Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4MD2

Ground state of bacteriorhodopsin from Halobacterium salinarum

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005216	molecular_function	monoatomic ion channel activity
A	0005886	cellular_component	plasma membrane
A	0006811	biological_process	monoatomic ion transport
A	0007602	biological_process	phototransduction
A	0009881	molecular_function	photoreceptor activity
A	0015454	molecular_function	light-driven active monoatomic ion transmembrane transporter activity
A	0016020	cellular_component	membrane
A	1902600	biological_process	proton transmembrane transport

Functional Information from PDB Data

site_id	AC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE L2P A 1001

Chain	Residue
A	SER132
A	ALA139

site_id	AC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE SQL A 1002

Chain	Residue
A	TYR26
A	VAL213
A	GLY218
A	ARG225

site_id	AC3
Number of Residues	2
Details	BINDING SITE FOR RESIDUE L2P A 1003

Chain	Residue
A	ILE52
A	GLY116

site_id	AC4
Number of Residues	1
Details	BINDING SITE FOR RESIDUE L2P A 1004

Chain	Residue
A	TRP80

site_id	AC5
Number of Residues	2
Details	BINDING SITE FOR RESIDUE L2P A 1005

Chain	Residue
A	TYR64
A	LEU123

site_id	AC6
Number of Residues	1
Details	BINDING SITE FOR RESIDUE L2P A 1006

Chain	Residue
A	TYR131

site_id	AC7
Number of Residues	2
Details	BINDING SITE FOR RESIDUE L2P A 1009

Chain	Residue
A	VAL188
A	ILE191

site_id	AC8
Number of Residues	2
Details	BINDING SITE FOR RESIDUE L2P A 1010

Chain	Residue
A	LEU87
A	PRO91

site_id	AC9
Number of Residues	3
Details	BINDING SITE FOR RESIDUE L2P A 1011

Chain	Residue
A	MET145
A	VAL179
A	SER183

site_id	BC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE L2P A 1012

Chain	Residue
A	TYR147
A	TYR150
A	L2P1019

site_id	BC2
Number of Residues	1
Details	BINDING SITE FOR RESIDUE L2P A 1014

Chain	Residue
A	VAL173

site_id	BC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE L2P A 1017

Chain	Residue
A	TRP10
A	ILE11
A	LEU15

site_id	BC4
Number of Residues	1
Details	BINDING SITE FOR RESIDUE L2P A 1018

Chain	Residue
A	ILE198

site_id	BC5
Number of Residues	14
Details	BINDING SITE FOR RESIDUE L2P A 1019

Chain	Residue
A	THR24
A	LEU25
A	LEU28
A	LYS40
A	ALA44
A	THR47
A	LEU48
A	ALA51
A	PHE54
A	ALA110
A	ALA114
A	TYR147
A	L2P1012
A	HOH1129

site_id	BC6
Number of Residues	10
Details	BINDING SITE FOR RESIDUE RET A 1020

Chain	Residue
A	TRP86
A	THR90
A	MET118
A	SER141
A	THR142
A	TRP182
A	TYR185
A	TRP189
A	ASP212
A	LYS216

Functional Information from PROSITE/UniProt

site_id	PS00327
Number of Residues	12
Details	BACTERIAL_OPSIN_RET Bacterial rhodopsins retinal binding site. FMVLDVsAKvGF

Chain	Residue	Details
A	PHE208-PHE219

site_id	PS00950
Number of Residues	13
Details	BACTERIAL_OPSIN_1 Bacterial rhodopsins signature 1. RYaDWlFTTPLLL

Chain	Residue	Details
A	ARG82-LEU94

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	19
Details	Transmembrane: {"description":"Helical; Name=Helix A","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	23
Details	Topological domain: {"description":"Cytoplasmic","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	18
Details	Transmembrane: {"description":"Helical; Name=Helix B","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	33
Details	Topological domain: {"description":"Extracellular","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	16
Details	Transmembrane: {"description":"Helical; Name=Helix C","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	19
Details	Transmembrane: {"description":"Helical; Name=Helix D","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	19
Details	Transmembrane: {"description":"Helical; Name=Helix E","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	18
Details	Transmembrane: {"description":"Helical; Name=Helix F","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	19
Details	Transmembrane: {"description":"Helical; Name=Helix G","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI10
Number of Residues	1
Details	Site: {"description":"Primary proton acceptor","evidences":[{"source":"PubMed","id":"10903866","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"10949309","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

site_id	SWS_FT_FI11
Number of Residues	1
Details	Modified residue: {"description":"N6-(retinylidene)lysine","evidences":[{"source":"PubMed","id":"10452895","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"10467143","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"10548112","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"10903866","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"10949307","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"10949309","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"11829498","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28008064","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"6794028","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9287223","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9632391","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9751724","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1C3W","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1F50","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1IW9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1KG8","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1KG9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1M0L","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1M0M","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1O0A","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1P8H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1P8U","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1Q5J","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1QHJ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1QKP","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1QM8","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1R2N","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1R84","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1S8J","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1TN0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1TN5","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1UCQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1X0I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1X0K","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1X0S","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1XJI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2AT9","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2BRD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2I1X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2I20","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2I21","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2NTU","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2NTW","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WJK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2WJL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2ZFE","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"2ZZL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3COD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3HAN","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3HAO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3HAP","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3HAQ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3HAR","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3HAS","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3NS0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3NSB","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3T45","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3UTV","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3UTW","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3UTX","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3VHZ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3VI0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4FPD","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4HWL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4MD1","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4MD2","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4X31","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4X32","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5A44","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5A45","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5B34","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5B6V","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5B6W","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5B6X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5B6Y","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5B6Z","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5BR2","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5BR5","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5H2H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5H2I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5H2J","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5H2K","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5H2L","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5H2M","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5H2N","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5H2O","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5H2P","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5J7A","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)