2I7S - JenaLib

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Title :   CRYSTAL STRUCTURE OF RE(PHEN)(CO)3 (THR124HIS)(HIS83GLN) AZURIN CU(II) FROM PSEUDOMONAS AERUGINOSA

Authors :   C. Gradinaru, B. R. Crane

Date :   31 Aug 06 (Deposition) - 05 Dec 06 (Release) - 08 Dec 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.35

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

Keywords :   Azurin, Rhenium, Electron Transfer In Proteins, Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. M. Blanco-Rodriguez, M. Busby, K. Ronayne, M. Towrie, C. Gradinaru, J. Sudhamsu, J. Sykora, M. Hof, S. Zalis, A. J. Di Bilio, B. R. Crane, H. B. Gray, A. Vlcek
Relaxation Dynamics Of Pseudomonas Aeruginosa Re(I)(Co)3(Alpha-Diimine)(Hisx)+ (X = 83, 107, 109, 124, 126)Cu(Ii) Azurins.
J. Am. Chem. Soc. V. 131 11788 2009
PubMed-ID: 19639996 | Reference-DOI: 10.1021/JA902744S
(for further references see the PDB file header)

Molecule 1 - AZURIN
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Gene	:	AZU
	Mutation	:	YES
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	287
	Other Details	:	RHENIUM-MODIFIED AZURIN

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A		C
Biological Unit 2 (1x)	:		B		D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 9)

No.	Name	Count	Type	Full Name
1	CON	1	Ligand/Ion	COBALT TETRAAMMINE ION
2	CU	4	Ligand/Ion	COPPER (II) ION
3	REP	4	Ligand/Ion	(1,10 PHENANTHROLINE)-(TRI-CARBON MONOXIDE) RHENIUM (I)

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	CON	-1	Ligand/Ion	COBALT TETRAAMMINE ION
2	CU	-1	Ligand/Ion	COPPER (II) ION
3	REP	2	Ligand/Ion	(1,10 PHENANTHROLINE)-(TRI-CARBON MONOXIDE) RHENIUM (I)

Biological Unit 2 (2, 3)

No.	Name	Count	Type	Full Name
1	CON	1	Ligand/Ion	COBALT TETRAAMMINE ION
2	CU	-1	Ligand/Ion	COPPER (II) ION
3	REP	2	Ligand/Ion	(1,10 PHENANTHROLINE)-(TRI-CARBON MONOXIDE) RHENIUM (I)

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:45 , HIS A:46 , CYS A:112 , HIS A:117 , MET A:121	BINDING SITE FOR RESIDUE CU A 901
2	AC2	SOFTWARE	GLY B:245 , HIS B:246 , CYS B:312 , HIS B:317 , MET B:321	BINDING SITE FOR RESIDUE CU B 902
3	AC3	SOFTWARE	GLY C:445 , HIS C:446 , CYS C:512 , HIS C:517 , MET C:521	BINDING SITE FOR RESIDUE CU C 903
4	AC4	SOFTWARE	GLY D:645 , HIS D:646 , CYS D:712 , HIS D:717 , MET D:721	BINDING SITE FOR RESIDUE CU D 904
5	AC5	SOFTWARE	MET A:109 , HIS A:124 , HOH A:1413 , GLN B:307 , REP B:802	BINDING SITE FOR RESIDUE REP A 801
6	AC6	SOFTWARE	GLN A:107 , HIS A:124 , REP A:801 , MET B:309 , HIS B:324 , HOH B:1164 , HOH B:1239 , HOH B:1378	BINDING SITE FOR RESIDUE REP B 802
7	AC7	SOFTWARE	MET C:509 , LYS C:522 , HIS C:524 , HOH C:1188 , HOH C:1223 , GLN D:707 , HIS D:724 , REP D:804	BINDING SITE FOR RESIDUE REP C 803
8	AC8	SOFTWARE	GLN C:507 , HIS C:524 , REP C:803 , MET D:709 , HIS D:724	BINDING SITE FOR RESIDUE REP D 804
9	AC9	SOFTWARE	ASP B:276 , ASP B:277 , VAL B:280 , ILE B:281 , HOH B:1301 , HOH B:1361	BINDING SITE FOR RESIDUE CON B 850

Asymmetric Unit

No.	Residues
1	A:3	-	A:26
2	B:203	-	B:226
3	C:403	-	C:426
4	D:603	-	D:626

(no "Cis Peptide Bond" information available for 2I7S)

(no "SAP(SNP)/Variant" information available for 2I7S)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COPPER_BLUE	PS00196	Type-1 copper (blue) proteins signature.	AZUR_PSEAE	125-141	4	A:105-121 B:305-321 C:505-521 D:705-721

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COPPER_BLUE	PS00196	Type-1 copper (blue) proteins signature.	AZUR_PSEAE	125-141	2	A:105-121 - C:505-521 -

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COPPER_BLUE	PS00196	Type-1 copper (blue) proteins signature.	AZUR_PSEAE	125-141	2	- B:305-321 - D:705-721

(no "Exon" information available for 2I7S)

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
	(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:128
 aligned with AZUR_PSEAE | P00282 from UniProtKB/Swiss-Prot  Length:148

    Alignment length:128
                                    30        40        50        60        70        80        90       100       110       120       130       140        
           AZUR_PSEAE    21 AECSVDIQGNDQMQFNTNAITVDKSCKQFTVNLSHPGNLPKNVMGHNWVLSTAADMQGVVTDGMASGLDKDYLKPDDSRVIAHTKLIGSGEKDSVTFDVSKLKEGEQYMFFCTFPGHSALMKGTLTLK 148
               SCOP domains d2i7sa_ A: Azurin                                                                                                                SCOP domains
               CATH domains 2i7sA00 A:1-128 Cupredoxins -  blue copper proteins                                                                              CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..........eeeee....eeeeeee.....hhhhhh...eeee..hhhhhhhhhhhhhhhhh..........ee........eeeeeee.hhh.....eeee....hhhhh.eeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------COPPER_BLUE      ------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2i7s A   1 AQCSVDIQGNDQMQFNTNAITVDKSCKQFTVNLSHPGNLPKNVMGHNWVLSTAADMQGVVTDGMASGLDKDYLKPDDSRVIAQTKLIGSGEKDSVTFDVSKLKEGEQYMFFCTFPGHSALMKGHLTLK 128
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain B from PDB  Type:PROTEIN  Length:128
 aligned with AZUR_PSEAE | P00282 from UniProtKB/Swiss-Prot  Length:148

    Alignment length:128
                                    30        40        50        60        70        80        90       100       110       120       130       140        
           AZUR_PSEAE    21 AECSVDIQGNDQMQFNTNAITVDKSCKQFTVNLSHPGNLPKNVMGHNWVLSTAADMQGVVTDGMASGLDKDYLKPDDSRVIAHTKLIGSGEKDSVTFDVSKLKEGEQYMFFCTFPGHSALMKGTLTLK 148
               SCOP domains d2i7sb_ B: Azurin                                                                                                                SCOP domains
               CATH domains 2i7sB00 B:201-328 Cupredoxins -  blue copper proteins                                                                            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..........eeee.....eeeeeee.....hhhhhh...eeee..hhhhhhhhhhhhhhhhh..........ee........eeeeeee.hhh.....eeee....hhhhh.eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------COPPER_BLUE      ------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2i7s B 201 AQCSVDIQGNDQMQFNTNAITVDKSCKQFTVNLSHPGNLPKNVMGHNWVLSTAADMQGVVTDGMASGLDKDYLKPDDSRVIAQTKLIGSGEKDSVTFDVSKLKEGEQYMFFCTFPGHSALMKGHLTLK 328
                                   210       220       230       240       250       260       270       280       290       300       310       320

Chain C from PDB  Type:PROTEIN  Length:128
 aligned with AZUR_PSEAE | P00282 from UniProtKB/Swiss-Prot  Length:148

    Alignment length:128
                                    30        40        50        60        70        80        90       100       110       120       130       140        
           AZUR_PSEAE    21 AECSVDIQGNDQMQFNTNAITVDKSCKQFTVNLSHPGNLPKNVMGHNWVLSTAADMQGVVTDGMASGLDKDYLKPDDSRVIAHTKLIGSGEKDSVTFDVSKLKEGEQYMFFCTFPGHSALMKGTLTLK 148
               SCOP domains d2i7sc_ C: Azurin                                                                                                                SCOP domains
               CATH domains 2i7sC00 C:401-528 Cupredoxins -  blue copper proteins                                                                            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..........eeee.....eeeeeee.....hhhhhh...eeee..hhhhhhhhhhhhhhhhh..........ee........eeeeeee.hhh.....eeee....hhhhh.eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------COPPER_BLUE      ------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2i7s C 401 AQCSVDIQGNDQMQFNTNAITVDKSCKQFTVNLSHPGNLPKNVMGHNWVLSTAADMQGVVTDGMASGLDKDYLKPDDSRVIAQTKLIGSGEKDSVTFDVSKLKEGEQYMFFCTFPGHSALMKGHLTLK 528
                                   410       420       430       440       450       460       470       480       490       500       510       520

Chain D from PDB  Type:PROTEIN  Length:128
 aligned with AZUR_PSEAE | P00282 from UniProtKB/Swiss-Prot  Length:148

    Alignment length:128
                                    30        40        50        60        70        80        90       100       110       120       130       140        
           AZUR_PSEAE    21 AECSVDIQGNDQMQFNTNAITVDKSCKQFTVNLSHPGNLPKNVMGHNWVLSTAADMQGVVTDGMASGLDKDYLKPDDSRVIAHTKLIGSGEKDSVTFDVSKLKEGEQYMFFCTFPGHSALMKGTLTLK 148
               SCOP domains d2i7sd_ D: Azurin                                                                                                                SCOP domains
               CATH domains 2i7sD00 D:601-728 Cupredoxins -  blue copper proteins                                                                            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..........eeee.....eeeeeee.....hhhhhh...eeee..hhhhhhhhhhhhhhhhh..........ee........eeeeeee.hhh.....eeee....hhhhh.eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------COPPER_BLUE      ------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2i7s D 601 AQCSVDIQGNDQMQFNTNAITVDKSCKQFTVNLSHPGNLPKNVMGHNWVLSTAADMQGVVTDGMASGLDKDYLKPDDSRVIAQTKLIGSGEKDSVTFDVSKLKEGEQYMFFCTFPGHSALMKGHLTLK 728
                                   610       620       630       640       650       660       670       680       690       700       710       720

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(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Cupredoxin-like (545)

Superfamily: Cupredoxins (543)

Family: Plastocyanin/azurin-like (241)

Protein domain: Azurin (95)

Pseudomonas aeruginosa [TaxId: 287] (78)

1a	d2i7sa_	A:
1b	d2i7sb_	B:
1c	d2i7sc_	C:
1d	d2i7sd_	D:

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)

Pseudomonas aeruginosa. Organism_taxid: 287. (36)

1a	2i7sA00	A:1-128
1b	2i7sB00	B:201-328
1c	2i7sC00	C:401-528
1d	2i7sD00	D:601-728

(no "Pfam Domain" information available for 2I7S)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (AZUR_PSEAE | P00282)

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.
	GO:0046914	transition metal ion binding	Interacting selectively and non-covalently with a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
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:0042597	periplasmic space	The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

Asymmetric Unit
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1bex	1BEX IS THE CRYSTAL STRUCTURE OF RUTHENIUM-MODIFIED AZURIN FROM PSEUDOMONAS AERUGINOSA DETERMINED AT 2.30 ANGSTROM RESOLUTION

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 9)

Sites (9, 9)

SS Bonds (4, 4)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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