6X65 image
Deposition Date 2020-05-27
Release Date 2020-10-07
Last Version Date 2024-03-06
Entry Detail
PDB ID:
6X65
Keywords:
PROTEIN TRANSPORT
Title:
Legionella pneumophila Dot/Icm T4SS
Biological Source:
Source Organism:
Legionella pneumophila (Taxon ID: 446)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.70 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
6X65 validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DotC
Gene (Uniprot):dotC
Chain IDs:KA (auth: AC), SA (auth: BC), AB (auth: CC), IB (auth: DC), QB (auth: EC), YB (auth: FC), GC, OC (auth: HC), WC (auth: IC), ED (auth: JC), MD (auth: KC), UD (auth: LC), CE (auth: MC)
Chain Length:303
Number of Molecules:13
Biological Source:Legionella pneumophila
UniProt ID:O52184 Pfam ID:PF16932
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DotD
Gene (Uniprot):dotD
Chain IDs:LA (auth: AD), RA (auth: Ad), TA (auth: BD), ZA (auth: Bd), BB (auth: CD), HB (auth: Cd), JB (auth: DD), PB (auth: Dd), RB (auth: ED), XB (auth: Ed), ZB (auth: FD), FC (auth: Fd), HC (auth: GD), NC (auth: Gd), PC (auth: HD), VC (auth: Hd), XC (auth: ID), DD (auth: Id), FD (auth: JD), LD (auth: Jd), ND (auth: KD), TD (auth: Kd), VD (auth: LD), BE (auth: Ld), DE (auth: MD), JE (auth: Md)
Chain Length:163
Number of Molecules:26
Biological Source:Legionella pneumophila
UniProt ID:O52183 Pfam ID:PF16816
Polymer Type:polypeptide(L)
Molecule:Type IV secretion protein IcmK
Chain IDs:MA (auth: AH), UA (auth: BH), CB (auth: CH), KB (auth: DH), SB (auth: EH), AC (auth: FH), IC (auth: GH), QC (auth: HH), YC (auth: IH), GD (auth: JH), OD (auth: KH), WD (auth: LH), EE (auth: MH)
Chain Length:361
Number of Molecules:13
Biological Source:Legionella pneumophila
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Inner membrane lipoprotein YiaD
Gene (Uniprot):lphA
Chain IDs:NA (auth: AK), VA (auth: BK), DB (auth: CK), LB (auth: DK), TB (auth: EK), BC (auth: FK), JC (auth: GK), RC (auth: HK), ZC (auth: IK), HD (auth: JK), PD (auth: KK), XD (auth: LK), FE (auth: MK)
Chain Length:189
Number of Molecules:13
Biological Source:Legionella pneumophila
UniProt ID:O53086 Pfam ID:PF00691
Polymer Type:polypeptide(L)
Molecule:Type IV secretion system unknown protein fragment
Chain IDs:A (auth: AV), B (auth: AW), C (auth: BV), D (auth: BW), E (auth: CV), F (auth: CW), G (auth: DV), H (auth: DW), I (auth: EV), J (auth: EW), K (auth: FV), L (auth: FW), M (auth: GV), N (auth: GW), O (auth: HV), P (auth: HW), Q (auth: IV), R (auth: IW), S (auth: JV), T (auth: JW), U (auth: KV), V (auth: KW), W (auth: LV), X (auth: LW), Y (auth: MV), Z (auth: MW), AA (auth: NV), BA (auth: NW), CA (auth: OV), DA (auth: OW), EA (auth: PV), FA (auth: PW), GA (auth: QV), HA (auth: QW), IA (auth: RV), JA (auth: RW), OA (auth: AX), PA (auth: AY), QA (auth: AZ), WA (auth: BX), XA (auth: BY), YA (auth: BZ), EB (auth: CX), FB (auth: CY), GB (auth: CZ), MB (auth: DX), NB (auth: DY), OB (auth: DZ), UB (auth: EX), VB (auth: EY), WB (auth: EZ), CC (auth: FX), DC (auth: FY), EC (auth: FZ), KC (auth: GX), LC (auth: GY), MC (auth: GZ), SC (auth: HX), TC (auth: HY), UC (auth: HZ), AD (auth: IX), BD (auth: IY), CD (auth: IZ), ID (auth: JX), JD (auth: JY), KD (auth: JZ), QD (auth: KX), RD (auth: KY), SD (auth: KZ), YD (auth: LX), ZD (auth: LY), AE (auth: LZ), GE (auth: MX), HE (auth: MY), IE (auth: MZ)
Chain Length:228
Number of Molecules:75
Biological Source:Legionella pneumophila
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Outer membrane protein, OmpA family protein
Gene (Uniprot):lpg0657
Chain IDs:KE (auth: N), LE (auth: O), ME (auth: P), NE (auth: Q), OE (auth: R), PE (auth: S), QE (auth: T), RE (auth: U), SE (auth: V), TE (auth: W), UE (auth: X), VE (auth: Y), WE (auth: Z)
Chain Length:249
Number of Molecules:13
Biological Source:Legionella pneumophila
UniProt ID:Q5ZXS4 Pfam ID:PF00691
Ligand Molecules
NA
Primary Citation
Structural analysis of the Legionella pneumophila Dot/Icm type IV secretion system core complex.
Elife 9 ? ? (2020)
PMID: 32876045 DOI: 10.7554/eLife.59530

Abstact

Legionella pneumophila is an opportunistic pathogen that causes the potentially fatal pneumonia Legionnaires' Disease. This infection and subsequent pathology require the Dot/Icm Type IV Secretion System (T4SS) to deliver effector proteins into host cells. Compared to prototypical T4SSs, the Dot/Icm assembly is much larger, containing ~27 different components including a core complex reported to be composed of five proteins: DotC, DotD, DotF, DotG, and DotH. Using single particle cryo-electron microscopy (cryo-EM), we report reconstructions of the core complex of the Dot/Icm T4SS that includes a symmetry mismatch between distinct structural features of the outer membrane cap (OMC) and periplasmic ring (PR). We present models of known core complex proteins, DotC, DotD, and DotH, and two structurally similar proteins within the core complex, DotK and Lpg0657. This analysis reveals the stoichiometry and contact interfaces between the key proteins of the Dot/Icm T4SS core complex and provides a framework for understanding a complex molecular machine.

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Primary Citation of related structures
6X65