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4F78
Asym. Unit
Info
Asym.Unit (100 KB)
Biol.Unit 1 (94 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF VANCOMYCIN RESISTANCE D,D-DIPEPTIDASE VANXYG
Authors
:
P. J. Stogios, Z. Wawrzak, E. Evdokimova, G. Minasov, O. Egorova, R. Di M. Kudritska, V. Yim, D. Meziane-Cherif, P. Courvalin, A. Savchenko, W. F. Anderson, Center For Structural Genomics Of Infectious D (Csgid)
Date
:
15 May 12 (Deposition) - 23 May 12 (Release) - 14 May 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Center For Structural Genomics Of Infectious Diseases, Csgid, National Institute Of Allergy And Infectious Diseases, Niaid, Alpha+Beta Protein, Metallopeptidase, Hedgehog/Dd-Peptidase Fold, Merops M15B Subfamily, Zn2+-Dependent D, D-Dipeptidase, Vancomycin Resistance, D-Alanine-D-Alanine, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Meziane-Cherif, P. J. Stogios, E. Evdokimova, A. Savchenko, P. Courvalin
Structural Basis For The Evolution Of Vancomycin Resistance D, D-Peptidases.
Proc. Natl. Acad. Sci. Usa V. 111 5872 2014
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Hetero Components
(6, 20)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
4a: SELENOMETHIONINE (MSEa)
4b: SELENOMETHIONINE (MSEb)
4c: SELENOMETHIONINE (MSEc)
4d: SELENOMETHIONINE (MSEd)
5a: SULFATE ION (SO4a)
6a: ZINC ION (ZNa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CL
1
Ligand/Ion
CHLORIDE ION
2
EDO
10
Ligand/Ion
1,2-ETHANEDIOL
3
GOL
3
Ligand/Ion
GLYCEROL
4
MSE
4
Mod. Amino Acid
SELENOMETHIONINE
5
SO4
1
Ligand/Ion
SULFATE ION
6
ZN
1
Ligand/Ion
ZINC ION
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Sites
(16, 16)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:107 , ASP A:114 , HIS A:167 , SO4 A:303 , HOH A:418
BINDING SITE FOR RESIDUE ZN A 301
02
AC2
SOFTWARE
MSE A:2 , LYS A:3 , THR A:4 , LYS A:227
BINDING SITE FOR RESIDUE CL A 302
03
AC3
SOFTWARE
ARG A:74 , GLN A:79 , VAL A:99 , ALA A:100 , SER A:105 , HIS A:107 , HIS A:167 , ZN A:301 , HOH A:424 , HOH A:460 , HOH A:483
BINDING SITE FOR RESIDUE SO4 A 303
04
AC4
SOFTWARE
LYS A:120 , GLU A:157 , EDO A:310
BINDING SITE FOR RESIDUE EDO A 304
05
AC5
SOFTWARE
PRO A:36 , ALA A:37 , ASN A:52 , GLN A:191 , HOH A:442 , HOH A:512 , HOH A:516
BINDING SITE FOR RESIDUE EDO A 305
06
AC6
SOFTWARE
GLU A:188 , PHE A:192 , HOH A:470
BINDING SITE FOR RESIDUE EDO A 306
07
AC7
SOFTWARE
PRO A:218 , EDO A:308 , HOH A:431 , HOH A:491 , HOH A:524
BINDING SITE FOR RESIDUE EDO A 307
08
AC8
SOFTWARE
ASP A:199 , EDO A:307
BINDING SITE FOR RESIDUE EDO A 308
09
AC9
SOFTWARE
ASN A:21 , LYS A:22 , ILE A:158 , THR A:159
BINDING SITE FOR RESIDUE EDO A 309
10
BC1
SOFTWARE
LYS A:97 , GLY A:160 , ILE A:161 , SER A:162 , EDO A:304
BINDING SITE FOR RESIDUE EDO A 310
11
BC2
SOFTWARE
GLY A:91 , GLU A:92 , ASP A:93 , HOH A:420
BINDING SITE FOR RESIDUE EDO A 311
12
BC3
SOFTWARE
GLU A:181 , PHE A:204 , GLU A:205 , HOH A:584
BINDING SITE FOR RESIDUE EDO A 312
13
BC4
SOFTWARE
ASP A:144 , ARG A:209 , HOH A:531
BINDING SITE FOR RESIDUE EDO A 313
14
BC5
SOFTWARE
ALA A:152 , ARG A:153 , ASP A:154
BINDING SITE FOR RESIDUE GOL A 314
15
BC6
SOFTWARE
ASN A:65 , SER A:66 , LYS A:155
BINDING SITE FOR RESIDUE GOL A 315
16
BC7
SOFTWARE
CYS A:14 , GLY A:15 , LEU A:18 , VAL A:31 , THR A:109 , HOH A:578 , HOH A:585
BINDING SITE FOR RESIDUE GOL A 316
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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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
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CATH Domains
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Pfam Domains
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Chain A
Asymmetric Unit 1
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