1US4 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   PUTATIVE GLUR0 LIGAND BINDING CORE WITH L-GLUTAMATE

Authors :   T. H. Tahirov, E. Inagaki, H. Takahashi

Date :   18 Nov 03 (Deposition) - 19 Nov 03 (Release) - 28 Jun 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

Chains :   Asym./Biol. Unit : A

Keywords :   Receptor, Membrane Protein, Glutamate Receptor, Glur0, L-Glutamate, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Takahashi, E. Inagaki, C. Kuroishi, T. H. Tahirov
Structure Of The Thermus Thermophilus Putative Periplasmic Glutamate/Glutamine-Binding Protein
Acta Crystallogr. , Sect. D V. 60 1846 2004
PubMed-ID: 15388932 | Reference-DOI: 10.1107/S0907444904019420

Molecule 1 - PUTATIVE GLUR0 LIGAND BINDING CORE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET11A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	LIGAND BINDING CORE, RESIDUES 1-314
	Organism Scientific	:	THERMUS THERMOPHILUS
	Organism Taxid	:	300852
	Strain	:	HB8

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 6)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	GLU	1	Mod. Amino Acid	GLUTAMIC ACID
3	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:31 , TYR A:32 , SER A:60 , GLN A:78 , GLU A:111 , SER A:141 , GLY A:142 , THR A:143 , TYR A:186 , THR A:187 , VAL A:188 , HOH A:2007 , HOH A:2047 , HOH A:2087 , HOH A:2234	BINDING SITE FOR RESIDUE GLU A1313
2	AC2	SOFTWARE	GLY A:137 , ASP A:138 , THR A:143 , VAL A:167 , SER A:168 , ALA A:169 , PHE A:185 , TYR A:186 , HOH A:2235	BINDING SITE FOR RESIDUE EDO A1314

Asymmetric/Biological Unit

No.	Residues
1	A:89	-	A:90

(no "Cis Peptide Bond" information available for 1US4)

(no "SAP(SNP)/Variant" information available for 1US4)

(no "PROSITE Motif" information available for 1US4)

(no "Exon" information available for 1US4)

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:299
 aligned with P83817_THETH | P83817 from UniProtKB/TrEMBL  Length:314

    Alignment length:299
                                                                                                                                                                                                                                                                                                                                   314 
                                    26        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       | 
        P83817_THETH     17 AQEFITIGSGSTTGVYFPVATGIAKLVNDANVGIRANARSTGGSVANINAINAGEFEMALAQNDIAYYAYQGCCIPAFEGKPVKTIRALAALYPEVVHVVARKDAGIRTVADLKGKRVVVGDVGSGTEQNARQILEAYGLTFDDLGQAIRVSASQGIQLMQDKRADALFYTVGLGASAIQQLALTTPIALVAVDLNRIQAIAKKYPFYVGFNIPGGTYKGVDVTTPTVAVQAMLIASERLSEETVYKFMKAVFGNLEAFKKIHPNLERFFGLEKAVKGLPIPLHPGAERFYKEAGVLK-    -
               SCOP domains d1us4a_ A: Putative GluR0 ligand binding core                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1us4A01 A:17-108,A:248-314 Periplasmic binding protein-like II                              1us4A02 A:109-247 Periplasmic binding protein-like II                                                                                      1us4A01 A:17-108,A:248-314 Periplasmic binding protein-like II     - CATH domains
               Pfam domains -----------------------------------------------NMT1-1us4A01 A:64-206                                                                                                                          ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhh....eeeeehhhhhhhhhh.............eeeeeeeeeeeeeeeee......hhhhhh..........hhhhhhhhhhhhhh..hhhhh......hhhhhhhhhhh.............hhhhhhhhhhh.......hhhhhhh........eeeee...........eeeeeeeeeeeee...hhhhhhhhhhhhh.hhhhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1us4 A   17 AQEFITIGSGSTTGVYFPVATGIAKLVNDANVGIRANARSTGGSVANINAINAGEFEmALAQNDIAYYAYQGCCIPAFEGKPVKTIRALAALYPEVVHVVARKDAGIRTVADLKGKRVVVGDVGSGTEQNARQILEAYGLTFDDLGQAIRVSASQGIQLmQDKRADALFYTVGLGASAIQQLALTTPIALVAVDLNRIQAIAKKYPFYVGFNIPGGTYKGVDVTTPTVAVQAmLIASERLSEETVYKFmKAVFGNLEAFKKIHPNLERFFGLEKAVKGLPIPLHPGAERFYKEAGVLKE 1313
                                    26        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       ||
                                                                                    74-MSE                                                                                               176-MSE                                                                  249-MSE         265-MSE                                          314|
                                                                                                                                                                                                                                                                                                                                   1313

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(

)

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: Phosphate binding protein-like (463)

Protein domain: Putative GluR0 ligand binding core (2)

Thermus thermophilus [TaxId: 274] (2)

d1us4a_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: D-Maltodextrin-Binding Protein; domain 2 (600)

Homologous Superfamily: Periplasmic binding protein-like II (486)

Thermus thermophilus. Organism_taxid: 300852. Strain: hb8. (2)

1a	1us4A02	A:109-247
1b	1us4A01	A:17-108,A:248-314

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PBP (391)

Family: NMT1 (6)

Thermus thermophilus (1)

NMT1-1us4A01

A:64-206

Asymmetric/Biological Unit(hide GO term definitions)

(no "Gene Ontology" information available for 1US4)

Asymmetric/Biological Unit
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	P83817_THETH \| P83817	:	1us5

1us5	PUTATIVE GLUR0 LIGAND BINDING CORE WITH L-GLUTAMATE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (2, 2)

SS Bonds (1, 1)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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SCOP Domains (1, 1)

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