8I98 | pdb_00008i98

Crystal structure of TePixD Y8F

PDB DOI: https://doi.org/10.2210/pdb8I98/pdb

Classification: ELECTRON TRANSPORT
Organism(s): Thermosynechococcus vestitus BP-1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2023-02-06 Released: 2023-09-20
Deposition Author(s): Hu, R., Lin, L., Lu, Q.
Funding Organization(s): National Key Research and Development Program

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.54 Å
R-Value Free:
0.262 (Depositor), 0.257 (DCC)
R-Value Work:
0.203 (Depositor), 0.205 (DCC)
R-Value Observed:
0.206 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Structure of the BLUF Protein TePixD Y8F Mutant

Hu, R., Zhou, Y., Lin, L., Ding, B., Lu, Q.

(2023) Progress In Biochemistry And Biophysics

DOI: https://doi.org/10.16476/j.pibb.2023.0095

Macromolecule Content

Total Structure Weight: 383.43 kDa
Atom Count: 23,005
Modeled Residue Count: 2,813
Deposited Residue Count: 3,260
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tll0078 protein	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T	163	Thermosynechococcus vestitus BP-1	Mutation(s): 0 Gene Names: tll0078
UniProt
Find proteins for Q8DMN3 (Thermosynechococcus vestitus (strain NIES-2133 / IAM M-273 / BP-1)) Explore Q8DMN3 Go to UniProtKB: Q8DMN3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8DMN3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FMN (Subject of Investigation/LOI) Query on FMN Download:Ideal Coordinates CCD File SDF format, chain Z [auth F] SDF format, chain Y [auth E] SDF format, chain X [auth D] SDF format, chain W [auth C] SDF format, chain V [auth B] SDF format, chain U [auth A] SDF format, chain NA [auth T] SDF format, chain MA [auth S] SDF format, chain LA [auth R] SDF format, chain KA [auth Q] SDF format, chain JA [auth P] SDF format, chain IA [auth O] SDF format, chain HA [auth N] SDF format, chain GA [auth M] SDF format, chain FA [auth L] SDF format, chain EA [auth K] SDF format, chain DA [auth J] SDF format, chain CA [auth I] SDF format, chain BA [auth H] SDF format, chain AA [auth G] MOL2 format, chain Z [auth F] MOL2 format, chain Y [auth E] MOL2 format, chain X [auth D] MOL2 format, chain W [auth C] MOL2 format, chain V [auth B] MOL2 format, chain U [auth A] MOL2 format, chain NA [auth T] MOL2 format, chain MA [auth S] MOL2 format, chain LA [auth R] MOL2 format, chain KA [auth Q] MOL2 format, chain JA [auth P] MOL2 format, chain IA [auth O] MOL2 format, chain HA [auth N] MOL2 format, chain GA [auth M] MOL2 format, chain FA [auth L] MOL2 format, chain EA [auth K] MOL2 format, chain DA [auth J] MOL2 format, chain CA [auth I] MOL2 format, chain BA [auth H] MOL2 format, chain AA [auth G] mmCIF format, chain Z [auth F] mmCIF format, chain Y [auth E] mmCIF format, chain X [auth D] mmCIF format, chain W [auth C] mmCIF format, chain V [auth B] mmCIF format, chain U [auth A] mmCIF format, chain NA [auth T] mmCIF format, chain MA [auth S] mmCIF format, chain LA [auth R] mmCIF format, chain KA [auth Q] mmCIF format, chain JA [auth P] mmCIF format, chain IA [auth O] mmCIF format, chain HA [auth N] mmCIF format, chain GA [auth M] mmCIF format, chain FA [auth L] mmCIF format, chain EA [auth K] mmCIF format, chain DA [auth J] mmCIF format, chain CA [auth I] mmCIF format, chain BA [auth H] mmCIF format, chain AA [auth G]	AA [auth G] BA [auth H] CA [auth I] DA [auth J] EA [auth K] AA [auth G], BA [auth H], CA [auth I], DA [auth J], EA [auth K], FA [auth L], GA [auth M], HA [auth N], IA [auth O], JA [auth P], KA [auth Q], LA [auth R], MA [auth S], NA [auth T], U [auth A], V [auth B], W [auth C], X [auth D], Y [auth E], Z [auth F]	FLAVIN MONONUCLEOTIDE C₁₇ H₂₁ N₄ O₉ P FVTCRASFADXXNN-SCRDCRAPSA-N		Interactions Focus chain AA [auth G] Focus chain BA [auth H] Focus chain CA [auth I] Focus chain DA [auth J] Focus chain EA [auth K] Focus chain FA [auth L] Focus chain GA [auth M] Focus chain HA [auth N] Focus chain IA [auth O] Focus chain JA [auth P] Focus chain KA [auth Q] Focus chain LA [auth R] Focus chain MA [auth S] Focus chain NA [auth T] Focus chain U [auth A] Focus chain V [auth B] Focus chain W [auth C] Focus chain X [auth D] Focus chain Y [auth E] Focus chain Z [auth F] Interactions & Density Focus chain AA [auth G] Focus chain BA [auth H] Focus chain CA [auth I] Focus chain DA [auth J] Focus chain EA [auth K] Focus chain FA [auth L] Focus chain GA [auth M] Focus chain HA [auth N] Focus chain IA [auth O] Focus chain JA [auth P] Focus chain KA [auth Q] Focus chain LA [auth R] Focus chain MA [auth S] Focus chain NA [auth T] Focus chain U [auth A] Focus chain V [auth B] Focus chain W [auth C] Focus chain X [auth D] Focus chain Y [auth E] Focus chain Z [auth F]