PDB entry 6idk

View 6idk on RCSB PDB site
Description: cryo-em structure of immature dengue virus serotype 3 in complex with human antibody 1h10 fab at ph 5.0 (class i particle)
Deposited on 2018-09-10, released 2018-12-12
The last revision was dated 2020-06-03, with a file datestamp of 2020-05-29.
Experiment type: EM
Resolution: N/A
R-factor: N/A
AEROSPACI score: -0.3 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: envelope protein
    Species: Dengue virus 3 [TaxId:11069]
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: envelope protein
    Species: Dengue virus 3 [TaxId:11069]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: envelope protein
    Species: Dengue virus 3 [TaxId:11069]
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Premembrane protein
    Species: Dengue virus 3 [TaxId:11069]
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Premembrane protein
    Species: Dengue virus 3 [TaxId:11069]
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: Premembrane protein
    Species: Dengue virus 3 [TaxId:11069]
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: Fab 1H10 heavy chain (V-region)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6IDK (0-End)
  • Chain 'I':
    Compound: Fab 1H10 heavy chain (V-region)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6IDK (0-End)
  • Chain 'J':
    Compound: Fab 1H10 light chain (V-region)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6IDK
  • Chain 'L':
    Compound: Fab 1H10 light chain (V-region)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6IDK
  • Chain 'M':
    Compound: Fab 1H10 heavy chain (V-region)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6IDK (0-End)
  • Chain 'N':
    Compound: Fab 1H10 light chain (V-region)
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6IDK

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:
    >6idkA (A:)
mrcvgvgnrdfveglsgatwvdvvlehggcvttmaknkptldielqkteatqlatlrklc
iegkitnittdsrcptqgeavlpeeqdqnyvckhtyvdrgwgngcglfgkgslvtcakfq
clepiegkvvqyenlkytviitvhtgdqhqvgnetqgvtaeitpqastteailpeygtlg
lecsprtgldfnemilltmknkawmvhrqwffdlplpwasgattetptwnrkellvtfkn
ahakkqevvvlgsqegamhtaltgateiqnsggtsifaghlkcrlkmdklelkgmsyamc
tntfvlkkevsetqhgtilikveykgedapckipfstedgqgkahngrlitanpvvtkke
epvnieaeppfgesnivigigdnalkinwykkgssigkmfeatargarrmailgdtawdf
gsvggvlnslgkmvhqifgsaytalfsgvswvmkigigvlltwiglnskntsmsfsciai
giitlylgavvqa

    Sequence, based on observed residues (ATOM records):
    >6idkA (A:)
rcvgvgnrdfveglsgatwvdvvlehggcvttmaknkptldielqkteatqlatlrklci
egkitnittdsrcptqgeavlpeeqdqnyvckhtyvdrgwgngcglfgkgslvtcakfqc
lepiegkvvqyenlkytviitvhtgdqhqvgnetqgvtaeitpqastteailpeygtlgl
ecsprtgldfnemilltmknkawmvhrqwffdlplpwasgattetptwnrkellvtfkna
hakkqevvvlgsqegamhtaltgateiqnsggtsifaghlkcrlkmdklelkgmsyamct
ntfvlkkevsetqhgtilikveykgedapckipfstedgqgkahngrlitanpvvtkkee
pvnieaeppfgesnivigigdnalkinwykkgss

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6idkB (B:)
mrcvgvgnrdfveglsgatwvdvvlehggcvttmaknkptldielqkteatqlatlrklc
iegkitnittdsrcptqgeavlpeeqdqnyvckhtyvdrgwgngcglfgkgslvtcakfq
clepiegkvvqyenlkytviitvhtgdqhqvgnetqgvtaeitpqastteailpeygtlg
lecsprtgldfnemilltmknkawmvhrqwffdlplpwasgattetptwnrkellvtfkn
ahakkqevvvlgsqegamhtaltgateiqnsggtsifaghlkcrlkmdklelkgmsyamc
tntfvlkkevsetqhgtilikveykgedapckipfstedgqgkahngrlitanpvvtkke
epvnieaeppfgesnivigigdnalkinwykkgssigkmfeatargarrmailgdtawdf
gsvggvlnslgkmvhqifgsaytalfsgvswvmkigigvlltwiglnskntsmsfsciai
giitlylgavvqa

    Sequence, based on observed residues (ATOM records):
    >6idkB (B:)
rcvgvgnrdfveglsgatwvdvvlehggcvttmaknkptldielqkteatqlatlrklci
egkitnittdsrcptqgeavlpeeqdqnyvckhtyvdrgwgngcglfgkgslvtcakfqc
lepiegkvvqyenlkytviitvhtgdqhqvgnetqgvtaeitpqastteailpeygtlgl
ecsprtgldfnemilltmknkawmvhrqwffdlplpwasgattetptwnrkellvtfkna
hakkqevvvlgsqegamhtaltgateiqnsggtsifaghlkcrlkmdklelkgmsyamct
ntfvlkkevsetqhgtilikveykgedapckipfstedgqgkahngrlitanpvvtkkee
pvnieaeppfgesnivigigdnalkinwykkgss

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6idkC (C:)
mrcvgvgnrdfveglsgatwvdvvlehggcvttmaknkptldielqkteatqlatlrklc
iegkitnittdsrcptqgeavlpeeqdqnyvckhtyvdrgwgngcglfgkgslvtcakfq
clepiegkvvqyenlkytviitvhtgdqhqvgnetqgvtaeitpqastteailpeygtlg
lecsprtgldfnemilltmknkawmvhrqwffdlplpwasgattetptwnrkellvtfkn
ahakkqevvvlgsqegamhtaltgateiqnsggtsifaghlkcrlkmdklelkgmsyamc
tntfvlkkevsetqhgtilikveykgedapckipfstedgqgkahngrlitanpvvtkke
epvnieaeppfgesnivigigdnalkinwykkgssigkmfeatargarrmailgdtawdf
gsvggvlnslgkmvhqifgsaytalfsgvswvmkigigvlltwiglnskntsmsfsciai
giitlylgavvqa

    Sequence, based on observed residues (ATOM records):
    >6idkC (C:)
rcvgvgnrdfveglsgatwvdvvlehggcvttmaknkptldielqkteatqlatlrklci
egkitnittdsrcptqgeavlpeeqdqnyvckhtyvdrgwgngcglfgkgslvtcakfqc
lepiegkvvqyenlkytviitvhtgdqhqvgnetqgvtaeitpqastteailpeygtlgl
ecsprtgldfnemilltmknkawmvhrqwffdlplpwasgattetptwnrkellvtfkna
hakkqevvvlgsqegamhtaltgateiqnsggtsifaghlkcrlkmdklelkgmsyamct
ntfvlkkevsetqhgtilikveykgedapckipfstedgqgkahngrlitanpvvtkkee
pvnieaeppfgesnivigigdnalkinwykkgss

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6idkD (D:)
fhltsrdgeprmivgknergksllfktasginmctliamdlgemcddtvtykcphiteve
pedidcwcnltstwvtygtcnqagehrrdkrsvalaphvgmgldtrtqtwmsaegawrqv
ekvetwalrhpgftilalflahyigtsltqkvvifillmlvtpsmt

    Sequence, based on observed residues (ATOM records):
    >6idkD (D:)
fhltsrdgeprmivgknergksllfktasginmctliamdlgemcddtvtykcphiteve
pedidcwcnltstwvtygt

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6idkE (E:)
fhltsrdgeprmivgknergksllfktasginmctliamdlgemcddtvtykcphiteve
pedidcwcnltstwvtygtcnqagehrrdkrsvalaphvgmgldtrtqtwmsaegawrqv
ekvetwalrhpgftilalflahyigtsltqkvvifillmlvtpsmt

    Sequence, based on observed residues (ATOM records):
    >6idkE (E:)
fhltsrdgeprmivgknergksllfktasginmctliamdlgemcddtvtykcphiteve
pedidcwcnltstwvtygt

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6idkF (F:)
fhltsrdgeprmivgknergksllfktasginmctliamdlgemcddtvtykcphiteve
pedidcwcnltstwvtygtcnqagehrrdkrsvalaphvgmgldtrtqtwmsaegawrqv
ekvetwalrhpgftilalflahyigtsltqkvvifillmlvtpsmt

    Sequence, based on observed residues (ATOM records):
    >6idkF (F:)
fhltsrdgeprmivgknergksllfktasginmctliamdlgemcddtvtykcphiteve
pedidcwcnltstwvtygt

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6idkH (H:)
qvqlvesgggvvqpgrslrlscaasgftfsnfamhwvrqapgkglewvslisydgsnkyn
adsvrgrfsisrdnskntlylqmnslrledtavyycvrvrqpwtqawstnyfyyygmdvw
gqgttvtvssastkgps

    Sequence, based on observed residues (ATOM records):
    >6idkH (H:)
qvqlvesgggvvqpgrslrlscaasgftfsnfamhwvrqapgkglewvslisydgsnkyn
adsvrgrfsisrdnskntlylqmnslrledtavyycvrvrqpwtqawstnyfyyygmdvw
gqgttvtvssa

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6idkI (I:)
qvqlvesgggvvqpgrslrlscaasgftfsnfamhwvrqapgkglewvslisydgsnkyn
adsvrgrfsisrdnskntlylqmnslrledtavyycvrvrqpwtqawstnyfyyygmdvw
gqgttvtvssastkgps

    Sequence, based on observed residues (ATOM records):
    >6idkI (I:)
qvqlvesgggvvqpgrslrlscaasgftfsnfamhwvrqapgkglewvslisydgsnkyn
adsvrgrfsisrdnskntlylqmnslrledtavyycvrvrqpwtqawstnyfyyygmdvw
gqgttvtvssa

  • Chain 'J':
    Sequence, based on SEQRES records:
    >6idkJ (J:)
qsvltqppsasgtpgqrvtiscsggssnigssyvywykqvpgtapklliyrnnerpsgvp
drfsgsksgtsaslaisglrsedeadyycaawddslrgqvfgggtkltvlgqpkaa

    Sequence, based on observed residues (ATOM records):
    >6idkJ (J:)
vltqppsasgtpgqrvtiscsggssnigssyvywykqvpgtapklliyrnnerpsgvpdr
fsgsksgtsaslaisglrsedeadyycaawddslrgqvfgggtkltvlgqp

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6idkL (L:)
qsvltqppsasgtpgqrvtiscsggssnigssyvywykqvpgtapklliyrnnerpsgvp
drfsgsksgtsaslaisglrsedeadyycaawddslrgqvfgggtkltvlgqpkaa

    Sequence, based on observed residues (ATOM records):
    >6idkL (L:)
vltqppsasgtpgqrvtiscsggssnigssyvywykqvpgtapklliyrnnerpsgvpdr
fsgsksgtsaslaisglrsedeadyycaawddslrgqvfgggtkltvlgqp

  • Chain 'M':
    Sequence, based on SEQRES records:
    >6idkM (M:)
qvqlvesgggvvqpgrslrlscaasgftfsnfamhwvrqapgkglewvslisydgsnkyn
adsvrgrfsisrdnskntlylqmnslrledtavyycvrvrqpwtqawstnyfyyygmdvw
gqgttvtvssastkgps

    Sequence, based on observed residues (ATOM records):
    >6idkM (M:)
qvqlvesgggvvqpgrslrlscaasgftfsnfamhwvrqapgkglewvslisydgsnkyn
adsvrgrfsisrdnskntlylqmnslrledtavyycvrvrqpwtqawstnyfyyygmdvw
gqgttvtvssa

  • Chain 'N':
    Sequence, based on SEQRES records:
    >6idkN (N:)
qsvltqppsasgtpgqrvtiscsggssnigssyvywykqvpgtapklliyrnnerpsgvp
drfsgsksgtsaslaisglrsedeadyycaawddslrgqvfgggtkltvlgqpkaa

    Sequence, based on observed residues (ATOM records):
    >6idkN (N:)
vltqppsasgtpgqrvtiscsggssnigssyvywykqvpgtapklliyrnnerpsgvpdr
fsgsksgtsaslaisglrsedeadyycaawddslrgqvfgggtkltvlgqp