HEADER CELL CYCLE 26-MAY-20 6Z4W TITLE FTSE STRUCTURE FROM STREPTOCOCCUS PNEUMONIAE IN COMPLEX WITH ADP TITLE 2 (SPACE GROUP P 1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELL DIVISION ATP-BINDING PROTEIN FTSE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 1313; SOURCE 4 GENE: FTSE_1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CELL DIVISION, DIVISOME, FTSEX, ATP-BINDING PROTEIN, CELL CYCLE EXPDTA X-RAY DIFFRACTION AUTHOR M.ALCORLO,D.STRAUME,J.A.HERMOSO,L.S.HAVARSTEIN REVDAT 2 16-SEP-20 6Z4W 1 JRNL REVDAT 1 02-SEP-20 6Z4W 0 JRNL AUTH M.ALCORLO,D.STRAUME,J.LUTKENHAUS,L.S.HAVARSTEIN,J.A.HERMOSO JRNL TITL STRUCTURAL CHARACTERIZATION OF THE ESSENTIAL CELL DIVISION JRNL TITL 2 PROTEIN FTSE AND ITS INTERACTION WITH FTSX IN STREPTOCOCCUS JRNL TITL 3 PNEUMONIAE. JRNL REF MBIO V. 11 2020 JRNL REFN ESSN 2150-7511 JRNL PMID 32873757 JRNL DOI 10.1128/MBIO.01488-20 REMARK 2 REMARK 2 RESOLUTION. 1.36 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15.2_3472 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.36 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.20 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.970 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 37738 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 1916 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 39.2010 - 3.2772 0.99 2621 177 0.1491 0.1574 REMARK 3 2 3.2772 - 2.6014 0.98 2614 146 0.1692 0.1784 REMARK 3 3 2.6014 - 2.2726 0.98 2591 147 0.1808 0.1947 REMARK 3 4 2.2726 - 2.0648 0.97 2597 134 0.1693 0.2037 REMARK 3 5 2.0648 - 1.9168 0.97 2606 127 0.1701 0.2064 REMARK 3 6 1.9168 - 1.8038 0.97 2600 148 0.1786 0.2050 REMARK 3 7 1.8038 - 1.7135 0.96 2569 119 0.1857 0.2120 REMARK 3 8 1.7135 - 1.6389 0.95 2553 132 0.1811 0.2219 REMARK 3 9 1.6389 - 1.5758 0.95 2515 133 0.1886 0.2327 REMARK 3 10 1.5758 - 1.5214 0.95 2542 129 0.2062 0.2289 REMARK 3 11 1.5214 - 1.4738 0.94 2534 127 0.2214 0.2466 REMARK 3 12 1.4738 - 1.4317 0.94 2534 110 0.2375 0.2866 REMARK 3 13 1.4317 - 1.3940 0.94 2500 150 0.2477 0.2961 REMARK 3 14 1.3940 - 1.3600 0.92 2446 137 0.2649 0.3178 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.980 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.64 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6Z4W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1292108923. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97923 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37746 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.360 REMARK 200 RESOLUTION RANGE LOW (A) : 39.201 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 200 DATA REDUNDANCY : 8.600 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.36 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.38 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.93200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: AB INITIO PHASING REMARK 200 SOFTWARE USED: ARCIMBOLDO REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 32.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.15 M NAF AND 16% (W/V) PEG3350, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 REMARK 290 REMARK: 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O HOH A 426 O HOH A 583 1.96 REMARK 500 O HOH A 453 O HOH A 583 2.06 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 ASP A 89 46.64 -107.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 301 DBREF1 6Z4W A 1 230 UNP A0A064BZ20_STREE DBREF2 6Z4W A A0A064BZ20 1 230 SEQRES 1 A 230 MET SER ILE ILE GLU MET ARG ASP VAL VAL LYS LYS TYR SEQRES 2 A 230 ASP ASN GLY THR THR ALA LEU ARG GLY VAL SER VAL SER SEQRES 3 A 230 VAL GLN PRO GLY GLU PHE ALA TYR ILE VAL GLY PRO SER SEQRES 4 A 230 GLY ALA GLY LYS SER THR PHE ILE ARG SER LEU TYR ARG SEQRES 5 A 230 GLU VAL LYS ILE ASP LYS GLY SER LEU SER VAL ALA GLY SEQRES 6 A 230 PHE ASN LEU VAL LYS ILE LYS LYS LYS ASP VAL PRO LEU SEQRES 7 A 230 LEU ARG ARG SER VAL GLY VAL VAL PHE GLN ASP TYR LYS SEQRES 8 A 230 LEU LEU PRO LYS LYS THR VAL TYR GLU ASN ILE ALA TYR SEQRES 9 A 230 ALA MET GLU VAL ILE GLY GLU ASN ARG ARG ASN ILE LYS SEQRES 10 A 230 ARG ARG VAL MET GLU VAL LEU ASP LEU VAL GLY LEU LYS SEQRES 11 A 230 HIS LYS VAL ARG SER PHE PRO ASN GLU LEU SER GLY GLY SEQRES 12 A 230 GLU GLN GLN ARG ILE ALA ILE ALA ARG ALA ILE VAL ASN SEQRES 13 A 230 ASN PRO LYS VAL LEU ILE ALA ASP GLU PRO THR GLY ASN SEQRES 14 A 230 LEU ASP PRO ASP ASN SER TRP GLU ILE MET ASN LEU LEU SEQRES 15 A 230 GLU ARG ILE ASN LEU GLN GLY THR THR ILE LEU MET ALA SEQRES 16 A 230 THR HIS ASN SER GLN ILE VAL ASN THR LEU ARG HIS ARG SEQRES 17 A 230 VAL ILE ALA ILE GLU ASN GLY ARG VAL VAL ARG ASP GLU SEQRES 18 A 230 SER LYS GLY GLU TYR GLY TYR ASP ASP HET ADP A 301 39 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 HOH *298(H2 O) HELIX 1 AA1 GLY A 42 TYR A 51 1 10 HELIX 2 AA2 LYS A 72 LYS A 74 5 3 HELIX 3 AA3 ASP A 75 SER A 82 1 8 HELIX 4 AA4 THR A 97 VAL A 108 1 12 HELIX 5 AA5 ASN A 112 ARG A 114 5 3 HELIX 6 AA6 ASN A 115 GLY A 128 1 14 HELIX 7 AA7 LEU A 129 VAL A 133 5 5 HELIX 8 AA8 PHE A 136 LEU A 140 5 5 HELIX 9 AA9 SER A 141 VAL A 155 1 15 HELIX 10 AB1 ASP A 171 GLN A 188 1 18 HELIX 11 AB2 ASN A 198 LEU A 205 1 8 SHEET 1 AA1 4 THR A 18 VAL A 27 0 SHEET 2 AA1 4 ILE A 4 LYS A 12 -1 N MET A 6 O VAL A 25 SHEET 3 AA1 4 LYS A 58 VAL A 63 -1 O SER A 60 N ARG A 7 SHEET 4 AA1 4 PHE A 66 ASN A 67 -1 O PHE A 66 N VAL A 63 SHEET 1 AA2 6 VAL A 83 VAL A 86 0 SHEET 2 AA2 6 VAL A 160 ASP A 164 1 O ILE A 162 N GLY A 84 SHEET 3 AA2 6 THR A 191 ALA A 195 1 O THR A 191 N LEU A 161 SHEET 4 AA2 6 PHE A 32 VAL A 36 1 N ILE A 35 O MET A 194 SHEET 5 AA2 6 ARG A 208 GLU A 213 1 O ARG A 208 N TYR A 34 SHEET 6 AA2 6 ARG A 216 GLU A 221 -1 O ARG A 219 N ALA A 211 SITE 1 AC1 20 TYR A 13 THR A 17 ALA A 19 PRO A 38 SITE 2 AC1 20 GLY A 40 ALA A 41 GLY A 42 LYS A 43 SITE 3 AC1 20 SER A 44 THR A 45 ARG A 118 GLU A 122 SITE 4 AC1 20 HOH A 406 HOH A 411 HOH A 447 HOH A 500 SITE 5 AC1 20 HOH A 534 HOH A 549 HOH A 583 HOH A 602 CRYST1 33.387 36.711 41.106 105.27 95.69 99.69 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 0.029952 0.005116 0.004640 0.00000 SCALE2 0.000000 0.027634 0.008231 0.00000 SCALE3 0.000000 0.000000 0.025509 0.00000