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4B4Z
Biol. Unit 3
Info
Asym.Unit (301 KB)
Biol.Unit 1 (79 KB)
Biol.Unit 2 (78 KB)
Biol.Unit 3 (79 KB)
Biol.Unit 4 (76 KB)
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Title
:
CRYSTAL STRUCTURE OF A COMPLEX BETWEEN ACTINOMADURA R39 DD-PEPTIDASE AND A SULFONAMIDE BORONATE INHIBITOR
Authors
:
S. E. Cannella, E. Sauvage, R. Herman, F. Kerff, M. Rocaboy, P. Charlier
Date
:
02 Aug 12 (Deposition) - 21 Aug 13 (Release) - 21 Aug 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
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
:
Hydrolase, Boronic Acid, Peptidoglycan
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
E. Sauvage
Crystal Structure Of A Complex Between Actinomadura R39 Dd-Peptidase And A Boronate Inhibitor
To Be Published
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Hetero Components
(2, 8)
Info
All Hetero Components
1a: {[(BENZYLSULFONYL)AMINO]METHYL}BOR... (BSFa)
1b: {[(BENZYLSULFONYL)AMINO]METHYL}BOR... (BSFb)
1c: {[(BENZYLSULFONYL)AMINO]METHYL}BOR... (BSFc)
1d: {[(BENZYLSULFONYL)AMINO]METHYL}BOR... (BSFd)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
3l: SULFATE ION (SO4l)
3m: SULFATE ION (SO4m)
3n: SULFATE ION (SO4n)
3o: SULFATE ION (SO4o)
3p: SULFATE ION (SO4p)
3q: SULFATE ION (SO4q)
3r: SULFATE ION (SO4r)
3s: SULFATE ION (SO4s)
3t: SULFATE ION (SO4t)
3u: SULFATE ION (SO4u)
3v: SULFATE ION (SO4v)
3w: SULFATE ION (SO4w)
3x: SULFATE ION (SO4x)
3y: SULFATE ION (SO4y)
3z: SULFATE ION (SO4z)
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No.
Name
Count
Type
Full Name
1
BSF
1
Ligand/Ion
{[(BENZYLSULFONYL)AMINO]METHYL}BORONIC ACID
2
MG
-1
Ligand/Ion
MAGNESIUM ION
3
SO4
7
Ligand/Ion
SULFATE ION
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Sites
(8, 8)
Info
All Sites
1: BC4 (SOFTWARE)
2: BC5 (SOFTWARE)
3: BC6 (SOFTWARE)
4: BC7 (SOFTWARE)
5: BC8 (SOFTWARE)
6: CC7 (SOFTWARE)
7: DC3 (SOFTWARE)
8: DC5 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
BC4
SOFTWARE
SER C:49 , PHE C:297 , SER C:298 , LYS C:410 , THR C:411 , GLY C:412 , THR C:413 , HOH C:2229 , HOH C:2276
BINDING SITE FOR RESIDUE BSF C 500
2
BC5
SOFTWARE
HIS C:282 , THR C:283 , HOH C:2087
BINDING SITE FOR RESIDUE SO4 C1466
3
BC6
SOFTWARE
ARG C:236 , HOH C:2294
BINDING SITE FOR RESIDUE SO4 C1467
4
BC7
SOFTWARE
SER C:131 , GLU C:132 , ARG C:133 , LEU C:134 , HOH C:2103
BINDING SITE FOR RESIDUE SO4 C1468
5
BC8
SOFTWARE
GLY C:159 , GLU C:160 , ARG C:161 , SO4 C:1472 , HOH C:2145
BINDING SITE FOR RESIDUE SO4 C1469
6
CC7
SOFTWARE
HIS C:158 , GLY C:159 , SO4 C:1472 , HOH C:2082
BINDING SITE FOR RESIDUE SO4 C1470
7
DC3
SOFTWARE
THR C:413 , HOH C:2122 , HOH C:2134
BINDING SITE FOR RESIDUE SO4 C1471
8
DC5
SOFTWARE
HIS C:158 , GLU C:168 , SO4 C:1469 , SO4 C:1470
BINDING SITE FOR RESIDUE SO4 C1472
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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
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Exons
(0, 0)
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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, 4)
Info
All SCOP Domains
1a: SCOP_d4b4za_ (A:)
1b: SCOP_d4b4zb_ (B:)
1c: SCOP_d4b4zc_ (C:)
1d: SCOP_d4b4zd_ (D:)
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Organisms
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(
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Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
beta-lactamase/transpeptidase-like
(515)
Superfamily
:
beta-lactamase/transpeptidase-like
(515)
Family
:
Dac-like
(29)
Protein domain
:
D-alanyl-D-alanine carboxypeptidase Dac
(17)
Actinomadura sp. [TaxId: 1989]
(17)
1a
d4b4za_
A:
1b
d4b4zb_
B:
1c
d4b4zc_
C:
1d
d4b4zd_
D:
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CATH Domains
(0, 0)
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Pfam Domains
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Chain C
Asymmetric Unit 1
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Asym.Unit (301 KB)
Header - Asym.Unit
Biol.Unit 1 (79 KB)
Header - Biol.Unit 1
Biol.Unit 2 (78 KB)
Header - Biol.Unit 2
Biol.Unit 3 (79 KB)
Header - Biol.Unit 3
Biol.Unit 4 (76 KB)
Header - Biol.Unit 4
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