8UV4 | pdb_00008uv4

M. tuberculosis CTP synthase filament bound to substrates

PDB DOI: https://doi.org/10.2210/pdb8UV4/pdb
EM Map EMD-42605: EMDB EMDataResource

Classification: LIGASE
Organism(s): Mycobacterium tuberculosis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-11-02 Released: 2025-07-02
Deposition Author(s): Lynch, E.M., Kollman, J.M.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.20 Å
Aggregation State: FILAMENT
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

M. tuberculosis CTP synthase filament bound to substrates

Lynch, E.M., Kollman, J.M.

To be published.

Macromolecule Content

Total Structure Weight: 787 kDa
Atom Count: 50,388
Modeled Residue Count: 6,468
Deposited Residue Count: 7,104
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CTP synthase	A [auth R] B [auth V] C [auth X] D [auth b] E [auth A] A [auth R], B [auth V], C [auth X], D [auth b], E [auth A], F [auth E], G, H [auth K], I [auth B], J [auth F], K [auth H], L	592	Mycobacterium tuberculosis	Mutation(s): 0 Gene Names: pyrG EC: 6.3.4.2
UniProt
Find proteins for P9WHK7 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WHK7 Go to UniProtKB: P9WHK7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P9WHK7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
5ZL (Subject of Investigation/LOI) Query on 5ZL Download Ideal Coordinates CCD File SDF format, chain AA [auth b] SDF format, chain CB [auth H] SDF format, chain DA [auth A] SDF format, chain GB [auth L] SDF format, chain HA [auth E] SDF format, chain LA [auth G] SDF format, chain N [auth R] SDF format, chain PA [auth K] SDF format, chain S [auth V] SDF format, chain TA [auth B] SDF format, chain X SDF format, chain XA [auth F] MOL2 format, chain AA [auth b] MOL2 format, chain CB [auth H] MOL2 format, chain DA [auth A] MOL2 format, chain GB [auth L] MOL2 format, chain HA [auth E] MOL2 format, chain LA [auth G] MOL2 format, chain N [auth R] MOL2 format, chain PA [auth K] MOL2 format, chain S [auth V] MOL2 format, chain TA [auth B] MOL2 format, chain X MOL2 format, chain XA [auth F] mmCIF format, chain AA [auth b] mmCIF format, chain CB [auth H] mmCIF format, chain DA [auth A] mmCIF format, chain GB [auth L] mmCIF format, chain HA [auth E] mmCIF format, chain LA [auth G] mmCIF format, chain N [auth R] mmCIF format, chain PA [auth K] mmCIF format, chain S [auth V] mmCIF format, chain TA [auth B] mmCIF format, chain X mmCIF format, chain XA [auth F]	AA [auth b] CB [auth H] DA [auth A] GB [auth L] HA [auth E] AA [auth b], CB [auth H], DA [auth A], GB [auth L], HA [auth E], LA [auth G], N [auth R], PA [auth K], S [auth V], TA [auth B], X, XA [auth F]	[[(2~{R},3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-(2-oxidanyl-4-phosphonooxy-pyrimidin-1-yl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate C₉ H₁₇ N₂ O₁₈ P₄ RYGLMDXZXSWNKW-XVFCMESISA-O		Interactions Focus chain AA [auth b] Focus chain CB [auth H] Focus chain DA [auth A] Focus chain GB [auth L] Focus chain HA [auth E] Focus chain LA [auth G] Focus chain N [auth R] Focus chain PA [auth K] Focus chain S [auth V] Focus chain TA [auth B] Focus chain X Focus chain XA [auth F] Interactions & Density Focus chain AA [auth b] Focus chain CB [auth H] Focus chain DA [auth A] Focus chain GB [auth L] Focus chain HA [auth E] Focus chain LA [auth G] Focus chain N [auth R] Focus chain PA [auth K] Focus chain S [auth V] Focus chain TA [auth B] Focus chain X Focus chain XA [auth F]
ADP (Subject of Investigation/LOI) Query on ADP Download Ideal Coordinates CCD File SDF format, chain BB [auth H] SDF format, chain CA [auth A] SDF format, chain FB [auth L] SDF format, chain GA [auth E] SDF format, chain KA [auth G] SDF format, chain M [auth R] SDF format, chain OA [auth K] SDF format, chain R [auth V] SDF format, chain SA [auth B] SDF format, chain W [auth X] SDF format, chain WA [auth F] SDF format, chain Z [auth b] MOL2 format, chain BB [auth H] MOL2 format, chain CA [auth A] MOL2 format, chain FB [auth L] MOL2 format, chain GA [auth E] MOL2 format, chain KA [auth G] MOL2 format, chain M [auth R] MOL2 format, chain OA [auth K] MOL2 format, chain R [auth V] MOL2 format, chain SA [auth B] MOL2 format, chain W [auth X] MOL2 format, chain WA [auth F] MOL2 format, chain Z [auth b] mmCIF format, chain BB [auth H] mmCIF format, chain CA [auth A] mmCIF format, chain FB [auth L] mmCIF format, chain GA [auth E] mmCIF format, chain KA [auth G] mmCIF format, chain M [auth R] mmCIF format, chain OA [auth K] mmCIF format, chain R [auth V] mmCIF format, chain SA [auth B] mmCIF format, chain W [auth X] mmCIF format, chain WA [auth F] mmCIF format, chain Z [auth b]	BB [auth H] CA [auth A] FB [auth L] GA [auth E] KA [auth G] BB [auth H], CA [auth A], FB [auth L], GA [auth E], KA [auth G], M [auth R], OA [auth K], R [auth V], SA [auth B], W [auth X], WA [auth F], Z [auth b]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain BB [auth H] Focus chain CA [auth A] Focus chain FB [auth L] Focus chain GA [auth E] Focus chain KA [auth G] Focus chain M [auth R] Focus chain OA [auth K] Focus chain R [auth V] Focus chain SA [auth B] Focus chain W [auth X] Focus chain WA [auth F] Focus chain Z [auth b] Interactions & Density Focus chain BB [auth H] Focus chain CA [auth A] Focus chain FB [auth L] Focus chain GA [auth E] Focus chain KA [auth G] Focus chain M [auth R] Focus chain OA [auth K] Focus chain R [auth V] Focus chain SA [auth B] Focus chain W [auth X] Focus chain WA [auth F] Focus chain Z [auth b]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain AB [auth H] SDF format, chain BA [auth b] SDF format, chain DB [auth H] SDF format, chain EA [auth A] SDF format, chain EB [auth L] SDF format, chain FA [auth A] SDF format, chain HB [auth L] SDF format, chain IA [auth E] SDF format, chain JA [auth E] SDF format, chain MA [auth G] SDF format, chain NA [auth G] SDF format, chain O [auth R] SDF format, chain P [auth R] SDF format, chain Q [auth R] SDF format, chain QA [auth K] SDF format, chain RA [auth K] SDF format, chain T [auth V] SDF format, chain U [auth V] SDF format, chain UA [auth B] SDF format, chain V SDF format, chain VA [auth B] SDF format, chain Y [auth X] SDF format, chain YA [auth F] SDF format, chain ZA [auth F] MOL2 format, chain AB [auth H] MOL2 format, chain BA [auth b] MOL2 format, chain DB [auth H] MOL2 format, chain EA [auth A] MOL2 format, chain EB [auth L] MOL2 format, chain FA [auth A] MOL2 format, chain HB [auth L] MOL2 format, chain IA [auth E] MOL2 format, chain JA [auth E] MOL2 format, chain MA [auth G] MOL2 format, chain NA [auth G] MOL2 format, chain O [auth R] MOL2 format, chain P [auth R] MOL2 format, chain Q [auth R] MOL2 format, chain QA [auth K] MOL2 format, chain RA [auth K] MOL2 format, chain T [auth V] MOL2 format, chain U [auth V] MOL2 format, chain UA [auth B] MOL2 format, chain V MOL2 format, chain VA [auth B] MOL2 format, chain Y [auth X] MOL2 format, chain YA [auth F] MOL2 format, chain ZA [auth F] mmCIF format, chain AB [auth H] mmCIF format, chain BA [auth b] mmCIF format, chain DB [auth H] mmCIF format, chain EA [auth A] mmCIF format, chain EB [auth L] mmCIF format, chain FA [auth A] mmCIF format, chain HB [auth L] mmCIF format, chain IA [auth E] mmCIF format, chain JA [auth E] mmCIF format, chain MA [auth G] mmCIF format, chain NA [auth G] mmCIF format, chain O [auth R] mmCIF format, chain P [auth R] mmCIF format, chain Q [auth R] mmCIF format, chain QA [auth K] mmCIF format, chain RA [auth K] mmCIF format, chain T [auth V] mmCIF format, chain U [auth V] mmCIF format, chain UA [auth B] mmCIF format, chain V mmCIF format, chain VA [auth B] mmCIF format, chain Y [auth X] mmCIF format, chain YA [auth F] mmCIF format, chain ZA [auth F]	AB [auth H] BA [auth b] DB [auth H] EA [auth A] EB [auth L] AB [auth H], BA [auth b], DB [auth H], EA [auth A], EB [auth L], FA [auth A], HB [auth L], IA [auth E], JA [auth E], MA [auth G], NA [auth G], O [auth R], P [auth R], Q [auth R], QA [auth K], RA [auth K], T [auth V], U [auth V], UA [auth B], V, VA [auth B], Y [auth X], YA [auth F], ZA [auth F]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain AB [auth H] Focus chain BA [auth b] Focus chain DB [auth H] Focus chain EA [auth A] Focus chain EB [auth L] Focus chain FA [auth A] Focus chain HB [auth L] Focus chain IA [auth E] Focus chain JA [auth E] Focus chain MA [auth G] Focus chain NA [auth G] Focus chain O [auth R] Focus chain P [auth R] Focus chain Q [auth R] Focus chain QA [auth K] Focus chain RA [auth K] Focus chain T [auth V] Focus chain U [auth V] Focus chain UA [auth B] Focus chain V Focus chain VA [auth B] Focus chain Y [auth X] Focus chain YA [auth F] Focus chain ZA [auth F] Interactions & Density Focus chain AB [auth H] Focus chain BA [auth b] Focus chain DB [auth H] Focus chain EA [auth A] Focus chain EB [auth L] Focus chain FA [auth A] Focus chain HB [auth L] Focus chain IA [auth E] Focus chain JA [auth E] Focus chain MA [auth G] Focus chain NA [auth G] Focus chain O [auth R] Focus chain P [auth R] Focus chain Q [auth R] Focus chain QA [auth K] Focus chain RA [auth K] Focus chain T [auth V] Focus chain U [auth V] Focus chain UA [auth B] Focus chain V Focus chain VA [auth B] Focus chain Y [auth X] Focus chain YA [auth F] Focus chain ZA [auth F]