PDB entry 6ka6

View 6ka6 on RCSB PDB site
Description: Crystal structure of plasmodium lysyl-tRNA synthetase in complex with a cladosporin derivative 1
Class: ligase
Keywords: Inhibitor, Complex, LIGASE
Deposited on 2019-06-21, released 2020-04-08
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-05-06, with a file datestamp of 2020-05-01.
Experiment type: XRAY
Resolution: 1.89 Å
R-factor: N/A
AEROSPACI score: 0.34 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Lysine--tRNA ligase
    Species: Plasmodium falciparum (isolate NF54) [TaxId:5843]
    Gene: PFNF54_04763
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6ka6a1, d6ka6a2
  • Chain 'B':
    Compound: Lysine--tRNA ligase
    Species: Plasmodium falciparum (isolate NF54) [TaxId:5843]
    Gene: PFNF54_04763
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6ka6b1, d6ka6b2
  • Chain 'C':
    Compound: Lysine--tRNA ligase
    Species: Plasmodium falciparum (isolate NF54) [TaxId:5843]
    Gene: PFNF54_04763
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6ka6c1, d6ka6c2
  • Chain 'D':
    Compound: Lysine--tRNA ligase
    Species: Plasmodium falciparum (isolate NF54) [TaxId:5843]
    Gene: PFNF54_04763
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6ka6d1, d6ka6d2
  • Heterogens: D4O, GOL, LYS, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >6ka6A (A:)
mevdprlyfenrskfiqdqkdkginpyphkfertisipefiekykdlgngehledtilni
tgrimrvsasgqklrffdlvgdgekiqvlanysfhnhekgnfaecydkirrgdivgivgf
pgkskkgelsifpketillsaclhmlpmkyglkdteiryrqryldllinessrhtfvtrt
kiinflrnflnergffevetpmmnliagganarpfithhndldldlylriatelplkmli
vggidkvyeigkvfrnegidnthnpeftscefywayadyndlikwsedffsqlvyhlfgt
ykisynkdgpenqpieidftppypkvsiveeiekvtntileqpfdsnetiekminiikeh
kielpnpptaaklldqlashfienkyndkpffivehpqimsplakyhrtkpglterlemf
icgkevlnaytelndpfkqkecfklqqkdrekgdteaaqldsafctsleyglpptgglgl
gidritmfltnknsikdvilfptmrpangghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6ka6A (A:)
vdprlyfenrskfiqdqkdkginpyphkfertisipefiekykdlgngehledtilnitg
rimrvsasgqklrffdlvgdgekiqvlanysfhnhekgnfaecydkirrgdivgivgfpg
kskkgelsifpketillsaclhmlpmkyglkdteiryrqryldllinessrhtfvtrtki
inflrnflnergffevetpmmnliagganarpfithhndldldlylriatelplkmlivg
gidkvyeigkvfrnegidnthnpeftscefywayadyndlikwsedffsqlvyhlfgtyk
isynkdgpenqpieidftppypkvsiveeiekvtntileqpfdsnetiekminiikehki
elpnpptaaklldqlashfienkyndkpffivehpqimsplakyhrtkpglterlemfic
gkevlnaytelndpfkqkecdsafctsleyglpptgglglgidritmfltnknsikdvil
fptmrpa

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6ka6B (B:)
mevdprlyfenrskfiqdqkdkginpyphkfertisipefiekykdlgngehledtilni
tgrimrvsasgqklrffdlvgdgekiqvlanysfhnhekgnfaecydkirrgdivgivgf
pgkskkgelsifpketillsaclhmlpmkyglkdteiryrqryldllinessrhtfvtrt
kiinflrnflnergffevetpmmnliagganarpfithhndldldlylriatelplkmli
vggidkvyeigkvfrnegidnthnpeftscefywayadyndlikwsedffsqlvyhlfgt
ykisynkdgpenqpieidftppypkvsiveeiekvtntileqpfdsnetiekminiikeh
kielpnpptaaklldqlashfienkyndkpffivehpqimsplakyhrtkpglterlemf
icgkevlnaytelndpfkqkecfklqqkdrekgdteaaqldsafctsleyglpptgglgl
gidritmfltnknsikdvilfptmrpangghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6ka6B (B:)
dprlyfenrskfiqdqkdkginpyphkfertisipefiekykdlgngehledtilnitgr
imrvsasgqklrffdlvgdgekiqvlanysfhnhekgnfaecydkirrgdivgivgfpgk
skkgelsifpketillsaclhmlpmkyglkdteiryrqryldllinessrhtfvtrtkii
nflrnflnergffevetpmmnliagganarpfithhndldldlylriatelplkmlivgg
idkvyeigkvfrnegidnthnpeftscefywayadyndlikwsedffsqlvyhlfgtyki
synkdgpenqpieidftppypkvsiveeiekvtntileqpfdsnetiekminiikehkie
lpnpptaaklldqlashfienkyndkpffivehpqimsplakyhrtkpglterlemficg
kevlnaytelndpfkqkecfklqqkdrekgdteaaqldsafctsleyglpptgglglgid
ritmfltnknsikdvilfptmrpa

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6ka6C (C:)
mevdprlyfenrskfiqdqkdkginpyphkfertisipefiekykdlgngehledtilni
tgrimrvsasgqklrffdlvgdgekiqvlanysfhnhekgnfaecydkirrgdivgivgf
pgkskkgelsifpketillsaclhmlpmkyglkdteiryrqryldllinessrhtfvtrt
kiinflrnflnergffevetpmmnliagganarpfithhndldldlylriatelplkmli
vggidkvyeigkvfrnegidnthnpeftscefywayadyndlikwsedffsqlvyhlfgt
ykisynkdgpenqpieidftppypkvsiveeiekvtntileqpfdsnetiekminiikeh
kielpnpptaaklldqlashfienkyndkpffivehpqimsplakyhrtkpglterlemf
icgkevlnaytelndpfkqkecfklqqkdrekgdteaaqldsafctsleyglpptgglgl
gidritmfltnknsikdvilfptmrpangghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6ka6C (C:)
dprlyfenrskfiqdqkdkginpyphkfertisipefiekykdlgngehledtilnitgr
imrvsasgqklrffdlvgdgekiqvlanysfhnhekgnfaecydkirrgdivgivgfpgk
skkgelsifpketillsaclhmlpmkyglkdteiryrqryldllinessrhtfvtrtkii
nflrnflnergffevetpmmnliagganarpfithhndldldlylriatelplkmlivgg
idkvyeigkvfrnegidnthnpeftscefywayadyndlikwsedffsqlvyhlfgtyki
synkdgpenqpieidftppypkvsiveeiekvtntileqpfdsnetiekminiikehkie
lpnpptaaklldqlashfienkyndkpffivehpqimsplakyhrtkpglterlemficg
kevlnaytelndpfkqkecdsafctsleyglpptgglglgidritmfltnknsikdvilf
ptmrpa

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6ka6D (D:)
mevdprlyfenrskfiqdqkdkginpyphkfertisipefiekykdlgngehledtilni
tgrimrvsasgqklrffdlvgdgekiqvlanysfhnhekgnfaecydkirrgdivgivgf
pgkskkgelsifpketillsaclhmlpmkyglkdteiryrqryldllinessrhtfvtrt
kiinflrnflnergffevetpmmnliagganarpfithhndldldlylriatelplkmli
vggidkvyeigkvfrnegidnthnpeftscefywayadyndlikwsedffsqlvyhlfgt
ykisynkdgpenqpieidftppypkvsiveeiekvtntileqpfdsnetiekminiikeh
kielpnpptaaklldqlashfienkyndkpffivehpqimsplakyhrtkpglterlemf
icgkevlnaytelndpfkqkecfklqqkdrekgdteaaqldsafctsleyglpptgglgl
gidritmfltnknsikdvilfptmrpangghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6ka6D (D:)
dprlyfenrskfiqdqkdkginpyphkfertisipefiekykdlgngehledtilnitgr
imrvsasgqklrffdlvgdgekiqvlanysfhnhekgnfaecydkirrgdivgivgfpgk
skkgelsifpketillsaclhmlpmkykdteiryrqryldllinessrhtfvtrtkiinf
lrnflnergffevetpmmnliagganarpfithhndldldlylriatelplkmlivggid
kvyeigkvfrnegidnthnpeftscefywayadyndlikwsedffsqlvyhlfgtykisy
nkdgpenqpieidftppypkvsiveeiekvtntileqpfdsnetiekminiikehkielp
npptaaklldqlashfienkyndkpffivehpqimsplakyhrtkpglterlemficgke
vlnaytelndpfkqkecfklqqkdrekgdteaaqldsafctsleyglpptgglglgidri
tmfltnknsikdvilfptmrp