. Mobashery, J. A. Hermos
How Allosteric Control Of Staphylococcus Aureus Penicillin Binding Protein 2A Enables Methicillin Resistance And Physiological Function
Proc. Natl. Acad. Sci. Usa V. 110 16808 2013
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Hetero Components
(3, 3)
Info
All Hetero Components
1a: CEFTAROLINE (1W8a)
2a: CEFTAROLINE, BOUND FORM (AI8a)
3a: CADMIUM ION (CDa)
3b: CADMIUM ION (CDb)
3c: CADMIUM ION (CDc)
3d: CADMIUM ION (CDd)
3e: CADMIUM ION (CDe)
3f: CADMIUM ION (CDf)
3g: CADMIUM ION (CDg)
3h: CADMIUM ION (CDh)
4a: CHLORIDE ION (CLa)
4b: CHLORIDE ION (CLb)
4c: CHLORIDE ION (CLc)
4d: CHLORIDE ION (CLd)
5a: MURAMIC ACID (MURa)
5b: MURAMIC ACID (MURb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1W8
1
Ligand/Ion
CEFTAROLINE
2
AI8
1
Ligand/Ion
CEFTAROLINE, BOUND FORM
3
CD
-1
Ligand/Ion
CADMIUM ION
4
CL
-1
Ligand/Ion
CHLORIDE ION
5
MUR
1
Ligand/Ion
MURAMIC ACID
[
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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: BC2 (SOFTWARE)
11: BC3 (SOFTWARE)
12: BC4 (SOFTWARE)
13: BC5 (SOFTWARE)
14: BC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:143 , GLU A:145 , CL A:1010 , GLU B:145
BINDING SITE FOR RESIDUE CD A1001
02
AC2
SOFTWARE
ASP A:209 , GLY B:135 , HIS B:311 , CL B:1012
BINDING SITE FOR RESIDUE CD A1003
03
AC3
SOFTWARE
HIS A:232 , GLU B:378 , GLU B:385
BINDING SITE FOR RESIDUE CD A1004
04
AC4
SOFTWARE
GLY A:135 , HIS A:311 , CL A:1011 , HOH A:2051 , ASP B:209
BINDING SITE FOR RESIDUE CD A1005
05
AC5
SOFTWARE
ASP A:320 , GLU B:150
BINDING SITE FOR RESIDUE CD A1008
06
AC6
SOFTWARE
GLU A:145 , THR A:300 , CD A:1001 , GLU B:145
BINDING SITE FOR RESIDUE CL A1010
07
AC7
SOFTWARE
GLY A:135 , GLN A:137 , GLN A:140 , HIS A:311 , CD A:1005 , GLN B:207
BINDING SITE FOR RESIDUE CL A1011
08
AC8
SOFTWARE
GLU A:145 , HOH A:2057 , HIS B:143 , GLU B:145 , CL B:1009
BINDING SITE FOR RESIDUE CD B1002
09
AC9
SOFTWARE
GLU A:59 , HIS B:232
BINDING SITE FOR RESIDUE CD B1006
10
BC2
SOFTWARE
1W8 A:1669 , GLU B:145 , THR B:300 , VAL B:302 , CD B:1002
BINDING SITE FOR RESIDUE CL B1009
11
BC3
SOFTWARE
GLN A:207 , CD A:1003 , GLY B:135 , GLN B:140 , HIS B:311
BINDING SITE FOR RESIDUE CL B1012
12
BC4
SOFTWARE
ASN A:104 , TYR A:105 , ILE A:144 , GLU A:145 , ASN A:146 , ASP A:275 , HOH A:2038 , HOH A:2059 , GLU B:145 , ASN B:146 , LEU B:147 , ARG B:298 , SER B:306 , ASN B:307 , CL B:1009
BINDING SITE FOR RESIDUE 1W8 A1669
13
BC5
SOFTWARE
GLU A:150 , ARG A:151 , THR A:165 , GLU A:239 , SER A:240 , ARG A:241 , VAL A:256 , VAL A:277 , MET A:372 , HOH A:2065 , HOH A:2080
BINDING SITE FOR RESIDUE MUR A1670
14
BC7
SOFTWARE
GLY A:402 , SER A:403 , LYS A:406 , TYR A:446 , SER A:461 , SER A:462 , ASN A:464 , TYR A:519 , GLY A:520 , GLN A:521 , THR A:582 , LYS A:597 , SER A:598 , THR A:600 , ALA A:601 , GLU A:602 , HOH A:2219 , HOH A:2323
BINDING SITE FOR LIGAND AI8 A1403 BOUND TO SER A 403
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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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
(3, 6)
Info
All SCOP Domains
1a: SCOP_d3zfza1 (A:27-138)
1b: SCOP_d3zfzb1 (B:27-138)
2a: SCOP_d3zfza2 (A:139-327)
2b: SCOP_d3zfzb2 (B:139-327)
3a: SCOP_d3zfza3 (A:328-668)
3b: SCOP_d3zfzb3 (B:328-668)
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Classes
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)
(
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Folds
(
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(
)
Superfamilies
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)
(
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cystatin-like
(403)
Superfamily
:
NTF2-like
(231)
Family
:
automated matches
(27)
Protein domain
:
automated matches
(27)
Staphylococcus aureus [TaxId: 158878]
(2)
1a
d3zfza1
A:27-138
1b
d3zfzb1
B:27-138
Fold
:
Penicillin binding protein dimerisation domain
(32)
Superfamily
:
Penicillin binding protein dimerisation domain
(32)
Family
:
automated matches
(20)
Protein domain
:
automated matches
(20)
Staphylococcus aureus [TaxId: 158878]
(2)
2a
d3zfza2
A:139-327
2b
d3zfzb2
B:139-327
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
beta-lactamase/transpeptidase-like
(515)
Superfamily
:
beta-lactamase/transpeptidase-like
(515)
Family
:
beta-Lactamase/D-ala carboxypeptidase
(411)
Protein domain
:
automated matches
(81)
Staphylococcus aureus [TaxId: 158878]
(2)
3a
d3zfza3
A:328-668
3b
d3zfzb3
B:328-668
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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Protein & NOT Site
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Chain A
Asymmetric Unit 1
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Show PDB file:
Asym.Unit (454 KB)
Header - Asym.Unit
Biol.Unit 1 (225 KB)
Header - Biol.Unit 1
Biol.Unit 2 (227 KB)
Header - Biol.Unit 2
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