HEADER TRANSPORT PROTEIN 22-DEC-23 8RJX TITLE SOLUTION STRUCTURE OF OSMOREGULATOR OSMY FROM E. COLI. COMPND MOL_ID: 1; COMPND 2 MOLECULE: OSMOTICALLY-INDUCIBLE PROTEIN Y; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: OSMY, B4376, JW4338; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OSMOREGULATORY PROTEIN BACTERIAL PROTEIN, TRANSPORT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.IYER,Y.LUO,U.B.A.LE PAIGE,H.VAN INGEN REVDAT 2 17-JUL-24 8RJX 1 JRNL REVDAT 1 03-JUL-24 8RJX 0 JRNL AUTH A.IYER,J.FRALLICCIARDI,U.B.A.LE PAIGE,S.NARASIMHAN,Y.LUO, JRNL AUTH 2 P.A.SIEIRO,L.SYGA,F.VAN DEN BREKEL,B.M.TRAN,R.TJIOE, JRNL AUTH 3 G.SCHUURMAN-WOLTERS,M.C.A.STUART,M.BALDUS,H.VAN INGEN, JRNL AUTH 4 B.POOLMAN JRNL TITL THE STRUCTURE AND FUNCTION OF THE BACTERIAL OSMOTICALLY JRNL TITL 2 INDUCIBLE PROTEIN Y. JRNL REF J.MOL.BIOL. V. 436 68668 2024 JRNL REFN ESSN 1089-8638 JRNL PMID 38908784 JRNL DOI 10.1016/J.JMB.2024.168668 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: EXPLICIT SOLVENT REMARK 4 REMARK 4 8RJX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-DEC-23. REMARK 100 THE DEPOSITION ID IS D_1292135325. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.73 MM [U-100% 13C; U-100% 15N] REMARK 210 OSMOTICALLY-INDUCIBLE PROTEIN Y REMARK 210 (OSMY), 50 MM NA KPI, 100 MM NA REMARK 210 NACL, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-13C NOESY ALIPHATIC; 3D 1H REMARK 210 -15N NOESY; 3D HNCA; 3D HNCACB; REMARK 210 3D CBCA(CO)NH REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III HD REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRFAM-SPARKY, CYANA REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A 174 REMARK 465 GLY A 175 REMARK 465 GLY A 176 REMARK 465 HIS A 177 REMARK 465 HIS A 178 REMARK 465 HIS A 179 REMARK 465 HIS A 180 REMARK 465 HIS A 181 REMARK 465 HIS A 182 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU A 73 HZ1 LYS A 76 1.50 REMARK 500 HZ2 LYS A 46 OD1 ASP A 49 1.53 REMARK 500 OE2 GLU A 154 HZ1 LYS A 158 1.53 REMARK 500 OD2 ASP A 121 H VAL A 124 1.54 REMARK 500 OD1 ASP A 27 HZ2 LYS A 57 1.59 REMARK 500 REMARK 500 REMARK: NULL 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 ALA A 4 -52.99 -127.94 REMARK 500 1 GLN A 5 -165.72 63.43 REMARK 500 1 SER A 17 74.21 -159.85 REMARK 500 1 MET A 26 80.57 -153.20 REMARK 500 1 ASP A 27 -69.25 -127.54 REMARK 500 1 GLU A 98 -162.38 -107.10 REMARK 500 1 VAL A 124 109.27 -58.62 REMARK 500 2 THR A 6 115.80 -162.38 REMARK 500 2 SER A 10 61.70 -100.02 REMARK 500 2 ASN A 20 -58.60 -165.35 REMARK 500 2 LYS A 21 81.84 56.32 REMARK 500 2 PHE A 25 -64.81 -148.77 REMARK 500 2 ASP A 27 -66.13 74.03 REMARK 500 2 ALA A 96 -72.06 -65.77 REMARK 500 2 LYS A 97 -81.09 62.60 REMARK 500 3 ASN A 2 -59.54 -127.60 REMARK 500 3 ASN A 3 -12.59 179.30 REMARK 500 3 THR A 6 94.09 68.44 REMARK 500 3 GLU A 9 -165.03 -110.00 REMARK 500 3 ASN A 24 -159.91 -145.82 REMARK 500 3 ASP A 27 -78.84 -95.47 REMARK 500 3 LYS A 97 79.54 -63.48 REMARK 500 3 LYS A 102 79.59 -158.99 REMARK 500 3 VAL A 124 109.21 -57.29 REMARK 500 4 THR A 6 -75.05 -127.33 REMARK 500 4 ASN A 8 11.05 -155.77 REMARK 500 4 GLN A 13 -161.63 -107.55 REMARK 500 4 SER A 17 -75.96 -119.38 REMARK 500 4 SER A 18 101.86 67.10 REMARK 500 4 ASN A 20 144.57 -170.50 REMARK 500 4 PHE A 25 -63.51 -152.38 REMARK 500 4 MET A 26 66.81 -160.27 REMARK 500 4 ASP A 27 -82.11 -90.42 REMARK 500 4 LYS A 97 46.37 -92.04 REMARK 500 4 SER A 100 -66.10 -130.81 REMARK 500 4 VAL A 101 100.01 66.69 REMARK 500 4 ALA A 105 -87.14 -141.11 REMARK 500 4 VAL A 124 109.96 -57.51 REMARK 500 5 SER A 10 113.68 -161.27 REMARK 500 5 ALA A 11 -96.24 -163.33 REMARK 500 5 PHE A 25 -65.17 -163.07 REMARK 500 5 ASP A 27 -59.39 73.80 REMARK 500 5 GLU A 98 -70.00 -99.22 REMARK 500 5 ASP A 107 49.38 -80.72 REMARK 500 6 LYS A 21 -45.47 -179.52 REMARK 500 6 PHE A 25 49.84 -85.53 REMARK 500 6 MET A 26 109.56 -164.38 REMARK 500 6 GLU A 98 -159.17 58.10 REMARK 500 6 ALA A 105 -76.68 -72.24 REMARK 500 6 VAL A 124 109.65 -55.35 REMARK 500 REMARK 500 THIS ENTRY HAS 177 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34889 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF OSMOREGULATOR OSMY FROM E. COLI. DBREF 8RJX A 1 173 UNP P0AFH8 OSMY_ECOLI 29 201 SEQADV 8RJX GLY A 174 UNP P0AFH8 EXPRESSION TAG SEQADV 8RJX GLY A 175 UNP P0AFH8 EXPRESSION TAG SEQADV 8RJX GLY A 176 UNP P0AFH8 EXPRESSION TAG SEQADV 8RJX HIS A 177 UNP P0AFH8 EXPRESSION TAG SEQADV 8RJX HIS A 178 UNP P0AFH8 EXPRESSION TAG SEQADV 8RJX HIS A 179 UNP P0AFH8 EXPRESSION TAG SEQADV 8RJX HIS A 180 UNP P0AFH8 EXPRESSION TAG SEQADV 8RJX HIS A 181 UNP P0AFH8 EXPRESSION TAG SEQADV 8RJX HIS A 182 UNP P0AFH8 EXPRESSION TAG SEQRES 1 A 182 GLU ASN ASN ALA GLN THR THR ASN GLU SER ALA GLY GLN SEQRES 2 A 182 LYS VAL ASP SER SER MET ASN LYS VAL GLY ASN PHE MET SEQRES 3 A 182 ASP ASP SER ALA ILE THR ALA LYS VAL LYS ALA ALA LEU SEQRES 4 A 182 VAL ASP HIS ASP ASN ILE LYS SER THR ASP ILE SER VAL SEQRES 5 A 182 LYS THR ASP GLN LYS VAL VAL THR LEU SER GLY PHE VAL SEQRES 6 A 182 GLU SER GLN ALA GLN ALA GLU GLU ALA VAL LYS VAL ALA SEQRES 7 A 182 LYS GLY VAL GLU GLY VAL THR SER VAL SER ASP LYS LEU SEQRES 8 A 182 HIS VAL ARG ASP ALA LYS GLU GLY SER VAL LYS GLY TYR SEQRES 9 A 182 ALA GLY ASP THR ALA THR THR SER GLU ILE LYS ALA LYS SEQRES 10 A 182 LEU LEU ALA ASP ASP ILE VAL PRO SER ARG HIS VAL LYS SEQRES 11 A 182 VAL GLU THR THR ASP GLY VAL VAL GLN LEU SER GLY THR SEQRES 12 A 182 VAL ASP SER GLN ALA GLN SER ASP ARG ALA GLU SER ILE SEQRES 13 A 182 ALA LYS ALA VAL ASP GLY VAL LYS SER VAL LYS ASN ASP SEQRES 14 A 182 LEU LYS THR LYS GLY GLY GLY HIS HIS HIS HIS HIS HIS HELIX 1 AA1 ASP A 28 HIS A 42 1 15 HELIX 2 AA2 LYS A 46 THR A 48 5 3 HELIX 3 AA3 SER A 67 LYS A 79 1 13 HELIX 4 AA4 ASP A 107 LEU A 119 1 13 HELIX 5 AA5 SER A 146 VAL A 160 1 15 SHEET 1 AA1 3 ILE A 50 ASP A 55 0 SHEET 2 AA1 3 VAL A 58 VAL A 65 -1 O THR A 60 N LYS A 53 SHEET 3 AA1 3 SER A 86 VAL A 93 1 O LYS A 90 N LEU A 61 SHEET 1 AA2 3 LYS A 130 THR A 134 0 SHEET 2 AA2 3 VAL A 137 SER A 141 -1 O GLN A 139 N GLU A 132 SHEET 3 AA2 3 SER A 165 ASN A 168 1 O LYS A 167 N VAL A 138 SHEET 1 AA3 2 THR A 143 VAL A 144 0 SHEET 2 AA3 2 LYS A 171 THR A 172 1 O LYS A 171 N VAL A 144 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