HEADER MEMBRANE PROTEIN 08-FEB-26 23JL TITLE COMPLEX STRUCTURE OF A PERMEASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PTS SYSTEM MANNITOL-SPECIFIC EIICBA COMPONENT; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: EIICBA-MTL,EII-MTL; COMPND 5 EC: 2.7.1.197; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: MTLA, B3599, JW3573; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS COMPLEX, SMALL MOLECULE, PERMEASE, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR J.ZHANG,J.ZHANG REVDAT 1 04-NOV-26 23JL 0 JRNL AUTH J.ZHANG,J.ZHANG JRNL TITL COMPLEX STRUCTURE OF A PERMEASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.16 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, PHENIX, CRYOSPARC, CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 3.160 REMARK 3 NUMBER OF PARTICLES : 157184 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 23JL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 10-FEB-26. REMARK 100 THE DEPOSITION ID IS D_1300069943. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : A MEMBRANE PERMEASE REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 8.00 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : FEI FALCON IV (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 4000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 SER A 337 OG REMARK 470 LYS A 338 CG CD CE NZ REMARK 470 VAL A 339 CG1 CG2 REMARK 470 LYS A 340 CG CD CE NZ REMARK 470 GLU A 341 CG CD OE1 OE2 REMARK 470 GLU A 342 CG CD OE1 OE2 REMARK 470 ASP A 343 CG OD1 OD2 REMARK 470 SER B 337 OG REMARK 470 LYS B 338 CG CD CE NZ REMARK 470 VAL B 339 CG1 CG2 REMARK 470 LYS B 340 CG CD CE NZ REMARK 470 GLU B 341 CG CD OE1 OE2 REMARK 470 GLU B 342 CG CD OE1 OE2 REMARK 470 ASP B 343 CG OD1 OD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ILE A 197 -51.29 -124.09 REMARK 500 SER A 337 -121.63 41.70 REMARK 500 LYS A 338 -136.09 47.51 REMARK 500 ILE B 197 -51.33 -124.02 REMARK 500 LEU B 333 -54.53 -128.74 REMARK 500 SER B 337 -94.73 21.03 REMARK 500 LYS B 338 -127.17 29.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-69023 RELATED DB: EMDB REMARK 900 COMPLEX STRUCTURE OF A PERMEASE DBREF 23JL A 2 361 UNP P00550 PTM3C_ECOLI 2 361 DBREF 23JL B 2 361 UNP P00550 PTM3C_ECOLI 2 361 SEQRES 1 A 360 SER SER ASP ILE LYS ILE LYS VAL GLN SER PHE GLY ARG SEQRES 2 A 360 PHE LEU SER ASN MET VAL MET PRO ASN ILE GLY ALA PHE SEQRES 3 A 360 ILE ALA TRP GLY ILE ILE THR ALA LEU PHE ILE PRO THR SEQRES 4 A 360 GLY TRP LEU PRO ASN GLU THR LEU ALA LYS LEU VAL GLY SEQRES 5 A 360 PRO MET ILE THR TYR LEU LEU PRO LEU LEU ILE GLY TYR SEQRES 6 A 360 THR GLY GLY LYS LEU VAL GLY GLY GLU ARG GLY GLY VAL SEQRES 7 A 360 VAL GLY ALA ILE THR THR MET GLY VAL ILE VAL GLY ALA SEQRES 8 A 360 ASP MET PRO MET PHE LEU GLY SER MET ILE ALA GLY PRO SEQRES 9 A 360 LEU GLY GLY TRP CYS ILE LYS HIS PHE ASP ARG TRP VAL SEQRES 10 A 360 ASP GLY LYS ILE LYS SER GLY PHE GLU MET LEU VAL ASN SEQRES 11 A 360 ASN PHE SER ALA GLY ILE ILE GLY MET ILE LEU ALA ILE SEQRES 12 A 360 LEU ALA PHE LEU GLY ILE GLY PRO ILE VAL GLU ALA LEU SEQRES 13 A 360 SER LYS MET LEU ALA ALA GLY VAL ASN PHE MET VAL VAL SEQRES 14 A 360 HIS ASP MET LEU PRO LEU ALA SER ILE PHE VAL GLU PRO SEQRES 15 A 360 ALA LYS ILE LEU PHE LEU ASN ASN ALA ILE ASN HIS GLY SEQRES 16 A 360 ILE PHE SER PRO LEU GLY ILE GLN GLN SER HIS GLU LEU SEQRES 17 A 360 GLY LYS SER ILE PHE PHE LEU ILE GLU ALA ASN PRO GLY SEQRES 18 A 360 PRO GLY MET GLY VAL LEU LEU ALA TYR MET PHE PHE GLY SEQRES 19 A 360 ARG GLY SER ALA LYS GLN SER ALA GLY GLY ALA ALA ILE SEQRES 20 A 360 ILE HIS PHE LEU GLY GLY ILE HIS GLU ILE TYR PHE PRO SEQRES 21 A 360 TYR VAL LEU MET ASN PRO ARG LEU ILE LEU ALA VAL ILE SEQRES 22 A 360 LEU GLY GLY MET THR GLY VAL PHE THR LEU THR ILE LEU SEQRES 23 A 360 GLY GLY GLY LEU VAL SER PRO ALA SER PRO GLY SER ILE SEQRES 24 A 360 LEU ALA VAL LEU ALA MET THR PRO LYS GLY ALA TYR PHE SEQRES 25 A 360 ALA ASN ILE ALA GLY VAL CYS ALA ALA MET ALA VAL SER SEQRES 26 A 360 PHE VAL VAL SER ALA ILE LEU LEU LYS THR SER LYS VAL SEQRES 27 A 360 LYS GLU GLU ASP ASP ILE GLU ALA ALA THR ARG ARG MET SEQRES 28 A 360 GLN ASP MET LYS ALA GLU SER LYS GLY SEQRES 1 B 360 SER SER ASP ILE LYS ILE LYS VAL GLN SER PHE GLY ARG SEQRES 2 B 360 PHE LEU SER ASN MET VAL MET PRO ASN ILE GLY ALA PHE SEQRES 3 B 360 ILE ALA TRP GLY ILE ILE THR ALA LEU PHE ILE PRO THR SEQRES 4 B 360 GLY TRP LEU PRO ASN GLU THR LEU ALA LYS LEU VAL GLY SEQRES 5 B 360 PRO MET ILE THR TYR LEU LEU PRO LEU LEU ILE GLY TYR SEQRES 6 B 360 THR GLY GLY LYS LEU VAL GLY GLY GLU ARG GLY GLY VAL SEQRES 7 B 360 VAL GLY ALA ILE THR THR MET GLY VAL ILE VAL GLY ALA SEQRES 8 B 360 ASP MET PRO MET PHE LEU GLY SER MET ILE ALA GLY PRO SEQRES 9 B 360 LEU GLY GLY TRP CYS ILE LYS HIS PHE ASP ARG TRP VAL SEQRES 10 B 360 ASP GLY LYS ILE LYS SER GLY PHE GLU MET LEU VAL ASN SEQRES 11 B 360 ASN PHE SER ALA GLY ILE ILE GLY MET ILE LEU ALA ILE SEQRES 12 B 360 LEU ALA PHE LEU GLY ILE GLY PRO ILE VAL GLU ALA LEU SEQRES 13 B 360 SER LYS MET LEU ALA ALA GLY VAL ASN PHE MET VAL VAL SEQRES 14 B 360 HIS ASP MET LEU PRO LEU ALA SER ILE PHE VAL GLU PRO SEQRES 15 B 360 ALA LYS ILE LEU PHE LEU ASN ASN ALA ILE ASN HIS GLY SEQRES 16 B 360 ILE PHE SER PRO LEU GLY ILE GLN GLN SER HIS GLU LEU SEQRES 17 B 360 GLY LYS SER ILE PHE PHE LEU ILE GLU ALA ASN PRO GLY SEQRES 18 B 360 PRO GLY MET GLY VAL LEU LEU ALA TYR MET PHE PHE GLY SEQRES 19 B 360 ARG GLY SER ALA LYS GLN SER ALA GLY GLY ALA ALA ILE SEQRES 20 B 360 ILE HIS PHE LEU GLY GLY ILE HIS GLU ILE TYR PHE PRO SEQRES 21 B 360 TYR VAL LEU MET ASN PRO ARG LEU ILE LEU ALA VAL ILE SEQRES 22 B 360 LEU GLY GLY MET THR GLY VAL PHE THR LEU THR ILE LEU SEQRES 23 B 360 GLY GLY GLY LEU VAL SER PRO ALA SER PRO GLY SER ILE SEQRES 24 B 360 LEU ALA VAL LEU ALA MET THR PRO LYS GLY ALA TYR PHE SEQRES 25 B 360 ALA ASN ILE ALA GLY VAL CYS ALA ALA MET ALA VAL SER SEQRES 26 B 360 PHE VAL VAL SER ALA ILE LEU LEU LYS THR SER LYS VAL SEQRES 27 B 360 LYS GLU GLU ASP ASP ILE GLU ALA ALA THR ARG ARG MET SEQRES 28 B 360 GLN ASP MET LYS ALA GLU SER LYS GLY HET 44H A 401 16 HET 44H B 401 16 HETNAM 44H D-MANNITOL-1-PHOSPHATE HETSYN 44H 1-O-PHOSPHONO-D-MANNITOL FORMUL 3 44H 2(C6 H15 O9 P) HELIX 1 AA1 SER A 3 MET A 21 1 19 HELIX 2 AA2 ASN A 23 ILE A 38 1 16 HELIX 3 AA3 THR A 47 LYS A 50 5 4 HELIX 4 AA4 LEU A 51 GLY A 91 1 41 HELIX 5 AA5 PHE A 97 ASP A 119 1 23 HELIX 6 AA6 PHE A 126 GLY A 149 1 24 HELIX 7 AA7 GLY A 149 VAL A 170 1 22 HELIX 8 AA8 HIS A 171 ASP A 172 5 2 HELIX 9 AA9 MET A 173 LEU A 176 5 4 HELIX 10 AB1 ALA A 177 LEU A 187 1 11 HELIX 11 AB2 LEU A 189 LEU A 209 1 21 HELIX 12 AB3 PRO A 221 PHE A 234 1 14 HELIX 13 AB4 GLY A 237 GLY A 254 1 18 HELIX 14 AB5 TYR A 259 ASN A 266 1 8 HELIX 15 AB6 LEU A 269 GLY A 288 1 20 HELIX 16 AB7 SER A 299 MET A 306 1 8 HELIX 17 AB8 ALA A 311 LYS A 335 1 25 HELIX 18 AB9 ASP A 344 GLY A 361 1 18 HELIX 19 AC1 SER B 3 MET B 21 1 19 HELIX 20 AC2 ASN B 23 ILE B 38 1 16 HELIX 21 AC3 THR B 47 LYS B 50 5 4 HELIX 22 AC4 LEU B 51 GLY B 91 1 41 HELIX 23 AC5 PHE B 97 ASP B 119 1 23 HELIX 24 AC6 PHE B 126 GLY B 149 1 24 HELIX 25 AC7 GLY B 149 VAL B 170 1 22 HELIX 26 AC8 HIS B 171 ASP B 172 5 2 HELIX 27 AC9 MET B 173 LEU B 176 5 4 HELIX 28 AD1 ALA B 177 LEU B 187 1 11 HELIX 29 AD2 LEU B 189 LEU B 209 1 21 HELIX 30 AD3 PRO B 221 PHE B 234 1 14 HELIX 31 AD4 GLY B 237 GLY B 254 1 18 HELIX 32 AD5 TYR B 259 ASN B 266 1 8 HELIX 33 AD6 LEU B 269 GLY B 288 1 20 HELIX 34 AD7 SER B 299 MET B 306 1 8 HELIX 35 AD8 ALA B 311 LYS B 335 1 25 HELIX 36 AD9 ASP B 344 GLY B 361 1 18 CISPEP 1 SER A 296 PRO A 297 0 -1.71 CISPEP 2 SER B 296 PRO B 297 0 -1.71 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 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 CONECT 5275 5276 CONECT 5276 5275 5277 5278 5279 CONECT 5277 5276 CONECT 5278 5276 CONECT 5279 5276 5280 CONECT 5280 5279 5281 CONECT 5281 5280 5282 5283 CONECT 5282 5281 CONECT 5283 5281 5284 5285 CONECT 5284 5283 CONECT 5285 5283 5286 5287 CONECT 5286 5285 CONECT 5287 5285 5288 5290 CONECT 5288 5287 5289 CONECT 5289 5288 CONECT 5290 5287 CONECT 5291 5292 CONECT 5292 5291 5293 5294 5295 CONECT 5293 5292 CONECT 5294 5292 CONECT 5295 5292 5296 CONECT 5296 5295 5297 CONECT 5297 5296 5298 5299 CONECT 5298 5297 CONECT 5299 5297 5300 5301 CONECT 5300 5299 CONECT 5301 5299 5302 5303 CONECT 5302 5301 CONECT 5303 5301 5304 5306 CONECT 5304 5303 5305 CONECT 5305 5304 CONECT 5306 5303 MASTER 141 0 2 36 0 0 0 6 5304 2 32 56 END