PDB entry 6kmm

View 6kmm on RCSB PDB site
Description: crystal structure of hepes bound dye decolorizing peroxidase from bacillus subtilis
Deposited on 2019-07-31, released 2020-10-21
The last revision was dated 2020-10-28, with a file datestamp of 2020-10-23.
Experiment type: XRAY
Resolution: 1.93 Å
R-factor: N/A
AEROSPACI score: 0.39 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Deferrochelatase/peroxidase EfeB
    Species: Bacillus subtilis [TaxId:1423]
    Gene: efeB, FC605_19685
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: Deferrochelatase/peroxidase EfeB
    Species: Bacillus subtilis [TaxId:1423]
    Gene: efeB, FC605_19685
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Deferrochelatase/peroxidase EfeB
    Species: Bacillus subtilis [TaxId:1423]
    Gene: efeB, FC605_19685
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Deferrochelatase/peroxidase EfeB
    Species: Bacillus subtilis [TaxId:1423]
    Gene: efeB, FC605_19685
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Deferrochelatase/peroxidase EfeB
    Species: Bacillus subtilis [TaxId:1423]
    Gene: efeB, FC605_19685
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: Deferrochelatase/peroxidase EfeB
    Species: Bacillus subtilis [TaxId:1423]
    Gene: efeB, FC605_19685
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A4P9FDJ4 (1-362)
      • initiating methionine (0)
  • Heterogens: HEM, OXY, EPE, GOL, NA, MPD, PO4, CL, HOH

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6kmmA (A:)
meeqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkms
aeqrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpamp
ndnldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetpr
nlfgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdq
edtfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktg
ymdagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrl
les

    Sequence, based on observed residues (ATOM records):
    >6kmmA (A:)
eqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkmsae
qrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpampnd
nldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetprnl
fgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdqed
tfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktgym
dagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrlle
s

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6kmmB (B:)
meeqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkms
aeqrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpamp
ndnldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetpr
nlfgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdq
edtfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktg
ymdagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrl
les

    Sequence, based on observed residues (ATOM records):
    >6kmmB (B:)
eeqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkmsa
eqrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpampn
dnldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetprn
lfgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdqe
dtfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktgy
mdagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrll
e

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6kmmC (C:)
meeqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkms
aeqrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpamp
ndnldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetpr
nlfgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdq
edtfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktg
ymdagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrl
les

    Sequence, based on observed residues (ATOM records):
    >6kmmC (C:)
eeqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkmsa
eqrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpampn
dnldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetprn
lfgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdqe
dtfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktgy
mdagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrll
e

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6kmmD (D:)
meeqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkms
aeqrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpamp
ndnldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetpr
nlfgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdq
edtfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktg
ymdagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrl
les

    Sequence, based on observed residues (ATOM records):
    >6kmmD (D:)
eeqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkeqr
nqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpampndnl
dekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetprnlfg
fkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdqedtf
grrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktgymda
gllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrlles

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6kmmE (E:)
meeqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkms
aeqrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpamp
ndnldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetpr
nlfgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdq
edtfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktg
ymdagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrl
les

    Sequence, based on observed residues (ATOM records):
    >6kmmE (E:)
eqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkmsae
qrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpampnd
nldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetprnl
fgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdqed
tfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktgym
dagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrlle

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records:
    >6kmmF (F:)
meeqivpfygkhqagittahqtyvyfaaldvtakeksdiitlfrnwtsltqmltsgkkms
aeqrnqylppqdtgesadlspsnltvtfgfgpsffekdgkdrfglkskkpkhlaalpamp
ndnldekqgggdiciqvcaddeqvafhalrnllnqavgtcevrfvnkgflsggkngetpr
nlfgfkdgtgnqsteddslmnsivwvqsgepdwmtggtymafrkikmfleiwdrsslkdq
edtfgrrkssgapfgqkketdpvklnqipsnshvslakstgkqilrrafsytegldpktg
ymdagllfisfqknpdnqfipmlkalsakdalneytqtigsalyacpggckkgeyiaqrl
les