3KJ4 - 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 :   STRUCTURE OF RAT NOGO RECEPTOR BOUND TO 1D9 ANTAGONIST ANTIBODY

Authors :   L. F. Silvian

Date :   02 Nov 09 (Deposition) - 22 Sep 10 (Release) - 27 Oct 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.10

Chains :   Asym. Unit : A,B,C,D,H,L
Biol. Unit 1: A,H,L  (1x)
Biol. Unit 2: B,C,D  (1x)

Keywords :   Nogo Receptor Antagonist Antibody, Lrr, Cell Membrane, Disulfide Bond, Glycoprotein, Gpi-Anchor, Leucine-Rich Repeat, Lipoprotein, Membrane, Receptor, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. H. Weinreb, D. Wen, F. Qian, C. P. Wildes, E. A. Garber, L. Walus, M. Y. Jung, J. Wang, J. K. Relton, J. Amatucci, R. Wang, F. Porreca, L. Silvian, W. Meier, R. B. Pepinsky, D. H. Lee
Resolution Of Disulfide Heterogeneity In Nogo Receptor 1 Fusion Proteins By Molecular Engineering.
Biotechnol Appl Biochem V. 57 31 2010
PubMed-ID: 20815818 | Reference-DOI: 10.1042/BA20100061

Molecule 1 - FAB FRAGMENT 1D9 LIGHT CHAIN
	Chains	:	L, B
	Engineered	:	YES
	Expression System	:	HYBRIDOMA CELLS
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090

Molecule 2 - FAB FRAGMENT 1D9 HEAVY CHAIN
	Chains	:	H, C
	Engineered	:	YES
	Expression System	:	HYBRIDOMA CELLS
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090

Molecule 3 - RETICULON-4 RECEPTOR
	Chains	:	A, D
	Engineered	:	YES
	Expression System	:	CHO
	Fragment	:	UNP RESIDUES 27-312
	Gene	:	NOGO RECEPTOR, NOGOR, RTN4R
	Organism Common	:	RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116
	Synonym	:	NOGO RECEPTOR, NGR, NOGO-66 RECEPTOR

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	H	L
Biological Unit 1 (1x)	:	A				H	L
Biological Unit 2 (1x)	:		B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 9)

No.	Name	Count	Type	Full Name
1	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
2	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
3	NDG	4	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
4	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (3, 4)

No.	Name	Count	Type	Full Name
1	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
2	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
3	NDG	2	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
4	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 3)

No.	Name	Count	Type	Full Name
1	MAN	-1	Ligand/Ion	ALPHA-D-MANNOSE
2	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
3	NDG	2	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
4	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ALA A:57 , SER A:58 , ARG A:81 , ASN A:82 , NDG A:314	BINDING SITE FOR RESIDUE NDG A 313
2	AC2	SOFTWARE	NDG A:313 , MAN H:303	BINDING SITE FOR RESIDUE NDG A 314
3	AC3	SOFTWARE	NDG A:314	BINDING SITE FOR RESIDUE MAN H 303
4	AC4	SOFTWARE	ALA D:57 , SER D:58 , ASN D:82 , NDG D:402	BINDING SITE FOR RESIDUE NDG D 401
5	AC5	SOFTWARE	NDG D:401	BINDING SITE FOR RESIDUE NDG D 402
6	AC6	SOFTWARE	HIS A:133 , ASN A:179	BINDING SITE FOR RESIDUE NAG A 315
7	AC7	SOFTWARE	ALA D:155 , ASN D:179	BINDING SITE FOR RESIDUE NAG D 405
8	AC8	SOFTWARE	TYR H:102 , TRP H:106	BINDING SITE FOR RESIDUE ZN H 221
9	AC9	SOFTWARE	TYR C:102 , TRP C:106	BINDING SITE FOR RESIDUE ZN C 221

Asymmetric Unit

No.	Residues
1	A:27	-	A:33
2	A:31	-	A:43
3	A:264	-	A:287
4	B:23	-	B:94
5	B:139	-	B:199
6	C:22	-	C:95
7	C:147	-	C:202
8	D:27	-	D:33
9	D:31	-	D:43
10	D:264	-	D:287
11	H:22	-	H:95
12	H:147	-	H:202
13	L:23	-	L:94
14	L:139	-	L:199

Asymmetric Unit

No.	Residues
1	Ser L:7	-	Pro L:8
2	Tyr L:145	-	Pro L:146
3	Val H:98	-	Gly H:99
4	Ala H:137	-	Gln H:138
5	Phe H:153	-	Pro H:154
6	Glu H:155	-	Pro H:156
7	Trp H:195	-	Pro H:196
8	Glu A:36	-	Pro A:37
9	Leu A:289	-	Pro A:290
10	Gly A:308	-	Cys A:309
11	Ser B:7	-	Pro B:8
12	Tyr B:145	-	Pro B:146
13	Gly C:8	-	Pro C:9
14	Ser C:135	-	Ala C:136
15	Ala C:136	-	Ala C:137
16	Phe C:153	-	Pro C:154
17	Glu C:155	-	Pro C:156
18	Trp C:195	-	Pro C:196
19	Glu D:36	-	Pro D:37
20	Leu D:289	-	Pro D:290
21	Gly D:308	-	Cys D:309

(no "SAP(SNP)/Variant" information available for 3KJ4)

Asymmetric Unit (1, 16)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LRR	PS51450	Leucine-rich repeat profile.	RTN4R_RAT	58-79 82-103 106-128 131-152 155-176 179-200 203-224 227-248	16	A:58-79 D:58-79 A:82-103 D:82-103 A:106-128 D:106-128 A:131-152 D:131-152 A:155-176 D:155-176 A:179-200 D:179-200 A:203-224 D:203-224 A:227-248 D:227-248

Biological Unit 1 (1, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LRR	PS51450	Leucine-rich repeat profile.	RTN4R_RAT	58-79 82-103 106-128 131-152 155-176 179-200 203-224 227-248	8	A:58-79 - A:82-103 - A:106-128 - A:131-152 - A:155-176 - A:179-200 - A:203-224 - A:227-248 -

Biological Unit 2 (1, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LRR	PS51450	Leucine-rich repeat profile.	RTN4R_RAT	58-79 82-103 106-128 131-152 155-176 179-200 203-224 227-248	8	- D:58-79 - D:82-103 - D:106-128 - D:131-152 - D:155-176 - D:179-200 - D:203-224 - D:227-248

(no "Exon" information available for 3KJ4)

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:283
 aligned with RTN4R_RAT | Q99M75 from UniProtKB/Swiss-Prot  Length:473

    Alignment length:283
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306   
            RTN4R_RAT    27 CPGACVCYNEPKVTTSCPQQGLQAVPTGIPASSQRIFLHGNRISYVPAASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLSMLPAEVLVPLRSLQYLRLNDNPWVCDCRARPLWAWLQKFRGSSSEVPCNLPQRLAGRDLKRLAASDLEGC 309
               SCOP domains d3kj4a_ 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.....................eee..........hhhhhhhhhhhh...........hhhhh..hhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------LRR  PDB: A:58-79     --LRR  PDB: A:82-103    --LRR  PDB: A:106-128    --LRR  PDB: A:131-152   --LRR  PDB: A:155-176   --LRR  PDB: A:179-200   --LRR  PDB: A:203-224   --LRR  PDB: A:227-248   ------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kj4 A  27 CPGACVCYNEPKVTTSCPQQGLQAVPTGIPASSQRIFLHGNRISYVPAASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLSMLPAEVLVPLRSLQYLRLNDNPWVCDCRARPLWAWLQKFRGSSSEVPCNLPQRLAGRDLKRLAASDLEGC 309
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306

Chain B from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains d3kj4b1 B:1-112 automated matches                                                                               d3kj4b2 B:113-219 automated matches                                                                         SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.............eeeeee......eeee.............eeee....eeeeee...hhhhheeeeeee.....ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee........eeeee.........eeeeeeeeeehhhhhh...eeeeee.......eeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kj4 B   1 DIVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSRNRKNYLAWYQQKPGQSPKPLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCMQSYNLFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210

Chain C from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee..........eeeeeeeee........eeeeee.....eeeeeee..................eee....eeeeeee..hhhhheeeeeee.......ee....ee..........eeee..............eeeeeeee.....eeee.hhh.....ee...eee..eeeeeeee............eeeeee....eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3kj4 C   1 QVQLKESGPGLVAPSQSLSISCSVSGFSLSSYGVHWVRQSPGQGLEWLGVIWSGGNTHYNSALMSRLSISKENSKNQVFLKMNSLQTDDTAIYYCARYEGAWFAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPR 220
                                    10        20        30        40        50        60        70        80        90      |104       114       124       134       144       154       164       174       184       194       204       214      
                                                                                                                           97|                                                                                                                      
                                                                                                                           102

Chain D from PDB  Type:PROTEIN  Length:283
 aligned with RTN4R_RAT | Q99M75 from UniProtKB/Swiss-Prot  Length:473

    Alignment length:283
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306   
            RTN4R_RAT    27 CPGACVCYNEPKVTTSCPQQGLQAVPTGIPASSQRIFLHGNRISYVPAASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLSMLPAEVLVPLRSLQYLRLNDNPWVCDCRARPLWAWLQKFRGSSSEVPCNLPQRLAGRDLKRLAASDLEGC 309
               SCOP domains d3kj4d_ D: automated matches                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LRR_8-3kj4D01 D:203-261                                    ------------------------------------------------ Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LRR_8-3kj4D02 D:203-261                                    ------------------------------------------------ Pfam domains (2)
           Pfam domains (3) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LRR_8-3kj4D03 D:203-261                                    ------------------------------------------------ Pfam domains (3)
           Pfam domains (4) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LRR_8-3kj4D04 D:203-261                                    ------------------------------------------------ Pfam domains (4)
           Pfam domains (5) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LRR_8-3kj4D05 D:203-261                                    ------------------------------------------------ Pfam domains (5)
           Pfam domains (6) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LRR_8-3kj4D06 D:203-261                                    ------------------------------------------------ Pfam domains (6)
           Pfam domains (7) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LRR_8-3kj4D07 D:203-261                                    ------------------------------------------------ Pfam domains (7)
           Pfam domains (8) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LRR_8-3kj4D08 D:203-261                                    ------------------------------------------------ Pfam domains (8)
         Sec.struct. author .....eee.....eee..................eee.....................eee.....................eee......................eee.....................eee.....................eee.......ee............eee.......ee............eee.....................eee........hhhhhhhhhhhhhh.......................hhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------LRR  PDB: D:58-79     --LRR  PDB: D:82-103    --LRR  PDB: D:106-128    --LRR  PDB: D:131-152   --LRR  PDB: D:155-176   --LRR  PDB: D:179-200   --LRR  PDB: D:203-224   --LRR  PDB: D:227-248   ------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kj4 D  27 CPGACVCYNEPKVTTSCPQQGLQAVPTGIPASSQRIFLHGNRISYVPAASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLSMLPAEVLVPLRSLQYLRLNDNPWVCDCRARPLWAWLQKFRGSSSEVPCNLPQRLAGRDLKRLAASDLEGC 309
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306

Chain H from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...ee.....eeeeeeee........eeeeee.....eeeeeee.....eee........eeeee....eeeeee...hhhhheeeeeee................eeeee........eeee..............eeeeeeee.....eeee.hhh....eee...eee..eeeeeeee..hhhhh.....eeeeee....ee..ee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kj4 H   2 VQLKESGPGLVAPSQSLSISCSVSGFSLSSYGVHWVRQSPGQGLEWLGVIWSGGNTHYNSALMSRLSISKENSKNQVFLKMNSLQTDDTAIYYCARVGIYYEGAWFAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPR 220
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211

Chain L from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains d3kj4l1 L:1-112 automated matches                                                                               d3kj4l2 L:113-219 automated matches                                                                         SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.......eeeee.............eeeeee.......eeee...ee.......eeee....eeeeee...hhhhh.eeeeee.....ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee........eee..eee...eeeee.........eeeeeeeeeehhhhh...eeee............eeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kj4 L   1 DIVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSRNRKNYLAWYQQKPGQSPKPLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCMQSYNLFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210

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 '\|'

(no "CATH Domain" information available for 3KJ4)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: LRR (77)

Family: LRR_8 (41)

Rattus norvegicus (Rat) (1)

1a	LRR_8-3kj4D01	D:203-261
1b	LRR_8-3kj4D02	D:203-261
1c	LRR_8-3kj4D03	D:203-261
1d	LRR_8-3kj4D04	D:203-261
1e	LRR_8-3kj4D05	D:203-261
1f	LRR_8-3kj4D06	D:203-261
1g	LRR_8-3kj4D07	D:203-261
1h	LRR_8-3kj4D08	D:203-261

Asymmetric Unit(hide GO term definitions)

Chain A,D (RTN4R_RAT | Q99M75)

molecular function
	GO:0038131	neuregulin receptor activity	Combining with a neuregulin, a member of the EGF family of growth factors, and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity.
	GO:0004860	protein kinase inhibitor activity	Stops, prevents or reduces the activity of a protein kinase, an enzyme which phosphorylates a protein.
	GO:0004872	receptor activity	Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
biological process
	GO:0007409	axonogenesis	De novo generation of a long process of a neuron, that carries efferent (outgoing) action potentials from the cell body towards target cells. Refers to the morphogenesis or creation of shape or form of the developing axon.
	GO:0019221	cytokine-mediated signaling pathway	A series of molecular signals initiated by the binding of a cytokine to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription.
	GO:0046426	negative regulation of JAK-STAT cascade	Any process that stops, prevents, or reduces the frequency, rate or extent of the JAK-STAT signaling pathway activity.
	GO:0030517	negative regulation of axon extension	Any process that stops, prevents, or reduces the frequency, rate or extent of axon outgrowth.
	GO:0050771	negative regulation of axonogenesis	Any process that stops, prevents, or reduces the frequency, rate or extent of axonogenesis.
	GO:0006469	negative regulation of protein kinase activity	Any process that stops, prevents, or reduces the frequency, rate or extent of protein kinase activity.
	GO:0023041	neuronal signal transduction	The process in which an activated neuronal cell receptor conveys information down a signaling pathway, resulting in a change in the function or state of a cell. This process may be intracellular or intercellular.
	GO:0043547	positive regulation of GTPase activity	Any process that activates or increases the activity of a GTPase.
cellular component
	GO:0031225	anchored component of membrane	The component of a membrane consisting of the gene products that are tethered to the membrane only by a covalently attached anchor, such as a lipid group that is embedded in the membrane. Gene products with peptide sequences that are embedded in the membrane are excluded from this grouping.
	GO:0044295	axonal growth cone	The migrating motile tip of a growing nerve cell axon.
	GO:0009986	cell surface	The external part of the cell wall and/or plasma membrane.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005783	endoplasmic reticulum	The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0030426	growth cone	The migrating motile tip of a growing nerve cell axon or dendrite.
	GO:0005887	integral component of plasma membrane	The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0043005	neuron projection	A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
	GO:0043025	neuronal cell body	The portion of a neuron that includes the nucleus, but excludes cell projections such as axons and dendrites.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Asymmetric Unit
	Complete Structure
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	Ligands, Modified Residues, Ions
		MAN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NAG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NDG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ZN	[ 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 ]

	Cis Peptide Bonds
		Ala C:136 - Ala C:137	[ RasMol ]
		Ala H:137 - Gln H:138	[ RasMol ]
		Glu A:36 - Pro A:37	[ RasMol ]
		Glu C:155 - Pro C:156	[ RasMol ]
		Glu D:36 - Pro D:37	[ RasMol ]
		Glu H:155 - Pro H:156	[ RasMol ]
		Gly A:308 - Cys A:309	[ RasMol ]
		Gly C:8 - Pro C:9	[ RasMol ]
		Gly D:308 - Cys D:309	[ RasMol ]
		Leu A:289 - Pro A:290	[ RasMol ]
		Leu D:289 - Pro D:290	[ RasMol ]
		Phe C:153 - Pro C:154	[ RasMol ]
		Phe H:153 - Pro H:154	[ RasMol ]
		Ser B:7 - Pro B:8	[ RasMol ]
		Ser C:135 - Ala C:136	[ RasMol ]
		Ser L:7 - Pro L:8	[ RasMol ]
		Trp C:195 - Pro C:196	[ RasMol ]
		Trp H:195 - Pro H:196	[ RasMol ]
		Tyr B:145 - Pro B:146	[ RasMol ]
		Tyr L:145 - Pro L:146	[ RasMol ]
		Val H:98 - Gly H:99	[ RasMol ]

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)

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	3kj4
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	RTN4R_RAT \| Q99M75
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(no "Entries Sharing at Least One Protein Chain" available for 3KJ4)

1ozn	HUMAN NOGOR 1-310
1p8t	HUMAN NOGOR 1-310

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 9)

Sites (9, 9)

SS Bonds (14, 14)

Cis Peptide Bonds (21, 21)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 16)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (3, 6)

CATH Domains (0, 0)

Pfam Domains (1, 8)

Gene Ontology (23, 23)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File