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Asym./Biol. Unit (Jmol Viewer)

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

Title :   CRYSTAL STRUCTURE OF NOGO-RECEPTOR-2

Authors :   M. Semavina, N. Saha, M. V. Kolev, R. J. Giger, J. P. Himanen, D. B. Nikolo

Date :   01 Apr 14 (Deposition) - 09 Apr 14 (Release) - 11 Feb 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym./Biol. Unit : A

Keywords :   Nogo Receptor, Myelin Associated Glycoprotein, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Semavina, N. Saha, M. V. Kolev, Y. Goldgur, R. J. Giger, J. P. Himanen D. B. Nikolov
Crystal Structure Of The Nogo-Receptor-2.
Protein Sci. 684 2011
PubMed-ID: 21308849 | Reference-DOI: 10.1002/PRO.597

Molecule 1 - RETICULON-4 RECEPTOR-LIKE 2
	Chains	:	A
	Engineered	:	YES
	Expression System	:	TRICHOPLUSIA NI
	Expression System Strain	:	HIGH FIVE TM
	Expression System Taxid	:	7111
	Fragment	:	LRR DOMAIN RESIDUES 29-310
	Gene	:	RTN4RL2, NGRH1
	Organism Common	:	RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116
	Synonym	:	NOGO RECEPTOR-LIKE 3,NOGO-66 RECEPTOR HOMOLOG 1,NOGO-66 RECEPTOR-RELATED PROTEIN 2,NGR2

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 5)

No.	Name	Count	Type	Full Name
1	NAG	3	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
2	NDG	2	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:50 , HOH A:596 , HOH A:862	binding site for Mono-Saccharide NDG A 405 bound to ASN A 50
2	AC2	SOFTWARE	ARG A:73 , ASN A:93 , ARG A:120 , HOH A:520 , HOH A:652 , HOH A:810 , HOH A:855 , HOH A:863	binding site for Poly-Saccharide residues NAG A 403 through NAG A 404 bound to ASN A 93
3	AC3	SOFTWARE	GLY A:212 , ASN A:236 , HOH A:718 , HOH A:779 , HOH A:834 , HOH A:864	binding site for Poly-Saccharide residues NAG A 401 through NDG A 402 bound to ASN A 236

Asymmetric/Biological Unit

No.	Residues
1	A:31	-	A:37
2	A:35	-	A:46
3	A:265	-	A:288
4	A:267	-	A:310

Asymmetric/Biological Unit

No.	Residues
1	Ser A:40	-	Pro A:41
2	Thr A:290	-	Pro A:291

(no "SAP(SNP)/Variant" information available for 4P8S)

(no "PROSITE Motif" information available for 4P8S)

(no "Exon" information available for 4P8S)

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
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Chain A from PDB  Type:PROTEIN  Length:282
                                                                                                                                                                                                                                                                                                                          
               SCOP domains d4p8sa_ A: automated matches                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eee....eee..................eee.......ee..........eee.......ee............eee......................eee.....................eee.....................eee.......ee............eee.......ee............eee.........hhhhhhh.....eee.....ee.hhhhhhhhhhhhhh..ee....eeehhhhh..hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4p8s A  29 PSCPMLCTCYSSPPTVSCQANNFSSVPLSLPPSTQRLFLQNNLIRSLRPGTFGPNLLTLWLFSNNLSTIYPGTFRHLQALEELDLGDNRHLRSLEPDTFQGLERLQSLHLYRCQLSSLPGNIFRGLVSLQYLYLQENSLLHLQDDLFADLANLSHLFLHGNRLRLLTEHVFRGLGSLDRLLLHGNRLQGVHRAAFHGLSRLTILYLFNNSLASLPGEALADLPALEFLRLNANPWACDCRARPLWAWFQRARVSSSDVTCATPPERQGRDLRTLRDTDFQAC 310
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308

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(

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Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) (112)

Superfamily: L domain-like (93)

Family: automated matches (23)

Protein domain: automated matches (23)

Norway rat (Rattus norvegicus) [TaxId: 10116] (1)

d4p8sa_

(no "CATH Domain" information available for 4P8S)

(no "Pfam Domain" information available for 4P8S)

Asymmetric/Biological Unit(hide GO term definitions)

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Ser A:40 - Pro A:41	[ RasMol ]
		Thr A:290 - Pro A:291	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 5)

Sites (3, 3)

SS Bonds (4, 4)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 1)

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Pfam Domains (0, 0)

Gene Ontology (15, 15)

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