1NWP - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   CRYSTALLOGRAPHIC STUDY OF AZURIN FROM PSEUDOMONAS PUTIDA

Authors :   F. S. Mathews, Z. -W. Chen

Date :   06 Sep 97 (Deposition) - 28 Jan 98 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

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

Keywords :   Electron Transport, Cupredoxin, Electron Transfer (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Z. W. Chen, M. J. Barber, W. S. Mcintire, F. S. Mathews
Crystallographic Study Of Azurin From Pseudomonas Putida.
Acta Crystallogr. , Sect. D V. 54 253 1998
PubMed-ID: 9761890 | Reference-DOI: 10.1107/S0907444997011505
(for further references see the PDB file header)

Molecule 1 - AZURIN
	Chains	:	A, B
	Organism Scientific	:	PSEUDOMONAS PUTIDA
	Organism Taxid	:	303
	Strain	:	NCIB 9869

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 6)

No.	Name	Count	Type	Full Name
1	CU	2	Ligand/Ion	COPPER (II) ION
2	ZN	4	Ligand/Ion	ZINC ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CU	-1	Ligand/Ion	COPPER (II) ION
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CU	-1	Ligand/Ion	COPPER (II) ION
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	CU	-1	Ligand/Ion	COPPER (II) ION
2	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (6, 6)

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 199
2	AC2	SOFTWARE	ASP A:23 , SER A:25 , HOH A:571 , HOH A:653 , ASP B:23 , SER B:25	BINDING SITE FOR RESIDUE ZN A 401
3	AC3	SOFTWARE	HIS A:83 , HOH A:606 , HOH A:618 , HOH A:632 , HOH A:646 , HOH A:713	BINDING SITE FOR RESIDUE ZN A 402
4	AC4	SOFTWARE	GLY B:45 , HIS B:46 , CYS B:112 , HIS B:117 , MET B:121	BINDING SITE FOR RESIDUE CU B 199
5	AC5	SOFTWARE	HIS B:83 , HOH B:537	BINDING SITE FOR RESIDUE ZN B 403
6	AC6	SOFTWARE	GLU A:2 , HOH A:622 , ASP B:62 , HOH B:525	BINDING SITE FOR RESIDUE ZN B 404

Asymmetric Unit

No.	Residues
1	A:3	-	A:26
2	B:3	-	B:26

(no "Cis Peptide Bond" information available for 1NWP)

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

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.	AZUR_PSEPU	105-121	2	A:105-121 B:105-121

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_PSEPU	105-121	2	A:105-121 B:105-121

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_PSEPU	105-121	2	A:105-121 B:105-121

Biological Unit 3 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	COPPER_BLUE	PS00196	Type-1 copper (blue) proteins signature.	AZUR_PSEPU	105-121	2	A:105-121 B:105-121

(no "Exon" information available for 1NWP)

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:128
 aligned with AZUR_PSEPU | P34097 from UniProtKB/Swiss-Prot  Length:128

    Alignment length:128
                                    10        20        30        40        50        60        70        80        90       100       110       120        
           AZUR_PSEPU     1 AECKVTVDSTDQMSFNTKDIAIDKSCKTFTVELTHSGSLPKNVMGHNLVISKEADMQPIATDGLSAGIDKQYLKDGDARVIAHTKVIGAGEKDSVTFDVSKLAAGEKYGFFCSFPGHISMMKGTVTLK 128
               SCOP domains d1nwpa_ A: Azurin                                                                                                                SCOP domains
               CATH domains 1nwpA00 A:1-128 Cupredoxins -  blue copper proteins                                                                              CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
     Sec.struct. author (1) ..eeeeeeee...eee.eeeeeee..eeeeeeeeee.........-------hhhhhhhhhhhhhh..............eeeeeee..--------hhhhh....eeeeee........eeeeeeee Sec.struct. author (1)
     Sec.struct. author (2) ---------------------------------------------eeeeeeee------------------------------------eeeeeeeeee----------------------------- Sec.struct. author (2)
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------COPPER_BLUE      ------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nwp A   1 AECKVTVDSTDQMSFNTKDIAIDKSCKTFTVELTHSGSLPKNVMGHNLVISKEADMQPIATDGLSAGIDKQYLKDGDARVIAHTKVIGAGEKDSVTFDVSKLAAGEKYGFFCSFPGHISMMKGTVTLK 128
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain B from PDB  Type:PROTEIN  Length:128
 aligned with AZUR_PSEPU | P34097 from UniProtKB/Swiss-Prot  Length:128

    Alignment length:128
                                    10        20        30        40        50        60        70        80        90       100       110       120        
           AZUR_PSEPU     1 AECKVTVDSTDQMSFNTKDIAIDKSCKTFTVELTHSGSLPKNVMGHNLVISKEADMQPIATDGLSAGIDKQYLKDGDARVIAHTKVIGAGEKDSVTFDVSKLAAGEKYGFFCSFPGHISMMKGTVTLK 128
               SCOP domains d1nwpb_ B: Azurin                                                                                                                SCOP domains
               CATH domains 1nwpB00 B:1-128 Cupredoxins -  blue copper proteins                                                                              CATH domains
           Pfam domains (1) Copper-bind-1nwpB01 B:1-128                                                                                                      Pfam domains (1)
           Pfam domains (2) Copper-bind-1nwpB02 B:1-128                                                                                                      Pfam domains (2)
     Sec.struct. author (1) ..eeeeeeee...eee.eeeeeee..eeeeeeeeee.........-------hhhhhhhhhhhhh...............eeeeeee..--------hhhhh....eeeeee........eeeeeeee Sec.struct. author (1)
     Sec.struct. author (2) ---------------------------------------------eeeeeeee------------------------------------eeeeeeeeee----------------------------- Sec.struct. author (2)
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------COPPER_BLUE      ------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nwp B   1 AECKVTVDSTDQMSFNTKDIAIDKSCKTFTVELTHSGSLPKNVMGHNLVISKEADMQPIATDGLSAGIDKQYLKDGDARVIAHTKVIGAGEKDSVTFDVSKLAAGEKYGFFCSFPGHISMMKGTVTLK 128
                                    10        20        30        40        50        60        70        80        90       100       110       120

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: Azurin (95)

Pseudomonas putida [TaxId: 303] (2)

1a	d1nwpa_	A:
1b	d1nwpb_	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)

Pseudomonas putida. Organism_taxid: 303. Strain: ncib 9869 (2)

1a	1nwpA00	A:1-128
1b	1nwpB00	B:1-128

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: CU_oxidase (192)

Family: Copper-bind (82)

Pseudomonas putida (Arthrobacter siderocapsulatus) (2)

1a	Copper-bind-1nwpB01	B:1-128
1b	Copper-bind-1nwpB02	B:1-128

Asymmetric Unit(hide GO term definitions)

Chain A,B (AZUR_PSEPU | P34097)

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: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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	1nwp
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Description

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Ligands, Modified Residues, Ions (2, 6)

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