6x6s

Electron Microscopy
3.4Å resolution

Cryo-EM Structure of the Helicobacter pylori OMC

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 168-mer (preferred)
PDBe Complex ID:
PDB-CPX-244947 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (6 distinct):
Type IV secretion system apparatus protein Cag3 Chains: AA, AB, AC, AD, AE, BA, BB, BC, BD, BE, CA, CB, CC, CD, CE, DA, DB, DC, DD, DE, EA, EB, EC, ED, EE, FA, FB, FC, FD, FE, GA, GB, GC, GD, GE, HA, HB, HC, HD, HE, IA, IB, IC, ID, IE, JA, JB, JC, JD, JE, KA, KB, KC, KD, KE, LA, LB, LC, LD, LE, MA, MB, MC, MD, ME, NA, NB, NC, ND, NE
Molecule details ›
Chains: AA, AB, AC, AD, AE, BA, BB, BC, BD, BE, CA, CB, CC, CD, CE, DA, DB, DC, DD, DE, EA, EB, EC, ED, EE, FA, FB, FC, FD, FE, GA, GB, GC, GD, GE, HA, HB, HC, HD, HE, IA, IB, IC, ID, IE, JA, JB, JC, JD, JE, KA, KB, KC, KD, KE, LA, LB, LC, LD, LE, MA, MB, MC, MD, ME, NA, NB, NC, ND, NE
Length: 481 amino acids
Theoretical weight: 55.11 KDa
Source organism: Helicobacter pylori
Sodium:calcium antiporter Chains: AM, Am, BM, Bm, CM, Cm, DM, Dm, EM, Em, FM, Fm, GM, Gm, HM, Hm, IM, Im, JM, Jm, KM, Km, LM, Lm, MM, Mm, NM, Nm
Molecule details ›
Chains: AM, Am, BM, Bm, CM, Cm, DM, Dm, EM, Em, FM, Fm, GM, Gm, HM, Hm, IM, Im, JM, Jm, KM, Km, LM, Lm, MM, Mm, NM, Nm
Length: 376 amino acids
Theoretical weight: 43.83 KDa
Source organism: Helicobacter pylori
UniProt:
  • Canonical: A0A2J9KJL4 (Residues: 1-376; Coverage: 100%)
Gene names: C2840_02795, C2842_02795, SE88_02775, cagM
Cag12 Chains: AT, At, BT, Bt, CT, Ct, DT, Dt, ET, Et, FT, Ft, GT, Gt, HT, Ht, IT, It, JT, Jt, KT, Kt, LT, Lt, MT, Mt, NT, Nt
Molecule details ›
Chains: AT, At, BT, Bt, CT, Ct, DT, Dt, ET, Et, FT, Ft, GT, Gt, HT, Ht, IT, It, JT, Jt, KT, Kt, LT, Lt, MT, Mt, NT, Nt
Length: 280 amino acids
Theoretical weight: 32.42 KDa
Source organism: Helicobacter pylori
UniProt:
  • Canonical: Q6VRP0 (Residues: 1-280; Coverage: 100%)
Gene names: C2840_02765, C2842_02765, C2R60_07410, HP0532, SE88_02750, cag12, cagT
Sequence domains: Cag pathogenicity island protein Cag12
Unknown protein fragment Chains: AU, BU, CU, DU, EU, FU, GU, HU, IU, JU, KU, LU, MU, NU
Molecule details ›
Chains: AU, BU, CU, DU, EU, FU, GU, HU, IU, JU, KU, LU, MU, NU
Length: 160 amino acids
Theoretical weight: 13.63 KDa
Source organism: Helicobacter pylori
Type IV secretion system apparatus protein CagX Chains: AX, BX, CX, DX, EX, FX, GX, HX, IX, JX, KX, LX, MX, NX
Molecule details ›
Chains: AX, BX, CX, DX, EX, FX, GX, HX, IX, JX, KX, LX, MX, NX
Length: 522 amino acids
Theoretical weight: 60.72 KDa
Source organism: Helicobacter pylori
Cag pathogenicity island protein (Cag7) Chains: AY, BY, CY, DY, EY, FY, GY, HY, IY, JY, KY, LY, MY, NY
Molecule details ›
Chains: AY, BY, CY, DY, EY, FY, GY, HY, IY, JY, KY, LY, MY, NY
Length: 1927 amino acids
Theoretical weight: 219.75 KDa
Source organism: Helicobacter pylori
UniProt:
  • Canonical: O25262 (Residues: 1-1927; Coverage: 100%)
Gene name: HP_0527
Sequence domains:

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.4Å
Relevant EMDB volumes: EMD-22081