PDB entry 5t6b

View 5t6b on RCSB PDB site
Description: X-ray structure of the KijD1 C3-methyltransfeerase, converted to monomeric form
Class: transferase
Keywords: methyltransferase, antitumor, antibiotic, kijanimicin, TRANSFERASE
Deposited on 2016-09-01, released 2016-09-14
The last revision prior to the SCOPe 2.06 freeze date was dated 2016-09-14, with a file datestamp of 2016-09-09.
Experiment type: XRAY
Resolution: 2 Å
R-factor: N/A
AEROSPACI score: 0.31 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Sugar 3-C-methyl transferase
    Species: Actinomadura kijaniata [TaxId:46161]
    Gene: KijD1
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3TMQ9 (Start-415)
      • engineered mutation (93)
      • engineered mutation (96-98)
      • engineered mutation (106)
      • engineered mutation (389)
      • engineered mutation (399)
      • engineered mutation (413-415)
    Domains in SCOPe 2.06: d5t6ba_
  • Chain 'B':
    Compound: Sugar 3-C-methyl transferase
    Species: Actinomadura kijaniata [TaxId:46161]
    Gene: KijD1
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3TMQ9 (Start-415)
      • engineered mutation (93)
      • engineered mutation (96-98)
      • engineered mutation (106)
      • engineered mutation (389)
      • engineered mutation (399)
      • engineered mutation (413-415)
    Domains in SCOPe 2.06: d5t6bb_
  • Chain 'C':
    Compound: Sugar 3-C-methyl transferase
    Species: Actinomadura kijaniata [TaxId:46161]
    Gene: KijD1
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3TMQ9 (Start-415)
      • engineered mutation (93)
      • engineered mutation (96-98)
      • engineered mutation (106)
      • engineered mutation (389)
      • engineered mutation (399)
      • engineered mutation (413-415)
    Domains in SCOPe 2.06: d5t6bc_
  • Chain 'D':
    Compound: Sugar 3-C-methyl transferase
    Species: Actinomadura kijaniata [TaxId:46161]
    Gene: KijD1
    Database cross-references and differences (RAF-indexed):
    • Uniprot B3TMQ9 (Start-415)
      • engineered mutation (93)
      • engineered mutation (96-98)
      • engineered mutation (106)
      • engineered mutation (389)
      • engineered mutation (399)
      • engineered mutation (413-415)
    Domains in SCOPe 2.06: d5t6bd_
  • Heterogens: ZN, SAH, MES, TMP, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5t6bA (A:)
qhmtgptdataparcrvcgdtvdefldlgrqplsdrfltpadtdgeffyrlavgrchacg
mvqlteevprhlmfheeypyhssgssvmrehfamvardflateltgpdpfvveigcndgi
mlravheagvrhlgfepsagvaevarsrgvrvrteffekatatavresegpadviyaant
mchipylesvfqgadallgpdgvvvfedpylgdivaktsfdqiydehfylfsagsvaama
erfgfelvdverlpvhggevrytlarrgartpteavgrllaeereqglddlatlrtfaan
vhtvrdelvalltrlraeghrvvgygataksatvtnfcgigpdlvsfvcdttpgkqhrlt
pgkhlpvrpaeafadpypdyallfawnhaeeimakeqefhqaggrwilyvpevhir

    Sequence, based on observed residues (ATOM records): (download) 
    >5t6bA (A:)
aparcrvcgdtvdefldlgrqplsdrfltpadtdgeffyrlavgrchacgmvqlteevpr
hlmfheeypyhssgssvmrehfamvardflateltgpdpfvveigcndgimlravheagv
rhlgfepsagvaevarsrgvrvrteffekatatavresegpadviyaantmchipylesv
fqgadallgpdgvvvfedpylgdivaktsfdqiydehfylfsagsvaamaerfgfelvdv
erlpvhggevrytlarrgartpteavgrllaeereqglddlatlrtfaanvhtvrdelva
lltrlraeghrvvgygataksatvtnfcgigpdlvsfvcdttpgkqhrltpgkhlpvrpa
eafapdyallfawnhaeeimakeqefhqaggrwilyvpevhir

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5t6bB (B:)
qhmtgptdataparcrvcgdtvdefldlgrqplsdrfltpadtdgeffyrlavgrchacg
mvqlteevprhlmfheeypyhssgssvmrehfamvardflateltgpdpfvveigcndgi
mlravheagvrhlgfepsagvaevarsrgvrvrteffekatatavresegpadviyaant
mchipylesvfqgadallgpdgvvvfedpylgdivaktsfdqiydehfylfsagsvaama
erfgfelvdverlpvhggevrytlarrgartpteavgrllaeereqglddlatlrtfaan
vhtvrdelvalltrlraeghrvvgygataksatvtnfcgigpdlvsfvcdttpgkqhrlt
pgkhlpvrpaeafadpypdyallfawnhaeeimakeqefhqaggrwilyvpevhir

    Sequence, based on observed residues (ATOM records): (download) 
    >5t6bB (B:)
aparcrvcgdtvdefldlgrqplsdrfltpadtdgeffyrlavgrchacgmvqlteevpr
hlmfheeypyhssgssvmrehfamvardflateltgpdpfvveigcndgimlravheagv
rhlgfepsagvaevarsrgvrvrteffekatatavresegpadviyaantmchipylesv
fqgadallgpdgvvvfedpylgdivaktsfdqiydehfylfsagsvaamaerfgfelvdv
erlpvhggevrytlarrgartpteavgrllaeereqglddlatlrtfaanvhtvrdelva
lltrlraeghrvvgygataksatvtnfcgigpdlvsfvcdttpgkqhrltpgkhlpvrpa
eafadpypdyallfawnhaeeimakeqefhqaggrwilyvpevhir

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5t6bC (C:)
qhmtgptdataparcrvcgdtvdefldlgrqplsdrfltpadtdgeffyrlavgrchacg
mvqlteevprhlmfheeypyhssgssvmrehfamvardflateltgpdpfvveigcndgi
mlravheagvrhlgfepsagvaevarsrgvrvrteffekatatavresegpadviyaant
mchipylesvfqgadallgpdgvvvfedpylgdivaktsfdqiydehfylfsagsvaama
erfgfelvdverlpvhggevrytlarrgartpteavgrllaeereqglddlatlrtfaan
vhtvrdelvalltrlraeghrvvgygataksatvtnfcgigpdlvsfvcdttpgkqhrlt
pgkhlpvrpaeafadpypdyallfawnhaeeimakeqefhqaggrwilyvpevhir

    Sequence, based on observed residues (ATOM records): (download) 
    >5t6bC (C:)
arcrvcgdtvdefldlgrqplsdrfltpadtdgeffyrlavgrchacgmvqlteevprhl
mfhsvmrehfamvardflateltgpdpfvveigcndgimlravheagvrhlgfepsagva
evarsrgvrvrteffekatatavresegpadviyaantmchipylesvfqgadallgpdg
vvvfedpylgdivaktsfdqiydehfylfsagsvaamaerfgfelvdverlpvhggevry
tlarrgartpteavgrllaeereqglddlatlrtfaanvhtvrdelvalltrlraeghrv
vgygataksatvtnfcgigpdlvsfvcdttpgkqhrltpgkhlpvrpaeafadpypdyal
lfawnhaeeimakeqefhqaggrwilyvpevhir

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5t6bD (D:)
qhmtgptdataparcrvcgdtvdefldlgrqplsdrfltpadtdgeffyrlavgrchacg
mvqlteevprhlmfheeypyhssgssvmrehfamvardflateltgpdpfvveigcndgi
mlravheagvrhlgfepsagvaevarsrgvrvrteffekatatavresegpadviyaant
mchipylesvfqgadallgpdgvvvfedpylgdivaktsfdqiydehfylfsagsvaama
erfgfelvdverlpvhggevrytlarrgartpteavgrllaeereqglddlatlrtfaan
vhtvrdelvalltrlraeghrvvgygataksatvtnfcgigpdlvsfvcdttpgkqhrlt
pgkhlpvrpaeafadpypdyallfawnhaeeimakeqefhqaggrwilyvpevhir

    Sequence, based on observed residues (ATOM records): (download) 
    >5t6bD (D:)
arcrvcgdtvdefldlgrqplsdrfltpadtdgeffyrlavgrchacgmvqlteevprhl
mfsvmrehfamvardflateltgpdpfvveigcndgimlravheagvrhlgfepsagvae
varsrgvrvrteffekatatavresegpadviyaantmchipylesvfqgadallgpdgv
vvfedpylgdivaktsfdqiydehfylfsagsvaamaerfgfelvdverlpvhggevryt
larrgartpteavgrllaeereqglddlatlrtfaanvhtvrdelvalltrlraeghrvv
gygataksatvtnfcgigpdlvsfvcdttpgkqhrltpgkhlpvrpaeafadpypdyall
fawnhaeeimakeqefhqaggrwilyvpevhir