PDB entry 6gkd

View 6gkd on RCSB PDB site
Description: human NBD1 of CFTR in complex with nanobodies D12 and G3a
Class: hydrolase
Keywords: Cystic Fibrosis, CFTR, nanobodies, thermal stabilization, conformational dynamics, Hydrolase
Deposited on 2018-05-18, released 2019-06-19
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-07-29, with a file datestamp of 2020-06-29.
Experiment type: XRAY
Resolution: 2.99 Å
R-factor: N/A
AEROSPACI score: 0.2 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Cystic fibrosis transmembrane conductance regulator
    Species: Homo sapiens [TaxId:9606]
    Gene: CFTR
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6gkda_
  • Chain 'B':
    Compound: Nanobody D12
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdb1, d6gkdb2
  • Chain 'C':
    Compound: Nanobody G3a
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdc1, d6gkdc2
  • Chain 'F':
    Compound: Cystic fibrosis transmembrane conductance regulator
    Species: Homo sapiens [TaxId:9606]
    Gene: CFTR
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6gkdf_
  • Chain 'G':
    Compound: Nanobody D12
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdg1, d6gkdg2
  • Chain 'H':
    Compound: Nanobody G3a
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdh1, d6gkdh2
  • Chain 'I':
    Compound: Cystic fibrosis transmembrane conductance regulator
    Species: Homo sapiens [TaxId:9606]
    Gene: CFTR
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6gkdi_
  • Chain 'J':
    Compound: Nanobody D12
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdj1, d6gkdj2
  • Chain 'K':
    Compound: Nanobody G3a
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdk1, d6gkdk2
  • Chain 'L':
    Compound: Cystic fibrosis transmembrane conductance regulator
    Species: Homo sapiens [TaxId:9606]
    Gene: CFTR
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6gkdl_
  • Chain 'M':
    Compound: Nanobody D12
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdm1, d6gkdm2
  • Chain 'N':
    Compound: Nanobody G3a
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdn1, d6gkdn2
  • Chain 'O':
    Compound: Cystic fibrosis transmembrane conductance regulator
    Species: Homo sapiens [TaxId:9606]
    Gene: CFTR
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6gkdo_
  • Chain 'P':
    Compound: Nanobody D12
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdp1, d6gkdp2
  • Chain 'Q':
    Compound: Nanobody G3a
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdq1, d6gkdq2
  • Chain 'R':
    Compound: Cystic fibrosis transmembrane conductance regulator
    Species: Homo sapiens [TaxId:9606]
    Gene: CFTR
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6gkdr_
  • Chain 'S':
    Compound: Nanobody D12
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkds1, d6gkds2
  • Chain 'T':
    Compound: Nanobody G3a
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6GKD (0-End)
    Domains in SCOPe 2.08: d6gkdt1, d6gkdt2
  • Heterogens: ATP, MG, GOL, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >6gkdA (A:)
sltttevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelep
segkikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekd
nivlgeggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklman
ktrilvtskmehlkkadkililhegssyfygtfselqnlqpdfssklmg

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdA (A:)
ttevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelepseg
kikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekdniv
lgeggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklmanktr
ilvtskmehlkkadkililhegssyfygtfselqnl

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6gkdB (B:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdB (B:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vssaaa

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6gkdC (C:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdC (C:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vss

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >6gkdF (F:)
sltttevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelep
segkikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekd
nivlgeggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklman
ktrilvtskmehlkkadkililhegssyfygtfselqnlqpdfssklmg

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdF (F:)
tevvmenvtafwetpvlkdinfkiergqllavagstgagktsllmmimgelepsegkikh
sgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekdnivlgit
lsggqrarislaravykdadlylldspfgyldvltekeifescvcklmanktrilvtskm
ehlkkadkililhegssyfygtfselqnl

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >6gkdG (G:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdG (G:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vs

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >6gkdH (H:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdH (H:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vss

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >6gkdI (I:)
sltttevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelep
segkikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekd
nivlgeggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklman
ktrilvtskmehlkkadkililhegssyfygtfselqnlqpdfssklmg

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdI (I:)
evvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelepsegki
khsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekdnivlg
ggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklmanktrilv
tskmehlkkadkililhegssyfygtfselqnl

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >6gkdJ (J:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdJ (J:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vss

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >6gkdK (K:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdK (K:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
v

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >6gkdL (L:)
sltttevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelep
segkikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekd
nivlgeggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklman
ktrilvtskmehlkkadkililhegssyfygtfselqnlqpdfssklmg

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdL (L:)
tevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelepsegk
ikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekdnivl
geggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklmanktri
lvtskmehlkkadkililhegssyfygtfselqnl

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >6gkdM (M:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdM (M:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vssa

  • Chain 'N':
    Sequence, based on SEQRES records: (download) 
    >6gkdN (N:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdN (N:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vssa

  • Chain 'O':
    Sequence, based on SEQRES records: (download) 
    >6gkdO (O:)
sltttevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelep
segkikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekd
nivlgeggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklman
ktrilvtskmehlkkadkililhegssyfygtfselqnlqpdfssklmg

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdO (O:)
tevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelepsegk
ikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekdnivl
geggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklmanktri
lvtskmehlkkadkililhegssyfygtfselqnl

  • Chain 'P':
    Sequence, based on SEQRES records: (download) 
    >6gkdP (P:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdP (P:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vss

  • Chain 'Q':
    Sequence, based on SEQRES records: (download) 
    >6gkdQ (Q:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdQ (Q:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vss

  • Chain 'R':
    Sequence, based on SEQRES records: (download) 
    >6gkdR (R:)
sltttevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelep
segkikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekd
nivlgeggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklman
ktrilvtskmehlkkadkililhegssyfygtfselqnlqpdfssklmg

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdR (R:)
tevvmenvtafweeggtpvlkdinfkiergqllavagstgagktsllmmimgelepsegk
ikhsgrisfcsqfswimpgtikeniifgvsydeyryrsvikacqleediskfaekdnivl
geggitlsggqrarislaravykdadlylldspfgyldvltekeifescvcklmanktri
lvtskmehlkkadkililhegssyfygtfselqnl

  • Chain 'S':
    Sequence, based on SEQRES records: (download) 
    >6gkdS (S:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdS (S:)
qvqlqesggglvqagsslrlacaatgsirsinnmgwyrqapgkqrgmvaiitrvgntdya
dsvkgrftisrdnakntvylqmnslkpedtatyychaeiteqsrpfyltddywgqgtqvt
vss

  • Chain 'T':
    Sequence, based on SEQRES records: (download) 
    >6gkdT (T:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vssaaahhhhhhgaaeqkliseedlngaa

    Sequence, based on observed residues (ATOM records): (download) 
    >6gkdT (T:)
qvqlqesggglvqaggslrlsctasgrafswyvmgwfrqapgkerefvatvsgngsrrdy
adsvkgrftisrdnakntvylqmnslkpedtavyycaasstyyytdpekydywgqgtqvt
vss