Model for the structure of Bacteriorhodopsin based on high-resolution Electron Cryo-microscopy

A TEMPERATURE FACTOR OF 99.0 DENOTES SIDE CHAINS WITH NO CLEAR DENSITY IN THE EXPERIMENTAL MAP OR WITH OTHER AMBIGUITY. A TEMPERATURE FACTOR OF 20.0 DENOTES GOOD SIDE CHAINS OR THE POLYPEPTIDE BACKBONE IN THE MAIN HELICAL SEGMENTS. SOME SIDE CHAINS OF INTERMEDIATE QUALITY HAVE TEMPERATURE FACTORS OF 40.0.

Specific Labelling of the Protein and Lipid on the Extracellular Surface of Purple Membrane

Three-Dimensional Model of Purple Membrane Obtained by Electron Microscopy

0.1 mM potassium phosphate, 6 mM octyl glucoside, 0.2 mM trimethylammonium chloride

carbon aged several days to optimize hydrophobicity

(PCA)AQITGRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQN
PIYWARYADWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGF
TSKAESMRPEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFGEAEAP
EPSAGDGAAATS

QAQITGRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQNPIYW
ARYADWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGFTSKA
ESMRPEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFGEAEAPEPSA
GDGAAATS

Coordinates and associated ncs operations (if present) transformed into standard crystal frame

HELIX
THE ENDS OF THE HELICES ARE UNCERTAIN BY AT LEAST ONE
RESIDUE. IN ADDITION, PRO 50, PRO 91, AND PRO 186 ARE IN
THE MIDDLE OF HELICAL SEGMENTS BUT IN EACH CASE THE HELICES
ARE BENT NEAR THE PROLINE RESIDUES.

A TEMPERATURE FACTOR OF 99.0 DENOTES SIDE CHAINS WITH NO CLEAR DENSITY IN THE EXPERIMENTAL MAP OR WITH OTHER AMBIGUITY. A TEMPERATURE FACTOR OF 20.0 DENOTES GOOD SIDE CHAINS OR THE POLYPEPTIDE BACKBONE IN THE MAIN HELICAL SEGMENTS. SOME SIDE CHAINS OF INTERMEDIATE QUALITY HAVE TEMPERATURE FACTORS OF 40.0.

THIS STRUCTURE WAS REFINED WITH RESIDUE 111 SPECIFIED AS ILE. GENE SEQUENCING HAS SHOWN THAT THIS RESIDUE SHOULD BE LEU. THIS HAS BEEN CORRECTED IN THIS ENTRY BY RENAMING RESIDUE 111 AS LEU AND REMOVING THE SIDE CHAIN ATOMS BEYOND CB. THIS WILL BE CORRECTED IN FUTURE MORE ACCURATE COORDINATE SETS.

THE DATA WAS COLLECTED ON 2-DIMENSIONAL CRYSTALS AND HENCE THE C-AXIS REPEAT DOES NOT CORRESPOND TO A REAL REPEAT, BUT INSTEAD REFERS TO THE SAMPLING THAT IS USED TO DESCRIBE THE CONTINUOUS TRANSFORM. THE C VALUE OF 100.0 IS THEREFORE THE VALUE WHICH SHOULD BE USED IN INTERPRETING THE MEANING OF THE L INDEX.

MLELLPTAVEGVSQAQITGRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLT
MVPFGGEQNPIYWARYADWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLY
ILYVLFFGFTSKAESMRPEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSR
AIFGEAEAPEPSAGDGAAATSD