1JXG - JenaLib

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Title :   THE 1.6 A RESOLUTION CRYSTAL STRUCTURE OF A MUTANT POPLAR PLASTOCYANIN BEARING A 21-25 ENGENEERED DISULFIDE BRIDGE

Authors :   M. Milani, L. Andolfi, S. Cannistraro, M. P. Verbeet, M. Bolognesi

Date :   07 Sep 01 (Deposition) - 19 Dec 01 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

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

Keywords :   Beta Barrel, Photosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Milani, L. Andolfi, S. Cannistraro, M. P. Verbeet, M. Bolognesi
The 1. 6 A Resolution Crystal Structure Of A Mutant Plastocyanin Bearing A 21-25 Engineered Disulfide Bridge.
Acta Crystallogr. , Sect. D V. 57 1735 2001
PubMed-ID: 11679761 | Reference-DOI: 10.1107/S0907444901013221
(for further references see the PDB file header)

Molecule 1 - PLASTOCYANIN A
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Mutation	:	YES
	Organism Scientific	:	POPULUS NIGRA
	Organism Taxid	:	3691
	Variant	:	ITALICA

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 3)

No.	Name	Count	Type	Full Name
1	CU1	2	Ligand/Ion	COPPER (I) ION
2	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	CU1	1	Ligand/Ion	COPPER (I) ION
2	SO4	-1	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	CU1	1	Ligand/Ion	COPPER (I) ION
2	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:37 , CYS A:84 , HIS A:87 , MET A:92	BINDING SITE FOR RESIDUE CU1 A 401
2	AC2	SOFTWARE	PRO B:36 , HIS B:37 , CYS B:84 , HIS B:87 , MET B:92	BINDING SITE FOR RESIDUE CU1 B 402
3	AC3	SOFTWARE	ASN B:76 , LYS B:77 , HOH B:520 , HOH B:575	BINDING SITE FOR RESIDUE SO4 B 501

Asymmetric Unit

No.	Residues
1	A:21	-	A:25
2	B:21	-	B:25

Asymmetric Unit

No.	Residues
1	Val A:15	-	Pro A:16
2	Phe A:35	-	Pro A:36
3	Val B:15	-	Pro B:16
4	Phe B:35	-	Pro B:36

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COPPER_BLUE	PS00196	Type-1 copper (blue) proteins signature.	PLAS1_POPNI	147-161	2	A:78-92 B:78-92

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COPPER_BLUE	PS00196	Type-1 copper (blue) proteins signature.	PLAS1_POPNI	147-161	1	A:78-92 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COPPER_BLUE	PS00196	Type-1 copper (blue) proteins signature.	PLAS1_POPNI	147-161	1	- B:78-92

(no "Exon" information available for 1JXG)

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:100
 aligned with PLAS1_POPNI | P00299 from UniProtKB/Swiss-Prot  Length:168

    Alignment length:100
                                    78        88        98       108       118       128       138       148       158       168
          PLAS1_POPNI    69 AIDVLLGADDGSLAFVPSEFSISPGEKIVFKNNAGFPHNIVFDEDSIPSGVDASKISMSEEDLLNAKGETFEVALSNKGEYSFYCSPHQGAGMVGKVTVN 168
               SCOP domains d1jxga_ A: Plastocyanin                                                                              SCOP domains
               CATH domains 1jxgA00 A:0-99 Cupredoxins -  blue copper proteins                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee........ee..eeee....eeeeee..........hhhhh....hhhhh.............eeeee....eeeeee...hhhhh.eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------COPPER_BLUE    ------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------- Transcript
                 1jxg A   0 MIDVLLGADDGSLAFVPSEFSCSPGCKIVFKNNAGFPHNIVFDEDSIPSGVDASKISMSEEDLLNAKGETFEVALSNKGEYSFYCSPHQGAGMVGKVTVN  99
                                     9        19        29        39        49        59        69        79        89        99

Chain B from PDB  Type:PROTEIN  Length:100
 aligned with PLAS1_POPNI | P00299 from UniProtKB/Swiss-Prot  Length:168

    Alignment length:100
                                    78        88        98       108       118       128       138       148       158       168
          PLAS1_POPNI    69 AIDVLLGADDGSLAFVPSEFSISPGEKIVFKNNAGFPHNIVFDEDSIPSGVDASKISMSEEDLLNAKGETFEVALSNKGEYSFYCSPHQGAGMVGKVTVN 168
               SCOP domains d1jxgb_ B: Plastocyanin                                                                              SCOP domains
               CATH domains 1jxgB00 B:0-99 Cupredoxins -  blue copper proteins                                                   CATH domains
           Pfam domains (1) -Copper-bind-1jxgB01 B:1-99                                                                          Pfam domains (1)
           Pfam domains (2) -Copper-bind-1jxgB02 B:1-99                                                                          Pfam domains (2)
         Sec.struct. author .eeeee........ee..eeee....eeeeee........ee.hhhh....hhhhhh............eeeee....eeeeee.hhhh....eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------COPPER_BLUE    ------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------- Transcript
                 1jxg B   0 MIDVLLGADDGSLAFVPSEFSCSPGCKIVFKNNAGFPHNIVFDEDSIPSGVDASKISMSEEDLLNAKGETFEVALSNKGEYSFYCSPHQGAGMVGKVTVN  99
                                     9        19        29        39        49        59        69        79        89        99

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: Cupredoxin-like (545)

Superfamily: Cupredoxins (543)

Family: Plastocyanin/azurin-like (241)

Protein domain: Plastocyanin (56)

Poplar (Populus nigra), variant italica [TaxId: 3691] (16)

1a	d1jxga_	A:
1b	d1jxgb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: Cupredoxins - blue copper proteins (420)

Populus nigra. Organism_taxid: 3691. Variant: italica. (1)

1a	1jxgA00	A:0-99
1b	1jxgB00	B:0-99

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: CU_oxidase (192)

Family: Copper-bind (82)

Populus nigra (Lombardy poplar) (7)

1a	Copper-bind-1jxgB01	B:1-99
1b	Copper-bind-1jxgB02	B:1-99

Asymmetric Unit(hide GO term definitions)

Chain A,B (PLAS1_POPNI | P00299)

molecular function
	GO:0005507	copper ion binding	Interacting selectively and non-covalently with copper (Cu) ions.
	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: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.
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: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.

Asymmetric Unit
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		Val B:15 - Pro B:16	[ RasMol ]

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