› 5iv5

Electron Microscopy
4.11Å resolution

Cryo-electron microscopy structure of the hexagonal pre-attachment T4 baseplate-tail tube complex

Released:
DOI: 10.2210/pdb5iv5/pdb
PDB entry 5iv5 coloured by chain, front view.
PDB entry 5iv5 coloured by chain, side view.
PDB entry 5iv5 coloured by chain, top view.
Source organism: Tequatrovirus T4
Primary publication:
Structure of the T4 baseplate and its function in triggering sheath contraction.
Taylor NM, Prokhorov NS, Guerrero-Ferreira RC, Shneider MM, Browning C, Goldie KN, Stahlberg H, Leiman PG
Nature 533 346-52 (2016)
PMID: 27193680
Related structures: EMD-3374

Function and Biology Details

Reaction catalysed: 
Hydrolysis of (1->4)-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrins
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 145-mer (preferred)
PDBe Complex ID:
PDB-CPX-140651 (preferred)
Entry contents:
15 distinct polypeptide molecules
Macromolecules (15 distinct):
Baseplate wedge protein gp6 Chains: A, B, BH, BI, EA, EB, GD, GE, X, Y, u, v
Molecule details ›
Chains: A, B, BH, BI, EA, EB, GD, GE, X, Y, u, v
Length: 660 amino acids
Theoretical weight: 74.49 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P19060 (Residues: 1-660; Coverage: 100%)
Gene name: 6
Sequence domains:
Baseplate wedge protein gp7 Chains: BJ, C, EC, GF, Z, w
Molecule details ›
Chains: BJ, C, EC, GF, Z, w
Length: 1032 amino acids
Theoretical weight: 119.34 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P19061 (Residues: 1-1032; Coverage: 100%)
Gene name: 7
Sequence domains:
Baseplate wedge protein gp8 Chains: CA, CB, D, E, ED, EE, GG, GH, a, b, x, y
Molecule details ›
Chains: CA, CB, D, E, ED, EE, GG, GH, a, b, x, y
Length: 334 amino acids
Theoretical weight: 38.04 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P19062 (Residues: 1-334; Coverage: 100%)
Gene name: 8
Sequence domains: Bacteriophage T4, Gp8
Baseplate protein gp9 Chains: AA, AB, CC, CD, CE, EF, EG, EH, F, G, GI, GJ, H, HA, c, d, e, z
Molecule details ›
Chains: AA, AB, CC, CD, CE, EF, EG, EH, F, G, GI, GJ, H, HA, c, d, e, z
Length: 288 amino acids
Theoretical weight: 31.02 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P10927 (Residues: 1-288; Coverage: 100%)
Gene name: 9
Sequence domains: Bacteriophage T4 gp9/10-like protein
Baseplate wedge protein gp10 Chains: AC, AD, AE, CF, CG, CH, EI, EJ, FA, HB, HC, HD, I, J, K, f, g, h
Molecule details ›
Chains: AC, AD, AE, CF, CG, CH, EI, EJ, FA, HB, HC, HD, I, J, K, f, g, h
Length: 602 amino acids
Theoretical weight: 66.28 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P10928 (Residues: 1-602; Coverage: 100%)
Gene name: 10
Sequence domains:
Baseplate wedge protein gp11 Chains: AF, AG, AH, CI, CJ, DA, FB, FC, FD, HE, HF, HG, L, M, N, i, j, k
Molecule details ›
Chains: AF, AG, AH, CI, CJ, DA, FB, FC, FD, HE, HF, HG, L, M, N, i, j, k
Length: 219 amino acids
Theoretical weight: 23.73 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P10929 (Residues: 1-219; Coverage: 100%)
Gene name: 11
Sequence domains: GP11 baseplate wedge protein
Short tail fiber protein gp12 Chains: AI, AJ, BA, DB, DC, DD, FE, FF, FG, HH, HI, HJ, O, P, Q, l, m, n
Molecule details ›
Chains: AI, AJ, BA, DB, DC, DD, FE, FF, FG, HH, HI, HJ, O, P, Q, l, m, n
Length: 527 amino acids
Theoretical weight: 56.25 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P10930 (Residues: 1-527; Coverage: 100%)
Gene name: 12
Sequence domains:
Tail tube protein gp19 Chains: BB, BC, DE, DF, FH, FI, IA, IB, R, S, o, p
Molecule details ›
Chains: BB, BC, DE, DF, FH, FI, IA, IB, R, S, o, p
Length: 163 amino acids
Theoretical weight: 18.48 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P13333 (Residues: 1-163; Coverage: 100%)
Gene name: 19
Sequence domains: T4-like virus tail tube protein gp19
Baseplate wedge protein gp25 Chains: BD, DG, FJ, IC, T, q
Molecule details ›
Chains: BD, DG, FJ, IC, T, q
Length: 132 amino acids
Theoretical weight: 15.11 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P09425 (Residues: 1-132; Coverage: 100%)
Gene name: 25
Sequence domains: Baseplate wedge protein gp25
Baseplate tail-tube junction protein gp48 Chains: BE, DH, GA, ID, U, r
Molecule details ›
Chains: BE, DH, GA, ID, U, r
Length: 364 amino acids
Theoretical weight: 39.77 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P13339 (Residues: 1-364; Coverage: 100%)
Gene name: 48
Sequence domains: Tail-tube assembly protein
Baseplate wedge protein gp53 Chains: BF, DI, GB, IE, V, s
Molecule details ›
Chains: BF, DI, GB, IE, V, s
Length: 196 amino acids
Theoretical weight: 22.99 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P16011 (Residues: 1-196; Coverage: 100%)
Gene name: 53
Sequence domains: Base plate wedge protein 53
Baseplate tail-tube junction protein gp54 Chains: BG, DJ, GC, IF, W, t
Molecule details ›
Chains: BG, DJ, GC, IF, W, t
Length: 320 amino acids
Theoretical weight: 35 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P13341 (Residues: 1-320; Coverage: 100%)
Gene name: 54
Pre-baseplate central spike protein Gp5 Chains: YA, YB, YC
Molecule details ›
Chains: YA, YB, YC
Length: 575 amino acids
Theoretical weight: 63.18 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P16009 (Residues: 1-575; Coverage: 100%)
Gene name: 5
Sequence domains:
Baseplate central spike complex protein gp27 Chains: YD, YE, YF
Molecule details ›
Chains: YD, YE, YF
Length: 391 amino acids
Theoretical weight: 44.43 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P17172 (Residues: 1-391; Coverage: 100%)
Gene name: 27
Sequence domains:
Baseplate puncturing device gp5.4 Chain: ZA
Molecule details ›
Chain: ZA
Length: 97 amino acids
Theoretical weight: 10.23 KDa
Source organism: Tequatrovirus T4
UniProt:
  • Canonical: P39234 (Residues: 1-97; Coverage: 100%)
Gene names: 5.4, y08B
Sequence domains: PAAR motif

Ligands and Environments

2 bound ligands:
Ligand ZN 6 x ZN
Ligand FE 1 x FE
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.11Å
Relevant EMDB volumes: EMD-3374

Quick links

Citations

21 review citations

Using Force to Punch Holes: Mechanics of Contractile Nanomachines.
Brackmann et al. (2017)
20 more

17 mentions without citation

Molecular assembly and structure of the bacteriophage T4 tail.
Arisaka et al. (2016)
16 more