4A2D - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CORIOLOPSIS GALLICA LACCASE T2 COPPER DEPLETED AT PH 4.5

Authors :   E. De La Mora, B. Valderrama, E. Horjales, E. Rudino-Pinera

Date :   26 Sep 11 (Deposition) - 12 Oct 11 (Release) - 02 May 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym./Biol. Unit : A

Keywords :   Metal-Binding, Oxidoreductase, Blue Multicopper Oxidase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. De La Mora, J. E. Lovett, C. F. Blanford, E. F. Garman, B. Valderrama, E. Rudino-Pinera
Structural Changes Caused By Radiation-Induced Reduction And Radiolysis: The Effect Of X-Ray Absorbed Dose In A Fungal Multicopper Oxidase
Acta Crystallogr. , Sect. D V. 68 564 2012
PubMed-ID: 22525754 | Reference-DOI: 10.1107/S0907444912005343

Molecule 1 - LACCASE
	Chains	:	A
	EC Number	:	1.10.3.2
	Fragment	:	RESIDUES 22-517
	Organism Scientific	:	CORIOLOPSIS GALLICA
	Organism Taxid	:	76126

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 10)

No.	Name	Count	Type	Full Name
1	BMA	3	Ligand/Ion	BETA-D-MANNOSE
2	CU	3	Ligand/Ion	COPPER (II) ION
3	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:415 , CYS A:471 , ILE A:473 , HIS A:476	BINDING SITE FOR RESIDUE CU A1518
2	AC2	SOFTWARE	HIS A:132 , HIS A:418 , HIS A:420 , HIS A:470	BINDING SITE FOR RESIDUE CU A1519
3	AC3	SOFTWARE	HIS A:85 , HIS A:87 , HIS A:130 , HIS A:472	BINDING SITE FOR RESIDUE CU A1520
4	AC4	SOFTWARE	NAG A:1524 , BMA A:1526	BINDING SITE FOR RESIDUE BMA A1525
5	AC5	SOFTWARE	ASP A:271 , NAG A:1524 , BMA A:1525	BINDING SITE FOR RESIDUE BMA A1526
6	AC6	SOFTWARE	NAG A:1523	BINDING SITE FOR RESIDUE BMA A1527
7	AC7	SOFTWARE	ARG A:43 , GLN A:44 , ASN A:75 , MET A:78 , HIS A:174 , LEU A:175 , ALA A:176 , VAL A:179 , THR A:310 , ASN A:347 , SER A:403 , ASN A:454 , BMA A:1525 , BMA A:1526 , BMA A:1527 , HOH A:2132 , HOH A:2276 , HOH A:2306 , HOH A:2307 , HOH A:2308 , HOH A:2309	BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 75 RESIDUES 1521 TO 1524
8	AC8	SOFTWARE	THR A:310 , ASN A:347 , SER A:403 , ASN A:454 , BMA A:1527 , HOH A:2276 , HOH A:2307 , HOH A:2308 , HOH A:2309	BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 454 RESIDUES 1522 TO 1523

Asymmetric/Biological Unit

No.	Residues
1	A:106	-	A:506
2	A:138	-	A:225

Asymmetric/Biological Unit

No.	Residues
1	Gly A:24	-	Pro A:25
2	Phe A:52	-	Pro A:53
3	Leu A:386	-	Pro A:387
4	Phe A:413	-	Pro A:414

(no "SAP(SNP)/Variant" information available for 4A2D)

(no "PROSITE Motif" information available for 4A2D)

(no "Exon" information available for 4A2D)

Asymmetric/Biological 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:496
 aligned with Q1W6B1_9APHY | Q1W6B1 from UniProtKB/TrEMBL  Length:517

    Alignment length:496
                                    31        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       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511      
         Q1W6B1_9APHY    22 AIGPVADLTISNGAVSPYGFSRQAILVNDVFPSPLITGNKGDRFQLNVIDNMTNHTMLKSTSIHWHGFFQHGTNWADGPAFVNQCPISTGHAFLYDFQVPDQAGTFWYHSHLSTQYCDGLRGPIVVYDPQDPHKSLYDVDDDSTVITLADWYHLAARVGPAIPTADATLINGLGRSINTLNADLAVITVTKGKRYRFRLVSLSCDPNHTFSIDGHSLTVIEADSVNLKPHTVDSIQIFAAQRYSFVLNADQDVDNYWIRALPNSGNTNFDGGVNSAILRYDGAAPVEPTTSQAPSTNPLVESALTTLEGTAAPGSPTPGGVDLALNMAFGFAGGRFSINGASFTPPTVPVLLQILSGAQSAQDLLPTGSVYSLPANADIEISLPATTAAPGFPHPFHLHGHAFAVVRSAGSSTYNYENPVYRDVVSTGSPGDNVTIRFRTDNPGPWFLHCHIDFHLEAGFAVVMAEDIPDVAATNPVPQAWSDLCPTYDALSPDDQ 517
               SCOP domains d4a2da1 A:22-151 automated matches                                                                                                d4a2da2 A:152-320 automated matches                                                                                                                                      d4a2da3 A:321-517 automated matches                                                                                                                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeeee......eeeeee........eeee...eeeeeeee............eeee......hhhhh..............eeeeeee.....eeeeeee...hhhhhh.eeeeeee.....hhhhh...hhh.eeeeeee...............eeee...............eee.....eeeeeeee......eeeee....eeeeee..eeeeeeee..eee....eeeeeee......eeeeeeee......hhhhh.eeeee....................hhhhh..................eeee..eeee..eeee..........hhhhhhhh.............eeee....eeeee............eeee....eeeee.............ee.eee........eeeee....eeeeeee.hhhhhhh..eeeeee...hhhhhh..hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a2d A  22 AIGPVADLTISNGAVSPDGFSRQAILVNDVFPSPLITGNKGDRFQLNVIDNMTNHTMLKSTSIHWHGFFQHGTNWADGPAFVNQCPISTGHAFLYDFQVPDQAGTFWYHSHLSTQYCDGLRGPIVVYDPNDPHASLYDVDDDSTVITLADWYHLAAKVGAPVPTADATLINGLGRSAATLAADLAVITVTKGKRYRFRLVSLSCDPNYTFSIDGHSLTVIEADSVNLKPHTVDSLQIFAAQRYSFVLNADQDVDNYWIRALPNSGTQNFAGGTNSAILRYDGAAPVEPTTSQTPSTNPLVESALTTLKGTAAPGSPTPGGVDLALNMAFGFAGGNFTINGASFTPPTVPVLLQILSGAQSAADLLPAGSVYSLPANADIEISLPATAAAPGFPHPFHLHGHVFAVVRSAGSSTYNYANPVYRDVVSTGAPGDNVTIRFRTDNPGPWFLHCHIDFHLEAGFAVVMAEDIPDVAATNPVPQAWSDLCPTYDALSPDDQ 517
                                    31        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       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Cupredoxin-like (545)

Superfamily: Cupredoxins (543)

Family: automated matches (57)

Protein domain: automated matches (57)

Coriolopsis gallica [TaxId: 76126] (5)

1a	d4a2da1	A:22-151
1b	d4a2da2	A:152-320
1c	d4a2da3	A:321-517

(no "CATH Domain" information available for 4A2D, only for superseded entry 2VE0 replaced by 4A2D)

(no "Pfam Domain" information available for 4A2D)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (Q1W6B1_9APHY | Q1W6B1)

molecular function
	GO:0005507	copper ion binding	Interacting selectively and non-covalently with copper (Cu) ions.
	GO:0052716	hydroquinone:oxygen oxidoreductase activity	Catalysis of the reaction: 4 hydroquinone + O2 = 4 benzosemiquinone + 4 H2O.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
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.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
		BMA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		CU	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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		AC8	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Gly A:24 - Pro A:25	[ RasMol ]
		Leu A:386 - Pro A:387	[ RasMol ]
		Phe A:413 - Pro A:414	[ RasMol ]
		Phe A:52 - Pro A:53	[ RasMol ]

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	4a2d
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	1.10.3.2
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UniProtKB/TrEMBL
	Q1W6B1_9APHY \| Q1W6B1	:	4a2e 4a2f 4a2g 4a2h 5a7e

4a2e	CRYSTAL STRUCTURE OF A CORIOLOPSIS GALLICA LACCASE AT 1.7 A RESOLUTION PH 5.5
4a2f	CORIOLOPSIS GALLICA LACCASE AT 0.98 A
4a2g	CORIOLOPSIS GALLICA LACCASE AT 1.38 A
4a2h	CRYSTAL STRUCTURE OF LACCASE FROM CORIOLOPSIS GALLICA PH 7.0

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (8, 8)

SS Bonds (2, 2)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 3)

CATH Domains (0, 0 ; only for superseded entry 2VE0: 1,3)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

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