3ABK | pdb_00003abk

Bovine heart cytochrome c oxidase at the NO-bound fully reduced state (50K)

PDB DOI: https://doi.org/10.2210/pdb3ABK/pdb

Classification: OXIDOREDUCTASE
Organism(s): Bos taurus
Mutation(s): No
Membrane Protein: Yes PDBTM MemProtMD

Deposited: 2009-12-16 Released: 2010-03-09
Deposition Author(s): Ohta, K., Muramoto, K., Shinzawa-Itoh, K., Yamashita, E., Yoshikawa, S., Tsukihara, T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.219 (Depositor), 0.236 (DCC)
R-Value Work:
0.183 (Depositor), 0.201 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.3 of the entry. See complete history.

Literature

X-ray structure of the NO-bound Cu(B) in bovine cytochrome c oxidase

Ohta, K., Muramoto, K., Shinzawa-Itoh, K., Yamashita, E., Yoshikawa, S., Tsukihara, T.

(2010) Acta Crystallogr Sect F Struct Biol Cryst Commun 66: 251-253

PubMed: 20208153 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1107/S1744309109055109
Primary Citation Related Structures:
3ABK

PubMed Abstract:
The X-ray crystallographic structure of nitric oxide-treated bovine heart cytochrome c oxidase (CcO) in the fully reduced state has been determined at 50 K under light illumination. In this structure, nitric oxide (NO) is bound to the CcO oxygen-reduction site, which consists of haem and a Cu atom (the haem a(3)-Cu(B) site). Electron density for the NO molecule was observed close to Cu(B). The refined structure indicates that NO is bound to Cu(B) in a side-on manner.

Organizational Affiliation

Institute for Protein Research, Osaka University, OLABB, 6-2-6 Furuedai, Suita, Osaka 565-0874, Japan.

Macromolecule Content

Total Structure Weight: 442.82 kDa
Atom Count: 32,382
Modeled Residue Count: 3,558
Deposited Residue Count: 3,614
Unique protein chains: 13

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 1	A, N	514	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 (PDB Primary Data), 7.1.1.9 (UniProt) Membrane Entity: Yes
UniProt
Find proteins for P00396 (Bos taurus) Explore P00396 Go to UniProtKB: P00396
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00396
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 2	B, O	227	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 (PDB Primary Data), 7.1.1.9 (UniProt) Membrane Entity: Yes
UniProt
Find proteins for P68530 (Bos taurus) Explore P68530 Go to UniProtKB: P68530
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P68530
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Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 3	C, P	261	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 (PDB Primary Data), 7.1.1.9 (UniProt) Membrane Entity: Yes
UniProt
Find proteins for P00415 (Bos taurus) Explore P00415 Go to UniProtKB: P00415
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00415
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Reference Sequence

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 4 isoform 1	D, Q	147	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P00423 (Bos taurus) Explore P00423 Go to UniProtKB: P00423
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00423
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Reference Sequence

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| 3D Structure

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 5A	E, R	109	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P00426 (Bos taurus) Explore P00426 Go to UniProtKB: P00426
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00426
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Reference Sequence

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| 3D Structure

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 5B	F, S	98	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P00428 (Bos taurus) Explore P00428 Go to UniProtKB: P00428
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00428
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Reference Sequence

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Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 6A2	G, T	85	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P07471 (Bos taurus) Explore P07471 Go to UniProtKB: P07471
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P07471
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Reference Sequence

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Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 6B1	H, U	85	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P00429 (Bos taurus) Explore P00429 Go to UniProtKB: P00429
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00429
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Reference Sequence

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Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 6C	I, V	73	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P04038 (Bos taurus) Explore P04038 Go to UniProtKB: P04038
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P04038
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Reference Sequence

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Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase polypeptide 7A1	J, W	59	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P07470 (Bos taurus) Explore P07470 Go to UniProtKB: P07470
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P07470
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Reference Sequence

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Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 7B	K, X	56	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P13183 (Bos taurus) Explore P13183 Go to UniProtKB: P13183
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P13183
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Reference Sequence

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Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 7C	L, Y	47	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P00430 (Bos taurus) Explore P00430 Go to UniProtKB: P00430
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00430
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Reference Sequence

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| 3D Structure

Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c oxidase subunit 8B	M, Z	46	Bos taurus	Mutation(s): 0 EC: 1.9.3.1 Membrane Entity: Yes
UniProt
Find proteins for P10175 (Bos taurus) Explore P10175 Go to UniProtKB: P10175
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P10175
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Reference Sequence

Small Molecules

Ligands 15 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CDL Query on CDL Download:Ideal Coordinates CCD File SDF format, chain SA [auth C] SDF format, chain TB [auth P] SDF format, chain XA [auth G] SDF format, chain ZB [auth T] MOL2 format, chain SA [auth C] MOL2 format, chain TB [auth P] MOL2 format, chain XA [auth G] MOL2 format, chain ZB [auth T] mmCIF format, chain SA [auth C] mmCIF format, chain TB [auth P] mmCIF format, chain XA [auth G] mmCIF format, chain ZB [auth T]	SA [auth C], TB [auth P], XA [auth G], ZB [auth T]	CARDIOLIPIN C₈₁ H₁₅₆ O₁₇ P₂ XVTUQDWPJJBEHJ-KZCWQMDCSA-L		Interactions Focus chain SA [auth C] Focus chain TB [auth P] Focus chain XA [auth G] Focus chain ZB [auth T] Interactions & Density Focus chain SA [auth C] Focus chain TB [auth P] Focus chain XA [auth G] Focus chain ZB [auth T]
TGL Query on TGL Download:Ideal Coordinates CCD File SDF format, chain AB [auth L] SDF format, chain CC [auth Y] SDF format, chain JA [auth B] SDF format, chain VA [auth D] SDF format, chain NB [auth O] SDF format, chain IB [auth N] MOL2 format, chain AB [auth L] MOL2 format, chain CC [auth Y] MOL2 format, chain JA [auth B] MOL2 format, chain VA [auth D] MOL2 format, chain NB [auth O] MOL2 format, chain IB [auth N] mmCIF format, chain AB [auth L] mmCIF format, chain CC [auth Y] mmCIF format, chain JA [auth B] mmCIF format, chain VA [auth D] mmCIF format, chain NB [auth O] mmCIF format, chain IB [auth N]	AB [auth L] CC [auth Y] IB [auth N] JA [auth B] NB [auth O] AB [auth L], CC [auth Y], IB [auth N], JA [auth B], NB [auth O], VA [auth D]	TRISTEAROYLGLYCEROL C₅₇ H₁₁₀ O₆ DCXXMTOCNZCJGO-UHFFFAOYSA-N		Interactions Focus chain AB [auth L] Focus chain CC [auth Y] Focus chain IB [auth N] Focus chain JA [auth B] Focus chain NB [auth O] Focus chain VA [auth D] Interactions & Density Focus chain AB [auth L] Focus chain CC [auth Y] Focus chain IB [auth N] Focus chain JA [auth B] Focus chain NB [auth O] Focus chain VA [auth D]
HEA Query on HEA Download:Ideal Coordinates CCD File SDF format, chain BA [auth A] SDF format, chain CB [auth N] SDF format, chain DB [auth N] SDF format, chain AA [auth A] MOL2 format, chain BA [auth A] MOL2 format, chain CB [auth N] MOL2 format, chain DB [auth N] MOL2 format, chain AA [auth A] mmCIF format, chain BA [auth A] mmCIF format, chain CB [auth N] mmCIF format, chain DB [auth N] mmCIF format, chain AA [auth A]	AA [auth A], BA [auth A], CB [auth N], DB [auth N]	HEME-A C₄₉ H₅₆ Fe N₄ O₆ ZGGYGTCPXNDTRV-PRYGPKJJSA-L		Interactions Focus chain AA [auth A] Focus chain BA [auth A] Focus chain CB [auth N] Focus chain DB [auth N] Interactions & Density Focus chain AA [auth A] Focus chain BA [auth A] Focus chain CB [auth N] Focus chain DB [auth N]
PEK Query on PEK Download:Ideal Coordinates CCD File SDF format, chain OA [auth C] SDF format, chain PA [auth C] SDF format, chain RB [auth P] SDF format, chain XB [auth T] SDF format, chain YA [auth G] SDF format, chain YB [auth T] MOL2 format, chain OA [auth C] MOL2 format, chain PA [auth C] MOL2 format, chain RB [auth P] MOL2 format, chain XB [auth T] MOL2 format, chain YA [auth G] MOL2 format, chain YB [auth T] mmCIF format, chain OA [auth C] mmCIF format, chain PA [auth C] mmCIF format, chain RB [auth P] mmCIF format, chain XB [auth T] mmCIF format, chain YA [auth G] mmCIF format, chain YB [auth T]	OA [auth C] PA [auth C] RB [auth P] XB [auth T] YA [auth G] OA [auth C], PA [auth C], RB [auth P], XB [auth T], YA [auth G], YB [auth T]	(1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(STEAROYLOXY)METHYL]ETHYL (5E,8E,11E,14E)-ICOSA-5,8,11,14-TETRAENOATE C₄₃ H₇₈ N O₈ P ANRKEHNWXKCXDB-BHFWLYLHSA-N		Interactions Focus chain OA [auth C] Focus chain PA [auth C] Focus chain RB [auth P] Focus chain XB [auth T] Focus chain YA [auth G] Focus chain YB [auth T] Interactions & Density Focus chain OA [auth C] Focus chain PA [auth C] Focus chain RB [auth P] Focus chain XB [auth T] Focus chain YA [auth G] Focus chain YB [auth T]
PSC Query on PSC Download:Ideal Coordinates CCD File SDF format, chain KA [auth B] SDF format, chain VB [auth R] MOL2 format, chain KA [auth B] MOL2 format, chain VB [auth R] mmCIF format, chain KA [auth B] mmCIF format, chain VB [auth R]	KA [auth B], VB [auth R]	(7R,17E,20E)-4-HYDROXY-N,N,N-TRIMETHYL-9-OXO-7-[(PALMITOYLOXY)METHYL]-3,5,8-TRIOXA-4-PHOSPHAHEXACOSA-17,20-DIEN-1-AMINIUM 4-OXIDE C₄₂ H₈₁ N O₈ P JLPULHDHAOZNQI-AUSZDXHESA-O		Interactions Focus chain KA [auth B] Focus chain VB [auth R] Interactions & Density Focus chain KA [auth B] Focus chain VB [auth R]
PGV Query on PGV Download:Ideal Coordinates CCD File SDF format, chain AC [auth U] SDF format, chain GA [auth A] SDF format, chain HA [auth A] SDF format, chain JB [auth N] SDF format, chain QA [auth C] SDF format, chain RA [auth C] SDF format, chain SB [auth P] SDF format, chain KB [auth N] MOL2 format, chain AC [auth U] MOL2 format, chain GA [auth A] MOL2 format, chain HA [auth A] MOL2 format, chain JB [auth N] MOL2 format, chain QA [auth C] MOL2 format, chain RA [auth C] MOL2 format, chain SB [auth P] MOL2 format, chain KB [auth N] mmCIF format, chain AC [auth U] mmCIF format, chain GA [auth A] mmCIF format, chain HA [auth A] mmCIF format, chain JB [auth N] mmCIF format, chain QA [auth C] mmCIF format, chain RA [auth C] mmCIF format, chain SB [auth P] mmCIF format, chain KB [auth N]	AC [auth U] GA [auth A] HA [auth A] JB [auth N] KB [auth N] AC [auth U], GA [auth A], HA [auth A], JB [auth N], KB [auth N], QA [auth C], RA [auth C], SB [auth P]	(1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE C₄₀ H₇₇ O₁₀ P ADYWCMPUNIVOEA-GPJPVTGXSA-N		Interactions Focus chain AC [auth U] Focus chain GA [auth A] Focus chain HA [auth A] Focus chain JB [auth N] Focus chain KB [auth N] Focus chain QA [auth C] Focus chain RA [auth C] Focus chain SB [auth P] Interactions & Density Focus chain AC [auth U] Focus chain GA [auth A] Focus chain HA [auth A] Focus chain JB [auth N] Focus chain KB [auth N] Focus chain QA [auth C] Focus chain RA [auth C] Focus chain SB [auth P]
DMU Query on DMU Download:Ideal Coordinates CCD File SDF format, chain BB [auth M] SDF format, chain DC [auth Z] SDF format, chain UA [auth C] SDF format, chain PB [auth P] MOL2 format, chain BB [auth M] MOL2 format, chain DC [auth Z] MOL2 format, chain UA [auth C] MOL2 format, chain PB [auth P] mmCIF format, chain BB [auth M] mmCIF format, chain DC [auth Z] mmCIF format, chain UA [auth C] mmCIF format, chain PB [auth P]	BB [auth M], DC [auth Z], PB [auth P], UA [auth C]	DECYL-BETA-D-MALTOPYRANOSIDE C₂₂ H₄₂ O₁₁ WOQQAWHSKSSAGF-WXFJLFHKSA-N		Interactions Focus chain BB [auth M] Focus chain DC [auth Z] Focus chain PB [auth P] Focus chain UA [auth C] Interactions & Density Focus chain BB [auth M] Focus chain DC [auth Z] Focus chain PB [auth P] Focus chain UA [auth C]
CHD Query on CHD Download:Ideal Coordinates CCD File SDF format, chain BC [auth W] SDF format, chain LA [auth B] SDF format, chain MB [auth O] SDF format, chain NA [auth C] SDF format, chain QB [auth P] SDF format, chain TA [auth C] SDF format, chain UB [auth P] SDF format, chain ZA [auth J] MOL2 format, chain BC [auth W] MOL2 format, chain LA [auth B] MOL2 format, chain MB [auth O] MOL2 format, chain NA [auth C] MOL2 format, chain QB [auth P] MOL2 format, chain TA [auth C] MOL2 format, chain UB [auth P] MOL2 format, chain ZA [auth J] mmCIF format, chain BC [auth W] mmCIF format, chain LA [auth B] mmCIF format, chain MB [auth O] mmCIF format, chain NA [auth C] mmCIF format, chain QB [auth P] mmCIF format, chain TA [auth C] mmCIF format, chain UB [auth P] mmCIF format, chain ZA [auth J]	BC [auth W] LA [auth B] MB [auth O] NA [auth C] QB [auth P] BC [auth W], LA [auth B], MB [auth O], NA [auth C], QB [auth P], TA [auth C], UB [auth P], ZA [auth J]	CHOLIC ACID C₂₄ H₄₀ O₅ BHQCQFFYRZLCQQ-OELDTZBJSA-N		Interactions Focus chain BC [auth W] Focus chain LA [auth B] Focus chain MB [auth O] Focus chain NA [auth C] Focus chain QB [auth P] Focus chain TA [auth C] Focus chain UB [auth P] Focus chain ZA [auth J] Interactions & Density Focus chain BC [auth W] Focus chain LA [auth B] Focus chain MB [auth O] Focus chain NA [auth C] Focus chain QB [auth P] Focus chain TA [auth C] Focus chain UB [auth P] Focus chain ZA [auth J]
CUA Query on CUA Download:Ideal Coordinates CCD File SDF format, chain IA [auth B] SDF format, chain LB [auth O] MOL2 format, chain IA [auth B] MOL2 format, chain LB [auth O] mmCIF format, chain IA [auth B] mmCIF format, chain LB [auth O]	IA [auth B], LB [auth O]	DINUCLEAR COPPER ION Cu₂ ALKZAGKDWUSJED-UHFFFAOYSA-N		Interactions Focus chain IA [auth B] Focus chain LB [auth O] Interactions & Density Focus chain IA [auth B] Focus chain LB [auth O]
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain WA [auth F] SDF format, chain WB [auth S] MOL2 format, chain WA [auth F] MOL2 format, chain WB [auth S] mmCIF format, chain WA [auth F] mmCIF format, chain WB [auth S]	WA [auth F], WB [auth S]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain WA [auth F] Focus chain WB [auth S] Interactions & Density Focus chain WA [auth F] Focus chain WB [auth S]
CU Query on CU Download:Ideal Coordinates CCD File SDF format, chain DA [auth A] SDF format, chain FB [auth N] MOL2 format, chain DA [auth A] MOL2 format, chain FB [auth N] mmCIF format, chain DA [auth A] mmCIF format, chain FB [auth N]	DA [auth A], FB [auth N]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N		Interactions Focus chain DA [auth A] Focus chain FB [auth N] Interactions & Density Focus chain DA [auth A] Focus chain FB [auth N]
NO Query on NO Download:Ideal Coordinates CCD File SDF format, chain CA [auth A] SDF format, chain EB [auth N] MOL2 format, chain CA [auth A] MOL2 format, chain EB [auth N] mmCIF format, chain CA [auth A] mmCIF format, chain EB [auth N]	CA [auth A], EB [auth N]	NITRIC OXIDE N O ODUCDPQEXGNKDN-UHFFFAOYSA-N		Interactions Focus chain CA [auth A] Focus chain EB [auth N] Interactions & Density Focus chain CA [auth A] Focus chain EB [auth N]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain EA [auth A] SDF format, chain GB [auth N] MOL2 format, chain EA [auth A] MOL2 format, chain GB [auth N] mmCIF format, chain EA [auth A] mmCIF format, chain GB [auth N]	EA [auth A], GB [auth N]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain EA [auth A] Focus chain GB [auth N] Interactions & Density Focus chain EA [auth A] Focus chain GB [auth N]
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain FA [auth A] SDF format, chain HB [auth N] MOL2 format, chain FA [auth A] MOL2 format, chain HB [auth N] mmCIF format, chain FA [auth A] mmCIF format, chain HB [auth N]	FA [auth A], HB [auth N]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain FA [auth A] Focus chain HB [auth N] Interactions & Density Focus chain FA [auth A] Focus chain HB [auth N]
UNX Query on UNX Download:Ideal Coordinates CCD File SDF format, chain MA [auth C] SDF format, chain OB [auth P] MOL2 format, chain MA [auth C] MOL2 format, chain OB [auth P] mmCIF format, chain MA [auth C] mmCIF format, chain OB [auth P]	MA [auth C], OB [auth P]	UNKNOWN ATOM OR ION X		Interactions Focus chain MA [auth C] Focus chain OB [auth P] Interactions & Density Focus chain MA [auth C] Focus chain OB [auth P]

Modified Residues 3 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
FME Query on FME	A, N	L-PEPTIDE LINKING	C₆ H₁₁ N O₃ S		MET
TPO Query on TPO	G, T	L-PEPTIDE LINKING	C₄ H₁₀ N O₆ P		THR
SAC Query on SAC	I, V	L-PEPTIDE LINKING	C₅ H₉ N O₄		SER

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.219 (Depositor), 0.236 (DCC)
R-Value Work: 0.183 (Depositor), 0.201 (DCC)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 182.247	α = 90
b = 207.944	β = 90
c = 177.997	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

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Ligand Structure Quality Assessment

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2010-03-09

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2010-03-09
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2012-05-02
Changes: Database references
Version 1.3: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

3ABK | pdb_00003abk

Bovine heart cytochrome c oxidase at the NO-bound fully reduced state (50K)

Literature

X-ray structure of the NO-bound Cu(B) in bovine cytochrome c oxidase

Biological Assembly 1

Biological Assembly 2

Macromolecules

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

Entity ID: 2

UniProt

Entity Groups

Sequence Annotations

Entity ID: 3

UniProt

Entity Groups

Sequence Annotations

Entity ID: 4

UniProt

Entity Groups

Sequence Annotations

Entity ID: 5

UniProt

Entity Groups

Sequence Annotations

Entity ID: 6

UniProt

Entity Groups

Sequence Annotations

Entity ID: 7

UniProt

Entity Groups

Sequence Annotations

Entity ID: 8

UniProt

Entity Groups

Sequence Annotations

Entity ID: 9

UniProt

Entity Groups

Sequence Annotations

Entity ID: 10

UniProt

Entity Groups

Sequence Annotations

Entity ID: 11

UniProt

Entity Groups

Sequence Annotations

Entity ID: 12

UniProt

Entity Groups

Sequence Annotations

Entity ID: 13

UniProt

Entity Groups

Sequence Annotations

Small Molecules

Experimental Data & Validation

Experimental Data

Structure Validation

Ligand Structure Quality Assessment

Entry History

Deposition Data

Revision History (Full details and data files)