4LDL - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   STRUCTURE OF BETA2 ADRENOCEPTOR BOUND TO HYDROXYBENZYLISOPROTERENOL AND AN ENGINEERED NANOBODY

Authors :   A. M. Ring, A. Manglik, A. C. Kruse, M. D. Enos, W. I. Weis, K. C. Garcia, B.

Date :   24 Jun 13 (Deposition) - 25 Sep 13 (Release) - 30 Oct 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.10

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

Keywords :   G Protein Coupled Receptor, Membrane Protein-Hydrolase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. M. Ring, A. Manglik, A. C. Kruse, M. D. Enos, W. I. Weis, K. C. Garcia, B. K. Kobilka
Adrenaline-Activated Structure Of Beta 2-Adrenoceptor Stabilized By An Engineered Nanobody.
Nature V. 502 575 2013
PubMed-ID: 24056936 | Reference-DOI: 10.1038/NATURE12572

Molecule 1 - LYSOZYME, BETA-2 ADRENERGIC RECEPTOR
	Chains	:	A
	EC Number	:	3.2.1.17
	Engineered	:	YES
	Expression System	:	SPODOPTERA FRUGIPERDA
	Expression System Common	:	FALL ARMYWORM
	Expression System Plasmid	:	PVL1392
	Expression System Strain	:	SF9
	Expression System Taxid	:	7108
	Expression System Vector Type	:	PLASMID
	Gene	:	ADRB2
	Mutation	:	YES
	Organism Scientific	:	ENTEROBACTERIA PHAGE T4, HOMO SAPIENS
	Organism Taxid	:	10665, 9606
	Synonym	:	ENDOLYSIN, LYSIS PROTEIN, MURAMIDASE, BETA-2 ADRENORECEPTOR, BETA-2 ADRENOCEPTOR

Molecule 2 - CAMELID ANTIBODY FRAGMENT
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET26B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Common	:	LLAMA
	Organism Scientific	:	LAMA GLAMA
	Organism Taxid	:	9844

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 3)

No.	Name	Count	Type	Full Name
1	1WV	1	Ligand/Ion	(2S)-2,3-DIHYDROXYPROPYL (7Z)-TETRADEC-7-ENOATE
2	NA	1	Ligand/Ion	SODIUM ION
3	XQC	1	Ligand/Ion	4-[(1R)-1-HYDROXY-2-{[1-(4-HYDROXYPHENYL)-2-METHYLPROPAN-2-YL]AMINO}ETHYL]BENZENE-1,2-DIOL

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:1113 , CYS A:1191 , ASP A:1192 , PHE A:1193 , SER A:1203 , SER A:1207 , PHE A:1289 , ASN A:1293 , ILE A:1309 , ASN A:1312 , TYR A:1316	BINDING SITE FOR RESIDUE XQC A 1401
2	AC2	SOFTWARE	ASN A:1103 , CYS A:1184 , TYR A:1185 , GLU A:1187 , CYS A:1190 , HOH A:1501	BINDING SITE FOR RESIDUE NA A 1402
3	AC3	SOFTWARE	GLU A:1306 , TRP A:1313	BINDING SITE FOR RESIDUE 1WV A 1403

Asymmetric/Biological Unit

No.	Residues
1	A:1106	-	A:1191
2	A:1184	-	A:1190
3	B:22	-	B:95

(no "Cis Peptide Bond" information available for 4LDL)

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

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

(no "Exon" information available for 4LDL)

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:454
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhh..eeeeee.....eeee..eeee...hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh.hhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhh.hhhhhhhhhh..hhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ldl A  858 DAENLYFQGNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAKSELDKAIGRNTNGVITKDEAEKLFNQDVDAAVRGILRNAKLKPVYDSLDAVRRAALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPNRAKRVITTFRTGTWDAYAADEVWVVGMGIVMSLIVLAIVFGNVLVITAIAKFERLQTVTNYFITSLACADLVMGLAVVPFGAAHILTKTWTFGNFWCEFWTSIDVLCVTASIETLCVIAVDRYFAITSPFKYQSLLTKNKARVIILMVWIVSGLTSFLPIQMHWYRATHQEAINCYAEETCCDFFTNQAYAIASSIVSFYVPLVIMVFVYSRVFQEAKRQLQKFALKEHKALKTLGIIMGTFTLCWLPFFIVNIVHVIQDNLIRKEVYILLNWIGYVNSGFNPLIYCRSPDFRIAFQELLCL 1342
                                   867       877       887       897       907       917       927       937       947       957       967       977       987       997      1007      1017      1027      1037      1047      1057      1067      1077      1087      1097      1107      1117      1127      1137      1147      1157      1167      1177      1187      1197      1207      1217      1227   || 1268      1278      1288      1298      1308      1318      1328      1338    
                                                                                                                                                                                                                                                                                                                                                                                                              1231|                                                                               
                                                                                                                                                                                                                                                                                                                                                                                                               1263

Chain B from PDB  Type:PROTEIN  Length:120
                                                                                                                                                         
               SCOP domains d4ldlb_ B: automated matches                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee..eeee....eeeeeeee......eeeeeeee.....eeeeeeee....eee.......eeeee.....eeeeee...hhhhheeeeeeeee.......eeee...eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                4ldl B    1 QVQLQESGGGLVQAGGSLRLSCAASGSIFALNIMGWYRQAPGKQRELVAAIHSGGTTNYANSVKGRFTISRDNAANTVYLQMNSLKPEDTAVYYCNVKDFGAIIYDYDYWGQGTQVTVSS  120
                                    10        20        30        40        50        60        70        80        90       100       110       120

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: All beta proteins (24004)

Fold: Immunoglobulin-like beta-sandwich (7299)

Superfamily: Immunoglobulin (5995)

Family: V set domains (antibody variable domain-like) (1919)

Protein domain: automated matches (311)

Llama (Lama glama) [TaxId: 9844] (62)

d4ldlb_

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

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

Asymmetric/Biological Unit(hide GO term definitions)

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
		1WV	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	Sites
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4ldl)

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	4ldl
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		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
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	ENLYS_BPT4 \| P00720
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	3.2.1.17
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		Interatomic Contacts of Structural Units	:	CSU
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		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

4lde	THE SAME PROTEIN COMPLEXED TO BI167107
4ldo	THE SAME PROTEIN BOUND TO ADRENALINE AND AN ENGINEERED NANOBODY

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 3)

Sites (3, 3)

SS Bonds (3, 3)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (108, 108)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File