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Title :   STRUCTURE OF REDUCED CYTOCHROME C6 FROM SYNECHOCOCCUS SP. PCC 7002

Authors :   W. Bialek, S. Krzywda, M. Jaskolski, A. Szczepaniak

Date :   10 Jul 08 (Deposition) - 14 Jul 09 (Release) - 25 Apr 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.23

Chains :   Asym. Unit : A,B,C
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)

Keywords :   Cytochrome, Photosynthesis, Cyanobacteria, Electron Transfer, Electron Transport, Heme, Iron, Metal-Binding, Thylakoid, Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   W. Bialek, S. Krzywda, M. Jaskolski, A. Szczepaniak
Atomic-Resolution Structure Of Reduced Cyanobacterial Cytochrome C6 With An Unusual Sequence Insertion
Febs J. V. 276 4426 2009
PubMed-ID: 19678839 | Reference-DOI: 10.1111/J.1742-4658.2009.07150.X
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 5)

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HOH B:198 , HOH B:232 , HOH B:233 , ARG C:71	BINDING SITE FOR RESIDUE SO4 B 96
2	AC2	SOFTWARE	PRO B:66 , ALA B:67 , HOH B:117 , HOH B:262 , SER C:73 , ASP C:74	BINDING SITE FOR RESIDUE SO4 B 95
3	AC3	SOFTWARE	ASN A:13 , CYS A:14 , CYS A:17 , HIS A:18 , ASN A:23 , MET A:26 , LYS A:29 , THR A:30 , LEU A:31 , TYR A:39 , GLN A:57 , VAL A:58 , GLN A:62 , MET A:65 , PRO A:66 , PHE A:68 , ILE A:84 , HOH A:103 , HOH A:105 , HOH A:106	BINDING SITE FOR RESIDUE HEM A 94
4	AC4	SOFTWARE	ASN B:13 , CYS B:14 , CYS B:17 , HIS B:18 , ASN B:23 , VAL B:25 , MET B:26 , LYS B:29 , THR B:30 , LEU B:31 , LEU B:36 , TYR B:39 , GLN B:57 , VAL B:58 , GLN B:62 , MET B:65 , PHE B:68 , ILE B:84 , HOH B:104 , HOH B:116 , HOH B:224 , HOH B:279 , HOH B:283	BINDING SITE FOR RESIDUE HEM B 94
5	AC5	SOFTWARE	ASN C:13 , CYS C:14 , CYS C:17 , HIS C:18 , ASN C:23 , MET C:26 , LYS C:29 , THR C:30 , LEU C:31 , ALA C:35 , TYR C:39 , GLN C:57 , VAL C:58 , GLN C:62 , MET C:65 , PRO C:66 , PHE C:68 , ILE C:84 , HOH C:99 , HOH C:102 , HOH C:112 , HOH C:129	BINDING SITE FOR RESIDUE HEM C 94

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 3)

Exons (0, 0)

Sequences/Alignments

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:PROTEIN  Length:93
 aligned with CYC6_SYNP2 | O30881 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:93
                                    34        44        54        64        74        84        94       104       114   
           CYC6_SYNP2    25 ADAAAGAQVFAANCAACHAGGNNAVMPTKTLKADALKTYLAGYKDGSKSLEEAVAYQVTNGQGAMPAFGGRLSDADIANVAAYIADQAENNKW 117
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3dr0A00 A:1-93 Cytochrome c                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhh........hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CYTC  PDB: A:1-88 UniProt: 25-112                                                       ----- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 3dr0 A   1 ADAAAGAQVFAANCAACHAGGNNAVMPTKTLKADALKTYLAGYKDGSKSLEEAVAYQVTNGQGAMPAFGGRLSDADIANVAAYIADQAENNKW  93
                                    10        20        30        40        50        60        70        80        90

Chain B from PDB  Type:PROTEIN  Length:93
 aligned with CYC6_SYNP2 | O30881 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:93
                                    34        44        54        64        74        84        94       104       114   
           CYC6_SYNP2    25 ADAAAGAQVFAANCAACHAGGNNAVMPTKTLKADALKTYLAGYKDGSKSLEEAVAYQVTNGQGAMPAFGGRLSDADIANVAAYIADQAENNKW 117
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3dr0B00 B:1-93 Cytochrome c                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhh........hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CYTC  PDB: B:1-88 UniProt: 25-112                                                       ----- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 3dr0 B   1 ADAAAGAQVFAANCAACHAGGNNAVMPTKTLKADALKTYLAGYKDGSKSLEEAVAYQVTNGQGAMPAFGGRLSDADIANVAAYIADQAENNKW  93
                                    10        20        30        40        50        60        70        80        90

Chain C from PDB  Type:PROTEIN  Length:93
 aligned with CYC6_SYNP2 | O30881 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:93
                                    34        44        54        64        74        84        94       104       114   
           CYC6_SYNP2    25 ADAAAGAQVFAANCAACHAGGNNAVMPTKTLKADALKTYLAGYKDGSKSLEEAVAYQVTNGQGAMPAFGGRLSDADIANVAAYIADQAENNKW 117
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3dr0C00 C:1-93 Cytochrome c                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhh........hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CYTC  PDB: C:1-88 UniProt: 25-112                                                       ----- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 3dr0 C   1 ADAAAGAQVFAANCAACHAGGNNAVMPTKTLKADALKTYLAGYKDGSKSLEEAVAYQVTNGQGAMPAFGGRLSDADIANVAAYIADQAENNKW  93
                                    10        20        30        40        50        60        70        80        90

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	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (1, 3)

Pfam Domains (0, 0)

Gene Ontology (8, 8)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (CYC6_SYNP2 | O30881)

molecular function
	GO:0009055	electron carrier activity	Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
	GO:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	GO:0005506	iron ion binding	Interacting selectively and non-covalently with iron (Fe) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
	GO:0015979	photosynthesis	The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.
cellular component
	GO:0009579	thylakoid	A membranous cellular structure that bears the photosynthetic pigments in plants, algae, and cyanobacteria. In cyanobacteria thylakoids are of various shapes and are attached to, or continuous with, the plasma membrane. In eukaryotes they are flattened, membrane-bounded disk-like structures located in the chloroplasts; in the chloroplasts of higher plants the thylakoids form dense stacks called grana. Isolated thylakoid preparations can carry out photosynthetic electron transport and the associated phosphorylation.
	GO:0031977	thylakoid lumen	The volume enclosed by a thylakoid membrane.

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