1LY8 - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   THE CRYSTAL STRUCTURE OF A MUTANT ENZYME OF COPRINUS CINEREUS PEROXIDASE PROVIDES AN UNDERSTANDING OF ITS INCREASED THERMOSTABILITY AND INSIGHT INTO MODELLING OF PROTEIN STRUCTURES

Authors :   K. Houborg, P. Harris, J. -C. N. Poulsen, A. Svendsen, P. Schneider, S. L

Date :   07 Jun 02 (Deposition) - 14 Jun 02 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.05

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

Keywords :   Peroxidase, Mutant, Thermostability, Coprinus Cinereus, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Houborg, P. Harris, J. C. Poulsen, P. Schneider, A. Svendsen, S. Larsen
The Structure Of A Mutant Enzyme Of Coprinus Cinereus Peroxidase Provides An Understanding Of Its Increased Thermostability.
Acta Crystallogr. , Sect. D V. 59 997 2003
PubMed-ID: 12777761 | Reference-DOI: 10.1107/S0907444903006784

Molecule 1 - PEROXIDASE
	Chains	:	A, B
	EC Number	:	1.11.1.7
	Engineered	:	YES
	Expression System	:	SACCHAROMYCES CEREVISIAE
	Expression System Common	:	BAKER'S YEAST
	Expression System Taxid	:	4932
	Gene	:	CIP1
	Mutation	:	YES
	Organism Scientific	:	COPRINOPSIS CINEREA
	Organism Taxid	:	5346

		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 (6, 24)

No.	Name	Count	Type	Full Name
1	BMA	2	Ligand/Ion	BETA-D-MANNOSE
2	CA	4	Ligand/Ion	CALCIUM ION
3	GOL	12	Ligand/Ion	GLYCEROL
4	HEM	2	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
5	MAN	2	Ligand/Ion	ALPHA-D-MANNOSE
6	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (5, 8)

No.	Name	Count	Type	Full Name
1	BMA	1	Ligand/Ion	BETA-D-MANNOSE
2	CA	-1	Ligand/Ion	CALCIUM ION
3	GOL	4	Ligand/Ion	GLYCEROL
4	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
5	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
6	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (5, 12)

No.	Name	Count	Type	Full Name
1	BMA	1	Ligand/Ion	BETA-D-MANNOSE
2	CA	-1	Ligand/Ion	CALCIUM ION
3	GOL	8	Ligand/Ion	GLYCEROL
4	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
5	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
6	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (24, 24)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ALA A:81 , GLY A:110 , PHE A:113 , SER A:141 , ASN A:142 , SER A:143 , HOH A:9073 , HOH A:9223 , HOH A:9224 , HOH A:9331 , HOH A:9332	BINDING SITE FOR RESIDUE NAG A 500
02	AC2	SOFTWARE	THR A:313 , THR A:331 , SER A:333 , GLY A:334	BINDING SITE FOR RESIDUE BMA A 600
03	AC3	SOFTWARE	GLY A:238 , SER A:338 , LEU A:339 , ALA A:340 , HOH A:9024 , HOH A:9061 , HOH A:9133 , HOH A:9219 , HOH A:9242 , HOH A:9305	BINDING SITE FOR RESIDUE MAN A 700
04	AC4	SOFTWARE	ALA B:81 , ILE B:107 , GLY B:110 , PHE B:113 , ASN B:142 , HOH B:9062 , HOH B:9118 , HOH B:9221	BINDING SITE FOR RESIDUE NAG B 500
05	AC5	SOFTWARE	THR B:313 , THR B:331	BINDING SITE FOR RESIDUE BMA B 600
06	AC6	SOFTWARE	GLY B:238 , SER B:338 , LEU B:339 , GOL B:803 , HOH B:9042 , HOH B:9074	BINDING SITE FOR RESIDUE MAN B 700
07	AC7	SOFTWARE	ASP A:56 , GLY A:74 , ASP A:76 , SER A:78 , HOH A:9029 , HOH A:9218	BINDING SITE FOR RESIDUE CA A 9001
08	AC8	SOFTWARE	ASP B:56 , GLY B:74 , ASP B:76 , SER B:78 , HOH B:9017 , HOH B:9196	BINDING SITE FOR RESIDUE CA B 9002
09	AC9	SOFTWARE	SER B:184 , ASP B:201 , THR B:203 , VAL B:206 , ASP B:208	BINDING SITE FOR RESIDUE CA B 9003
10	BC1	SOFTWARE	SER A:184 , ASP A:201 , THR A:203 , VAL A:206 , ASP A:208	BINDING SITE FOR RESIDUE CA A 9004
11	BC2	SOFTWARE	ARG A:47 , LYS A:48 , LEU A:50 , PHE A:54 , GLY A:154 , PRO A:155 , PHE A:166 , LEU A:180 , ALA A:182 , HIS A:183 , LEU A:185 , ALA A:186 , SER A:187 , GLN A:188 , GLU A:189 , GLY A:190 , LEU A:191 , SER A:244 , MET A:276 , HOH A:9005 , HOH A:9006 , HOH A:9071 , HOH A:9115	BINDING SITE FOR RESIDUE HEM A 344
12	BC3	SOFTWARE	ARG B:47 , LEU B:50 , PHE B:54 , PRO B:153 , GLY B:154 , PRO B:155 , PHE B:166 , LEU B:179 , LEU B:180 , ALA B:182 , HIS B:183 , ALA B:186 , SER B:187 , GLN B:188 , GLU B:189 , GLY B:190 , LEU B:191 , SER B:244 , MET B:276 , HOH B:9004 , HOH B:9005 , HOH B:9049 , HOH B:9131	BINDING SITE FOR RESIDUE HEM B 344
13	BC4	SOFTWARE	GLN B:38 , THR B:158 , THR B:160 , HOH B:9226 , HOH B:9265 , HOH B:9287	BINDING SITE FOR RESIDUE GOL B 800
14	BC5	SOFTWARE	HIS A:82 , ASN A:84 , ILE A:85 , HOH A:9088	BINDING SITE FOR RESIDUE GOL A 801
15	BC6	SOFTWARE	HIS B:82 , ASN B:84 , ILE B:85 , HOH B:9304	BINDING SITE FOR RESIDUE GOL B 802
16	BC7	SOFTWARE	ALA B:66 , SER B:338 , MAN B:700 , HOH B:9264	BINDING SITE FOR RESIDUE GOL B 803
17	BC8	SOFTWARE	ASP B:97 , SER B:252 , ARG B:253 , HOH B:9086 , HOH B:9137 , HOH B:9151 , HOH B:9269	BINDING SITE FOR RESIDUE GOL B 804
18	BC9	SOFTWARE	HOH A:9206 , CYS B:42 , ASN B:127 , GLN B:205 , HOH B:9041 , HOH B:9175 , HOH B:9258	BINDING SITE FOR RESIDUE GOL B 805
19	CC1	SOFTWARE	PHE A:36 , ASP A:97 , SER A:252 , ARG A:253 , HOH A:9020 , HOH A:9114 , HOH A:9165 , HOH A:9329	BINDING SITE FOR RESIDUE GOL A 806
20	CC2	SOFTWARE	SER A:264 , HOH A:9093 , SER B:260 , SER B:264 , VAL B:267 , ARG B:271	BINDING SITE FOR RESIDUE GOL B 807
21	CC3	SOFTWARE	SER B:263 , SER B:264 , ASN B:265 , GLU B:266 , PRO B:306 , HOH B:9307	BINDING SITE FOR RESIDUE GOL B 808
22	CC4	SOFTWARE	PRO B:90 , ALA B:91 , PRO B:155 , PHE B:229 , HOH B:9131	BINDING SITE FOR RESIDUE GOL B 809
23	CC5	SOFTWARE	SER A:150 , ILE A:152 , ARG A:165 , HOH A:9233 , HOH A:9304 , HOH A:9316	BINDING SITE FOR RESIDUE GOL A 810
24	CC6	SOFTWARE	PHE A:60 , ALA A:169 , GLY A:170 , LYS A:278 , LEU A:282 , HOH A:9045 , HOH A:9200	BINDING SITE FOR RESIDUE GOL A 811

Asymmetric Unit

No.	Residues
1	A:11	-	A:23
2	A:22	-	A:292
3	A:42	-	A:128
4	A:256	-	A:321
5	B:11	-	B:23
6	B:22	-	B:292
7	B:42	-	B:128
8	B:256	-	B:321

(no "Cis Peptide Bond" information available for 1LY8)

Asymmetric Unit (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PER_COPCI_001 *	I	99	V	PER_COPCI	---	---	A/B	I	79	V
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PER_COPCI_001 *	I	99	V	PER_COPCI	---	---	A	I	79	V
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PER_COPCI_001 *	I	99	V	PER_COPCI	---	---	B	I	79	V
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEROXIDASE_2	PS00436	Peroxidases active site signature.	PER_COPCI	66-77	2	A:46-57 B:46-57
2	PEROXIDASE_4	PS50873	Plant heme peroxidase family profile.	PER_COPCI	69-316	2	A:50-296 B:50-296
3	PEROXIDASE_1	PS00435	Peroxidases proximal heme-ligand signature.	PER_COPCI	195-205	2	A:175-185 B:175-185

Biological Unit 1 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEROXIDASE_2	PS00436	Peroxidases active site signature.	PER_COPCI	66-77	1	A:46-57 -
2	PEROXIDASE_4	PS50873	Plant heme peroxidase family profile.	PER_COPCI	69-316	1	A:50-296 -
3	PEROXIDASE_1	PS00435	Peroxidases proximal heme-ligand signature.	PER_COPCI	195-205	1	A:175-185 -

Biological Unit 2 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEROXIDASE_2	PS00436	Peroxidases active site signature.	PER_COPCI	66-77	1	- B:46-57
2	PEROXIDASE_4	PS50873	Plant heme peroxidase family profile.	PER_COPCI	69-316	1	- B:50-296
3	PEROXIDASE_1	PS00435	Peroxidases proximal heme-ligand signature.	PER_COPCI	195-205	1	- B:175-185

(no "Exon" information available for 1LY8)

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:339
 aligned with PER_COPCI | P28314 from UniProtKB/Swiss-Prot  Length:363

    Alignment length:339
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354         
            PER_COPCI    25 GGGSVTCPGGQSTSNSQCCVWFDVLDDLQTNFYQGSKCESPVRKILRIVFHDAIGFSPALTAAGQFGGGGADGSIIAHSNIELAFPANGGLTDTVEALRAVGINHGVSFGDLIQFATAVGMSNCPGSPRLEFLTGRSNSSQPSPPSLIPGPGNTVTAILDRMGDAGFSPDEVVDLLAAHSLASQEGLNSAIFRSPLDSTPQVFDTQFYIETLLKGTTQPGPSLGFAEELSPFPGEFRMRSDALLARDSRTACRWQSMTSSNEVMGQRYRAAMAKMSVLGFDRNALTDCSDVIPSAVSNNAAPVIPGGLTVDDIEVSCPSEPFPEIATASGPLPSLAPAP 363
               SCOP domains d1ly8a_ A: Fungal peroxidase (ligninase)                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains --------------1ly8A01 A:19-152,A:276-303  [code=1.10.520.10, no name defined]                                                                       1ly8A02 A:153-275,A:304-343 Peroxidase, domain 2                                                                           1ly8A01 A:19-152,A:276-303  1ly8A02 A:153-275,A:304-343              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.....ee.hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh..hhhhhhh.........hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..........ee...................hhhhhhhhhhhhh.hhhhhhhhhhhhhh.ee...hhhhh.ee.........hhhhhhhh..............ee........eehhhhhhhhh..hhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhee.hhhh..........ee....hhhhh............ee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------V------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) -----------------------------------------PEROXIDASE_2---------------------------------------------------------------------------------------------------------------------PEROXIDASE_-------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) --------------------------------------------PEROXIDASE_4  PDB: A:50-296 UniProt: 69-316                                                                                                                                                                                                             ----------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ly8 A   5 GGGSVTCPGGQSTSNSQCCVWFDVLDDLQTNFYQGSKCESPVRKSLRIAFHDAIGFSPALTAAGQFGGGGADGSIIAHSNIELAFPANGGLTDTVEALRAVGINHGVSFGDLIQFAAAVGMSNCPGSPRLEFLTGRSNSSQPSPPSLIPGPGNTVTAILDRFGDAGFSPDEVVDLLAAHSLASQEGLNSAIFRSPLDSTPQVFDTQFYIETLLKGTTQPGPSLGFAEELSPFPGGFRIRSDALLARDSRTACRWQSMTSSNEVMGQRFRAAMAKMSVLGFDRNALTDCSDVIPSAVSNNAAPVIPGGLTVDDIEVSCPSEPFPEIATASGPLPSLAPAP 343
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334

Chain B from PDB  Type:PROTEIN  Length:338
 aligned with PER_COPCI | P28314 from UniProtKB/Swiss-Prot  Length:363

    Alignment length:338
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355        
            PER_COPCI    26 GGSVTCPGGQSTSNSQCCVWFDVLDDLQTNFYQGSKCESPVRKILRIVFHDAIGFSPALTAAGQFGGGGADGSIIAHSNIELAFPANGGLTDTVEALRAVGINHGVSFGDLIQFATAVGMSNCPGSPRLEFLTGRSNSSQPSPPSLIPGPGNTVTAILDRMGDAGFSPDEVVDLLAAHSLASQEGLNSAIFRSPLDSTPQVFDTQFYIETLLKGTTQPGPSLGFAEELSPFPGEFRMRSDALLARDSRTACRWQSMTSSNEVMGQRYRAAMAKMSVLGFDRNALTDCSDVIPSAVSNNAAPVIPGGLTVDDIEVSCPSEPFPEIATASGPLPSLAPAP 363
               SCOP domains d1ly8b_ B: Fungal peroxidase (ligninase)                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains -------------1ly8B01 B:19-152,B:276-303  [code=1.10.520.10, no name defined]                                                                       1ly8B02 B:153-275,B:304-343 Peroxidase, domain 2                                                                           1ly8B01 B:19-152,B:276-303  1ly8B02 B:153-275,B:304-343              CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.....ee.hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh..hhhhhhh.........hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..........ee...................hhhhhhhhhhhhh.hhhhhhhhhhhhhh.ee...hhhhh.ee.........hhhhhhhh..............ee........eehhhhhhhhh..hhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhee.hhhh..........ee....hhhhh............ee............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------V------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) ----------------------------------------PEROXIDASE_2---------------------------------------------------------------------------------------------------------------------PEROXIDASE_-------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) -------------------------------------------PEROXIDASE_4  PDB: B:50-296 UniProt: 69-316                                                                                                                                                                                                             ----------------------------------------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ly8 B   6 GGSVTCPGGQSTSNSQCCVWFDVLDDLQTNFYQGSKCESPVRKSLRIAFHDAIGFSPALTAAGQFGGGGADGSIIAHSNIELAFPANGGLTDTVEALRAVGINHGVSFGDLIQFAAAVGMSNCPGSPRLEFLTGRSNSSQPSPPSLIPGPGNTVTAILDRFGDAGFSPDEVVDLLAAHSLASQEGLNSAIFRSPLDSTPQVFDTQFYIETLLKGTTQPGPSLGFAEELSPFPGGFRIRSDALLARDSRTACRWQSMTSSNEVMGQRFRAAMAKMSVLGFDRNALTDCSDVIPSAVSNNAAPVIPGGLTVDDIEVSCPSEPFPEIATASGPLPSLAPAP 343
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335

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 alpha proteins (14657)

Fold: Heme-dependent peroxidases (402)

Superfamily: Heme-dependent peroxidases (402)

Family: CCP-like (292)

Protein domain: Fungal peroxidase (ligninase) (28)

Inky cap (Coprinus cinereus) [TaxId: 5346] (5)

1a	d1ly8a_	A:
1b	d1ly8b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Peroxidase; domain 1 (244)

Homologous Superfamily: [code=1.10.520.10, no name defined] (241)

Coprinopsis cinerea. Organism_taxid: 5346. (4)

1a	1ly8A01	A:19-152,A:276-303
1b	1ly8B01	B:19-152,B:276-303

Topology: Peroxidase; domain 2 (241)

Homologous Superfamily: Peroxidase, domain 2 (241)

Coprinopsis cinerea. Organism_taxid: 5346. (4)

2a	1ly8A02	A:153-275,A:304-343
2b	1ly8B02	B:153-275,B:304-343

(no "Pfam Domain" information available for 1LY8)

Asymmetric Unit(hide GO term definitions)

Chain A,B (PER_COPCI | P28314)

molecular function
	GO:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	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.
	GO:0004601	peroxidase activity	Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
biological process
	GO:0098869	cellular oxidant detoxification	Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
	GO:0042744	hydrogen peroxide catabolic process	The chemical reactions and pathways resulting in the breakdown of hydrogen peroxide (H2O2).
	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:0006979	response to oxidative stress	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		BMA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		CA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		GOL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		HEM	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MAN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NAG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]
		BC1	[ RasMol ]	+environment [ RasMol ]
		BC2	[ RasMol ]	+environment [ RasMol ]
		BC3	[ RasMol ]	+environment [ RasMol ]
		BC4	[ RasMol ]	+environment [ RasMol ]
		BC5	[ RasMol ]	+environment [ RasMol ]
		BC6	[ RasMol ]	+environment [ RasMol ]
		BC7	[ RasMol ]	+environment [ RasMol ]
		BC8	[ RasMol ]	+environment [ RasMol ]
		BC9	[ RasMol ]	+environment [ RasMol ]
		CC1	[ RasMol ]	+environment [ RasMol ]
		CC2	[ RasMol ]	+environment [ RasMol ]
		CC3	[ RasMol ]	+environment [ RasMol ]
		CC4	[ RasMol ]	+environment [ RasMol ]
		CC5	[ RasMol ]	+environment [ RasMol ]
		CC6	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1ly8)

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	1ly8
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	PER_COPCI \| P28314
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	1.11.1.7
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	PER_COPCI \| P28314
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	PER_COPCI \| P28314	:	1h3j 1ly9 1lyc 1lyk

(no "Related Entries Specified in the PDB File" available for 1LY8)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 24)

Sites (24, 24)

SS Bonds (8, 8)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 2)

PROSITE Motifs (3, 6)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (2, 4)

Pfam Domains (0, 0)

Gene Ontology (9, 9)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File