4LZ8 - JenaLib

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Title :   CRYSTAL STRUCTURES OF GLUR2 LIGAND-BINDING-DOMAIN IN COMPLEX WITH GLUTAMATE AND POSITIVE ALLOSTERIC MODULATORS

Authors :   J. Pandit

Date :   31 Jul 13 (Deposition) - 04 Dec 13 (Release) - 11 Dec 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.85

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

Keywords :   Ampa Receptor, Allosteric Modulator, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   N. C. Patel, J. Schwarz, X. J. Hou, D. J. Hoover, L. Xie, A. J. Fliri, R. J. Gallaschun, J. T. Lazzaro, D. K. Bryce, W. E. Hoffmann, A. N. Hanks D. Mcginnis, E. S. Marr, J. L. Gazard, M. Hajos, R. J. Scialis, R. S. Hurst, C. L. Shaffer, J. Pandit, C. J. O'Donnell
Discovery And Characterization Of A Novel Dihydroisoxazole Class Of Alpha-Amino-3-Hydroxy-5-Methyl-4-Isoxazolepropioni Acid (Ampa) Receptor Potentiators.
J. Med. Chem. V. 56 9180 2013
PubMed-ID: 24215237 | Reference-DOI: 10.1021/JM401274B

Molecule 1 - GLUTAMATE RECEPTOR 2
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	SEE REMARK 999
	Gene	:	GRIA2, GLUR2
	Mutation	:	YES
	Organism Common	:	BROWN RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116
	Synonym	:	GLUR-2, AMPA-SELECTIVE GLUTAMATE RECEPTOR 2, GLUR-B, GLUR- K2, GLUTAMATE RECEPTOR IONOTROPIC, AMPA 2, GLUA2, AMPA RECEPTOR

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 10)

No.	Name	Count	Type	Full Name
1	1YX	2	Ligand/Ion	N-[(3S)-1-{2-FLUORO-4-[(5S)-5-{[(PROPAN-2-YLSULFONYL)AMINO]METHYL}-4,5-DIHYDRO-1,2-OXAZOL-3-YL]PHENYL}PYRROLIDIN-3-YL]ACETAMIDE
2	GLU	3	Mod. Amino Acid	GLUTAMIC ACID
3	ZN	5	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 3)

No.	Name	Count	Type	Full Name
1	1YX	1	Ligand/Ion	N-[(3S)-1-{2-FLUORO-4-[(5S)-5-{[(PROPAN-2-YLSULFONYL)AMINO]METHYL}-4,5-DIHYDRO-1,2-OXAZOL-3-YL]PHENYL}PYRROLIDIN-3-YL]ACETAMIDE
2	GLU	2	Mod. Amino Acid	GLUTAMIC ACID
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	1YX	2	Ligand/Ion	N-[(3S)-1-{2-FLUORO-4-[(5S)-5-{[(PROPAN-2-YLSULFONYL)AMINO]METHYL}-4,5-DIHYDRO-1,2-OXAZOL-3-YL]PHENYL}PYRROLIDIN-3-YL]ACETAMIDE
2	GLU	2	Mod. Amino Acid	GLUTAMIC ACID
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	TYR A:450 , PRO A:478 , LEU A:479 , THR A:480 , ARG A:485 , GLY A:653 , SER A:654 , THR A:655 , GLU A:705 , TYR A:732 , HOH A:1010 , HOH A:1019 , HOH A:1023	BINDING SITE FOR RESIDUE GLU A 801
02	AC2	SOFTWARE	LYS A:493 , PRO A:494 , PHE A:495 , MET A:496 , SER A:497 , SER A:729 , LYS A:730 , VAL A:750 , LEU A:751 , ASN A:754 , HOH A:1094 , HOH A:1099 , LYS C:493 , PRO C:494 , PHE C:495 , MET C:496 , SER C:497 , SER C:729 , LYS C:730 , LEU C:751 , ASN C:754	BINDING SITE FOR RESIDUE 1YX A 802
03	AC3	SOFTWARE	GLU A:431 , HIS A:435 , GLU B:678	BINDING SITE FOR RESIDUE ZN B 801
04	AC4	SOFTWARE	HIS B:412 , GLU B:419 , HOH B:1003 , HIS C:412	BINDING SITE FOR RESIDUE ZN B 802
05	AC5	SOFTWARE	GLU A:678 , GLU B:431 , HIS B:435 , LEU B:753 , GLN B:756	BINDING SITE FOR RESIDUE ZN B 803
06	AC6	SOFTWARE	TYR B:450 , PRO B:478 , LEU B:479 , THR B:480 , ARG B:485 , GLY B:653 , SER B:654 , THR B:655 , GLU B:705 , TYR B:732 , HOH B:903 , HOH B:905 , HOH B:909	BINDING SITE FOR RESIDUE GLU B 804
07	AC7	SOFTWARE	LYS B:493 , PRO B:494 , PHE B:495 , MET B:496 , SER B:497 , SER B:729 , LYS B:730 , VAL B:750 , LEU B:751 , ASN B:754 , HOH B:972 , HOH B:986	BINDING SITE FOR RESIDUE 1YX B 805
08	AC8	SOFTWARE	HIS A:412 , ASP C:454 , ASP C:456 , HOH C:949 , HOH C:986	BINDING SITE FOR RESIDUE ZN C 801
09	AC9	SOFTWARE	GLU C:431 , HIS C:435	BINDING SITE FOR RESIDUE ZN C 802
10	BC1	SOFTWARE	TYR C:450 , PRO C:478 , LEU C:479 , THR C:480 , ARG C:485 , LEU C:650 , GLY C:653 , SER C:654 , THR C:655 , GLU C:705 , HOH C:902 , HOH C:905 , HOH C:906	BINDING SITE FOR RESIDUE GLU C 803

Asymmetric Unit

No.	Residues
1	A:718	-	A:773
2	B:718	-	B:773
3	C:718	-	C:773

Asymmetric Unit

No.	Residues
1	Ser A:403	-	Pro A:404
2	Glu A:678	-	Pro A:679
3	Lys A:716	-	Pro A:717
4	Ser B:403	-	Pro B:404
5	Glu B:678	-	Pro B:679
6	Lys B:716	-	Pro B:717
7	Ser C:403	-	Pro C:404
8	Glu C:678	-	Pro C:679
9	Lys C:716	-	Pro C:717

(no "SAP(SNP)/Variant" information available for 4LZ8)

(no "PROSITE Motif" information available for 4LZ8)

(no "Exon" information available for 4LZ8)

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:259
                                                                                                                                                                                                                                                                                                   
               SCOP domains d4lz8a_ A: automated matches                                                                                                                                                                                                                                        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.hhhhhhhhhhhh.........hhhhhhhhhhhh...eeeeeehhhhhhhhh.....eeee......eee..eee...hhhhhhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lz8 A 393 KTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKGTPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGNAVNLAVLKLNEQGLLDKLKNKWWYDKGECE 801
                                   402       412       422       432       442       452       462       472       482       492       502     ||635       645       655       665       675       685       695       705       715       725       735       745       755       765       ||
                                                                                                                                             508|                                                                                                                                          773|
                                                                                                                                              632                                                                                                                                           801

Chain B from PDB  Type:PROTEIN  Length:257
                                                                                                                                                                                                                                                                                                 
               SCOP domains d4lz8b_ B: automated matches                                                                                                                                                                                                                                      SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.......ee.......hhhh.eehhhhhhhhhhhhhhh..eeeee................hhhhhhhhh....ee......hhhhhh.eee....eee.eeeeee......hhhhhhh....eeee...hhhhhhhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhhh...eeeeeehhhhhhhhh.....eeee......eee..eee...hhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lz8 B 394 TVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKGTPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGNAVNLAVLKLNEQGLLDKLKNKWWYDKGEC 773
                                   403       413       423       433       443       453       463       473       483       493       503    || 636       646       656       666       676       686       696       706       716       726       736       746       756       766       
                                                                                                                                            508|                                                                                                                                             
                                                                                                                                             632

Chain C from PDB  Type:PROTEIN  Length:257
                                                                                                                                                                                                                                                                                                 
               SCOP domains d4lz8c_ C: automated matches                                                                                                                                                                                                                                      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....eeee...hhhhhhhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhhh...eeeeeehhhhhhhhh.....eeee......eee..eee..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lz8 C 394 TVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKGTPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGNAVNLAVLKLNEQGLLDKLKNKWWYDKGEC 773
                                   403       413       423       433       443       453       463       473       483       493       503    || 636       646       656       666       676       686       696       706       716       726       736       746       756       766       
                                                                                                                                            508|                                                                                                                                             
                                                                                                                                             632

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: Periplasmic binding protein-like II (813)

Superfamily: Periplasmic binding protein-like II (813)

Family: automated matches (267)

Protein domain: automated matches (267)

Norway rat (Rattus norvegicus) [TaxId: 10116] (73)

1a	d4lz8a_	A:
1b	d4lz8b_	B:
1c	d4lz8c_	C:

(no "CATH Domain" information available for 4LZ8)

(no "Pfam Domain" information available for 4LZ8)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Glu A:678 - Pro A:679	[ RasMol ]
		Glu B:678 - Pro B:679	[ RasMol ]
		Glu C:678 - Pro C:679	[ RasMol ]
		Lys A:716 - Pro A:717	[ RasMol ]
		Lys B:716 - Pro B:717	[ RasMol ]
		Lys C:716 - Pro C:717	[ RasMol ]
		Ser A:403 - Pro A:404	[ RasMol ]
		Ser B:403 - Pro B:404	[ RasMol ]
		Ser C:403 - Pro C:404	[ RasMol ]

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	4lz8
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (10, 10)

SS Bonds (3, 3)

Cis Peptide Bonds (9, 9)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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SCOP Domains (1, 3)

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Gene Ontology (49, 49)

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