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3DWK
Biol. Unit 2
Info
Asym.Unit (363 KB)
Biol.Unit 1 (93 KB)
Biol.Unit 2 (95 KB)
Biol.Unit 3 (95 KB)
Biol.Unit 4 (93 KB)
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(1)
Title
:
IDENTIFICATION OF DYNAMIC STRUCTURAL MOTIFS INVOLVED IN PEPTIDOGLYCAN GLYCOSYLTRANSFER
Authors
:
A. L. Lovering, L. De Castro, N. C. J. Strynadka
Date
:
22 Jul 08 (Deposition) - 30 Sep 08 (Release) - 18 Aug 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Lysozyme-Fold Transpeptidase Fold Pi-Helix, Cell Shape, Cell Wall Biogenesis/Degradation, Membrane, Peptidoglycan Synthesis, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. L. Lovering, L. De Castro, N. C. Strynadka
Identification Of Dynamic Structural Motifs Involved In Peptidoglycan Glycosyltransfer.
J. Mol. Biol. V. 383 167 2008
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 13)
Info
All Hetero Components
1a: LAURYL DIMETHYLAMINE-N-OXIDE (LDAa)
2a: SULFATE ION (SO4a)
2aa: SULFATE ION (SO4aa)
2ab: SULFATE ION (SO4ab)
2ac: SULFATE ION (SO4ac)
2ad: SULFATE ION (SO4ad)
2ae: SULFATE ION (SO4ae)
2af: SULFATE ION (SO4af)
2ag: SULFATE ION (SO4ag)
2ah: SULFATE ION (SO4ah)
2ai: SULFATE ION (SO4ai)
2aj: SULFATE ION (SO4aj)
2ak: SULFATE ION (SO4ak)
2al: SULFATE ION (SO4al)
2am: SULFATE ION (SO4am)
2an: SULFATE ION (SO4an)
2ao: SULFATE ION (SO4ao)
2ap: SULFATE ION (SO4ap)
2aq: SULFATE ION (SO4aq)
2ar: SULFATE ION (SO4ar)
2as: SULFATE ION (SO4as)
2at: SULFATE ION (SO4at)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
2m: SULFATE ION (SO4m)
2n: SULFATE ION (SO4n)
2o: SULFATE ION (SO4o)
2p: SULFATE ION (SO4p)
2q: SULFATE ION (SO4q)
2r: SULFATE ION (SO4r)
2s: SULFATE ION (SO4s)
2t: SULFATE ION (SO4t)
2u: SULFATE ION (SO4u)
2v: SULFATE ION (SO4v)
2w: SULFATE ION (SO4w)
2x: SULFATE ION (SO4x)
2y: SULFATE ION (SO4y)
2z: SULFATE ION (SO4z)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
LDA
-1
Ligand/Ion
LAURYL DIMETHYLAMINE-N-OXIDE
2
SO4
13
Ligand/Ion
SULFATE ION
[
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Sites
(15, 15)
Info
All Sites
01: AC3 (SOFTWARE)
02: AC8 (SOFTWARE)
03: BC9 (SOFTWARE)
04: CC1 (SOFTWARE)
05: CC3 (SOFTWARE)
06: CC5 (SOFTWARE)
07: DC2 (SOFTWARE)
08: DC4 (SOFTWARE)
09: DC5 (SOFTWARE)
10: DC6 (SOFTWARE)
11: DC7 (SOFTWARE)
12: DC8 (SOFTWARE)
13: EC3 (SOFTWARE)
14: EC5 (SOFTWARE)
15: EC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC3
SOFTWARE
HIS A:94 , HIS A:96 , ASN A:193 , GLY B:471 , ASN B:472
BINDING SITE FOR RESIDUE SO4 A 3
02
AC8
SOFTWARE
SER B:398 , SER B:454 , THR B:584 , GLY B:585 , THR B:586
BINDING SITE FOR RESIDUE SO4 B 8
03
BC9
SOFTWARE
ASP B:71 , HIS B:94 , HIS B:96
BINDING SITE FOR RESIDUE SO4 B 20
04
CC1
SOFTWARE
ASN B:602 , GLY B:637 , HIS B:638
BINDING SITE FOR RESIDUE SO4 B 21
05
CC3
SOFTWARE
LYS B:266 , THR B:687 , ASN B:688
BINDING SITE FOR RESIDUE SO4 B 23
06
CC5
SOFTWARE
ASN B:386 , ARG B:387
BINDING SITE FOR RESIDUE SO4 B 25
07
DC2
SOFTWARE
TRP B:415 , SER B:465 , ASN B:469
BINDING SITE FOR RESIDUE SO4 B 32
08
DC4
SOFTWARE
HIS B:121 , GLY B:122 , SER C:639 , GLN C:640
BINDING SITE FOR RESIDUE SO4 B 34
09
DC5
SOFTWARE
TYR B:589 , GLY B:590 , THR B:593 , LYS B:605
BINDING SITE FOR RESIDUE SO4 B 35
10
DC6
SOFTWARE
LYS B:214 , ASN B:220 , ASN B:279
BINDING SITE FOR RESIDUE SO4 B 36
11
DC7
SOFTWARE
ARG B:93 , ARG B:283
BINDING SITE FOR RESIDUE SO4 B 37
12
DC8
SOFTWARE
ASP B:241 , HIS B:242 , PRO B:243 , LYS B:244 , ALA B:245
BINDING SITE FOR RESIDUE SO4 B 38
13
EC3
SOFTWARE
TYR B:173 , TYR B:176 , ARG B:177 , SER D:164 , ILE D:165 , GLY D:166
BINDING SITE FOR RESIDUE SO4 B 42
14
EC5
SOFTWARE
SER B:670 , ASN B:677 , SER B:679 , GLY B:680 , GLN B:682
BINDING SITE FOR RESIDUE SO4 B 44
15
EC8
SOFTWARE
SER A:351 , TYR A:643 , LEU B:129 , GLY B:134 , TYR D:126 , ALA D:169 , ALA D:172 , TYR D:173 , TYR D:176
BINDING SITE FOR RESIDUE LDA D 1
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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)
Info
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;
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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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d3dwka1 (A:71-290)
1b: SCOP_d3dwkb1 (B:71-292)
1c: SCOP_d3dwkc1 (C:70-292)
1d: SCOP_d3dwkd1 (D:73-292)
2a: SCOP_d3dwka2 (A:296-692)
2b: SCOP_d3dwkb2 (B:293-692)
2c: SCOP_d3dwkc2 (C:293-692)
2d: SCOP_d3dwkd2 (D:293-692)
View:
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Classes
(
)
(
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(
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(
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Lysozyme-like
(1361)
Superfamily
:
Lysozyme-like
(1361)
Family
:
PBP transglycosylase domain-like
(7)
Protein domain
:
Penicillin-binding protein 2, PBP2
(3)
Staphylococcus aureus [TaxId: 1280]
(3)
1a
d3dwka1
A:71-290
1b
d3dwkb1
B:71-292
1c
d3dwkc1
C:70-292
1d
d3dwkd1
D:73-292
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
:
Penicillin-binding protein 2, PBP2
(3)
Staphylococcus aureus [TaxId: 1280]
(3)
2a
d3dwka2
A:296-692
2b
d3dwkb2
B:293-692
2c
d3dwkc2
C:293-692
2d
d3dwkd2
D:293-692
[
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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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Chain B
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (363 KB)
Header - Asym.Unit
Biol.Unit 1 (93 KB)
Header - Biol.Unit 1
Biol.Unit 2 (95 KB)
Header - Biol.Unit 2
Biol.Unit 3 (95 KB)
Header - Biol.Unit 3
Biol.Unit 4 (93 KB)
Header - Biol.Unit 4
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