7SZP | pdb_00007szp

Crystal Structure of Histidinol-phosphate aminotransferase from Klebsiella pneumoniae subsp. pneumoniae (strain HS11286)

PDB DOI: https://doi.org/10.2210/pdb7SZP/pdb

Classification: TRANSFERASE
Organism(s): Klebsiella pneumoniae
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-11-29 Released: 2021-12-15
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.193 (Depositor), 0.200 (DCC)
R-Value Work:
0.151 (Depositor), 0.158 (DCC)
R-Value Observed:
0.152 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.2 of the entry. See complete history.

Literature

Crystal Structure of Histidinol-phosphate aminotransferase from Klebsiella pneumoniae subsp. pneumoniae (strain HS11286)

Abendroth, J., DeBouver, N.D., Lorimer, D.D., Horanyi, P.S., Edwards, T.E.

To be published.

Macromolecule Content

Total Structure Weight: 161.34 kDa
Atom Count: 12,541
Modeled Residue Count: 1,401
Deposited Residue Count: 1,444
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histidinol-phosphate aminotransferase	A, B, C, D	361	Klebsiella pneumoniae	Mutation(s): 0 Gene Names: hisC, BANRA_00698, BN49_3694, C3F39_24445, DBX64_10115, DD583_14750, DRB11_00465, GJJ08_009030, GTH21_13695, NCTC11679_01843... hisC, BANRA_00698, BN49_3694, C3F39_24445, DBX64_10115, DD583_14750, DRB11_00465, GJJ08_009030, GTH21_13695, NCTC11679_01843, NCTC13465_03304, NCTC204_04368, NCTC3279_02744, NCTC5052_02322, NCTC5053_06444, NCTC8849_04067, NCTC9128_08148, NCTC9645_00032, NCTC9661_02650, SAMEA3499901_05026, SAMEA3515130_03500, SAMEA3538828_00142, SAMEA3649466_00212, SAMEA3729663_00211, SAMEA4364603_01150 EC: 2.6.1.9
UniProt
Find proteins for A6TBC4 (Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)) Explore A6TBC4 Go to UniProtKB: A6TBC4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A6TBC4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PLP (Subject of Investigation/LOI) Query on PLP Download:Ideal Coordinates CCD File SDF format, chain Y [auth D] SDF format, chain Q [auth C] SDF format, chain L [auth B] SDF format, chain E [auth A] MOL2 format, chain Y [auth D] MOL2 format, chain Q [auth C] MOL2 format, chain L [auth B] MOL2 format, chain E [auth A] mmCIF format, chain Y [auth D] mmCIF format, chain Q [auth C] mmCIF format, chain L [auth B] mmCIF format, chain E [auth A]	E [auth A], L [auth B], Q [auth C], Y [auth D]	PYRIDOXAL-5'-PHOSPHATE C₈ H₁₀ N O₆ P NGVDGCNFYWLIFO-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain L [auth B] Focus chain Q [auth C] Focus chain Y [auth D] Interactions & Density Focus chain E [auth A] Focus chain L [auth B] Focus chain Q [auth C] Focus chain Y [auth D]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain Z [auth D] SDF format, chain T [auth C] SDF format, chain S [auth C] SDF format, chain R [auth C] SDF format, chain N [auth B] SDF format, chain M [auth B] SDF format, chain H [auth A] SDF format, chain G [auth A] SDF format, chain F [auth A] SDF format, chain AA [auth D] MOL2 format, chain Z [auth D] MOL2 format, chain T [auth C] MOL2 format, chain S [auth C] MOL2 format, chain R [auth C] MOL2 format, chain N [auth B] MOL2 format, chain M [auth B] MOL2 format, chain H [auth A] MOL2 format, chain G [auth A] MOL2 format, chain F [auth A] MOL2 format, chain AA [auth D] mmCIF format, chain Z [auth D] mmCIF format, chain T [auth C] mmCIF format, chain S [auth C] mmCIF format, chain R [auth C] mmCIF format, chain N [auth B] mmCIF format, chain M [auth B] mmCIF format, chain H [auth A] mmCIF format, chain G [auth A] mmCIF format, chain F [auth A] mmCIF format, chain AA [auth D]	AA [auth D] F [auth A] G [auth A] H [auth A] M [auth B] AA [auth D], F [auth A], G [auth A], H [auth A], M [auth B], N [auth B], R [auth C], S [auth C], T [auth C], Z [auth D]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain AA [auth D] Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain M [auth B] Focus chain N [auth B] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain Z [auth D] Interactions & Density Focus chain AA [auth D] Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain M [auth B] Focus chain N [auth B] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain Z [auth D]
ACT Query on ACT Download:Ideal Coordinates CCD File SDF format, chain X [auth D] SDF format, chain V [auth C] SDF format, chain U [auth C] SDF format, chain O [auth B] SDF format, chain K [auth B] SDF format, chain J [auth A] SDF format, chain I [auth A] SDF format, chain BA [auth D] MOL2 format, chain X [auth D] MOL2 format, chain V [auth C] MOL2 format, chain U [auth C] MOL2 format, chain O [auth B] MOL2 format, chain K [auth B] MOL2 format, chain J [auth A] MOL2 format, chain I [auth A] MOL2 format, chain BA [auth D] mmCIF format, chain X [auth D] mmCIF format, chain V [auth C] mmCIF format, chain U [auth C] mmCIF format, chain O [auth B] mmCIF format, chain K [auth B] mmCIF format, chain J [auth A] mmCIF format, chain I [auth A] mmCIF format, chain BA [auth D]	BA [auth D] I [auth A] J [auth A] K [auth B] O [auth B] BA [auth D], I [auth A], J [auth A], K [auth B], O [auth B], U [auth C], V [auth C], X [auth D]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain BA [auth D] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth B] Focus chain O [auth B] Focus chain U [auth C] Focus chain V [auth C] Focus chain X [auth D] Interactions & Density Focus chain BA [auth D] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth B] Focus chain O [auth B] Focus chain U [auth C] Focus chain V [auth C] Focus chain X [auth D]
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain W [auth C] MOL2 format, chain W [auth C] mmCIF format, chain W [auth C]	W [auth C]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain W [auth C] Interactions & Density Focus chain W [auth C]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain P [auth B] MOL2 format, chain P [auth B] mmCIF format, chain P [auth B]	P [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain P [auth B] Interactions & Density Focus chain P [auth B]