HEADER CELL CYCLE 06-JAN-04 1S1J TITLE CRYSTAL STRUCTURE OF ZIPA IN COMPLEX WITH INDOLOQUINOLIZIN INHIBITOR 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELL DIVISION PROTEIN ZIPA; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: ZIPA, B2412; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CELL CYCLE EXPDTA X-RAY DIFFRACTION AUTHOR L.D.JENNING,K.W.FOREMAN,T.S.RUSH III,D.H.TSAO,L.MOSYAK,Y.LI, AUTHOR 2 M.N.SUKHDEO,W.DING,E.G.DUSHIN,C.H.KENNEY,S.L.MOGHAZEH,P.J.PETERSON, AUTHOR 3 A.V.RUZIN,M.TUCKMAN,A.G.SUTHERLAND REVDAT 3 14-FEB-24 1S1J 1 REMARK SEQADV REVDAT 2 24-FEB-09 1S1J 1 VERSN REVDAT 1 04-MAY-04 1S1J 0 JRNL AUTH L.D.JENNINGS,K.W.FOREMAN,T.S.RUSH III,D.H.TSAO,L.MOSYAK, JRNL AUTH 2 Y.LI,M.N.SUKHDEO,W.DING,E.G.DUSHIN,C.H.KENNY,S.L.MOGHAZEH, JRNL AUTH 3 P.J.PETERSEN,A.V.RUZIN,M.TUCKMAN,A.G.SUTHERLAND JRNL TITL DESIGN AND SYNTHESIS OF INDOLO[2,3-A]QUINOLIZIN-7-ONE JRNL TITL 2 INHIBITORS OF THE ZIPA-FTSZ INTERACTION JRNL REF BIOORG.MED.CHEM.LETT. V. 14 1427 2004 JRNL REFN ISSN 0960-894X JRNL PMID 15006376 JRNL DOI 10.1016/J.BMCL.2004.01.028 REMARK 2 REMARK 2 RESOLUTION. 2.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.93 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 244860.140 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 14687 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1023 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.18 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.31 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2096 REMARK 3 BIN R VALUE (WORKING SET) : 0.1720 REMARK 3 BIN FREE R VALUE : 0.2390 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 6.50 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 146 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2140 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 226 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.15000 REMARK 3 B22 (A**2) : -3.43000 REMARK 3 B33 (A**2) : 6.58000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.46000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.06 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.28 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.13 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.880 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.810 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.840 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.970 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.280 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 41.79 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : W33.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : W33.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1S1J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JAN-04. REMARK 100 THE DEPOSITION ID IS D_1000021249. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14841 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.170 REMARK 200 RESOLUTION RANGE LOW (A) : 99.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04000 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.17 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.12200 REMARK 200 FOR SHELL : 10.60 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10-15% PEG 6K, 0.1M MES, PH 6 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-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 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 19.73050 REMARK 290 SMTRY3 2 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: 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ASP A 2 REMARK 465 LYS A 3 REMARK 465 PRO A 4 REMARK 465 LYS A 5 REMARK 465 ARG A 6 REMARK 465 ASN A 143 REMARK 465 ALA A 144 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 LYS B 3 REMARK 465 PRO B 4 REMARK 465 LYS B 5 REMARK 465 ARG B 6 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 LEU A 49 45.12 -88.34 REMARK 500 SER A 50 143.71 -177.60 REMARK 500 PRO A 51 47.23 -77.02 REMARK 500 ASP A 52 11.61 -161.74 REMARK 500 LYS A 75 -97.02 -55.37 REMARK 500 PHE A 77 165.77 156.67 REMARK 500 SER A 90 -110.30 -132.83 REMARK 500 ASP A 141 -76.77 -70.89 REMARK 500 ASP B 41 136.41 -39.35 REMARK 500 PRO B 51 44.63 5.33 REMARK 500 MET B 74 77.51 -100.46 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 IQZ A 301 DBREF 1S1J A 1 144 UNP P77173 ZIPA_ECOLI 185 328 DBREF 1S1J B 1 144 UNP P77173 ZIPA_ECOLI 185 328 SEQADV 1S1J LEU A 97 UNP P77173 ASN 281 CONFLICT SEQADV 1S1J LEU B 97 UNP P77173 ASN 281 CONFLICT SEQRES 1 A 144 MET ASP LYS PRO LYS ARG LYS GLU ALA VAL ILE ILE MET SEQRES 2 A 144 ASN VAL ALA ALA HIS HIS GLY SER GLU LEU ASN GLY GLU SEQRES 3 A 144 LEU LEU LEU ASN SER ILE GLN GLN ALA GLY PHE ILE PHE SEQRES 4 A 144 GLY ASP MET ASN ILE TYR HIS ARG HIS LEU SER PRO ASP SEQRES 5 A 144 GLY SER GLY PRO ALA LEU PHE SER LEU ALA ASN MET VAL SEQRES 6 A 144 LYS PRO GLY THR PHE ASP PRO GLU MET LYS ASP PHE THR SEQRES 7 A 144 THR PRO GLY VAL THR ILE PHE MET GLN VAL PRO SER TYR SEQRES 8 A 144 GLY ASP GLU LEU GLN LEU PHE LYS LEU MET LEU GLN SER SEQRES 9 A 144 ALA GLN HIS ILE ALA ASP GLU VAL GLY GLY VAL VAL LEU SEQRES 10 A 144 ASP ASP GLN ARG ARG MET MET THR PRO GLN LYS LEU ARG SEQRES 11 A 144 GLU TYR GLN ASP ILE ILE ARG GLU VAL LYS ASP ALA ASN SEQRES 12 A 144 ALA SEQRES 1 B 144 MET ASP LYS PRO LYS ARG LYS GLU ALA VAL ILE ILE MET SEQRES 2 B 144 ASN VAL ALA ALA HIS HIS GLY SER GLU LEU ASN GLY GLU SEQRES 3 B 144 LEU LEU LEU ASN SER ILE GLN GLN ALA GLY PHE ILE PHE SEQRES 4 B 144 GLY ASP MET ASN ILE TYR HIS ARG HIS LEU SER PRO ASP SEQRES 5 B 144 GLY SER GLY PRO ALA LEU PHE SER LEU ALA ASN MET VAL SEQRES 6 B 144 LYS PRO GLY THR PHE ASP PRO GLU MET LYS ASP PHE THR SEQRES 7 B 144 THR PRO GLY VAL THR ILE PHE MET GLN VAL PRO SER TYR SEQRES 8 B 144 GLY ASP GLU LEU GLN LEU PHE LYS LEU MET LEU GLN SER SEQRES 9 B 144 ALA GLN HIS ILE ALA ASP GLU VAL GLY GLY VAL VAL LEU SEQRES 10 B 144 ASP ASP GLN ARG ARG MET MET THR PRO GLN LYS LEU ARG SEQRES 11 B 144 GLU TYR GLN ASP ILE ILE ARG GLU VAL LYS ASP ALA ASN SEQRES 12 B 144 ALA HET IQZ A 301 18 HETNAM IQZ (12BS)-1,2,3,4,12,12B-HEXAHYDROINDOLO[2,3-A]QUINOLIZIN- HETNAM 2 IQZ 7(6H)-ONE FORMUL 3 IQZ C15 H16 N2 O FORMUL 4 HOH *226(H2 O) HELIX 1 1 GLY A 25 ALA A 35 1 11 HELIX 2 2 ASP A 41 ASN A 43 5 3 HELIX 3 3 ASP A 93 GLY A 113 1 21 HELIX 4 4 THR A 125 ALA A 142 1 18 HELIX 5 5 GLY B 25 ALA B 35 1 11 HELIX 6 6 ASP B 41 ASN B 43 5 3 HELIX 7 7 ASP B 93 GLY B 113 1 21 HELIX 8 8 THR B 125 ASN B 143 1 19 SHEET 1 A 6 ILE A 38 GLY A 40 0 SHEET 2 A 6 ILE A 44 HIS A 48 -1 O HIS A 46 N ILE A 38 SHEET 3 A 6 ALA A 57 ASN A 63 -1 O LEU A 58 N ARG A 47 SHEET 4 A 6 GLY A 81 VAL A 88 -1 O THR A 83 N ALA A 62 SHEET 5 A 6 ALA A 9 ALA A 16 -1 N ILE A 11 O MET A 86 SHEET 6 A 6 VAL A 115 LEU A 117 -1 O LEU A 117 N ASN A 14 SHEET 1 B 2 LEU A 23 ASN A 24 0 SHEET 2 B 2 THR A 78 THR A 79 -1 O THR A 79 N LEU A 23 SHEET 1 C 6 ILE B 38 GLY B 40 0 SHEET 2 C 6 ILE B 44 HIS B 48 -1 O ILE B 44 N GLY B 40 SHEET 3 C 6 ALA B 57 ASN B 63 -1 O LEU B 58 N ARG B 47 SHEET 4 C 6 GLY B 81 VAL B 88 -1 O THR B 83 N ALA B 62 SHEET 5 C 6 ALA B 9 ALA B 16 -1 N ILE B 11 O MET B 86 SHEET 6 C 6 VAL B 115 ASP B 118 -1 O LEU B 117 N ASN B 14 SHEET 1 D 2 LEU B 23 ASN B 24 0 SHEET 2 D 2 THR B 78 THR B 79 -1 O THR B 79 N LEU B 23 CISPEP 1 LYS A 66 PRO A 67 0 0.38 CISPEP 2 VAL A 88 PRO A 89 0 0.09 CISPEP 3 LYS B 66 PRO B 67 0 -0.33 CISPEP 4 VAL B 88 PRO B 89 0 0.05 SITE 1 AC1 7 MET A 42 ILE A 44 ALA A 62 GLY A 68 SITE 2 AC1 7 PHE A 85 HOH A 384 HOH A 388 CRYST1 52.789 39.461 70.513 90.00 105.13 90.00 P 1 21 1 4 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 0.018943 0.000000 0.005122 0.00000 SCALE2 0.000000 0.025341 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014691 0.00000