HEADER TRANSPORT PROTEIN 28-AUG-06 2I68 TITLE CRYO-EM BASED THEORETICAL MODEL STRUCTURE OF TRANSMEMBRANE DOMAIN OF TITLE 2 THE MULTIDRUG-RESISTANCE ANTIPORTER FROM E. COLI EMRE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN EMRE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: METHYL VIOLOGEN RESISTANCE PROTEIN C, ETHIDIUM RESISTANCE COMPND 5 PROTEIN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: EMRE, EB, MVRC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: TA15(PGP1-2); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: T7-7 KEYWDS TRANSMEMBRANE PROTEIN, SMALL-MULTIDRUG RESISTANCE, TRANSPORTER, KEYWDS 2 HOMODIMER, DUAL TOPOLOGY, TRANSPORT PROTEIN EXPDTA ELECTRON CRYSTALLOGRAPHY AUTHOR S.J.FLEISHMAN,S.E.HARRINGTON,A.ENOSH,D.HALPERIN,C.G.TATE,N.BEN-TAL REVDAT 4 13-MAR-24 2I68 1 REMARK SEQADV REVDAT 3 24-FEB-09 2I68 1 VERSN REVDAT 2 14-NOV-06 2I68 1 JRNL REVDAT 1 03-OCT-06 2I68 0 JRNL AUTH S.J.FLEISHMAN,S.E.HARRINGTON,A.ENOSH,D.HALPERIN,C.G.TATE, JRNL AUTH 2 N.BEN-TAL JRNL TITL QUASI-SYMMETRY IN THE CRYO-EM STRUCTURE OF EMRE PROVIDES THE JRNL TITL 2 KEY TO MODELING ITS TRANSMEMBRANE DOMAIN JRNL REF J.MOL.BIOL. V. 364 54 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 17005200 JRNL DOI 10.1016/J.JMB.2006.08.072 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH I.UBARRETXENA-BELANDIA,J.M.BALDWIN,S.SCHULDINER,C.G.TATE REMARK 1 TITL THREE-DIMENSIONAL STRUCTURE OF THE BACTERIAL MULTIDRUG REMARK 1 TITL 2 TRANSPORTER EMRE SHOWS IT IS AN ASYMMETRIC HOMODIMER REMARK 1 REF EMBO J. V. 22 6175 2003 REMARK 1 REFN ISSN 0261-4189 REMARK 1 PMID 14633977 REMARK 1 DOI 10.1093/EMBOJ/CDG611 REMARK 2 REMARK 2 RESOLUTION. 7.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 7.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 624 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2I68 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ. REMARK 100 THE DEPOSITION ID IS D_1000039188. REMARK 240 REMARK 240 EXPERIMENTAL DETAILS REMARK 240 RECONSTRUCTION METHOD : CRYSTALLOGRAPHY REMARK 240 SAMPLE TYPE : 2D ARRAY REMARK 240 SPECIMEN TYPE : VITREOUS ICE (CRYO EM) REMARK 240 DATA ACQUISITION REMARK 240 DATE OF DATA COLLECTION : NULL REMARK 240 TEMPERATURE (KELVIN) : NULL REMARK 240 PH : NULL REMARK 240 NUMBER OF CRYSTALS USED : NULL REMARK 240 MICROSCOPE MODEL : FEI TECNAI F30 REMARK 240 DETECTOR TYPE : KODAK SO-163 FILM REMARK 240 ACCELERATION VOLTAGE (KV) : 300 REMARK 240 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 240 RESOLUTION RANGE HIGH (A) : NULL REMARK 240 RESOLUTION RANGE LOW (A) : NULL REMARK 240 DATA SCALING SOFTWARE : NULL REMARK 240 COMPLETENESS FOR RANGE (%) : NULL REMARK 240 DATA REDUNDANCY : NULL REMARK 240 IN THE HIGHEST RESOLUTION SHELL REMARK 240 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) :NULL REMARK 240 HIGHEST RESOLUTION SHELL, RANGE LOW (A) :NULL REMARK 240 COMPLETENESS FOR SHELL (%) : NULL REMARK 240 DATA REDUNDANCY IN SHELL : NULL REMARK 240 R MERGE FOR SHELL (I) : NULL REMARK 240 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 240 SOFTWARE USED : NULL REMARK 240 STARTING MODEL : NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ASN A 2 REMARK 465 PRO A 3 REMARK 465 LYS A 22 REMARK 465 PHE A 23 REMARK 465 SER A 24 REMARK 465 GLU A 25 REMARK 465 GLY A 26 REMARK 465 PHE A 27 REMARK 465 THR A 28 REMARK 465 ARG A 29 REMARK 465 LEU A 30 REMARK 465 TRP A 31 REMARK 465 PRO A 32 REMARK 465 SER A 33 REMARK 465 TYR A 53 REMARK 465 ILE A 54 REMARK 465 PRO A 55 REMARK 465 THR A 56 REMARK 465 GLY A 57 REMARK 465 GLN A 81 REMARK 465 ARG A 82 REMARK 465 LEU A 83 REMARK 465 ASP A 84 REMARK 465 LEU A 85 REMARK 465 PRO A 86 REMARK 465 SER A 105 REMARK 465 ARG A 106 REMARK 465 SER A 107 REMARK 465 THR A 108 REMARK 465 PRO A 109 REMARK 465 HIS A 110 REMARK 465 GLU A 111 REMARK 465 PHE A 112 REMARK 465 GLU A 113 REMARK 465 ALA A 114 REMARK 465 TYR A 115 REMARK 465 VAL A 116 REMARK 465 GLU A 117 REMARK 465 GLN A 118 REMARK 465 LYS A 119 REMARK 465 LEU A 120 REMARK 465 ILE A 121 REMARK 465 SER A 122 REMARK 465 GLU A 123 REMARK 465 GLU A 124 REMARK 465 ASP A 125 REMARK 465 LEU A 126 REMARK 465 ASN A 127 REMARK 465 SER A 128 REMARK 465 ALA A 129 REMARK 465 VAL A 130 REMARK 465 ASP A 131 REMARK 465 HIS A 132 REMARK 465 HIS A 133 REMARK 465 HIS A 134 REMARK 465 HIS A 135 REMARK 465 HIS A 136 REMARK 465 HIS A 137 REMARK 465 MET B 1 REMARK 465 ASN B 2 REMARK 465 PRO B 3 REMARK 465 LYS B 22 REMARK 465 PHE B 23 REMARK 465 SER B 24 REMARK 465 GLU B 25 REMARK 465 GLY B 26 REMARK 465 PHE B 27 REMARK 465 THR B 28 REMARK 465 ARG B 29 REMARK 465 LEU B 30 REMARK 465 TRP B 31 REMARK 465 PRO B 32 REMARK 465 SER B 33 REMARK 465 TYR B 53 REMARK 465 ILE B 54 REMARK 465 PRO B 55 REMARK 465 THR B 56 REMARK 465 GLY B 57 REMARK 465 GLN B 81 REMARK 465 ARG B 82 REMARK 465 LEU B 83 REMARK 465 ASP B 84 REMARK 465 LEU B 85 REMARK 465 PRO B 86 REMARK 465 SER B 105 REMARK 465 ARG B 106 REMARK 465 SER B 107 REMARK 465 THR B 108 REMARK 465 PRO B 109 REMARK 465 HIS B 110 REMARK 465 GLU B 111 REMARK 465 PHE B 112 REMARK 465 GLU B 113 REMARK 465 ALA B 114 REMARK 465 TYR B 115 REMARK 465 VAL B 116 REMARK 465 GLU B 117 REMARK 465 GLN B 118 REMARK 465 LYS B 119 REMARK 465 LEU B 120 REMARK 465 ILE B 121 REMARK 465 SER B 122 REMARK 465 GLU B 123 REMARK 465 GLU B 124 REMARK 465 ASP B 125 REMARK 465 LEU B 126 REMARK 465 ASN B 127 REMARK 465 SER B 128 REMARK 465 ALA B 129 REMARK 465 VAL B 130 REMARK 465 ASP B 131 REMARK 465 HIS B 132 REMARK 465 HIS B 133 REMARK 465 HIS B 134 REMARK 465 HIS B 135 REMARK 465 HIS B 136 REMARK 465 HIS B 137 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-1087 RELATED DB: EMDB REMARK 900 CRYOEM MAP DBREF 2I68 A 1 110 UNP P23895 EMRE_ECOLI 1 110 DBREF 2I68 B 1 110 UNP P23895 EMRE_ECOLI 1 110 SEQADV 2I68 GLU A 111 UNP P23895 CLONING ARTIFACT SEQADV 2I68 PHE A 112 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLU A 113 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ALA A 114 UNP P23895 CLONING ARTIFACT SEQADV 2I68 TYR A 115 UNP P23895 CLONING ARTIFACT SEQADV 2I68 VAL A 116 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLU A 117 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLN A 118 UNP P23895 CLONING ARTIFACT SEQADV 2I68 LYS A 119 UNP P23895 CLONING ARTIFACT SEQADV 2I68 LEU A 120 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ILE A 121 UNP P23895 CLONING ARTIFACT SEQADV 2I68 SER A 122 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLU A 123 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLU A 124 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ASP A 125 UNP P23895 CLONING ARTIFACT SEQADV 2I68 LEU A 126 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ASN A 127 UNP P23895 CLONING ARTIFACT SEQADV 2I68 SER A 128 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ALA A 129 UNP P23895 CLONING ARTIFACT SEQADV 2I68 VAL A 130 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ASP A 131 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS A 132 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS A 133 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS A 134 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS A 135 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS A 136 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS A 137 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLU B 111 UNP P23895 CLONING ARTIFACT SEQADV 2I68 PHE B 112 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLU B 113 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ALA B 114 UNP P23895 CLONING ARTIFACT SEQADV 2I68 TYR B 115 UNP P23895 CLONING ARTIFACT SEQADV 2I68 VAL B 116 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLU B 117 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLN B 118 UNP P23895 CLONING ARTIFACT SEQADV 2I68 LYS B 119 UNP P23895 CLONING ARTIFACT SEQADV 2I68 LEU B 120 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ILE B 121 UNP P23895 CLONING ARTIFACT SEQADV 2I68 SER B 122 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLU B 123 UNP P23895 CLONING ARTIFACT SEQADV 2I68 GLU B 124 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ASP B 125 UNP P23895 CLONING ARTIFACT SEQADV 2I68 LEU B 126 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ASN B 127 UNP P23895 CLONING ARTIFACT SEQADV 2I68 SER B 128 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ALA B 129 UNP P23895 CLONING ARTIFACT SEQADV 2I68 VAL B 130 UNP P23895 CLONING ARTIFACT SEQADV 2I68 ASP B 131 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS B 132 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS B 133 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS B 134 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS B 135 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS B 136 UNP P23895 CLONING ARTIFACT SEQADV 2I68 HIS B 137 UNP P23895 CLONING ARTIFACT SEQRES 1 A 137 MET ASN PRO TYR ILE TYR LEU GLY GLY ALA ILE LEU ALA SEQRES 2 A 137 GLU VAL ILE GLY THR THR LEU MET LYS PHE SER GLU GLY SEQRES 3 A 137 PHE THR ARG LEU TRP PRO SER VAL GLY THR ILE ILE CYS SEQRES 4 A 137 TYR CYS ALA SER PHE TRP LEU LEU ALA GLN THR LEU ALA SEQRES 5 A 137 TYR ILE PRO THR GLY ILE ALA TYR ALA ILE TRP SER GLY SEQRES 6 A 137 VAL GLY ILE VAL LEU ILE SER LEU LEU SER TRP GLY PHE SEQRES 7 A 137 PHE GLY GLN ARG LEU ASP LEU PRO ALA ILE ILE GLY MET SEQRES 8 A 137 MET LEU ILE CYS ALA GLY VAL LEU ILE ILE ASN LEU LEU SEQRES 9 A 137 SER ARG SER THR PRO HIS GLU PHE GLU ALA TYR VAL GLU SEQRES 10 A 137 GLN LYS LEU ILE SER GLU GLU ASP LEU ASN SER ALA VAL SEQRES 11 A 137 ASP HIS HIS HIS HIS HIS HIS SEQRES 1 B 137 MET ASN PRO TYR ILE TYR LEU GLY GLY ALA ILE LEU ALA SEQRES 2 B 137 GLU VAL ILE GLY THR THR LEU MET LYS PHE SER GLU GLY SEQRES 3 B 137 PHE THR ARG LEU TRP PRO SER VAL GLY THR ILE ILE CYS SEQRES 4 B 137 TYR CYS ALA SER PHE TRP LEU LEU ALA GLN THR LEU ALA SEQRES 5 B 137 TYR ILE PRO THR GLY ILE ALA TYR ALA ILE TRP SER GLY SEQRES 6 B 137 VAL GLY ILE VAL LEU ILE SER LEU LEU SER TRP GLY PHE SEQRES 7 B 137 PHE GLY GLN ARG LEU ASP LEU PRO ALA ILE ILE GLY MET SEQRES 8 B 137 MET LEU ILE CYS ALA GLY VAL LEU ILE ILE ASN LEU LEU SEQRES 9 B 137 SER ARG SER THR PRO HIS GLU PHE GLU ALA TYR VAL GLU SEQRES 10 B 137 GLN LYS LEU ILE SER GLU GLU ASP LEU ASN SER ALA VAL SEQRES 11 B 137 ASP HIS HIS HIS HIS HIS HIS HELIX 1 1 TYR A 4 MET A 21 1 18 HELIX 2 2 VAL A 34 ALA A 52 1 19 HELIX 3 3 ILE A 58 GLY A 80 1 23 HELIX 4 4 ALA A 87 LEU A 104 1 18 HELIX 5 5 TYR B 4 MET B 21 1 18 HELIX 6 6 VAL B 34 ALA B 52 1 19 HELIX 7 7 ILE B 58 GLY B 80 1 23 HELIX 8 8 ALA B 87 LEU B 104 1 18 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000