6WKV

Cryo-EM structure of engineered variant of the Encapsulin from Thermotoga maritima (TmE)

PDB DOI: https://doi.org/10.2210/pdb6WKV/pdb
EM Map EMD-21810: EMDB EMDataResource

Classification: HYDROLASE
Organism(s): Thermotoga maritima
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2020-04-17 Released: 2021-04-21
Deposition Author(s): Williams, E., Jenkins, M., Zhao, H., Juneja, P., Lutz, S.
Funding Organization(s): National Science Foundation (NSF, United States)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.99 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

Cryo-EM structure of engineered variant of the Encapsulin from Thermotoga maritima (TmE)

Williams, E., Zhao, H., Jenkins, M., Juneja, P., Lutz, S.

To be published.

Macromolecule Content

Total Structure Weight: 1,803.61 kDa
Atom Count: 126,600
Modelled Residue Count: 15,420
Deposited Residue Count: 15,480
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Encapsulin	A AA [auth 0] AB [auth q] B BA [auth 1] A, AA [auth 0], AB [auth q], B, BA [auth 1], BB [auth r], C, CA [auth 2], CB [auth s], D, DA [auth 3], DB [auth t], E, EA [auth 4], EB [auth u], F, FA [auth 5], FB [auth v], G, GA [auth 6], GB [auth w], H, HA [auth 7], HB [auth x], I, IA [auth 8], J, JA [auth 9], K, KA [auth a], L, LA [auth b], M, MA [auth c], N, NA [auth d], O, OA [auth e], P, PA [auth f], Q, QA [auth g], R, RA [auth h], S, SA [auth i], T, TA [auth j], U, UA [auth k], V, VA [auth l], W, WA [auth m], X, XA [auth n], Y, YA [auth o], Z, ZA [auth p]	258	Thermotoga maritima	Mutation(s): 0 Gene Names: TM_0785 EC: 3.4
UniProt
Find proteins for Q9WZP2 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q9WZP2 Go to UniProtKB: Q9WZP2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9WZP2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FMN Query on FMN Download Ideal Coordinates CCD File SDF format, chain AC [auth S] SDF format, chain AD [auth i] SDF format, chain BC [auth T] SDF format, chain BD [auth j] SDF format, chain CC [auth V] SDF format, chain CD [auth k] SDF format, chain DC [auth W] SDF format, chain DD [auth m] SDF format, chain EC [auth X] SDF format, chain ED [auth m] SDF format, chain FC [auth Y] SDF format, chain FD [auth n] SDF format, chain GC [auth 0] SDF format, chain GD [auth p] SDF format, chain HC [auth 0] SDF format, chain HD [auth p] SDF format, chain IB [auth A] SDF format, chain IC [auth 1] SDF format, chain ID [auth q] SDF format, chain JB [auth B] SDF format, chain JC [auth 1] SDF format, chain JD [auth r] SDF format, chain KB [auth C] SDF format, chain KC [auth 2] SDF format, chain KD [auth r] SDF format, chain LB [auth D] SDF format, chain LC [auth 3] SDF format, chain LD [auth s] SDF format, chain MB [auth D] SDF format, chain MC [auth 4] SDF format, chain MD [auth t] SDF format, chain NB [auth E] SDF format, chain NC [auth 5] SDF format, chain ND [auth u] SDF format, chain OB [auth F] SDF format, chain OC [auth 5] SDF format, chain OD [auth w] SDF format, chain PB [auth G] SDF format, chain PC [auth 6] SDF format, chain PD [auth x] SDF format, chain QB [auth G] SDF format, chain QC [auth 7] SDF format, chain RB [auth I] SDF format, chain RC [auth 7] SDF format, chain SB [auth J] SDF format, chain SC [auth a] SDF format, chain TB [auth M] SDF format, chain TC [auth a] SDF format, chain UB [auth M] SDF format, chain UC [auth c] SDF format, chain VB [auth N] SDF format, chain VC [auth d] SDF format, chain WB [auth O] SDF format, chain WC [auth e] SDF format, chain XB [auth P] SDF format, chain XC [auth f] SDF format, chain YB [auth Q] SDF format, chain YC [auth h] SDF format, chain ZB [auth R] SDF format, chain ZC [auth h] MOL2 format, chain AC [auth S] MOL2 format, chain AD [auth i] MOL2 format, chain BC [auth T] MOL2 format, chain BD [auth j] MOL2 format, chain CC [auth V] MOL2 format, chain CD [auth k] MOL2 format, chain DC [auth W] MOL2 format, chain DD [auth m] MOL2 format, chain EC [auth X] MOL2 format, chain ED [auth m] MOL2 format, chain FC [auth Y] MOL2 format, chain FD [auth n] MOL2 format, chain GC [auth 0] MOL2 format, chain GD [auth p] MOL2 format, chain HC [auth 0] MOL2 format, chain HD [auth p] MOL2 format, chain IB [auth A] MOL2 format, chain IC [auth 1] MOL2 format, chain ID [auth q] MOL2 format, chain JB [auth B] MOL2 format, chain JC [auth 1] MOL2 format, chain JD [auth r] MOL2 format, chain KB [auth C] MOL2 format, chain KC [auth 2] MOL2 format, chain KD [auth r] MOL2 format, chain LB [auth D] MOL2 format, chain LC [auth 3] MOL2 format, chain LD [auth s] MOL2 format, chain MB [auth D] MOL2 format, chain MC [auth 4] MOL2 format, chain MD [auth t] MOL2 format, chain NB [auth E] MOL2 format, chain NC [auth 5] MOL2 format, chain ND [auth u] MOL2 format, chain OB [auth F] MOL2 format, chain OC [auth 5] MOL2 format, chain OD [auth w] MOL2 format, chain PB [auth G] MOL2 format, chain PC [auth 6] MOL2 format, chain PD [auth x] MOL2 format, chain QB [auth G] MOL2 format, chain QC [auth 7] MOL2 format, chain RB [auth I] MOL2 format, chain RC [auth 7] MOL2 format, chain SB [auth J] MOL2 format, chain SC [auth a] MOL2 format, chain TB [auth M] MOL2 format, chain TC [auth a] MOL2 format, chain UB [auth M] MOL2 format, chain UC [auth c] MOL2 format, chain VB [auth N] MOL2 format, chain VC [auth d] MOL2 format, chain WB [auth O] MOL2 format, chain WC [auth e] MOL2 format, chain XB [auth P] MOL2 format, chain XC [auth f] MOL2 format, chain YB [auth Q] MOL2 format, chain YC [auth h] MOL2 format, chain ZB [auth R] MOL2 format, chain ZC [auth h]	AC [auth S] AD [auth i] BC [auth T] BD [auth j] CC [auth V] AC [auth S], AD [auth i], BC [auth T], BD [auth j], CC [auth V], CD [auth k], DC [auth W], DD [auth m], EC [auth X], ED [auth m], FC [auth Y], FD [auth n], GC [auth 0], GD [auth p], HC [auth 0], HD [auth p], IB [auth A], IC [auth 1], ID [auth q], JB [auth B], JC [auth 1], JD [auth r], KB [auth C], KC [auth 2], KD [auth r], LB [auth D], LC [auth 3], LD [auth s], MB [auth D], MC [auth 4], MD [auth t], NB [auth E], NC [auth 5], ND [auth u], OB [auth F], OC [auth 5], OD [auth w], PB [auth G], PC [auth 6], PD [auth x], QB [auth G], QC [auth 7], RB [auth I], RC [auth 7], SB [auth J], SC [auth a], TB [auth M], TC [auth a], UB [auth M], UC [auth c], VB [auth N], VC [auth d], WB [auth O], WC [auth e], XB [auth P], XC [auth f], YB [auth Q], YC [auth h], ZB [auth R], ZC [auth h]	FLAVIN MONONUCLEOTIDE C₁₇ H₂₁ N₄ O₉ P FVTCRASFADXXNN-SCRDCRAPSA-N		Interactions Focus chain AC [auth S] Focus chain AD [auth i] Focus chain BC [auth T] Focus chain BD [auth j] Focus chain CC [auth V] Focus chain CD [auth k] Focus chain DC [auth W] Focus chain DD [auth m] Focus chain EC [auth X] Focus chain ED [auth m] Focus chain FC [auth Y] Focus chain FD [auth n] Focus chain GC [auth 0] Focus chain GD [auth p] Focus chain HC [auth 0] Focus chain HD [auth p] Focus chain IB [auth A] Focus chain IC [auth 1] Focus chain ID [auth q] Focus chain JB [auth B] Focus chain JC [auth 1] Focus chain JD [auth r] Focus chain KB [auth C] Focus chain KC [auth 2] Focus chain KD [auth r] Focus chain LB [auth D] Focus chain LC [auth 3] Focus chain LD [auth s] Focus chain MB [auth D] Focus chain MC [auth 4] Focus chain MD [auth t] Focus chain NB [auth E] Focus chain NC [auth 5] Focus chain ND [auth u] Focus chain OB [auth F] Focus chain OC [auth 5] Focus chain OD [auth w] Focus chain PB [auth G] Focus chain PC [auth 6] Focus chain PD [auth x] Focus chain QB [auth G] Focus chain QC [auth 7] Focus chain RB [auth I] Focus chain RC [auth 7] Focus chain SB [auth J] Focus chain SC [auth a] Focus chain TB [auth M] Focus chain TC [auth a] Focus chain UB [auth M] Focus chain UC [auth c] Focus chain VB [auth N] Focus chain VC [auth d] Focus chain WB [auth O] Focus chain WC [auth e] Focus chain XB [auth P] Focus chain XC [auth f] Focus chain YB [auth Q] Focus chain YC [auth h] Focus chain ZB [auth R] Focus chain ZC [auth h] Interactions & Density Focus chain AC [auth S] Focus chain AD [auth i] Focus chain BC [auth T] Focus chain BD [auth j] Focus chain CC [auth V] Focus chain CD [auth k] Focus chain DC [auth W] Focus chain DD [auth m] Focus chain EC [auth X] Focus chain ED [auth m] Focus chain FC [auth Y] Focus chain FD [auth n] Focus chain GC [auth 0] Focus chain GD [auth p] Focus chain HC [auth 0] Focus chain HD [auth p] Focus chain IB [auth A] Focus chain IC [auth 1] Focus chain ID [auth q] Focus chain JB [auth B] Focus chain JC [auth 1] Focus chain JD [auth r] Focus chain KB [auth C] Focus chain KC [auth 2] Focus chain KD [auth r] Focus chain LB [auth D] Focus chain LC [auth 3] Focus chain LD [auth s] Focus chain MB [auth D] Focus chain MC [auth 4] Focus chain MD [auth t] Focus chain NB [auth E] Focus chain NC [auth 5] Focus chain ND [auth u] Focus chain OB [auth F] Focus chain OC [auth 5] Focus chain OD [auth w] Focus chain PB [auth G] Focus chain PC [auth 6] Focus chain PD [auth x] Focus chain QB [auth G] Focus chain QC [auth 7] Focus chain RB [auth I] Focus chain RC [auth 7] Focus chain SB [auth J] Focus chain SC [auth a] Focus chain TB [auth M] Focus chain TC [auth a] Focus chain UB [auth M] Focus chain UC [auth c] Focus chain VB [auth N] Focus chain VC [auth d] Focus chain WB [auth O] Focus chain WC [auth e] Focus chain XB [auth P] Focus chain XC [auth f] Focus chain YB [auth Q] Focus chain YC [auth h] Focus chain ZB [auth R] Focus chain ZC [auth h]