3VVK - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   AN M-LIKE REACTION STATE OF THE AZIDE-BOUND PURPLE FORM OF PHARAONIS HALORHODOPSIN

Authors :   T. Kouyama, T. Nakanishi

Date :   26 Jul 12 (Deposition) - 19 Jun 13 (Release) - 19 Jun 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   Seven-Transmembrane-Retinylidene Protein, Chloride-Bound Purple Form, Light-Driven Chloride Ion Pump, Azide-Bound Purple Form, Light- Driven Proton Pump, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Nakanishi, S. Kanada, M. Murakami, K. Ihara, T. Kouyama
Large Deformation Of Helix F During The Photoreaction Cycle Of Pharaonis Halorhodopsin In Complex With Azide
Biophys. J. V. 104 377 2013
PubMed-ID: 23442859 | Reference-DOI: 10.1016/J.BPJ.2012.12.018

Molecule 1 - HALORHODOPSIN
	Chains	:	A, B, C, D, E, F
	Organism Scientific	:	NATRONOMONAS PHARAONIS
	Organism Taxid	:	2257
	Other Details	:	STRAIN MK-1 WAS A HALORHODOPSIN-OVERPRODUCING MUTANT GENERATED FROM TYPE STRAIN D2160T.
	Strain	:	MK-1

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	E	F
Biological Unit 1 (1x)	:	A	B	C
Biological Unit 2 (1x)	:				D	E	F

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 19)

No.	Name	Count	Type	Full Name
1	22B	2	Ligand/Ion	BACTERIORUBERIN
2	AZI	3	Ligand/Ion	AZIDE ION
3	BNG	4	Ligand/Ion	B-NONYLGLUCOSIDE
4	L3P	4	Ligand/Ion	2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE
5	RET	6	Ligand/Ion	RETINAL

Biological Unit 1 (4, 9)

No.	Name	Count	Type	Full Name
1	22B	1	Ligand/Ion	BACTERIORUBERIN
2	AZI	-1	Ligand/Ion	AZIDE ION
3	BNG	3	Ligand/Ion	B-NONYLGLUCOSIDE
4	L3P	2	Ligand/Ion	2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE
5	RET	3	Ligand/Ion	RETINAL

Biological Unit 2 (5, 10)

No.	Name	Count	Type	Full Name
1	22B	1	Ligand/Ion	BACTERIORUBERIN
2	AZI	3	Ligand/Ion	AZIDE ION
3	BNG	1	Ligand/Ion	B-NONYLGLUCOSIDE
4	L3P	2	Ligand/Ion	2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE
5	RET	3	Ligand/Ion	RETINAL

Asymmetric Unit (19, 19)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	TRP A:127 , SER A:130 , THR A:131 , MET A:159 , GLY A:163 , TYR A:180 , SER A:183 , PHE A:187 , TRP A:222 , TYR A:225 , TRP A:229 , LYS A:256 , THR D:131 , TYR D:180 , CYS D:184 , PHE D:187 , TRP D:222 , TYR D:225 , PRO D:226 , TRP D:229 , LYS D:256	BINDING SITE FOR RESIDUE RET A 301
02	AC2	SOFTWARE	ALA A:98 , GLY A:99 , HIS A:173 , LEU A:174 , TRP A:177 , ASP B:209 , BNG B:302 , ALA D:98 , GLY D:99 , HIS D:173 , BNG D:304 , ASP E:209	BINDING SITE FOR RESIDUE BNG A 302
03	AC3	SOFTWARE	PHE A:25 , GLU A:26 , ASP C:209 , PHE D:25 , GLU D:26 , LEU F:174 , MET F:175	BINDING SITE FOR RESIDUE BNG A 303
04	AC4	SOFTWARE	TYR B:124 , TRP B:127 , THR B:131 , MET B:159 , SER B:183 , PHE B:187 , TRP B:222 , TYR B:225 , PRO B:226 , TRP B:229 , ALA B:255 , LYS B:256 , TRP E:127 , THR E:131 , ILE E:134 , TYR E:225 , PRO E:226 , ASP E:252 , ALA E:255	BINDING SITE FOR RESIDUE RET B 301
05	AC5	SOFTWARE	BNG A:302 , HOH A:525 , PHE B:25 , GLU B:26 , ASP B:209 , SER B:269 , ASN B:270 , HOH B:449 , LEU D:174 , PHE E:25 , ASP E:209 , ASN E:270	BINDING SITE FOR RESIDUE BNG B 302
06	AC6	SOFTWARE	TYR C:124 , TRP C:127 , SER C:130 , THR C:131 , MET C:159 , TYR C:180 , SER C:183 , PHE C:187 , TRP C:222 , TYR C:225 , TRP C:229 , ASP C:252 , ALA C:255 , LYS C:256 , TRP F:127 , THR F:131 , MET F:159 , GLY F:163 , TYR F:180 , SER F:183 , PHE F:187 , TRP F:222 , TYR F:225	BINDING SITE FOR RESIDUE RET C 301
07	AC7	SOFTWARE	ILE A:49 , THR A:56 , THR C:151 , PHE C:155 , ILE C:193 , HOH C:437 , ILE D:49 , VAL D:53 , THR D:56 , THR F:151 , PHE F:155	BINDING SITE FOR RESIDUE 22B C 302
08	AC8	SOFTWARE	VAL C:19 , ALA C:80 , VAL E:161 , LEU E:164 , LEU E:168 , TRP E:179 , ALA F:80 , SER F:92	BINDING SITE FOR RESIDUE L3P C 303
09	AC9	SOFTWARE	ALA A:80 , LEU A:89 , TRP A:121 , LEU A:125 , ALA C:158 , VAL C:161 , LEU C:168 , VAL D:77 , ALA D:80 , LEU D:89 , TRP D:121 , LEU D:125 , LEU D:129 , VAL F:161	BINDING SITE FOR RESIDUE L3P C 304
10	BC1	SOFTWARE	TRP A:127 , SER A:130 , THR A:131 , MET A:159 , GLY A:163 , SER A:183 , PHE A:187 , TRP A:222 , TYR A:225 , ASP A:252 , TRP D:127 , THR D:131 , MET D:159 , TYR D:180 , SER D:183 , CYS D:184 , PHE D:187 , TRP D:222 , TYR D:225 , ASP D:252 , LYS D:256	BINDING SITE FOR RESIDUE RET D 301
11	BC2	SOFTWARE	VAL A:161 , THR D:154 , ALA D:158 , VAL D:161	BINDING SITE FOR RESIDUE L3P D 302
12	BC3	SOFTWARE	SER A:78 , TRP A:127 , SER A:130 , LYS A:256 , SER D:78 , SER D:81 , THR D:126 , TRP D:127 , SER D:130 , LYS D:256 , HOH D:504	BINDING SITE FOR RESIDUE AZI D 303
13	BC4	SOFTWARE	GLY A:99 , HIS A:173 , TRP A:177 , BNG A:302 , GLY D:99 , PHE D:101	BINDING SITE FOR RESIDUE BNG D 304
14	BC5	SOFTWARE	TRP B:127 , SER B:130 , THR B:131 , MET B:159 , GLY B:163 , TYR B:180 , SER B:183 , CYS B:184 , PHE B:187 , TYR B:225 , TRP B:229 , ASP B:252 , TRP E:127 , THR E:131 , MET E:159 , GLY E:163 , TYR E:180 , SER E:183 , TRP E:222 , TYR E:225 , PRO E:226 , ASP E:252 , LYS E:256	BINDING SITE FOR RESIDUE RET E 301
15	BC6	SOFTWARE	LYS A:148 , THR A:151 , PHE A:155 , VAL A:189 , ILE B:49 , THR B:56 , VAL B:69 , ILE B:72 , LYS D:148 , PHE D:155 , ALA D:185 , TYR D:192 , GLU D:197 , ILE E:49 , LEU E:50 , VAL E:53 , THR E:56 , LYS E:65 , HOH E:536	BINDING SITE FOR RESIDUE 22B E 302
16	BC7	SOFTWARE	PHE E:150 , ILE E:153 , ILE E:157 , ALA E:158 , VAL E:161 , LEU F:129 , MET F:133	BINDING SITE FOR RESIDUE L3P E 303
17	BC8	SOFTWARE	TRP B:127 , SER B:130 , LYS B:256 , SER E:78 , SER E:81 , THR E:126 , TRP E:127 , SER E:130 , LYS E:256	BINDING SITE FOR RESIDUE AZI E 304
18	BC9	SOFTWARE	TRP C:127 , SER C:130 , THR C:131 , MET C:159 , TYR C:180 , SER C:183 , CYS C:184 , PHE C:187 , TRP C:222 , TYR C:225 , PRO C:226 , TRP C:229 , ASP C:252 , TRP F:127 , THR F:131 , MET F:159 , TYR F:180 , SER F:183 , PHE F:187 , TRP F:222 , TYR F:225 , LYS F:256	BINDING SITE FOR RESIDUE RET F 301
19	CC1	SOFTWARE	SER C:78 , TYR C:82 , TRP C:127 , SER C:130 , LYS C:256 , SER F:78 , SER F:81 , THR F:126 , TRP F:127 , SER F:130 , LYS F:256 , HOH F:404	BINDING SITE FOR RESIDUE AZI F 302

(no "SS Bond" information available for 3VVK)

(no "Cis Peptide Bond" information available for 3VVK)

(no "SAP(SNP)/Variant" information available for 3VVK)

Asymmetric Unit (2, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	BACTERIAL_OPSIN_1	PS00950	Bacterial rhodopsins signature 1.	BACH_NATPH	123-135	6	A:123-135 B:123-135 C:123-135 D:123-135 E:123-135 F:123-135
2	BACTERIAL_OPSIN_RET	PS00327	Bacterial rhodopsins retinal binding site.	BACH_NATPH	248-259	6	A:248-259 B:248-259 C:248-259 D:248-259 E:248-259 F:248-259

Biological Unit 1 (2, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	BACTERIAL_OPSIN_1	PS00950	Bacterial rhodopsins signature 1.	BACH_NATPH	123-135	3	A:123-135 B:123-135 C:123-135 - - -
2	BACTERIAL_OPSIN_RET	PS00327	Bacterial rhodopsins retinal binding site.	BACH_NATPH	248-259	3	A:248-259 B:248-259 C:248-259 - - -

Biological Unit 2 (2, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	BACTERIAL_OPSIN_1	PS00950	Bacterial rhodopsins signature 1.	BACH_NATPH	123-135	3	- - - D:123-135 E:123-135 F:123-135
2	BACTERIAL_OPSIN_RET	PS00327	Bacterial rhodopsins retinal binding site.	BACH_NATPH	248-259	3	- - - D:248-259 E:248-259 F:248-259

(no "Exon" information available for 3VVK)

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:261
 aligned with BACH_NATPH | P15647 from UniProtKB/Swiss-Prot  Length:291

    Alignment length:261
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277 
           BACH_NATPH    18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFLVVLYILLVEWAQDAKAAGTADMFNTLKLLTVVMWLGYPIVWALGVEGIAVLPVGVTSWGYSFLDIVAKYIFAFLLLNYLTSNESVVSGSI 278
               SCOP domains d3vvka_ A: automated matches                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh.......hhhhhhhhhhh..hhhhh......................hhhhhhhhhhhhh.............................................................hhhhhh..hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhh..hhhhhhhh.......hhhhhhhhhhhhhhhh...hhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------BACTERIAL_OPS----------------------------------------------------------------------------------------------------------------BACTERIAL_OP------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vvk A  18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFIVVLYILLVEWAQDAKAAGTADIFSTLKLLTVVMWLGYPIVWALGVEGVAVLPVGYTSWAYSALDIVAKYIFAFLLLNYLTSNEGVVSGSI 278
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277

Chain B from PDB  Type:PROTEIN  Length:258
 aligned with BACH_NATPH | P15647 from UniProtKB/Swiss-Prot  Length:291

    Alignment length:258
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268        
           BACH_NATPH    19 VTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFLVVLYILLVEWAQDAKAAGTADMFNTLKLLTVVMWLGYPIVWALGVEGIAVLPVGVTSWGYSFLDIVAKYIFAFLLLNYLTSNESVVSG 276
               SCOP domains d3vvkb_ B: automated matches                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhh....hhhhh............hhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhh....................................hhhhhhhhhhhhh................hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhh...............hhhhhhhh...hhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------BACTERIAL_OPS----------------------------------------------------------------------------------------------------------------BACTERIAL_OP----------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3vvk B  19 VTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFIVVLYILLVEWAQDAKAAGTADIFSTLKLLTVVMWLGYPIVWALGVEGVAVLPVGYTSWAYSALDIVAKYIFAFLLLNYLTSNEGVVSG 276
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268

Chain C from PDB  Type:PROTEIN  Length:259
 aligned with BACH_NATPH | P15647 from UniProtKB/Swiss-Prot  Length:291

    Alignment length:259
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267         
           BACH_NATPH    18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFLVVLYILLVEWAQDAKAAGTADMFNTLKLLTVVMWLGYPIVWALGVEGIAVLPVGVTSWGYSFLDIVAKYIFAFLLLNYLTSNESVVSG 276
               SCOP domains d3vvkc_ C: automated matches                                                                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhh..hhhhhhhhh..........................................hhhhh.hhhh.............hhhhhhh........hhhhhh.......hhhhhhhhhhhhhhhhhhhh..hhhh.......hhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhh...hhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------BACTERIAL_OPS----------------------------------------------------------------------------------------------------------------BACTERIAL_OP----------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vvk C  18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFIVVLYILLVEWAQDAKAAGTADIFSTLKLLTVVMWLGYPIVWALGVEGVAVLPVGYTSWAYSALDIVAKYIFAFLLLNYLTSNEGVVSG 276
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267

Chain D from PDB  Type:PROTEIN  Length:260
 aligned with BACH_NATPH | P15647 from UniProtKB/Swiss-Prot  Length:291

    Alignment length:260
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277
           BACH_NATPH    18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFLVVLYILLVEWAQDAKAAGTADMFNTLKLLTVVMWLGYPIVWALGVEGIAVLPVGVTSWGYSFLDIVAKYIFAFLLLNYLTSNESVVSGS 277
               SCOP domains d3vvkd_ D: automated matches                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhh....hhhhhhh.....hhhhhhhhhhh.........hhhhhhhhh....hhhh..hhhh...................................hhhhh........hhhhh......hhhhhhhhh.hhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh............hhhhhhh.hhhhhhh.hhhhhhhhh........hhhhhhhhhhhhhh....hhhhh.............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------BACTERIAL_OPS----------------------------------------------------------------------------------------------------------------BACTERIAL_OP------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vvk D  18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFIVVLYILLVEWAQDAKAAGTADIFSTLKLLTVVMWLGYPIVWALGVEGVAVLPVGYTSWAYSALDIVAKYIFAFLLLNYLTSNEGVVSGS 277
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277

Chain E from PDB  Type:PROTEIN  Length:259
 aligned with BACH_NATPH | P15647 from UniProtKB/Swiss-Prot  Length:291

    Alignment length:259
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267         
           BACH_NATPH    18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFLVVLYILLVEWAQDAKAAGTADMFNTLKLLTVVMWLGYPIVWALGVEGIAVLPVGVTSWGYSFLDIVAKYIFAFLLLNYLTSNESVVSG 276
               SCOP domains d3vvke_ E: automated matches                                                                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhh....hhhhhhhhh.hhhhhhh................hhhh.....hhhh.hhhhhhhhh...................................hhhhh....hhhhhhh........hhhhhhh....hhhhhhhh..........hhhhhhhh.hhhhhhhhhhhhh.............hhhhhhhhhhhhh...................hhhhhhhhh.hhhh.hhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------BACTERIAL_OPS----------------------------------------------------------------------------------------------------------------BACTERIAL_OP----------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vvk E  18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFIVVLYILLVEWAQDAKAAGTADIFSTLKLLTVVMWLGYPIVWALGVEGVAVLPVGYTSWAYSALDIVAKYIFAFLLLNYLTSNEGVVSG 276
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267

Chain F from PDB  Type:PROTEIN  Length:259
 aligned with BACH_NATPH | P15647 from UniProtKB/Swiss-Prot  Length:291

    Alignment length:259
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267         
           BACH_NATPH    18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFLVVLYILLVEWAQDAKAAGTADMFNTLKLLTVVMWLGYPIVWALGVEGIAVLPVGVTSWGYSFLDIVAKYIFAFLLLNYLTSNESVVSG 276
               SCOP domains d3vvkf_ F: automated matches                                                                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhh.......hhhhh...hhhhhhhhhhhhhhh......hhhhhhhhhhhh.....hhhhhhhhh...................................hhhhhhhhhh....hhhhhh......hhhhhhhhh....hhhh........hhhh.hhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhh..hhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------BACTERIAL_OPS----------------------------------------------------------------------------------------------------------------BACTERIAL_OP----------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vvk F  18 EVTQRELFEFVLNDPLLASSLYINIALAGLSILLFVFMTRGLDDPRAKLIAVSTILVPVVSIASYTGLASGLTISVLEMPAGHFAEGSSVMLGGEEVDGVVTMWGRYLTWALSTPMILLALGLLAGSNATKLFTAITFDIAMCVTGLAAALTTSSHLMRWFWYAISCACFIVVLYILLVEWAQDAKAAGTADIFSTLKLLTVVMWLGYPIVWALGVEGVAVLPVGYTSWAYSALDIVAKYIFAFLLLNYLTSNEGVVSG 276
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267

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 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: automated matches (15)

Protein domain: automated matches (15)

Natronomonas pharaonis [TaxId: 2257] (5)

1a	d3vvka_	A:
1b	d3vvkb_	B:
1c	d3vvkc_	C:
1d	d3vvkd_	D:
1e	d3vvke_	E:
1f	d3vvkf_	F:

(no "CATH Domain" information available for 3VVK)

(no "Pfam Domain" information available for 3VVK)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F (BACH_NATPH | P15647)

molecular function
	GO:0005216	ion channel activity	Enables the facilitated diffusion of an ion (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism. May be either selective (it enables passage of a specific ion only) or non-selective (it enables passage of two or more ions of same charge but different size).
	GO:0009881	photoreceptor activity	The function of absorbing and responding to incidental electromagnetic radiation, particularly visible light. The response may involve a change in conformation.
biological process
	GO:0034220	ion transmembrane transport	A process in which an ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
	GO:0006811	ion transport	The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0007602	phototransduction	The sequence of reactions within a cell required to convert absorbed photons into a molecular signal.
	GO:0018298	protein-chromophore linkage	The covalent or noncovalent attachment of a chromophore to a protein.
	GO:0050896	response to stimulus	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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3a7k	CRYSTAL STRUCTURE OF THE CHLORIDE-BOUND PURPLE FORM OF HALORHODOPSIN FROM NATRONOMONAS PHARAONIS
3abw	CRYSTAL STRUCTURE OF THE AZIDE-BOUND PURPLE FORM OF PHARAONIS HALORHODOPSIN AT PH 7
3qbi	CRYSTAL STRUCTURE OF THE ANION-DEPLETED BLUE FORM OF HALORHODOPSIN FROM NATRONOMONAS PHARAONIS AT PH 7
3qbk	CRYSTAL STRUCTURE OF THE ANION-DEPLETED YELLOW FORM OF HALORHODOPSIN FROM NATRONOMONAS PHARAONIS AT PH 10
3qbl	CRYSTAL STRUCTURE OF THE BROMIDE-BOUND PURPLE FORM OF PHARAONIS HALORHODOPSIN

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 19)

Sites (19, 19)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 12)

Exons (0, 0)

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SCOP Domains (1, 6)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (11, 16)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File