7K5Z | pdb_00007k5z

Crystal Structure of Argininosuccinate synthase from Legionella pneumophila Philadelphia 1 in complex with ANPPNP and a substrate analogue Arginine

PDB DOI: https://doi.org/10.2210/pdb7K5Z/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): Legionella pneumophila subsp. pneumophila str. Philadelphia 1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2020-09-17 Released: 2020-09-30
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free:
0.190 (Depositor), 0.189 (DCC)
R-Value Work:
0.157 (Depositor), 0.157 (DCC)
R-Value Observed:
0.157 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Crystal Structure of Argininosuccinate synthase from Legionella pneumophila Philadelphia 1 in complex with ANPPNP and a substrate analogue Arginine

Abendroth, J.A., Dranow, D.M., Lorimer, D.D., Horanyi, P.S., Edwards, T.E.

To be published.

Macromolecule Content

Total Structure Weight: 188.4 kDa
Atom Count: 14,137
Modeled Residue Count: 1,558
Deposited Residue Count: 1,652
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Argininosuccinate synthase	A, B, C, D	413	Legionella pneumophila subsp. pneumophila str. Philadelphia 1	Mutation(s): 0 Gene Names: argG, lpg0494 EC: 6.3.4.5
UniProt
Find proteins for Q5ZY78 (Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513)) Explore Q5ZY78 Go to UniProtKB: Q5ZY78
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5ZY78
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ANP (Subject of Investigation/LOI) Query on ANP Download:Ideal Coordinates CCD File SDF format, chain FA [auth D] SDF format, chain O [auth B] SDF format, chain W [auth C] SDF format, chain E [auth A] MOL2 format, chain FA [auth D] MOL2 format, chain O [auth B] MOL2 format, chain W [auth C] MOL2 format, chain E [auth A] mmCIF format, chain FA [auth D] mmCIF format, chain O [auth B] mmCIF format, chain W [auth C] mmCIF format, chain E [auth A]	E [auth A], FA [auth D], O [auth B], W [auth C]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C₁₀ H₁₇ N₆ O₁₂ P₃ PVKSNHVPLWYQGJ-KQYNXXCUSA-N		Interactions Focus chain E [auth A] Focus chain FA [auth D] Focus chain O [auth B] Focus chain W [auth C] Interactions & Density Focus chain E [auth A] Focus chain FA [auth D] Focus chain O [auth B] Focus chain W [auth C]
ARG (Subject of Investigation/LOI) Query on ARG Download:Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain GA [auth D] SDF format, chain X [auth C] SDF format, chain P [auth B] MOL2 format, chain F [auth A] MOL2 format, chain GA [auth D] MOL2 format, chain X [auth C] MOL2 format, chain P [auth B] mmCIF format, chain F [auth A] mmCIF format, chain GA [auth D] mmCIF format, chain X [auth C] mmCIF format, chain P [auth B]	F [auth A], GA [auth D], P [auth B], X [auth C]	ARGININE C₆ H₁₅ N₄ O₂ ODKSFYDXXFIFQN-BYPYZUCNSA-O		Interactions Focus chain F [auth A] Focus chain GA [auth D] Focus chain P [auth B] Focus chain X [auth C] Interactions & Density Focus chain F [auth A] Focus chain GA [auth D] Focus chain P [auth B] Focus chain X [auth C]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain BA [auth C] SDF format, chain EA [auth D] SDF format, chain H [auth A] SDF format, chain I [auth A] SDF format, chain IA [auth D] SDF format, chain J [auth A] SDF format, chain JA [auth D] SDF format, chain KA [auth D] SDF format, chain N [auth A] SDF format, chain S [auth B] SDF format, chain T [auth B] SDF format, chain U [auth B] SDF format, chain V [auth C] SDF format, chain Z [auth C] SDF format, chain R [auth B] SDF format, chain M [auth A] SDF format, chain L [auth A] SDF format, chain DA [auth C] SDF format, chain CA [auth C] SDF format, chain AA [auth C] MOL2 format, chain BA [auth C] MOL2 format, chain EA [auth D] MOL2 format, chain H [auth A] MOL2 format, chain I [auth A] MOL2 format, chain IA [auth D] MOL2 format, chain J [auth A] MOL2 format, chain JA [auth D] MOL2 format, chain KA [auth D] MOL2 format, chain N [auth A] MOL2 format, chain S [auth B] MOL2 format, chain T [auth B] MOL2 format, chain U [auth B] MOL2 format, chain V [auth C] MOL2 format, chain Z [auth C] MOL2 format, chain R [auth B] MOL2 format, chain M [auth A] MOL2 format, chain L [auth A] MOL2 format, chain DA [auth C] MOL2 format, chain CA [auth C] MOL2 format, chain AA [auth C] mmCIF format, chain BA [auth C] mmCIF format, chain EA [auth D] mmCIF format, chain H [auth A] mmCIF format, chain I [auth A] mmCIF format, chain IA [auth D] mmCIF format, chain J [auth A] mmCIF format, chain JA [auth D] mmCIF format, chain KA [auth D] mmCIF format, chain N [auth A] mmCIF format, chain S [auth B] mmCIF format, chain T [auth B] mmCIF format, chain U [auth B] mmCIF format, chain V [auth C] mmCIF format, chain Z [auth C] mmCIF format, chain R [auth B] mmCIF format, chain M [auth A] mmCIF format, chain L [auth A] mmCIF format, chain DA [auth C] mmCIF format, chain CA [auth C] mmCIF format, chain AA [auth C]	AA [auth C] BA [auth C] CA [auth C] DA [auth C] EA [auth D] AA [auth C], BA [auth C], CA [auth C], DA [auth C], EA [auth D], H [auth A], I [auth A], IA [auth D], J [auth A], JA [auth D], KA [auth D], L [auth A], M [auth A], N [auth A], R [auth B], S [auth B], T [auth B], U [auth B], V [auth C], Z [auth C]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain AA [auth C] Focus chain BA [auth C] Focus chain CA [auth C] Focus chain DA [auth C] Focus chain EA [auth D] Focus chain H [auth A] Focus chain I [auth A] Focus chain IA [auth D] Focus chain J [auth A] Focus chain JA [auth D] Focus chain KA [auth D] Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain R [auth B] Focus chain S [auth B] Focus chain T [auth B] Focus chain U [auth B] Focus chain V [auth C] Focus chain Z [auth C] Interactions & Density Focus chain AA [auth C] Focus chain BA [auth C] Focus chain CA [auth C] Focus chain DA [auth C] Focus chain EA [auth D] Focus chain H [auth A] Focus chain I [auth A] Focus chain IA [auth D] Focus chain J [auth A] Focus chain JA [auth D] Focus chain KA [auth D] Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain R [auth B] Focus chain S [auth B] Focus chain T [auth B] Focus chain U [auth B] Focus chain V [auth C] Focus chain Z [auth C]
ACT Query on ACT Download:Ideal Coordinates CCD File SDF format, chain K [auth A] MOL2 format, chain K [auth A] mmCIF format, chain K [auth A]	K [auth A]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain K [auth A] Interactions & Density Focus chain K [auth A]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain Y [auth C] SDF format, chain Q [auth B] SDF format, chain HA [auth D] SDF format, chain G [auth A] MOL2 format, chain Y [auth C] MOL2 format, chain Q [auth B] MOL2 format, chain HA [auth D] MOL2 format, chain G [auth A] mmCIF format, chain Y [auth C] mmCIF format, chain Q [auth B] mmCIF format, chain HA [auth D] mmCIF format, chain G [auth A]	G [auth A], HA [auth D], Q [auth B], Y [auth C]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain HA [auth D] Focus chain Q [auth B] Focus chain Y [auth C] Interactions & Density Focus chain G [auth A] Focus chain HA [auth D] Focus chain Q [auth B] Focus chain Y [auth C]