2IC0 - JenaLib

Biol.Unit 1 - manually (Jmol Viewer)

Asymmetric Unit (Jmol Viewer)

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Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Title :   URATE OXIDASE UNDER 2.0 MPA PRESSURE OF XENON

Authors :   N. Colloc'H, P. Retailleau, J. Sopkova-De Oliveira Santos, J. H. Abr T. Prange

Date :   12 Sep 06 (Deposition) - 06 Feb 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.78

Chains :   Asym. Unit : A
Biol. Unit 1: A  (4x)

Keywords :   Uric Acid Degradation, T-Fold Domain, Gaz-Protein Complex, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   N. Colloc'H, J. Sopkova-De Oliveira Santos, P. Retailleau, B. Langlois D'Estainto, B. Gallois, A. Brisson, J. J. Risso, M. Lemaire, J. H. Abraini
Protein Crystallography Under Xenon And Nitrous Oxide Pressure: Comparison With In Vivo Pharmacology Studies And Implications For The Mechanism Of Inhaled Anesthetic Action
Biophys. J. V. 92 217 2007
PubMed-ID: 17028130 | Reference-DOI: 10.1529/BIOPHYSJ.106.093807

Molecule 1 - URICASE
	Chains	:	A
	EC Number	:	1.7.3.3
	Engineered	:	YES
	Expression System	:	SACCHAROMYCES CEREVISIAE
	Expression System Common	:	BAKER'S YEAST
	Expression System Taxid	:	4932
	Gene	:	UAZ, UOX
	Organism Scientific	:	ASPERGILLUS FLAVUS
	Organism Taxid	:	5059
	Synonym	:	URATE OXIDASE

		1
Asymmetric Unit	:	A
Biological Unit 1 (4x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 4)

No.	Name	Count	Type	Full Name
1	ACE	1	Mod. Amino Acid	ACETYL GROUP
2	AZA	1	Ligand/Ion	8-AZAXANTHINE
3	NA	1	Ligand/Ion	SODIUM ION
4	XE	1	Ligand/Ion	XENON

Biological Unit 1 (2, 8)

No.	Name	Count	Type	Full Name
1	ACE	4	Mod. Amino Acid	ACETYL GROUP
2	AZA	4	Ligand/Ion	8-AZAXANTHINE
3	NA	-1	Ligand/Ion	SODIUM ION
4	XE	-1	Ligand/Ion	XENON

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ILE A:88 , TYR A:91 , ASN A:92 , ILE A:94 , GLU A:136 , HOH A:795	BINDING SITE FOR RESIDUE NA A 650
2	AC2	SOFTWARE	ILE A:54 , ALA A:56 , THR A:57 , PHE A:159 , ARG A:176 , SER A:226 , VAL A:227 , GLN A:228 , ASN A:254 , HOH A:660	BINDING SITE FOR RESIDUE AZA A 651

(no "SS Bond" information available for 2IC0)

Asymmetric Unit

No.	Residues
1	Thr A:74	-	Pro A:75
2	Asp A:283	-	Pro A:284

(no "SAP(SNP)/Variant" information available for 2IC0)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	URICASE	PS00366	Uricase signature.	URIC_ASPFL	150-177	1	A:149-176

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	URICASE	PS00366	Uricase signature.	URIC_ASPFL	150-177	4	A:149-176

(no "Exon" information available for 2IC0)

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:296
 aligned with URIC_ASPFL | Q00511 from UniProtKB/Swiss-Prot  Length:302

    Alignment length:296
                                    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       260       270       280       290      
           URIC_ASPFL     1 MSAVKAARYGKDNVRVYKVHKDEKTGVQTVYEMTVCVLLEGEIETSYTKADNSVIVATDSIKNTIYITAKQNPVTPPELFGSILGTHFIEKYNHIHAAHVNIVCHRWTRMDIDGKPHPHSFIRDSEEKRNVQVDVVEGKGIDIKSSLSGLTVLKSTNSQFWGFLRDEYTTLKETWDRILSTDVDATWQWKNFSGLQEVRSHVPKFDATWATAREVTLKTFAEDNSASVQATMYKMAEQILARQQLIETVEYSLPNKHYFEIDLSWHKGLQNTGKNAEVFAPQSDPNGLIKCTVGRS 296
               SCOP domains -d2ic0a1 A:1-136 Urate oxidase (uricase)                                                                                                 d2ic0a2 A:137-295 Urate oxidase (uricase)                                                                                                                       SCOP domains
               CATH domains -2ic0A00 A:1-295 Urate Oxidase;                                                                                                                                                                                                                                                                          CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeeeeeeeee......eeeeeeeeeeeeee.hhhhhhh.hhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh..eeeeeeeeeee..eeeee..eeeeeeee.....eeeeeeeee...eeeeeeeeeeeeeee........................eeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh..eeeeeeeeee..eee...........hhhhh..eee.....eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------URICASE  PDB: A:149-176     ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ic0 A   0 xSAVKAARYGKDNVRVYKVHKDEKTGVQTVYEMTVCVLLEGEIETSYTKADNSVIVATDSIKNTIYITAKQNPVTPPELFGSILGTHFIEKYNHIHAAHVNIVCHRWTRMDIDGKPHPHSFIRDSEEKRNVQVDVVEGKGIDIKSSLSGLTVLKSTNSQFWGFLRDEYTTLKETWDRILSTDVDATWQWKNFSGLQEVRSHVPKFDATWATAREVTLKTFAEDNSASVQATMYKMAEQILARQQLIETVEYSLPNKHYFEIDLSWHKGLQNTGKNAEVFAPQSDPNGLIKCTVGRS 295
                            |        9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289      
                            |                                                                                                                                                                                                                                                                                                       
                            0-ACE

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: Alpha and beta proteins (a+b) (23004)

Fold: T-fold (116)

Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like (113)

Family: Urate oxidase (uricase) (60)

Protein domain: Urate oxidase (uricase) (56)

Aspergillus flavus [TaxId: 5059] (53)

1a	d2ic0a1	A:1-136
1b	d2ic0a2	A:137-295

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Roll (3276)

Topology: Urate Oxidase (38)

Homologous Superfamily: Urate Oxidase; (38)

Aspergillus flavus. Organism_taxid: 5059. (7)

2ic0A00

A:1-295

(no "Pfam Domain" information available for 2IC0)

Asymmetric Unit(hide GO term definitions)

Chain A (URIC_ASPFL | Q00511)

molecular function
	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.
	GO:0004846	urate oxidase activity	Catalysis of the reaction: urate + O2 + H2O = 5-hydroxyisourate + hydrogen peroxide.
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:0006144	purine nucleobase metabolic process	The chemical reactions and pathways involving purine nucleobases, one of the two classes of nitrogen-containing ring compounds found in DNA and RNA, which include adenine and guanine.
	GO:0019628	urate catabolic process	The chemical reactions and pathways resulting in the breakdown of urate, the anion of uric acid, 2,6,8-trioxypurine.
cellular component
	GO:0005777	peroxisome	A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Sites
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	Cis Peptide Bonds
		Asp A:283 - Pro A:284	[ RasMol ]
		Thr A:74 - Pro A:75	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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2iba	NATIVE STRUCTURE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 4)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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