HEADER MEMBRANE PROTEIN 30-OCT-24 9KAX TITLE THE OUTWARD-OPEN STRUCTURE OF BJSEMISWEET IN NATIVE CELLULAR MEMBRANES TITLE 2 DETERMINED BY IN SITU SOLID-STATE NMR COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUGAR TRANSPORTER SEMISWEET; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BRADYRHIZOBIUM DIAZOEFFICIENS USDA 110; SOURCE 3 ORGANISM_TAXID: 224911; SOURCE 4 STRAIN: BRADYRHIZOBIUM DIAZOEFFICIENS USDA 110 (STRAIN: USDA110; SOURCE 5 GENE: BSR6460; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VARIANT: ESCHERICHIA COLI KEYWDS MEMBRANE TRANSPORTER, SEMISWEET, OUTWARD-OPEN, IN SITU STRUCTURE;, KEYWDS 2 MEMBRANE PROTEIN EXPDTA SOLID-STATE NMR NUMMDL 10 AUTHOR H.XIE,J.YANG REVDAT 2 10-DEC-25 9KAX 1 JRNL REVDAT 1 10-SEP-25 9KAX 0 JRNL AUTH H.XIE,Y.GAN,W.ZHAO,M.DUAN,Y.SHEN,H.TAN,Y.ZHANG,Q.TONG, JRNL AUTH 2 Y.ZHAO,J.YANG JRNL TITL DYNAMIC STRUCTURES OF A MEMBRANE TRANSPORTER IN NATIVE JRNL TITL 2 CELLULAR MEMBRANES. JRNL REF SCI ADV V. 11 V4583 2025 JRNL REFN ESSN 2375-2548 JRNL PMID 41223279 JRNL DOI 10.1126/SCIADV.ADV4583 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: A TOTAL OF 1000 STRUCTURES WERE DE NOVO REMARK 3 GENERATED THROUGH MOLECULAR DYNAMICS SIMULATED ANNEALING IN REMARK 3 TORSION ANGLE SPACE WITH TWO CONSECUTIVE ANNEALING SCHEDULES, REMARK 3 FOLLOWED BY FINAL GRADIENT MINIMIZATION IN CARTESIAN SPACE. EACH REMARK 3 STRUCTURE WAS SUBJECT TO SPECIFIC CONSTRAINTS: 379*2 UNIQUE NON- REMARK 3 REDUNDANT 13C-13C DISTANCE CONSTRAINTS, 74*2 HYDROGEN BOND REMARK 3 CONSTRAINTS, AND 81*2 TALOS-N DERIVED TORSION ANGLE CONSTRAINED REMARK 3 CHAINS FOR COMFORMATION I, PER BJSEMISWEET DIMER STRUCTURE. REMARK 4 REMARK 4 9KAX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 04-NOV-24. REMARK 100 THE DEPOSITION ID IS D_1300053187. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 8.2 REMARK 210 IONIC STRENGTH : 1 REMARK 210 PRESSURE : 1 MBAR REMARK 210 SAMPLE CONTENTS : 60 % W/W [U-13C; U-15N] SUCROSE REMARK 210 TRANSPORT PROTEIN, REMARK 210 BRADYRHIZOBIUM JAPONICUM REMARK 210 SEMISWEET (BJSEMISWEET), H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D NCACX; 3D NCOCX; 3D CONCA; 2D REMARK 210 500MS CORD REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : BRUKER AVANCE III 800 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 217 REMARK 217 SOLID STATE NMR STUDY REMARK 217 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLID REMARK 217 STATE NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 217 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 217 THESE RECORDS ARE MEANINGLESS. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA 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 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 1 PRO A 3 48.13 -70.27 REMARK 500 1 TYR A 85 124.01 58.59 REMARK 500 1 PRO B 3 48.15 -70.24 REMARK 500 1 TYR B 85 123.95 58.58 REMARK 500 2 ASP A 2 67.02 -158.66 REMARK 500 2 PRO A 3 41.45 -79.75 REMARK 500 2 ASP B 2 67.09 -158.68 REMARK 500 2 PRO B 3 41.45 -79.74 REMARK 500 3 PRO A 3 79.68 -56.09 REMARK 500 3 PRO B 3 79.70 -56.08 REMARK 500 4 TYR A 85 -95.41 40.23 REMARK 500 4 TYR B 85 -95.42 40.19 REMARK 500 5 ASP A 2 75.43 -163.81 REMARK 500 5 PRO A 3 84.95 -49.61 REMARK 500 5 TYR A 85 153.96 57.18 REMARK 500 5 ASP B 2 75.45 -163.64 REMARK 500 5 PRO B 3 84.97 -49.72 REMARK 500 5 TYR B 85 154.03 57.16 REMARK 500 6 LYS A 82 -1.25 -58.01 REMARK 500 6 LYS B 82 -1.16 -58.04 REMARK 500 8 TYR A 85 10.82 49.97 REMARK 500 8 TYR B 85 10.80 49.95 REMARK 500 9 PRO A 3 86.44 -39.13 REMARK 500 9 PRO B 3 86.47 -39.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36702 RELATED DB: BMRB REMARK 900 THE OUTWARD-OPEN STRUCTURE OF BJSEMISWEET IN NATIVE CELLULAR REMARK 900 MEMBRANES DETERMINED BY IN SITU SOLID-STATE NMR DBREF 9KAX A 1 86 UNP Q89G85 SWEET_BRADU 1 86 DBREF 9KAX B 1 86 UNP Q89G85 SWEET_BRADU 1 86 SEQRES 1 A 86 MET ASP PRO PHE LEU ILE LYS LEU ILE GLY PHE ALA ALA SEQRES 2 A 86 ALA THR CYS THR THR VAL ALA TYR ALA PRO GLN PHE ILE SEQRES 3 A 86 LYS VAL LEU LYS THR ARG SER ALA ARG ASP ILE SER LEU SEQRES 4 A 86 GLY MET PHE LEU VAL MET VAL LEU GLY LEU ALA LEU TRP SEQRES 5 A 86 LEU ILE TYR GLY LEU LEU SER GLY ASP ALA PRO LEU ILE SEQRES 6 A 86 ALA SER ASN ALA VAL THR MET LEU LEU ALA GLY GLY ILE SEQRES 7 A 86 LEU VAL MET LYS LEU ARG TYR GLY SEQRES 1 B 86 MET ASP PRO PHE LEU ILE LYS LEU ILE GLY PHE ALA ALA SEQRES 2 B 86 ALA THR CYS THR THR VAL ALA TYR ALA PRO GLN PHE ILE SEQRES 3 B 86 LYS VAL LEU LYS THR ARG SER ALA ARG ASP ILE SER LEU SEQRES 4 B 86 GLY MET PHE LEU VAL MET VAL LEU GLY LEU ALA LEU TRP SEQRES 5 B 86 LEU ILE TYR GLY LEU LEU SER GLY ASP ALA PRO LEU ILE SEQRES 6 B 86 ALA SER ASN ALA VAL THR MET LEU LEU ALA GLY GLY ILE SEQRES 7 B 86 LEU VAL MET LYS LEU ARG TYR GLY HELIX 1 AA1 PRO A 3 ARG A 32 1 30 HELIX 2 AA2 SER A 38 GLY A 60 1 23 HELIX 3 AA3 ASP A 61 GLY A 76 1 16 HELIX 4 AA4 GLY A 77 LYS A 82 1 6 HELIX 5 AA5 PRO B 3 ARG B 32 1 30 HELIX 6 AA6 SER B 38 GLY B 60 1 23 HELIX 7 AA7 ASP B 61 GLY B 76 1 16 HELIX 8 AA8 GLY B 77 LYS B 82 1 6 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 MODEL 1 ENDMDL MODEL 2 ENDMDL MODEL 3 ENDMDL MODEL 4 ENDMDL MODEL 5 ENDMDL MODEL 6 ENDMDL MODEL 7 ENDMDL MODEL 8 ENDMDL MODEL 9 ENDMDL MODEL 10 ENDMDL MASTER 123 0 0 8 0 0 0 6 1288 2 0 14 END