HEADER ANTIBIOTIC 22-APR-18 6GD5 TITLE THE SOLUTION STRUCTURE OF THE LPTA-THANATIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: LIPOPOLYSACCHARIDE EXPORT SYSTEM PROTEIN LPTA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: THE SEQUENCE DOES NOT CONTAIN THE SIGNALING SEQUENCE COMPND 6 (RESIDUES 1-27 FROM UNIPROT ENTRY P0ADV1). THE FIRST RESIDUE IS COMPND 7 NUMBERED 28. THE EXPRESSED CONSTRUCT IS 28-159 FOLLOWED BY THE LINKER COMPND 8 SGRVE AND A HEXA-HIS TAG. DEPOSITED ARE COORDINATES FOR THE STRUCURED COMPND 9 PART CONTAING RESIDUES 28-144.; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: THANATIN; COMPND 12 CHAIN: B; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: DISULFIDE BOND FORMED . IN THE PDB FILE THE FIRST COMPND 15 RESIDUE OF THANATIN IS NUMBERED 201. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 ATCC: 25922; SOURCE 5 GENE: LPTA, YHBN, B3200, JW3167; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: PODISUS MACULIVENTRIS; SOURCE 10 ORGANISM_COMMON: SPINED SOLDIER BUG; SOURCE 11 ORGANISM_TAXID: 29025; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 13 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS LPS BIOSYNTHESIS INHIBITOR COMPLEX NMR, ANTIBIOTIC EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.MOEHLE,O.ZERBE REVDAT 2 08-MAY-19 6GD5 1 REMARK REVDAT 1 28-NOV-18 6GD5 0 JRNL AUTH S.U.VETTERLI,K.ZERBE,M.MULLER,M.URFER,M.MONDAL,S.Y.WANG, JRNL AUTH 2 K.MOEHLE,O.ZERBE,A.VITALE,G.PESSI,L.EBERL,B.WOLLSCHEID, JRNL AUTH 3 J.A.ROBINSON JRNL TITL THANATIN TARGETS THE INTERMEMBRANE PROTEIN COMPLEX REQUIRED JRNL TITL 2 FOR LIPOPOLYSACCHARIDE TRANSPORT INESCHERICHIA COLI. JRNL REF SCI ADV V. 4 U2634 2018 JRNL REFN ESSN 2375-2548 JRNL PMID 30443594 JRNL DOI 10.1126/SCIADV.AAU2634 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH REMARK 3 AUTHORS : SCHWIETERS, BRUENGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6GD5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-APR-18. REMARK 100 THE DEPOSITION ID IS D_1200009709. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 1.15 REMARK 210 PRESSURE : 1 BAR REMARK 210 SAMPLE CONTENTS : 150 MM SODIUM CHLORIDE, 20 MM REMARK 210 CHAPS, 50 MM SODIUM PHOSPHATE, REMARK 210 90% H2O/10% D2O; 150 MM SODIUM REMARK 210 CHLORIDE, 20 MM CHAPS, 50 MM REMARK 210 SODIUM PHOSPHATE, 90% H2O/10% REMARK 210 D2O; 150 MM SODIUM CHLORIDE, 20 REMARK 210 MM CHAPS, 50 MM SODIUM PHOSPHATE, REMARK 210 90% H2O/10% D2O; 150 MM SODIUM REMARK 210 CHLORIDE, 20 MM CHAPS, 50 MM REMARK 210 SODIUM PHOSPHATE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D HNCO; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HBHA(CO)NH; 3D REMARK 210 HCCH-TOCSY; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY ALIPHATIC; 3D 1H- REMARK 210 13C NOESY AROMATIC; 3D 13C,15N- REMARK 210 FILTERED, 15N EDITED NOESY; 13C, REMARK 210 15N FILTERED, 13C EDITED (ALIPH.) REMARK 210 NOESY; 13C,15N FILTERED, 13C REMARK 210 EDITED (ARO.) NOESY; HBCBCGCDHE; REMARK 210 HBCBCGCDCEHE; 13C,15N FILTERED, REMARK 210 13C EDITED (ALIPH) NOESY; 13C, REMARK 210 15N FILTERED, 13C EDITED (AROM.) REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE-NEO REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CARA 1.48, CYANA 3.98, CCPNMR REMARK 210 ANALYSIS REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL 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: 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 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 THR A 29 -65.18 70.96 REMARK 500 1 ASN A 57 96.82 65.59 REMARK 500 1 LYS A 83 82.45 -154.12 REMARK 500 1 GLU A 84 -93.27 -98.22 REMARK 500 1 VAL A 85 104.91 171.07 REMARK 500 1 PRO A 92 102.83 -46.96 REMARK 500 1 GLN A 131 -86.16 -79.68 REMARK 500 1 ASP A 133 -33.63 -132.15 REMARK 500 1 ASN A 135 -89.42 -168.91 REMARK 500 1 ASP A 139 -64.84 -147.78 REMARK 500 1 TYR A 143 -165.45 -102.73 REMARK 500 1 PRO B 207 98.10 -64.67 REMARK 500 2 THR A 29 70.28 48.99 REMARK 500 2 ASN A 57 90.12 56.02 REMARK 500 2 ASP A 70 -44.60 -142.76 REMARK 500 2 PRO A 92 105.52 -57.20 REMARK 500 2 ASN A 135 -128.57 -148.14 REMARK 500 2 ASP A 139 -55.56 -132.29 REMARK 500 3 ASN A 57 80.67 51.92 REMARK 500 3 GLN A 62 84.75 -156.42 REMARK 500 3 PRO A 77 -71.99 -74.36 REMARK 500 3 PRO A 92 99.96 -54.86 REMARK 500 3 GLN A 99 23.90 -72.07 REMARK 500 3 ALA A 117 -78.79 -91.36 REMARK 500 3 LYS A 118 41.02 172.00 REMARK 500 3 ASP A 119 -80.16 -74.24 REMARK 500 3 ASN A 126 71.54 57.56 REMARK 500 3 ASP A 133 35.23 -89.91 REMARK 500 3 SER A 134 176.58 75.54 REMARK 500 4 ASN A 57 90.40 57.26 REMARK 500 4 LYS A 83 -8.03 -143.52 REMARK 500 4 PRO A 92 106.18 -47.37 REMARK 500 4 ALA A 93 106.53 -55.04 REMARK 500 4 ASP A 100 -73.31 -82.18 REMARK 500 4 LYS A 140 83.34 -150.84 REMARK 500 5 ASP A 31 -79.88 -82.94 REMARK 500 5 ASN A 57 102.20 68.25 REMARK 500 5 LYS A 83 12.27 -140.82 REMARK 500 5 GLU A 84 108.70 -45.88 REMARK 500 5 PRO A 92 109.77 -59.10 REMARK 500 5 TYR A 114 109.25 -166.71 REMARK 500 5 LEU A 116 33.22 -81.54 REMARK 500 5 ALA A 117 -92.09 -160.51 REMARK 500 5 LYS A 118 87.61 -174.33 REMARK 500 5 ASP A 119 -87.40 -140.34 REMARK 500 5 GLN A 131 -169.89 -101.74 REMARK 500 5 ASP A 139 -41.16 -137.50 REMARK 500 5 PRO B 207 99.81 -60.68 REMARK 500 6 ASN A 57 88.44 56.79 REMARK 500 6 PRO A 92 106.04 -55.52 REMARK 500 REMARK 500 THIS ENTRY HAS 130 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34261 RELATED DB: BMRB REMARK 900 THE SOLUTION STRUCTURE OF THE LPTA-THANATIN COMPLEX DBREF 6GD5 A 28 144 UNP P0ADV1 LPTA_ECOLI 28 144 DBREF 6GD5 B 201 221 UNP P55788 THAN_PODMA 1 21 SEQRES 1 A 117 VAL THR GLY ASP THR ASP GLN PRO ILE HIS ILE GLU SER SEQRES 2 A 117 ASP GLN GLN SER LEU ASP MET GLN GLY ASN VAL VAL THR SEQRES 3 A 117 PHE THR GLY ASN VAL ILE VAL THR GLN GLY THR ILE LYS SEQRES 4 A 117 ILE ASN ALA ASP LYS VAL VAL VAL THR ARG PRO GLY GLY SEQRES 5 A 117 GLU GLN GLY LYS GLU VAL ILE ASP GLY TYR GLY LYS PRO SEQRES 6 A 117 ALA THR PHE TYR GLN MET GLN ASP ASN GLY LYS PRO VAL SEQRES 7 A 117 GLU GLY HIS ALA SER GLN MET HIS TYR GLU LEU ALA LYS SEQRES 8 A 117 ASP PHE VAL VAL LEU THR GLY ASN ALA TYR LEU GLN GLN SEQRES 9 A 117 VAL ASP SER ASN ILE LYS GLY ASP LYS ILE THR TYR LEU SEQRES 1 B 21 GLY SER LYS LYS PRO VAL PRO ILE ILE TYR CYS ASN ARG SEQRES 2 B 21 ARG THR GLY LYS CYS GLN ARG MET SHEET 1 AA1 7 GLN A 42 LEU A 45 0 SHEET 2 AA1 7 VAL A 51 GLN A 62 -1 O THR A 53 N SER A 44 SHEET 3 AA1 7 ILE A 65 THR A 75 -1 O VAL A 74 N VAL A 52 SHEET 4 AA1 7 ILE A 86 GLN A 97 -1 O ASP A 87 N VAL A 73 SHEET 5 AA1 7 GLU A 106 TYR A 114 -1 O MET A 112 N GLY A 88 SHEET 6 AA1 7 TYR A 128 GLN A 130 -1 O TYR A 128 N HIS A 108 SHEET 7 AA1 7 ASN A 135 LYS A 137 -1 O ILE A 136 N LEU A 129 SHEET 1 AA2 5 GLN A 42 LEU A 45 0 SHEET 2 AA2 5 VAL A 51 GLN A 62 -1 O THR A 53 N SER A 44 SHEET 3 AA2 5 HIS A 37 SER A 40 -1 N GLU A 39 O ILE A 59 SHEET 4 AA2 5 ILE B 209 ASN B 212 1 O CYS B 211 N ILE A 38 SHEET 5 AA2 5 LYS B 217 ARG B 220 -1 O GLN B 219 N TYR B 210 SSBOND 1 CYS B 211 CYS B 218 1555 1555 2.04 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