4HYX - JenaLib

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Title :   CRYSTAL STRUCTURE ANALYSIS OF THE BACTERIORHODOPSIN IN FACIAL AMPHIPHILE-4 DMPC BICELLE

Authors :   S. Lee, C. D. Stout, Q. Zhang

Date :   14 Nov 12 (Deposition) - 20 Mar 13 (Release) - 22 May 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.99

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

Keywords :   Facial Amphiphile-4 Dmpc Bicelle, Alpha Helical 7 Transmembrane Protein, Photoreceptor, Proton Pump, Retinal Binding, Transmembrane, Proton Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. C. Lee, B. C. Bennett, W. X. Hong, Y. Fu, K. A. Baker, J. Marcoux, C. V. Robinson, A. B. Ward, J. R. Halpert, R. C. Stevens, C. D. Stout, M. J. Yeager, Q. Zhang
Steroid-Based Facial Amphiphiles For Stabilization And Crystallization Of Membrane Proteins.
Proc. Natl. Acad. Sci. Usa V. 110 E1203 2013
PubMed-ID: 23479627 | Reference-DOI: 10.1073/PNAS.1221442110

Molecule 1 - BACTERIORHODOPSIN
	Chains	:	A, B
	Organism Scientific	:	HALOBACTERIUM SALINARUM
	Organism Taxid	:	2242
	Strain	:	S9
	Synonym	:	BR, BACTERIOOPSIN, BO

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (6, 17)

No.	Name	Count	Type	Full Name
1	C14	1	Ligand/Ion	TETRADECANE
2	D10	8	Ligand/Ion	DECANE
3	GOL	1	Ligand/Ion	GLYCEROL
4	HEX	1	Ligand/Ion	HEXANE
5	OCT	4	Ligand/Ion	N-OCTANE
6	RET	2	Ligand/Ion	RETINAL

Biological Unit 1 (3, 8)

No.	Name	Count	Type	Full Name
1	C14	-1	Ligand/Ion	TETRADECANE
2	D10	5	Ligand/Ion	DECANE
3	GOL	-1	Ligand/Ion	GLYCEROL
4	HEX	-1	Ligand/Ion	HEXANE
5	OCT	2	Ligand/Ion	N-OCTANE
6	RET	1	Ligand/Ion	RETINAL

Biological Unit 2 (6, 9)

No.	Name	Count	Type	Full Name
1	C14	1	Ligand/Ion	TETRADECANE
2	D10	3	Ligand/Ion	DECANE
3	GOL	1	Ligand/Ion	GLYCEROL
4	HEX	1	Ligand/Ion	HEXANE
5	OCT	2	Ligand/Ion	N-OCTANE
6	RET	1	Ligand/Ion	RETINAL

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	TRP A:86 , THR A:90 , LEU A:93 , SER A:141 , THR A:142 , TRP A:182 , TYR A:185 , PRO A:186 , TRP A:189 , ASP A:212 , LYS A:216	BINDING SITE FOR RESIDUE RET A 301
02	AC2	SOFTWARE	D10 A:307 , PHE B:135	BINDING SITE FOR RESIDUE D10 A 303
03	AC3	SOFTWARE	ASN A:176	BINDING SITE FOR RESIDUE D10 A 304
04	AC4	SOFTWARE	LYS A:41 , ILE A:45	BINDING SITE FOR RESIDUE D10 A 305
05	AC5	SOFTWARE	GLY A:106	BINDING SITE FOR RESIDUE D10 A 306
06	AC6	SOFTWARE	D10 A:303	BINDING SITE FOR RESIDUE D10 A 307
07	AC7	SOFTWARE	MET A:145 , SER A:183 , PRO A:186 , MET B:145 , SER B:183	BINDING SITE FOR RESIDUE OCT A 308
08	AC8	SOFTWARE	TRP B:86 , THR B:90 , MET B:118 , TRP B:138 , SER B:141 , THR B:142 , TRP B:182 , TYR B:185 , PRO B:186 , TRP B:189 , ASP B:212 , ALA B:215 , LYS B:216	BINDING SITE FOR RESIDUE RET B 301
09	AC9	SOFTWARE	VAL B:124 , THR B:128 , LYS B:129 , TRP B:137	BINDING SITE FOR RESIDUE D10 B 302
10	BC1	SOFTWARE	LEU B:95	BINDING SITE FOR RESIDUE D10 B 303
11	BC2	SOFTWARE	GLY B:106 , LEU B:109 , ALA B:110 , C14 B:305	BINDING SITE FOR RESIDUE HEX B 304
12	BC3	SOFTWARE	ILE B:140 , ALA B:144 , TYR B:147 , HEX B:304	BINDING SITE FOR RESIDUE C14 B 305
13	BC4	SOFTWARE	ASN B:176	BINDING SITE FOR RESIDUE OCT B 306
14	BC5	SOFTWARE	VAL A:136 , LEU A:190	BINDING SITE FOR RESIDUE D10 B 308
15	BC6	SOFTWARE	PRO B:77 , ILE B:78 , TYR B:79 , ARG B:82 , SER B:193 , GLU B:194 , LEU B:201 , THR B:205 , HOH B:411 , HOH B:415	BINDING SITE FOR RESIDUE GOL B 309

(no "SS Bond" information available for 4HYX)

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

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

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

(no "Exon" information available for 4HYX)

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:226
                                                                                                                                                                                                                                                                  
               SCOP domains d4hyxa_ A: automated matches                                                                                                                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hyx A   6 GRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQNPIYWARYADWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGFTSKAESMRPEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFG 231
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225

Chain B from PDB  Type:PROTEIN  Length:231
                                                                                                                                                                                                                                                                       
               SCOP domains d4hyxb_ B: automated matches                                                                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hyx B   6 GRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQNPIYWARYADWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGFTSKAESMRPEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFEAPEPS 239
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225    || 238 
                                                                                                                                                                                                                                                          230|     
                                                                                                                                                                                                                                                           234

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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: Membrane and cell surface proteins and peptides (2046)

Fold: Family A G protein-coupled receptor-like (138)

Superfamily: Family A G protein-coupled receptor-like (138)

Family: Bacteriorhodopsin-like (107)

Protein domain: automated matches (33)

Halobacterium salinarum [TaxId: 2242] (21)

1a	d4hyxa_	A:
1b	d4hyxb_	B:

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

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

Asymmetric Unit(hide GO term definitions)

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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4hyx)

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4hwl	THE SAME PROTEIN WITH FACIAL AMPHIPHILE-7 DMPC BICELLE.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 17)

Sites (15, 15)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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SCOP Domains (1, 2)

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Gene Ontology (12, 12)

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