PDB entry 6qh8

View 6qh8 on RCSB PDB site
Description: Structure of knotted YibK from P. aeruginosa
Class: transferase
Keywords: methyltransferase, topological knot, cyclized protein, TRANSFERASE
Deposited on 2019-01-16, released 2020-07-15
The last revision prior to the SCOPe 2.08 freeze date was dated 2021-07-28, with a file datestamp of 2021-07-23.
Experiment type: XRAY
Resolution: 2.2 Å
R-factor: N/A
AEROSPACI score: 0.32 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: tRNA (cytidine(34)-2'-O)-methyltransferase
    Species: Pseudomonas aeruginosa [TaxId:287]
    Gene: trmL, C0043_37455, C0044_37955, C0046_35255, C8257_31370, CW299_37860, DN070_18550, PAMH19_2880
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A071LCY6 (5-156)
      • expression tag (0-4)
      • engineered mutation (66)
      • expression tag (157-161)
    Domains in SCOPe 2.08: d6qh8a1, d6qh8a2, d6qh8a3
  • Chain 'B':
    Compound: tRNA (cytidine(34)-2'-O)-methyltransferase
    Species: Pseudomonas aeruginosa [TaxId:287]
    Gene: trmL, C0043_37455, C0044_37955, C0046_35255, C8257_31370, CW299_37860, DN070_18550, PAMH19_2880
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A071LCY6 (5-156)
      • expression tag (0-4)
      • engineered mutation (66)
      • expression tag (157-161)
    Domains in SCOPe 2.08: d6qh8b1, d6qh8b2, d6qh8b3
  • Chain 'C':
    Compound: tRNA (cytidine(34)-2'-O)-methyltransferase
    Species: Pseudomonas aeruginosa [TaxId:287]
    Gene: trmL, C0043_37455, C0044_37955, C0046_35255, C8257_31370, CW299_37860, DN070_18550, PAMH19_2880
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A071LCY6 (5-156)
      • expression tag (0-4)
      • engineered mutation (66)
      • expression tag (157-161)
    Domains in SCOPe 2.08: d6qh8c1, d6qh8c2, d6qh8c3
  • Chain 'D':
    Compound: tRNA (cytidine(34)-2'-O)-methyltransferase
    Species: Pseudomonas aeruginosa [TaxId:287]
    Gene: trmL, C0043_37455, C0044_37955, C0046_35255, C8257_31370, CW299_37860, DN070_18550, PAMH19_2880
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A071LCY6 (5-156)
      • expression tag (0-4)
      • engineered mutation (66)
      • expression tag (157-161)
    Domains in SCOPe 2.08: d6qh8d1, d6qh8d2, d6qh8d3
  • Heterogens: SO4, PEG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6qh8A (A:)
ggggsmfhvilfqpeippntgniirlcanagcslhlieplgfelddkrlrragldyheya
svrrypylqsclealgqprlfafttkgsrafhevayqrgdaflfgpesrglpedvrnalp
tdrrlrlpmregcrslnlsntvavtvyeawrqlgfamglpet

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6qh8B (B:)
ggggsmfhvilfqpeippntgniirlcanagcslhlieplgfelddkrlrragldyheya
svrrypylqsclealgqprlfafttkgsrafhevayqrgdaflfgpesrglpedvrnalp
tdrrlrlpmregcrslnlsntvavtvyeawrqlgfamglpet

    Sequence, based on observed residues (ATOM records): (download) 
    >6qh8B (B:)
ggggsmfhvilfqpeippntgniirlcanagcslhlieplgfelddkreyasvrrypylq
sclealgqprlfafttkgsrafhevayqrgdaflfgpesrglpedvrnalptdrrlrlpm
regcrslnlsntvavtvyeawrqlgfamglpet

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6qh8C (C:)
ggggsmfhvilfqpeippntgniirlcanagcslhlieplgfelddkrlrragldyheya
svrrypylqsclealgqprlfafttkgsrafhevayqrgdaflfgpesrglpedvrnalp
tdrrlrlpmregcrslnlsntvavtvyeawrqlgfamglpet

    Sequence, based on observed residues (ATOM records): (download) 
    >6qh8C (C:)
ggggsmfhvilfqpeippntgniirlcanagcslhlieplgfelddkrlryheyasvrry
pylqsclealgqprlfafttkgsrafhevayqrgdaflfgpesrglpedvrnalptdrrl
rlpmregcrslnlsntvavtvyeawrqlgfamglpet

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6qh8D (D:)
ggggsmfhvilfqpeippntgniirlcanagcslhlieplgfelddkrlrragldyheya
svrrypylqsclealgqprlfafttkgsrafhevayqrgdaflfgpesrglpedvrnalp
tdrrlrlpmregcrslnlsntvavtvyeawrqlgfamglpet

    Sequence, based on observed residues (ATOM records): (download) 
    >6qh8D (D:)
ggggsmfhvilfqpeippntgniirlcanagcslhlieplgfelddkrlrraasvrrypy
lqsclealgqprlfafttkgsrafhevayqrgdaflfgpesrglpedvrnalptdrrlrl
pmregcrslnlsntvavtvyeawrqlgfamglpet