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(-) Description

Title :  CRYSTAL STRUCTURE OF H. WALSBYI BACTERIORHODOPSIN
 
Authors :  A. H. J. Wang, M. F. Hsu, C. S. Yang, H. Y. Fu
Date :  30 May 14  (Deposition) - 29 Jul 15  (Release) - 29 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Bacteriorhodopsin, Proton Pump, Membrane, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. H. J. Wang, M. F. Hsu, C. S. Yang, H. Y. Fu, C. J. Cai, H. P. Yi
An Acid-Tolerant Light-Driven Proton Pump
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BACTERIORHODOPSIN-I
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21D
    Expression System Strain: C43 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BOP1, BOPI, HQ_1014A
    Organism Scientific: HALOQUADRATUM WALSBYI
    Organism Taxid: 362976
    Strain: DSM 16790 / HBSQ001
    Synonym: HWBR, SQUAREBOP I

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 13)

Asymmetric/Biological Unit (3, 13)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MPG9Ligand/Ion1-MONOOLEOYL-RAC-GLYCEROL
3RET3Ligand/IonRETINAL

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:94 , THR A:97 , THR A:98 , LEU A:101 , SER A:149 , THR A:150 , TRP A:190 , TYR A:193 , LYS A:224BINDING SITE FOR RESIDUE RET A 301
02AC2SOFTWAREPHE A:96 , LEU A:103 , ILE A:116 , ALA A:124 , MPG A:304 , PHE C:96BINDING SITE FOR RESIDUE MPG A 302
03AC3SOFTWAREMET A:31 , ILE A:35 , GLY A:38 , LEU A:39 , LYS A:47 , ILE A:54 , ALA A:58 , ALA A:61 , ILE B:122 , PHE B:125 , SER B:152 , TYR B:159BINDING SITE FOR RESIDUE MPG A 303
04AC4SOFTWAREARG A:114 , ASP A:115 , GLY A:117 , ALA A:118 , GLY A:121 , ALA A:124 , VAL A:128 , MPG A:302 , LYS C:47 , GLU C:48 , VAL C:51 , ILE C:52 , LEU C:55 , ILE C:59 , MPG C:302 , HOH C:482BINDING SITE FOR RESIDUE MPG A 304
05AC5SOFTWAREGLU A:14 , TYR A:210 , VAL B:83BINDING SITE FOR RESIDUE GOL A 305
06AC6SOFTWARETRP B:94 , THR B:97 , THR B:98 , SER B:149 , THR B:150 , TRP B:190 , TYR B:193 , LYS B:224BINDING SITE FOR RESIDUE RET B 301
07AC7SOFTWAREGLU B:48 , LEU B:55 , ILE B:59 , ALA B:89 , HOH B:447 , HOH B:523 , HOH B:595 , ARG C:114 , GLY C:117 , GLY C:121 , ALA C:124 , VAL C:128 , VAL C:132BINDING SITE FOR RESIDUE MPG B 302
08AC8SOFTWAREPHE A:96 , HOH A:569 , THR B:74 , TRP B:88 , LEU B:135 , LYS B:137 , HOH C:444BINDING SITE FOR RESIDUE MPG B 303
09AC9SOFTWARETHR B:147 , PHE B:155 , TYR B:158 , TYR B:159BINDING SITE FOR RESIDUE MPG B 304
10BC1SOFTWARELEU B:157 , TYR B:158 , VAL B:161 , GLU B:166BINDING SITE FOR RESIDUE MPG B 305
11BC2SOFTWARETHR B:24 , MET B:31 , GLY B:38 , LEU B:39 , ALA B:61 , HOH B:591 , ILE C:122 , PHE C:125 , TYR C:159BINDING SITE FOR RESIDUE MPG B 306
12BC3SOFTWARETRP C:94 , THR C:98 , MET C:126 , SER C:149 , THR C:150 , TRP C:190 , TYR C:193 , ASP C:220 , LYS C:224BINDING SITE FOR RESIDUE RET C 301
13BC4SOFTWAREMPG A:304 , PHE C:96 , PRO C:99 , SER C:112 , GLN C:113 , ARG C:114 , HOH C:505BINDING SITE FOR RESIDUE MPG C 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4QI1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4QI1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4QI1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4QI1)

(-) Exons   (0, 0)

(no "Exon" information available for 4QI1)

(-) Sequences/Alignments

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
(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:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeee.....eeeeehhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qi1 A  11 LGVEGEGIWLALGTIGMLLGMLYFIADGLDVQDPRQKEFYVITILIPAIAAASYLSMFFGFGLTEVSLANGRVVDVYWARYADWLFTTPLLLLDIGLLAGASQRDIGALVGIDAFMIVTGLVATLTKVVVARYAFWTISTISMVFLLYYLVAVFGEAVSDADEDTRSTFNALRNIILVTWAIYPVAWLVGTEGLALTGLYGETLLFMVLDLVAKVGFGFILLRSRAIM 238
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230        


Chain B from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh....eeee.....eeee.hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qi1 B  11 LGVEGEGIWLALGTIGMLLGMLYFIADGLDVQDPRQKEFYVITILIPAIAAASYLSMFFGFGLTEVSLANGRVVDVYWARYADWLFTTPLLLLDIGLLAGASQRDIGALVGIDAFMIVTGLVATLTKVVVARYAFWTISTISMVFLLYYLVAVFGEAVSDADEDTRSTFNALRNIILVTWAIYPVAWLVGTEGLALTGLYGETLLFMVLDLVAKVGFGFILLRSRAIM 238
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230        


Chain C from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh....eeee.....eeee.hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qi1 C  11 LGVEGEGIWLALGTIGMLLGMLYFIADGLDVQDPRQKEFYVITILIPAIAAASYLSMFFGFGLTEVSLANGRVVDVYWARYADWLFTTPLLLLDIGLLAGASQRDIGALVGIDAFMIVTGLVATLTKVVVARYAFWTISTISMVFLLYYLVAVFGEAVSDADEDTRSTFNALRNIILVTWAIYPVAWLVGTEGLALTGLYGETLLFMVLDLVAKVGFGFILLRSRAIM 238
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4QI1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4QI1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4QI1)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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        BACR1_HALWD | Q18DH8: 4qid 5itc 5ite 5kkh

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4qid