1EWH - JenaLib

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Title :   STRUCTURE OF CYTOCHROME F FROM CHLAMYDOMONAS REINHARDTII

Authors :   G. Sainz, C. J. Carrell, M. V. Ponamarev, G. M. Soriano, W. A. Cramer, J. L. Smith

Date :   25 Apr 00 (Deposition) - 09 Aug 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.35

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

Keywords :   Beta Sandwich, Heme Protein, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Sainz, C. J. Carrell, M. V. Ponamarev, G. M. Soriano, W. A. Cramer, J. L. Smith
Interruption Of The Internal Water Chain Of Cytochrome F Impairs Photosynthetic Function.
Biochemistry V. 39 9164 2000
PubMed-ID: 10924110 | Reference-DOI: 10.1021/BI0004596
(for further references see the PDB file header)

Molecule 1 - CYTOCHROME F
	Cellular Location	:	CHLOROPLAST
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	N-TERMINAL SOLUBLE FRAGMENT
	Organism Scientific	:	CHLAMYDOMONAS REINHARDTII
	Organism Taxid	:	3055

		1	2	3
Asymmetric Unit	:	A	B	C
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	HEM	3	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 3 (2, 2)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:180 , VAL C:44 , ARG C:88 , HOH C:802 , HOH C:812	BINDING SITE FOR RESIDUE ACT C 801
2	AC2	SOFTWARE	TYR A:1 , PHE A:4 , ALA A:5 , VAL A:20 , CYS A:21 , CYS A:24 , HIS A:25 , GLN A:59 , LEU A:69 , ASN A:70 , VAL A:71 , GLY A:72 , MET A:73 , ASN A:153 , GLY A:155 , ARG A:156 , GLY A:157 , VAL A:159 , PRO A:161 , HOH A:298 , HOH A:463 , ASN C:16 , HOH C:860	BINDING SITE FOR RESIDUE HEM A 253
3	AC3	SOFTWARE	VAL A:245 , TYR B:1 , PRO B:2 , PHE B:4 , CYS B:21 , CYS B:24 , HIS B:25 , GLN B:59 , LEU B:69 , ASN B:70 , VAL B:71 , GLY B:72 , MET B:73 , VAL B:74 , ASN B:153 , GLY B:155 , ARG B:156 , GLY B:157 , VAL B:159 , TYR B:160 , HOH B:271 , HOH B:275 , HOH B:391	BINDING SITE FOR RESIDUE HEM B 253
4	AC4	SOFTWARE	TYR C:1 , PHE C:4 , ALA C:5 , CYS C:21 , CYS C:24 , HIS C:25 , GLN C:59 , LEU C:69 , ASN C:70 , VAL C:71 , GLY C:72 , MET C:73 , ASN C:153 , GLY C:155 , ARG C:156 , GLY C:157 , VAL C:159 , TYR C:160 , HOH C:811 , HOH C:863 , HOH C:904	BINDING SITE FOR RESIDUE HEM C 253

(no "SS Bond" information available for 1EWH)

Asymmetric Unit

No.	Residues
1	Gly A:116	-	Pro A:117
2	Gly B:116	-	Pro B:117
3	Gly C:116	-	Pro C:117

(no "SAP(SNP)/Variant" information available for 1EWH)

(no "PROSITE Motif" information available for 1EWH)

(no "Exon" information available for 1EWH)

Asymmetric Unit

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

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:251
 aligned with CYF_CHLRE | P23577 from UniProtKB/Swiss-Prot  Length:317

    Alignment length:251
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281 
            CYF_CHLRE    32 YPVFAQQNYANPREANGRIVCANCHLAQKAVEIEVPQAVLPDTVFEAVIELPYDKQVKQVLANGKKGDLNVGMVLILPEGFELAPPDRVPAEIKEKVGNLYYQPYSPEQKNILVVGPVPGKKYSEMVVPILSPDPAKNKNVSYLKYPIYFGGNRGRGQVYPDGKKSNNTIYNASAAGKIVAITALSEKKGGFEVSIEKANGEVVVDKIPAGPDLIVKEGQTVQADQPLTNNPNVGGFGQAETEIVLQNPAR 282
               SCOP domains d1ewha1 A:1-168,A:233-251 Cytochrome f, large domain                                                                                                                    d1ewha2 A:169-232 Cytochrome f, small domain                    d1ewha1             SCOP domains
               CATH domains 1ewhA01 A:1-170,A:231-251  [code=2.60.40.830, no name defined]                                                                                                            1ewhA02 A:171-230  [code=2.40.50.100, no name defined]      1ewhA01               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh..........hhhhh.......eee...ee....eeeeeee........ee.....ee..eeeeeee.....ee.hhhhhhhhhhhhhh....ee.......eeeeeeeehhhhheeeeeee.............eeeeeeeeee......................eeeeeee........eeeeee.....eeeeee............ee.............eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ewh A   1 YPVFAQQNYANPREANGRIVCANCHLAQKAVEIEVPQAVLPDTVFEAVIELPYDKQVKQVLANGKKGDLNVGMVLILPEGFELAPPDRVPAEIKEKVGNLYYQPYSPEQKNILVVGPVPGKKYSEMVVPILSPDPAKNKNVSYLKYPIYFGGNRGRGQVYPDGKKSNNTIYNASAAGKIVAITALSEKKGGFEVSIEKANGEVVVDKIPAGPDLIVKEGQTVQADQPLTNNPNVGGFGQAETEIVLQNPAR 251
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250

Chain B from PDB  Type:PROTEIN  Length:251
 aligned with CYF_CHLRE | P23577 from UniProtKB/Swiss-Prot  Length:317

    Alignment length:251
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281 
            CYF_CHLRE    32 YPVFAQQNYANPREANGRIVCANCHLAQKAVEIEVPQAVLPDTVFEAVIELPYDKQVKQVLANGKKGDLNVGMVLILPEGFELAPPDRVPAEIKEKVGNLYYQPYSPEQKNILVVGPVPGKKYSEMVVPILSPDPAKNKNVSYLKYPIYFGGNRGRGQVYPDGKKSNNTIYNASAAGKIVAITALSEKKGGFEVSIEKANGEVVVDKIPAGPDLIVKEGQTVQADQPLTNNPNVGGFGQAETEIVLQNPAR 282
               SCOP domains d1ewhb1 B:1-168,B:233-251 Cytochrome f, large domain                                                                                                                    d1ewhb2 B:169-232 Cytochrome f, small domain                    d1ewhb1             SCOP domains
               CATH domains 1ewhB01 B:1-170,B:231-251  [code=2.60.40.830, no name defined]                                                                                                            1ewhB02 B:171-230  [code=2.40.50.100, no name defined]      1ewhB01               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh..........hhhhh.......eee...ee....eeeeeee........ee.....ee..eeeeeee.....ee.hhhhhhhhhhhhhh....ee.......eeeeeeeehhhhheeeeeee.............eeeeeeeeee......................eeeeeeeeee...eeeeeeeee....eeeeee............ee.............eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ewh B   1 YPVFAQQNYANPREANGRIVCANCHLAQKAVEIEVPQAVLPDTVFEAVIELPYDKQVKQVLANGKKGDLNVGMVLILPEGFELAPPDRVPAEIKEKVGNLYYQPYSPEQKNILVVGPVPGKKYSEMVVPILSPDPAKNKNVSYLKYPIYFGGNRGRGQVYPDGKKSNNTIYNASAAGKIVAITALSEKKGGFEVSIEKANGEVVVDKIPAGPDLIVKEGQTVQADQPLTNNPNVGGFGQAETEIVLQNPAR 251
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250

Chain C from PDB  Type:PROTEIN  Length:251
 aligned with CYF_CHLRE | P23577 from UniProtKB/Swiss-Prot  Length:317

    Alignment length:251
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281 
            CYF_CHLRE    32 YPVFAQQNYANPREANGRIVCANCHLAQKAVEIEVPQAVLPDTVFEAVIELPYDKQVKQVLANGKKGDLNVGMVLILPEGFELAPPDRVPAEIKEKVGNLYYQPYSPEQKNILVVGPVPGKKYSEMVVPILSPDPAKNKNVSYLKYPIYFGGNRGRGQVYPDGKKSNNTIYNASAAGKIVAITALSEKKGGFEVSIEKANGEVVVDKIPAGPDLIVKEGQTVQADQPLTNNPNVGGFGQAETEIVLQNPAR 282
               SCOP domains d1ewhc1 C:1-168,C:233-251 Cytochrome f, large domain                                                                                                                    d1ewhc2 C:169-232 Cytochrome f, small domain                    d1ewhc1             SCOP domains
               CATH domains 1ewhC01 C:1-170,C:231-251  [code=2.60.40.830, no name defined]                                                                                                            1ewhC02 C:171-230  [code=2.40.50.100, no name defined]      1ewhC01               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh..........hhhhh.......eee...ee....eeeeeee........ee.....ee..eeeeeee.....ee.hhhhhhhhhhhhhh....ee.......eeeeeeeehhhhheeeeeee.............eeeeeeeeee......................eeeeeeeeee...eeeeeeee.....eeeeee............ee.............eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ewh C   1 YPVFAQQNYANPREANGRIVCANCHLAQKAVEIEVPQAVLPDTVFEAVIELPYDKQVKQVLANGKKGDLNVGMVLILPEGFELAPPDRVPAEIKEKVGNLYYQPYSPEQKNILVVGPVPGKKYSEMVVPILSPDPAKNKNVSYLKYPIYFGGNRGRGQVYPDGKKSNNTIYNASAAGKIVAITALSEKKGGFEVSIEKANGEVVVDKIPAGPDLIVKEGQTVQADQPLTNNPNVGGFGQAETEIVLQNPAR 251
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Barrel-sandwich hybrid (185)

Superfamily: Rudiment single hybrid motif (69)

Family: Cytochrome f, small domain (12)

Protein domain: Cytochrome f, small domain (12)

Green alga (Chlamydomonas reinhardtii) [TaxId: 3055] (6)

1a	d1ewha2	A:169-232
1b	d1ewhc2	C:169-232
1c	d1ewhb2	B:169-232

Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f (364)

Superfamily: Cytochrome f, large domain (12)

Family: Cytochrome f, large domain (12)

Protein domain: Cytochrome f, large domain (12)

Green alga (Chlamydomonas reinhardtii) [TaxId: 3055] (6)

2a	d1ewha1	A:1-168,A:233-251
2b	d1ewhc1	C:1-168,C:233-251
2c	d1ewhb1	B:1-168,B:233-251

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: OB fold (Dihydrolipoamide Acetyltransferase, E2P) (1040)

Homologous Superfamily: [code=2.40.50.100, no name defined] (113)

Chlamydomonas reinhardtii. Organism_taxid: 3055. (4)

1a	1ewhA02	A:171-230
1b	1ewhB02	B:171-230
1c	1ewhC02	C:171-230

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: [code=2.60.40.830, no name defined] (19)

Chlamydomonas reinhardtii. Organism_taxid: 3055. (4)

2a	1ewhA01	A:1-170,A:231-251
2b	1ewhB01	B:1-170,B:231-251
2c	1ewhC01	C:1-170,C:231-251

(no "Pfam Domain" information available for 1EWH)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (CYF_CHLRE | P23577)

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:0009507	chloroplast	A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
	GO:0009535	chloroplast thylakoid membrane	The pigmented membrane of a chloroplast thylakoid. An example of this component is found in Arabidopsis thaliana.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0031361	integral component of thylakoid membrane	The component of the thylakoid membrane consisting of the gene products having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0009536	plastid	Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.
	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.

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		Gly C:116 - Pro C:117	[ RasMol ]

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	1ewh
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	CYF_CHLRE \| P23577	:	1cfm 1e2v 1e2w 1e2z 1q90

(no "Related Entries Specified in the PDB File" available for 1EWH)

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