Crystal Structure of Apo UDP-N-acetylmuramoylalanine--D-glutamate ligase (MurD) from E. coli (ADP bound)
Seibold, S., Lovell, S., Liu, L., Battaile, K.P.To be published.
Experimental Data Snapshot
Starting Model: experimental
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Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
UDP-N-acetylmuramoylalanine--D-glutamate ligase | 445 | Escherichia coli K-12 | Mutation(s): 0  Gene Names: murD, b0088, JW0086 EC: 6.3.2.9 | ||
UniProt | |||||
Find proteins for P14900 (Escherichia coli (strain K12)) Explore P14900  Go to UniProtKB:  P14900 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P14900 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 5 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
ADP (Subject of Investigation/LOI) Query on ADP | B [auth A] | ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N | |||
MPD Query on MPD | I [auth A] | (4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N | |||
DMS Query on DMS | J [auth A] | DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N | |||
CA Query on CA | F [auth A], G [auth A], H [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N | |||
MG Query on MG | C [auth A], D [auth A], E [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Modified Residues 1 Unique | |||||
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ID | Chains | Type | Formula | 2D Diagram | Parent |
KCX Query on KCX | A | L-PEPTIDE LINKING | C7 H14 N2 O4 | LYS |
Length ( Å ) | Angle ( ˚ ) |
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a = 58.47 | α = 90 |
b = 69.235 | β = 90 |
c = 100.468 | γ = 90 |
Software Name | Purpose |
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PHENIX | refinement |
Aimless | data scaling |
XDS | data reduction |
PHASER | phasing |
Funding Organization | Location | Grant Number |
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National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | 75N93022C00036 |
National Institutes of Health/Office of the Director | United States | S10OD030394 |