Danish
PDB ID:  pdb_00002ybb
  • Fitted model for bovine mitochondrial supercomplex I1III2IV1 by single particle cryo-EM (EMD-1876)
  • Experimental method: ELECTRON MICROSCOPY
  • Resolution: 19 Å
  • Deposition date: 2011-03-02
Number of assemblies:  1
Assembly ID:  0  (author_and_software_defined_assembly)    
Structural data modeled
Oligomeric count 48
label_asym_ids of protein
48 chains (6 with heme) A, AA, B, BA, C, CA, D, DA, E, EA, F, FA, G, GA, H, HA, I, IA, J, JA, K, KA, L, LA, M, MA, N, NA, O, OA, P, PA, Q, QA, R, RA, S, SA, T, TA, U, UA, V, VA, W, X, Y, Z
label_asym_ids of heme DC EC FC IC OB PB SB WB XB
label_asym_ids of the others
show AB (FES), AC (CU), BB (MG), BC (CU), CB (SF4), CC (ZN), DB (SF4), EB (SF4), FB (FES), GB (MG), GC (SMA), HB (MG), HC (UQ1), IB (MG), JB (MG), JC (CDL), KB (SF4), KC (FES), LB (CA), LC (CDL), MB (SF4), NB (SF4), QB (SMA), RB (UQ1), TB (FES), UB (CDL), VB (CDL), WA (SF4), XA (FMN), YA (NAI), YB (CU), ZA (MG), ZB (MG)
Each chain information

Showing all 48 chains (6 with heme). Show only chains with heme

Chain A  
auth_asym_id 1
Residue indices (Uniprot) 2-438 (1-438)
Uniprot ID Q56222 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain AA  
auth_asym_id S
Residue indices (Uniprot) 11-85 (2-86)
Uniprot ID P00429 ￫UniprotKB
S-S bonds 29:64
label_asym_ids of heme None
Available structure PDB
Chain B  
auth_asym_id 2
Residue indices (Uniprot) 2-180 (1-181)
Uniprot ID Q56221 ￫UniprotKB
S-S bonds 144:172
label_asym_ids of heme None
Available structure PDB
Chain BA  
auth_asym_id T
Residue indices (Uniprot) 1-73 (2-74)
Uniprot ID P04038 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain C  
auth_asym_id 3
Residue indices (Uniprot) 1-777 (1-783)
Missing residues 56LYS-72GLU:144TYR-149LEU
Structural gaps Exists
Uniprot ID Q56223 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB and Modeled
RMSD of experimental residues after energy minimization 0.16 Å
Chain CA  
auth_asym_id U
Residue indices (Uniprot) 1-56 (22-80)
Uniprot ID P07470 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain D  
auth_asym_id 4
Residue indices (Uniprot) 25-409 (1-409)
Missing residues 32PRO-38HIS
Structural gaps Exists
Uniprot ID Q56220 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB and Modeled
RMSD of experimental residues after energy minimization 0.14 Å
Chain DA  
auth_asym_id V
Residue indices (Uniprot) 6-54 (25-80)
Uniprot ID P13183 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain E  
auth_asym_id 5
Residue indices (Uniprot) 1-196 (1-207)
Uniprot ID Q56219 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain EA  
auth_asym_id W
Residue indices (Uniprot) 1-47 (17-63)
Uniprot ID P00430 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain F  
auth_asym_id 6
Residue indices (Uniprot) 15-175 (1-181)
Missing residues 57ARG-73ARG
Structural gaps Exists
Uniprot ID Q56218 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB and Modeled
RMSD of experimental residues after energy minimization 0.14 Å
Chain FA  
auth_asym_id X
Residue indices (Uniprot) 1-43 (25-70)
Uniprot ID P10175 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain G  
auth_asym_id 7
Residue indices (Uniprot) 3-129 (1-129)
Uniprot ID Q5SKZ7 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain GA heme  
auth_asym_id Y
Residue indices (Uniprot) 1-104 (2-105)
Uniprot ID P62894 ￫UniprotKB
label_asym_ids of heme DC
Available structure PDB
Chain H  
auth_asym_id 8
Residue indices (Uniprot) 26-179 (1-182)
Uniprot ID Q56224 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain HA  
auth_asym_id a
Residue indices (Uniprot) 1-442 (35-480)
Uniprot ID P31800 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain I  
auth_asym_id A
Residue indices (Uniprot) 1-442 (35-480)
Uniprot ID P31800 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain IA  
auth_asym_id b
Residue indices (Uniprot) 12-439 (15-453)
Missing residues 13ALA-16GLY:20HIS-20HIS
Structural gaps Exists
Uniprot ID P23004 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB and Modeled
RMSD of experimental residues after energy minimization 0.13 Å
Chain J  
auth_asym_id B
Residue indices (Uniprot) 12-439 (15-453)
Missing residues 13ALA-16GLY:20HIS-20HIS:231GLY-231GLY
Structural gaps Exists
Uniprot ID P23004 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB and Modeled
RMSD of experimental residues after energy minimization 0.12 Å
Chain JA heme  
auth_asym_id c
Residue indices (Uniprot) 10-379 (1-379)
Missing residues 15ASN-15ASN
Structural gaps Exists
Uniprot ID P00157 ￫UniprotKB
label_asym_ids of heme FC ,  EC
Available structure PDB and Modeled
RMSD of experimental residues after energy minimization 0.09 Å
Chain K heme  
auth_asym_id C
Residue indices (Uniprot) 15-379 (1-379)
Uniprot ID P00157 ￫UniprotKB
label_asym_ids of heme PB ,  OB
Available structure PDB
Chain KA heme  
auth_asym_id d
Residue indices (Uniprot) 1-241 (85-325)
Uniprot ID P00125 ￫UniprotKB
label_asym_ids of heme IC
Available structure PDB
Chain L heme  
auth_asym_id D
Residue indices (Uniprot) 1-241 (85-325)
Uniprot ID P00125 ￫UniprotKB
label_asym_ids of heme SB
Available structure PDB
Chain LA  
auth_asym_id e
Residue indices (Uniprot) 1-196 (79-274)
Uniprot ID P13272 ￫UniprotKB
S-S bonds 144:160
label_asym_ids of heme None
Available structure PDB
Chain M  
auth_asym_id E
Residue indices (Uniprot) 1-196 (79-274)
Uniprot ID P13272 ￫UniprotKB
S-S bonds 144:160
label_asym_ids of heme None
Available structure PDB
Chain MA  
auth_asym_id f
Residue indices (Uniprot) 12-110 (2-111)
Mutations (UniProt numbering) N57D
Uniprot ID P00129 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain N  
auth_asym_id F
Residue indices (Uniprot) 12-110 (2-111)
Mutations (UniProt numbering) N57D
Uniprot ID P00129 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain NA  
auth_asym_id g
Residue indices (Uniprot) 2-75 (2-82)
Uniprot ID P13271 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain O  
auth_asym_id G
Residue indices (Uniprot) 2-74 (2-82)
Uniprot ID P13271 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain OA  
auth_asym_id h
Residue indices (Uniprot) 13-78 (14-91)
Uniprot ID P00126 ￫UniprotKB
S-S bonds 24:68,40:54
label_asym_ids of heme None
Available structure PDB
Chain P  
auth_asym_id H
Residue indices (Uniprot) 13-78 (14-91)
Uniprot ID P00126 ￫UniprotKB
S-S bonds 24:68,40:54
label_asym_ids of heme None
Available structure PDB
Chain PA  
auth_asym_id i
Residue indices (Uniprot) 32-78 (14-78)
Missing residues 43LEU-48SER
Structural gaps Exists
Uniprot ID P13272 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB and Modeled
RMSD of experimental residues after energy minimization 0.22 Å
Chain Q  
auth_asym_id I
Residue indices (Uniprot) 32-78 (14-78)
Missing residues 43LEU-48SER
Structural gaps Exists
Uniprot ID P13272 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB and Modeled
RMSD of experimental residues after energy minimization 0.22 Å
Chain QA  
auth_asym_id j
Residue indices (Uniprot) 1-62 (2-63)
Uniprot ID P00130 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain R  
auth_asym_id J
Residue indices (Uniprot) 1-62 (2-63)
Uniprot ID P00130 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain RA  
auth_asym_id k
Residue indices (Uniprot) 15-36 (1-56)
Mutations (UniProt numbering) S22Q, W34S, W38S
Uniprot ID P07552 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain S  
auth_asym_id K
Residue indices (Uniprot) 15-36 (1-56)
Mutations (UniProt numbering) S22Q, W34S, W38S
Uniprot ID P07552 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain SA  
auth_asym_id m
Residue indices (Uniprot) 102-1622 (-)
Nonstandard amino acids UNK Structure of UNKUNK
Unknown residues Included
Uniprot ID Unavailable
label_asym_ids of heme None
Available structure PDB
Chain T heme  
auth_asym_id L
Residue indices (Uniprot) 1-514 (1-514)
Uniprot ID P00396 ￫UniprotKB
label_asym_ids of heme XB ,  WB
Available structure PDB
Chain TA  
auth_asym_id n
Residue indices (Uniprot) 98-1423 (-)
Nonstandard amino acids UNK Structure of UNKUNK
Unknown residues Included
Uniprot ID Unavailable
label_asym_ids of heme None
Available structure PDB
Chain U  
auth_asym_id M
Residue indices (Uniprot) 1-227 (1-227)
Uniprot ID P68530 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain UA  
auth_asym_id o
Residue indices (Uniprot) 92-1428 (-)
Nonstandard amino acids UNK Structure of UNKUNK
Unknown residues Included
Uniprot ID Unavailable
label_asym_ids of heme None
Available structure PDB
Chain V  
auth_asym_id N
Residue indices (Uniprot) 1-261 (1-261)
Uniprot ID P00415 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain VA  
auth_asym_id p
Residue indices (Uniprot) 100-1123 (-)
Nonstandard amino acids UNK Structure of UNKUNK
Unknown residues Included
Uniprot ID Unavailable
label_asym_ids of heme None
Available structure PDB
Chain W  
auth_asym_id O
Residue indices (Uniprot) 4-147 (23-169)
Uniprot ID P00423 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain X  
auth_asym_id P
Residue indices (Uniprot) 1-109 (44-152)
Uniprot ID P00426 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain Y  
auth_asym_id Q
Residue indices (Uniprot) 1-98 (32-129)
Uniprot ID P00428 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB
Chain Z  
auth_asym_id R
Residue indices (Uniprot) 1-84 (13-96)
Uniprot ID P07471 ￫UniprotKB
label_asym_ids of heme None
Available structure PDB