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3Q6X
Asym. Unit
Info
Asym.Unit (168 KB)
Biol.Unit 1 (83 KB)
Biol.Unit 2 (82 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF NDM-1 IN COMPLEX WITH HYDROLYZED AMPICILLIN
Authors
:
H. Zhang, Q. Hao
Date
:
04 Jan 11 (Deposition) - 18 May 11 (Release) - 05 Mar 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.30
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Antibiotic Resistant, Beta-Lactamase, Ndm-1, Hydrolase-Antibiotic Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Zhang, Q. Hao
Crystal Structure Of Ndm-1 Reveals A Common Beta-Lactam Hydrolysis Mechanism
Faseb J. V. 25 2574 2011
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Hetero Components
(3, 7)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
2d: ZINC ION (ZNd)
3a: (2R,4S)-2-[(R)-{[(2R)-2-AMINO-2-PH... (ZZ7a)
3b: (2R,4S)-2-[(R)-{[(2R)-2-AMINO-2-PH... (ZZ7b)
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No.
Name
Count
Type
Full Name
1
GOL
1
Ligand/Ion
GLYCEROL
2
ZN
4
Ligand/Ion
ZINC ION
3
ZZ7
2
Ligand/Ion
(2R,4S)-2-[(R)-{[(2R)-2-AMINO-2-PHENYLACETYL]AMINO}(CARBOXY)METHYL]-5,5-DIMETHYL-1,3-THIAZOLIDINE-4-CARBOXYLIC ACID
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ZN A:3 , ZN A:4 , LEU A:65 , MET A:67 , TRP A:93 , HIS A:122 , GLN A:123 , ASP A:124 , HIS A:189 , CYS A:208 , LYS A:211 , GLY A:219 , ASN A:220 , HIS A:250 , HOH A:302 , HOH A:314 , HOH A:320 , HOH A:417 , HOH A:441 , THR B:34 , PRO B:68 , GLY B:69
BINDING SITE FOR RESIDUE ZZ7 A 1
2
AC2
SOFTWARE
ZZ7 A:1 , HIS A:120 , HIS A:122 , HIS A:189 , HOH A:417
BINDING SITE FOR RESIDUE ZN A 3
3
AC3
SOFTWARE
ZZ7 A:1 , ASP A:124 , CYS A:208 , HIS A:250 , HOH A:417
BINDING SITE FOR RESIDUE ZN A 4
4
AC4
SOFTWARE
ASN A:110 , LYS A:181 , ILE A:198 , ASP A:199 , THR A:201 , ILE A:203 , ALA A:243 , HOH A:297 , HOH A:509
BINDING SITE FOR RESIDUE GOL A 271
5
AC5
SOFTWARE
THR A:34 , GLY A:69 , ZN B:1 , LEU B:65 , MET B:67 , TRP B:93 , HIS B:122 , GLN B:123 , ASP B:124 , HIS B:189 , CYS B:208 , LYS B:211 , GLY B:219 , ASN B:220 , HIS B:250 , ZN B:271 , HOH B:355 , HOH B:356 , HOH B:371 , HOH B:415 , HOH B:424
BINDING SITE FOR RESIDUE ZZ7 B 2
6
AC6
SOFTWARE
ZZ7 B:2 , HIS B:120 , HIS B:122 , HIS B:189 , HOH B:415
BINDING SITE FOR RESIDUE ZN B 1
7
AC7
SOFTWARE
ZZ7 B:2 , ASP B:124 , CYS B:208 , HIS B:250 , HOH B:415
BINDING SITE FOR RESIDUE ZN B 271
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SAPs(SNPs)/Variants
(0, 0)
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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.
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3q6xa_ (A:)
1b: SCOP_d3q6xb_ (B:)
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Protein Domains
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Organisms
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(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Metallo-hydrolase/oxidoreductase
(184)
Superfamily
:
Metallo-hydrolase/oxidoreductase
(184)
Family
:
automated matches
(42)
Protein domain
:
automated matches
(42)
Klebsiella pneumoniae [TaxId: 573]
(21)
1a
d3q6xa_
A:
1b
d3q6xb_
B:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Lactamase_B_3q6xB01 (B:70-250)
1b: PFAM_Lactamase_B_3q6xB02 (B:70-250)
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Clan
:
Metallo-HOrase
(67)
Family
:
Lactamase_B
(53)
Klebsiella pneumoniae
(6)
1a
Lactamase_B-3q6xB01
B:70-250
1b
Lactamase_B-3q6xB02
B:70-250
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Asymmetric Unit 1
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Asym.Unit (168 KB)
Header - Asym.Unit
Biol.Unit 1 (83 KB)
Header - Biol.Unit 1
Biol.Unit 2 (82 KB)
Header - Biol.Unit 2
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