5E5R - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN CARBONIC ANHYDRASE-LIKE DOMAIN OF PTPRG AND IMMUNOGLOBULIN DOMAINS 2-3 OF CNTN3

Authors :   R. M. Nikolaienko, S. Bouyain

Date :   09 Oct 15 (Deposition) - 31 Aug 16 (Release) - 23 Nov 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

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

Keywords :   Neural Cell Adhesion Molecule, Receptor-Type Protein Tyrosine Phosphatase, Immunoglobulin Domains, Carbonic Anhydrase-Like Domain, Hydrolase-Cell Adhesion Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. M. Nikolaienko, M. Hammel, V. Dubreuil, R. Zalmai, D. R. Hall, N. Mehzabeen, S. J. Karuppan, S. Harroch, S. L. Stella, S. Bouyain
Structural Basis For Interactions Between Contactin Family Members And Protein-Tyrosine Phosphatase Receptor Type G In Neural Tissues.
J. Biol. Chem. V. 291 21335 2016
PubMed-ID: 27539848 | Reference-DOI: 10.1074/JBC.M116.742163

Molecule 1 - RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE GAMMA
	Chains	:	A, C
	EC Number	:	3.1.3.48
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET32HP
	Expression System Strain	:	ORIGAMI2(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	CA DOMAIN, UNP RESIDUES 56-320
	Gene	:	PTPRG, PTPG
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	R-PTP-GAMMA

Molecule 2 - CONTACTIN-3
	Chains	:	B, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PT7HMP
	Expression System Strain	:	T7 SHUFFLE EXPRESS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	IMMUNOGLOBULIN DOMAINS 2-3, UNP RESIDUES 124-316
	Gene	:	CNTN3, PANG, PCS
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Synonym	:	BRAIN-DERIVED IMMUNOGLOBULIN SUPERFAMILY PROTEIN 1,BIG-1, PLASMACYTOMA-ASSOCIATED NEURONAL GLYCOPROTEIN

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 5)

No.	Name	Count	Type	Full Name
1	FMT	2	Ligand/Ion	FORMIC ACID
2	MLI	3	Ligand/Ion	MALONATE ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	FMT	-1	Ligand/Ion	FORMIC ACID
2	MLI	1	Ligand/Ion	MALONATE ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	FMT	2	Ligand/Ion	FORMIC ACID
2	MLI	2	Ligand/Ion	MALONATE ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TRP A:116 , PHE A:232	binding site for residue MLI A 401
2	AC2	SOFTWARE	GLU C:230 , PHE C:232	binding site for residue MLI C 401
3	AC3	SOFTWARE	THR C:120 , GLY C:121 , LYS C:122 , HIS C:227 , THR C:290	binding site for residue FMT C 402
4	AC4	SOFTWARE	THR C:120 , LYS C:122 , THR C:258	binding site for residue FMT C 403
5	AC5	SOFTWARE	GLU D:177 , PHE D:233 , PRO D:234 , ARG D:246 , GLU D:248	binding site for residue MLI D 401

Asymmetric Unit

No.	Residues
1	A:78	-	A:261
2	B:144	-	B:196
3	B:249	-	B:297
4	C:78	-	C:261
5	D:144	-	D:196
6	D:249	-	D:297

Asymmetric Unit

No.	Residues
1	Ser A:84	-	Pro A:85
2	Pro A:259	-	Pro A:260
3	Tyr B:162	-	Pro B:163
4	Asn B:254	-	Pro B:255
5	Ser C:84	-	Pro C:85
6	Pro C:259	-	Pro C:260
7	Tyr D:162	-	Pro D:163
8	Asn D:254	-	Pro D:255

(no "SAP(SNP)/Variant" information available for 5E5R)

(no "PROSITE Motif" information available for 5E5R)

(no "Exon" information available for 5E5R)

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:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhh........hhhhh...eee..........eeee....eeee.....eee.......eeeeeeeeee..................eeeeeeee......hhhhhhhh...eeeeeeeeee....hhhhhhhhhhhhhh.....eee....hhhhhh......eeeeee..........eeeeeeeeeeeehhhhhhhhhh.eeeeee..eeeeee................eee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5e5r A  56 GDPYWAYSGAYGPEHWVTSSVSCGGRHQSPIDILDQYARELQLDGFDNESSNKTWMKNTGKTVAILLKDDYFVSGAGLPGRFKAEKVEFHWGHSNGSAGSEHSNGRRFPVEMQIFFYNPDDFDSFQTAISENRIIGAMAIFFQVSPRDNSALDPIIHGLKGVVHHEKETFLDPFVLRDLLPASLGSYYRYTGSLTTPPCSEIVEWIVFRRPVPISYHQLEAFYSIFTTEQQDHVKSVEYLRNNFRPQQRLHDRVVSKS 320
                                    65        75        85       101       111       121       131       141       151       161  ||   172       182       192       202       212       222       232       242       252       262       272       282       292       302       312        
                                                                 94|                                                            164|                                                                                                                                                          
                                                                 101                                                             166

Chain B from PDB  Type:PROTEIN  Length:187
                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee.....eee......eeeeeee...........eee......eee...hhhhheeeeeeeee.....eee...eeeee........eeeeeeee...eeeee....eeeeeeeeee...eeeeee.........eeeehhh.eeee...hhhhheeeeeeeee..eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e5r B 125 KTRMRSTVSVREGQGVVLLCGPPELSYAWVFNEYPFVEEDSRRFVSQETGHLYIAKVEPSDVGNYTCVVTSTVTNTRVLGSPTPLVLRSDGVMGEYEPKIEVQFPETLPAAKGSTVRLECFALGNPVPQINWRRSDGMPFPNKIKLRKFNGMLEIQNFQQEDTGSYECIAENSRGKNVARGRLTYYA 316
                                   134       144  ||   158    || 169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       
                                                147|        163|                                                                                                                                                       
                                                 152         165

Chain C from PDB  Type:PROTEIN  Length:264
                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhh......eehhhhh.........eee..........eeee....eeee.....eeee..eeeeeeeeeeeeee...........ee......eeeeeeee......hhhhhhhh...eeeeeeeeee.......hhhhhhhhh.......eee....hhhhhh......eeeeee..........eeeeee...eeehhhhhhhhhh.eeeeee..eeeeee................ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5e5r C  57 DPYWAYSGAYGPEHWVTSSVSCGGRHQSPIDILDQYARVGEEYQELQLDGFDNESSNKTWMKNTGKTVAILLKDDYFVSGAGLPGRFKAEKVEFHWGHSNGSAGSEHSINGRRFPVEMQIFFYNPDDFDSFQTAISENRIIGAMAIFFQVSPRDNSALDPIIHGLKGVVHHEKETFLDPFVLRDLLPASLGSYYRYTGSLTTPPCSEIVEWIVFRRPVPISYHQLEAFYSIFTTEQQDHVKSVEYLRNNFRPQQRLHDRVVSKS 320
                                    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       316

Chain D from PDB  Type:PROTEIN  Length:192
                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........eee.....eee.........eeeeeee............eee......eee...hhhhheeeeeeeee......ee...eeeee........eeeeeeee...eeee.....eeeeeeeeee...eeeeee..........eeehhh.eeee...hhhhheeeeeeeee..eeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5e5r D 124 FKTRMRSTVSVREGQGVVLLCGPPPSGELSYAWVFNEYPSFVEEDSRRFVSQETGHLYIAKVEPSDVGNYTCVVTSTVTNTRVLGSPTPLVLRSDGVMGEYEPKIEVQFPETLPAAKGSTVRLECFALGNPVPQINWRRSDGMPFPNKIKLRKFNGMLEIQNFQQEDTGSYECIAENSRGKNVARGRLTYYA 316
                                   133       143    || 154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314  
                                                  148|                                                                                                                                                                      
                                                   150

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 "SCOP Domain" information available for 5E5R)

(no "CATH Domain" information available for 5E5R)

(no "Pfam Domain" information available for 5E5R)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Asn B:254 - Pro B:255	[ RasMol ]
		Asn D:254 - Pro D:255	[ RasMol ]
		Pro A:259 - Pro A:260	[ RasMol ]
		Pro C:259 - Pro C:260	[ RasMol ]
		Ser A:84 - Pro A:85	[ RasMol ]
		Ser C:84 - Pro C:85	[ RasMol ]
		Tyr B:162 - Pro B:163	[ RasMol ]
		Tyr D:162 - Pro D:163	[ RasMol ]

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

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Description

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Ligands, Modified Residues, Ions (2, 5)

Sites (5, 5)

SS Bonds (6, 6)

Cis Peptide Bonds (8, 8)

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