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- PDB-1ced: THE STRUCTURE OF CYTOCHROME C6 FROM MONORAPHIDIUM BRAUNII, NMR, M... -

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Entry
Database: PDB / ID: 1ced
TitleTHE STRUCTURE OF CYTOCHROME C6 FROM MONORAPHIDIUM BRAUNII, NMR, MINIMIZED AVERAGE STRUCTURE
ComponentsCYTOCHROME C6
KeywordsELECTRON TRANSPORT (HEME PROTEIN) / ELECTRON TRANSPORT / HEME PROTEIN / CHLOROPLAST / THYLAKOID MEMBRANE
Function / homology
Function and homology information


chloroplast thylakoid lumen / photosynthesis / electron transfer activity / iron ion binding / heme binding
Similarity search - Function
Cytochrome c6 / Cytochrome c, class IC / Cytochrome C oxidase, cbb3-type, subunit III / Cytochrome c-like domain / Cytochrome Bc1 Complex; Chain D, domain 2 / Cytochrome c family profile. / Cytochrome c-like domain / Cytochrome c-like domain superfamily / Orthogonal Bundle / Mainly Alpha
Similarity search - Domain/homology
PROTOPORPHYRIN IX CONTAINING FE / Cytochrome c6
Similarity search - Component
Biological speciesMonoraphidium braunii (plant)
MethodSOLUTION NMR
AuthorsBanci, L. / Bertini, I. / Quacquarini, G. / Walter, O. / Diaz, A. / Hervas, M. / De La Rosa, M.A.
Citation
Journal: J.Biol.Inorg.Chem. / Year: 1996
Title: The solution structure of cytochrome c6 from the green alga Monoraphidium braunii
Authors: Banci, L. / Bertini, I. / Quacquarini, G. / Walter, O. / Diaz, A. / Hervas, M. / De la Rosa, M.A.
#1: Journal: Structure / Year: 1995
Title: Ab Initio Determination of the Crystal Structure of Cytochrome C6 and Comparison with Plastocyanin
Authors: Frazao, C. / Soares, C.M. / Carrondo, M.A. / Pohl, E. / Dauter, Z. / Wilson, K.S. / Hervas, M. / Navarro, J.A. / De La Rosa, M.A. / Sheldrick, G.M.
#2: Journal: Eur.J.Biochem. / Year: 1993
Title: Cytochrome C6 from Monoraphidium Braunii. A Cytochrome with an Unusual Heme Axial Coordination
Authors: Campos, A.P. / Aguiar, A.P. / Hervas, M. / Regalla, M. / Navarro, J.A. / Ortega, J.M. / Xavier, A.V. / De La Rosa, M.A. / Teixeira, M.
History
DepositionMar 6, 1996Processing site: BNL
Revision 1.0Aug 17, 1996Provider: repository / Type: Initial release
Revision 1.1Mar 24, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 16, 2022Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Other
Category: database_2 / pdbx_database_status ...database_2 / pdbx_database_status / pdbx_nmr_software / pdbx_struct_assembly / pdbx_struct_oper_list / struct_conn / struct_conn_type / struct_site
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.process_site / _pdbx_nmr_software.name / _struct_conn.conn_type_id / _struct_conn.id / _struct_conn.pdbx_dist_value / _struct_conn.pdbx_leaving_atom_flag / _struct_conn.ptnr1_auth_comp_id / _struct_conn.ptnr1_auth_seq_id / _struct_conn.ptnr1_label_asym_id / _struct_conn.ptnr1_label_atom_id / _struct_conn.ptnr1_label_comp_id / _struct_conn.ptnr1_label_seq_id / _struct_conn.ptnr2_auth_comp_id / _struct_conn.ptnr2_auth_seq_id / _struct_conn.ptnr2_label_asym_id / _struct_conn.ptnr2_label_atom_id / _struct_conn.ptnr2_label_comp_id / _struct_conn.ptnr2_label_seq_id / _struct_conn_type.id / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: CYTOCHROME C6
hetero molecules


Theoretical massNumber of molelcules
Total (without water)9,9762
Polymers9,3591
Non-polymers6161
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)20 / -
Representative

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Components

#1: Protein CYTOCHROME C6 / CYTOCHROME C552


Mass: 9359.270 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: REDUCED / Source: (natural) Monoraphidium braunii (plant) / References: UniProt: Q09099
#2: Chemical ChemComp-HEM / PROTOPORPHYRIN IX CONTAINING FE / HEME


Mass: 616.487 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C34H32FeN4O4

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR

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Sample preparation

Crystal grow
*PLUS
Method: other / Details: NMR

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Processing

NMR softwareName: Amber / Version: 4
Developer: PEARLMAN,CASE,CALDWELL,SIEBEL,SINGH, WEINER,KOLLMAN
Classification: refinement
NMR ensembleConformers submitted total number: 20

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