PDB entry 6zkm

View 6zkm on RCSB PDB site
Description: Complex I inhibited by rotenone, open2
Class: electron transport
Keywords: complex, respiration, NADH, proton pump, mitochondria, iron-sulphur cluster, oxidoreductase, membrane protein, ELECTRON TRANSPORT
Deposited on 2020-06-30, released 2020-10-07
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-11-11, with a file datestamp of 2020-11-06.
Experiment type: EM
Resolution: 2.8 Å
R-factor: N/A
AEROSPACI score: 0.26 (click here for full SPACI score report)

Chains and heterogens:

• Chain '1':
  Compound: nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PUX0
  Domains in SCOPe 2.08: d6zkm11, d6zkm12, d6zkm13
• Chain '2':
  Compound: Mitochondrial complex I, 24 kDa subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5NRY1 (Start-245)
• Chain '3':
  Compound: NADH:ubiquinone oxidoreductase core subunit S1
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5QB34
• Chain '4':
  Compound: Mitochondrial complex I, 49 kDa subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM (Start-462)
• Chain '5':
  Compound: NADH:ubiquinone oxidoreductase core subunit S3
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PB27
• Chain '6':
  Compound: Mitochondrial complex I, PSST subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM (Start-222)
• Chain '9':
  Compound: Mitochondrial complex I, TYKY subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM (Start-216)
• Chain 'A':
  Compound: NADH-ubiquinone oxidoreductase chain 3
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot O78753 (0-114)
• Chain 'H':
  Compound: NADH-ubiquinone oxidoreductase chain 1
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot O78747 (0-317)
• Chain 'J':
  Compound: NADH-ubiquinone oxidoreductase chain 6
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot O78757 (0-174)
• Chain 'K':
  Compound: NADH-ubiquinone oxidoreductase chain 4L
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot O78754 (0-97)
• Chain 'L':
  Compound: NADH-ubiquinone oxidoreductase chain 5
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot O78756 (0-End)
• Chain 'M':
  Compound: NADH-ubiquinone oxidoreductase chain 4
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot O78755 (0-458)
• Chain 'N':
  Compound: NADH-ubiquinone oxidoreductase chain 2
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot O78748 (0-346)
• Chain 'V':
  Compound: Mitochondrial complex I, B14.7 subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PAR2 (Start-140)
• Chain 'W':
  Compound: NADH:ubiquinone oxidoreductase subunit B5
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5QHN8 (Start-188)
• Chain 'X':
  Compound: Acyl carrier protein
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5NQT7 (Start-156)
  Domains in SCOPe 2.08: d6zkmx_
• Chain 'Y':
  Compound: nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PYA5 (Start-171)
• Chain 'Z':
  Compound: Mitochondrial complex I, PDSW subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM
• Chain 'a':
  Compound: Mitochondrial complex I, 10 kDa subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM (Start-108)
• Chain 'b':
  Compound: Mitochondrial complex I, 13 kDa subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM
• Chain 'c':
  Compound: NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PE07 (Start-169)
• Chain 'd':
  Compound: NADH:ubiquinone oxidoreductase subunit A9
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PI58
• Chain 'e':
  Compound: nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5QAH8 (Start-98)
• Chain 'f':
  Compound: Mitochondrial complex I, B13 subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PNX7 (Start-115)
• Chain 'g':
  Compound: NADH:ubiquinone oxidoreductase subunit A6
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5QC06 (Start-139)
  Domains in SCOPe 2.08: d6zkmg_
• Chain 'h':
  Compound: Mitochondrial complex I, B14.5a subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5P0I2 (Start-113)
• Chain 'i':
  Compound: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot B9VGZ9 (0-144)
• Chain 'j':
  Compound: Acyl carrier protein
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5NQT7
  Domains in SCOPe 2.08: d6zkmj_
• Chain 'k':
  Compound: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5QBF5 (Start-354)
• Chain 'l':
  Compound: NADH:ubiquinone oxidoreductase subunit S5
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5QFF9 (Start-105)
• Chain 'm':
  Compound: NADH:ubiquinone oxidoreductase subunit A3
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5NYM7 (Start-83)
• Chain 'n':
  Compound: NADH:ubiquinone oxidoreductase subunit B3
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5Q5T4
• Chain 'o':
  Compound: NADH dehydrogenase [ubiquinone] 1 subunit C2
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5P9Q8 (Start-121)
• Chain 'p':
  Compound: NADH:ubiquinone oxidoreductase subunit B4
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5QF73 (Start-129)
• Chain 'q':
  Compound: Mitochondrial complex I, B16.6 subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM (Start-143)
• Chain 'r':
  Compound: Mitochondrial complex I, B17 subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PZE3
• Chain 's':
  Compound: NADH:ubiquinone oxidoreductase subunit B7
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5P5V3
• Chain 't':
  Compound: NADH:ubiquinone oxidoreductase subunit B9
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PGA3
• Chain 'u':
  Compound: NADH:ubiquinone oxidoreductase subunit B2
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PVD7
• Chain 'v':
  Compound: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5Q1B0 (Start-185)
• Chain 'w':
  Compound: Mitochondrial complex I, ESSS subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • Uniprot W5PWF1
• Chain 'x':
  Compound: Mitochondrial complex I, KFYI subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM (Start-75)
• Chain 'y':
  Compound: Mitochondrial complex I, MNLL subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM (Start-57)
• Chain 'z':
  Compound: Mitochondrial complex I, MWFE subunit
  Species: Ovis aries [TaxId:9940]
  Database cross-references and differences (RAF-indexed):
  • PDB 6ZKM (0-69)
• Heterogens: 970, SF4, FMN, NAI, FES, K, 3PE, PC1, CDL, ZMP, ZN, NDP, AMP, MYR

PDB Chain Sequences:

• Chain '1':
  Sequence, based on SEQRES records: (download)
  

  >6zkm1 (1:)
  mlaarrllggslparvsvrfsgdttapkktsfgslkdedriftnlygrhdwrlkgaqsrg
  dwyktkeillkgpdwilgevktsglrgrggagfptglkwsfmnkpsdgrpkylvvnadeg
  epgtckdreiirhdphklvegclvggramgaraayiyirgefyneasnlqvaireayeag
  ligknacgsgydfdvfvvrgagayicgeetaliesiegkqgkprlkppfpadvgvfgcpt
  tvanvetvavspticrrggawfasfgrernsgtklfnisghvnnpctveeemsvplkeli
  ekhaggvtggwdnllavipggsstplipksvcetvlmdfdaliqaqtglgtaavivmdrs
  tdivkaiarliefykhescgqctpcregvdwmnkvmarfvrgdarpaeidslweiskqie
  ghticalgdgaawpvqglirhfrpeleermqrfaqqhqarqaas
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >6zkm1 (1:)
  ktsfgslkdedriftnlygrhdwrlkgaqsrgdwyktkeillkgpdwilgevktsglrgr
  ggagfptglkwsfmnkpsdgrpkylvvnadegepgtckdreiirhdphklvegclvggra
  mgaraayiyirgefyneasnlqvaireayeagligknacgsgydfdvfvvrgagayicge
  etaliesiegkqgkprlkppfpadvgvfgcpttvanvetvavspticrrggawfasfgre
  rnsgtklfnisghvnnpctveeemsvplkeliekhaggvtggwdnllavipggsstplip
  ksvcetvlmdfdaliqaqtglgtaavivmdrstdivkaiarliefykhescgqctpcreg
  vdwmnkvmarfvrgdarpaeidslweiskqieghticalgdgaawpvqglirhfrpelee
  rmqrfaqqhq
  

  
  
• Chain '2':
  No sequence available.
  
  
• Chain '3':
  No sequence available.
  
  
• Chain '4':
  No sequence available.
  
  
• Chain '5':
  No sequence available.
  
  
• Chain '6':
  No sequence available.
  
  
• Chain '9':
  No sequence available.
  
  
• Chain 'A':
  No sequence available.
  
  
• Chain 'H':
  No sequence available.
  
  
• Chain 'J':
  No sequence available.
  
  
• Chain 'K':
  No sequence available.
  
  
• Chain 'L':
  No sequence available.
  
  
• Chain 'M':
  No sequence available.
  
  
• Chain 'N':
  No sequence available.
  
  
• Chain 'V':
  No sequence available.
  
  
• Chain 'W':
  No sequence available.
  
  
• Chain 'X':
  Sequence, based on SEQRES records: (download)
  

  >6zkmX (X:)
  vevkdfyttnyqtavsfsplgpmpsmalmavslsganvpksggrpeesrvpvltqrkvpg
  rvtplcrqysdappltlegikdrvlyvlklydkidpeklsvnshfmkdlgldsldqveii
  mamedefgfeipdidaeklmcpqeivdyiadkkdvye
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >6zkmX (X:)
  dappltlegikdrvlyvlklydkidpeklsvnshfmkdlgldsldqveiimamedefgfe
  ipdidaeklmcpqeivdyiadkkdvye
  

  
  
• Chain 'Y':
  No sequence available.
  
  
• Chain 'Z':
  No sequence available.
  
  
• Chain 'a':
  No sequence available.
  
  
• Chain 'b':
  No sequence available.
  
  
• Chain 'c':
  No sequence available.
  
  
• Chain 'd':
  No sequence available.
  
  
• Chain 'e':
  No sequence available.
  
  
• Chain 'f':
  No sequence available.
  
  
• Chain 'g':
  Sequence, based on SEQRES records: (download)
  

  >6zkmg (g:)
  ngvelgsdflskmaasglrqaavaastsvkpifsrdmneakrrvrelyrawyrevpntvh
  lfqldisvkqgrdkvremfkknahvtdprvvdllvikgkmeleetinvwkqrthvmrffh
  eteaprpkdflskfyvghdp
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >6zkmg (g:)
  tsvkpifsrdmneakrrvrelyrawyrevpntvhlfqldisvkqgrdkvremfkknahvt
  dprvvdllvikgkmeleetinvwkqrthvmrffheteaprpkdflskfyvghdp
  

  
  
• Chain 'h':
  No sequence available.
  
  
• Chain 'i':
  No sequence available.
  
  
• Chain 'j':
  Sequence, based on SEQRES records: (download)
  

  >6zkmj (j:)
  vevkdfyttnyqtavsfsplgpmpsmalmavslsganvpksggrpeesrvpvltqrkvpg
  rvtplcrqysdappltlegikdrvlyvlklydkidpeklsvnshfmkdlgldsldqveii
  mamedefgfeipdidaeklmcpqeivdyiadkkdvye
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >6zkmj (j:)
  pltlegikdrvlyvlklydkidpeklsvnshfmkdlgldsldqveiimamedefgfeipd
  idaeklmcpqeivdyiadkkdv
  

  
  
• Chain 'k':
  No sequence available.
  
  
• Chain 'l':
  No sequence available.
  
  
• Chain 'm':
  No sequence available.
  
  
• Chain 'n':
  No sequence available.
  
  
• Chain 'o':
  No sequence available.
  
  
• Chain 'p':
  No sequence available.
  
  
• Chain 'q':
  No sequence available.
  
  
• Chain 'r':
  No sequence available.
  
  
• Chain 's':
  No sequence available.
  
  
• Chain 't':
  No sequence available.
  
  
• Chain 'u':
  No sequence available.
  
  
• Chain 'v':
  No sequence available.
  
  
• Chain 'w':
  No sequence available.
  
  
• Chain 'x':
  No sequence available.
  
  
• Chain 'y':
  No sequence available.
  
  
• Chain 'z':
  No sequence available.