5FHM - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE GLUA2 LIGAND-BINDING DOMAIN (S1S2J) IN COMPLEX WITH (S)-2-AMINO-3-(5-(2-(3-(AMINOMETHYL)BENZYL)-2H-TETRAZOL-5-YL)-3-HYDROXYISOXAZOL-4-YL)PROPANOIC ACID AT RESOLUTION 1.55 A RESOLUTION

Authors :   J. S. Kastrup, K. Frydenvang, A. Al-Musaed

Date :   22 Dec 15 (Deposition) - 02 Mar 16 (Release) - 23 Mar 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.55

Chains :   Asym./Biol. Unit : A,B

Keywords :   Ionotropic Glutamate Receptor Glua2, Ligand-Binding Domain, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Y. Wang, Y. Larsen, C. V. Navarrete, A. A. Jensen, B. Nielsen, A. Al-Musaed, K. Frydenvang, J. S. Kastrup, D. S. Pickering, R. P. Clausen
Tweaking Subtype Selectivity And Agonist Efficacy At (S)-2-Amino-3-(3-Hydroxy-5-Methyl-Isoxazol-4-Yl)Propionic Acid (Ampa) Receptors In A Small Series Of Bntetampa Analogues.
J. Med. Chem. V. 59 2244 2016
PubMed-ID: 26862980 | Reference-DOI: 10.1021/ACS.JMEDCHEM.5B01982
(for further references see the PDB file header)

Molecule 1 - GLUTAMATE RECEPTOR 2,GLUTAMATE RECEPTOR 2
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	ORIGAMI B
	Expression System Vector	:	PET22B(+)
	Expression System Vector Type	:	PLASMID
	Gene	:	GRIA2, GLUR2
	Organism Common	:	NORWAY RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116
	Other Details	:	PROTEIN CRYSTALLIZED IS THE EXTRACELLULAR LIGAND- BINDING DOMAIN OF GLUA2. TRANSMEMBRANE REGIONS GENETICALLY REMOVED AND REPLACED WITH GLY-THR LINKER (RESIDUES 118-119). PROTEIN CONSISTS OF UNP RESIDUES 413-527 AND 653-797, NUMBERING WITH SIGNAL PEPTIDE OF 21 RESIDUES. THE FIRST TWO RESIDUES (GLY, ALA) ARE CLONING REMNANTS.
	Synonym	:	GLUR-2,AMPA-SELECTIVE GLUTAMATE RECEPTOR 2,GLUR-B,GLUR-K2, GLUTAMATE RECEPTOR IONOTROPIC,AMPA 2,GLUA2,IONOTROPIC GLUTAMATE RECEPTOR A2,GLUR-2,AMPA-SELECTIVE GLUTAMATE RECEPTOR 2,GLUR-B,GLUR- K2,GLUTAMATE RECEPTOR IONOTROPIC,AMPA 2,GLUA2,IONOTROPIC GLUTAMATE RECEPTOR A2

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (6, 22)

No.	Name	Count	Type	Full Name
1	5XP	1	Ligand/Ion	(2~{S})-3-[5-[2-[[3-(AMINOMETHYL)PHENYL]METHYL]-1,2,3,4-TETRAZOL-5-YL]-3-OXIDANYL-1,2-OXAZOL-4-YL]-2-AZANYL-PROPANOIC ACID
2	ACT	4	Ligand/Ion	ACETATE ION
3	EDO	7	Ligand/Ion	1,2-ETHANEDIOL
4	GOL	2	Ligand/Ion	GLYCEROL
5	LI	2	Ligand/Ion	LITHIUM ION
6	SO4	6	Ligand/Ion	SULFATE ION

Asymmetric Unit (22, 22)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	MET A:107 , SER A:108 , HOH A:438 , HOH A:549 , HOH A:611 , SER B:217	binding site for residue SO4 A 301
02	AC2	SOFTWARE	SER A:140 , LYS A:144 , ARG A:148 , HOH A:401 , HOH A:402 , HOH A:406 , HOH A:468 , HOH A:633	binding site for residue SO4 A 302
03	AC3	SOFTWARE	ARG A:64 , LYS A:69 , HOH A:639	binding site for residue SO4 A 303
04	AC4	SOFTWARE	GLU A:13 , SER A:14 , TYR A:16 , TYR A:61 , PRO A:89 , LEU A:90 , THR A:91 , ARG A:96 , GLY A:141 , SER A:142 , THR A:143 , LEU A:192 , GLU A:193 , THR A:195 , MET A:196 , EDO A:307 , HOH A:418 , HOH A:453 , HOH A:574	binding site for residue 5XP A 304
05	AC5	SOFTWARE	ASP A:248 , ASN A:252 , ASN B:214 , ASP B:216 , SER B:217 , HOH B:576	binding site for residue GOL A 305
06	AC6	SOFTWARE	ALA A:153 , HOH A:506	binding site for residue ACT A 306
07	AC7	SOFTWARE	GLU A:13 , SER A:14 , 5XP A:304 , HOH A:574 , HOH A:594 , HOH A:706	binding site for residue EDO A 307
08	AC8	SOFTWARE	ARG A:148 , TRP A:159 , ARG A:163 , HOH A:403 , HOH A:637	binding site for residue EDO A 308
09	AC9	SOFTWARE	LYS A:144 , ARG A:163 , PHE A:170 , HOH A:600 , HOH A:606 , GLU B:24	binding site for residue EDO A 309
10	AD1	SOFTWARE	HIS A:46 , LYS A:240 , GLN A:244	binding site for residue EDO A 310
11	AD2	SOFTWARE	LYS A:116 , LYS A:185 , HOH A:421	binding site for residue EDO A 311
12	AD3	SOFTWARE	ASN A:242 , HOH A:467 , HOH A:487 , SER B:217	binding site for residue LI A 312
13	AD4	SOFTWARE	GLU B:97 , ILE B:100 , ASP B:101 , HOH B:456	binding site for residue LI B 301
14	AD5	SOFTWARE	TYR B:61 , PRO B:89 , THR B:91 , ARG B:96 , SER B:142 , HOH B:401 , HOH B:446 , HOH B:610	binding site for residue SO4 B 302
15	AD6	SOFTWARE	HIS A:23 , LYS B:144 , ARG B:148 , ARG B:163 , HOH B:410	binding site for residue SO4 B 303
16	AD7	SOFTWARE	GLU B:13 , SER B:14 , HOH B:429 , HOH B:437	binding site for residue SO4 B 304
17	AD8	SOFTWARE	TYR A:80 , HOH A:470 , LYS B:116 , LYS B:185 , HOH B:413 , HOH B:575	binding site for residue GOL B 305
18	AD9	SOFTWARE	HIS B:46 , ARG B:172 , LYS B:240 , GLN B:244	binding site for residue ACT B 306
19	AE1	SOFTWARE	LYS B:151 , ILE B:152 , ALA B:153 , HOH B:616	binding site for residue ACT B 307
20	AE2	SOFTWARE	HOH A:443 , LYS B:20 , ASN B:22 , HOH B:426 , HOH B:441	binding site for residue ACT B 308
21	AE3	SOFTWARE	LYS B:60 , TYR B:61 , GLY B:62 , ARG B:96 , HOH B:568	binding site for residue EDO B 309
22	AE4	SOFTWARE	ASN A:214 , ASP A:216 , SER A:217 , ASP B:248	binding site for residue EDO B 310

Asymmetric/Biological Unit

No.	Residues
1	A:206	-	A:261
2	B:206	-	B:261

Asymmetric/Biological Unit

No.	Residues
1	Ser A:14	-	Pro A:15
2	Glu A:166	-	Pro A:167
3	Lys A:204	-	Pro A:205
4	Ser B:14	-	Pro B:15
5	Glu B:166	-	Pro B:167
6	Lys B:204	-	Pro B:205

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

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

(no "Exon" information available for 5FHM)

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

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	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:PROTEIN  Length:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee.......ee..hhhhhhhhh.eehhhhhhhhhhhhhhh..eeeee................hhhhhhhhh....ee......hhhhhh.eee....eee.eeeeee......hhhhhhh....eee....hhhhhhhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhhh...eeeeeehhhhhhhhh.....eeee......eee..eee...hhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5fhm A   4 KTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKGTPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGNAVNLAVLKLNEQGLLDKLKNKWWYDKGEC 261
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253

Chain B from PDB  Type:PROTEIN  Length:259
                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.......ee..hhhhhhhhh.eehhhhhhhhhhhhhhh..eeeee................hhhhhhhhh....ee......hhhhhh.eee....eee.eeeeee......hhhhhhh....eee....hhhhhhhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhhh...eeeeeehhhhhhhhh.....eeee......eee..eee...hhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fhm B   4 KTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKGTPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGNAVNLAVLKLNEQGLLDKLKNKWWYDKGECG 262
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253

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	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 5FHM)

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

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

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Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Glu A:166 - Pro A:167	[ RasMol ]
		Glu B:166 - Pro B:167	[ RasMol ]
		Lys A:204 - Pro A:205	[ RasMol ]
		Lys B:204 - Pro B:205	[ RasMol ]
		Ser A:14 - Pro A:15	[ RasMol ]
		Ser B:14 - Pro B:15	[ RasMol ]

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2p2a	2P2A CONTAINS THE SAME PROTEIN IN OMPLEX WITH A RELATED LIGAND

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 22)

Sites (22, 22)

SS Bonds (2, 2)

Cis Peptide Bonds (6, 6)

Sequence-Structure Mapping

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Gene Ontology (49, 49)

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