HEADER TRANSPORT PROTEIN 29-FEB-12 4AKY TITLE CRYSTAL STRUCTURE OF VIRB8 FROM BRUCELLA SUIS IN COMPLEX WITH TITLE 2 INTERACTION INHIBITOR 2-(BUTYLAMINO)-8-QUINOLINOL COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYPE IV SECRETION SYSTEM PROTEIN VIRB8; COMPND 3 CHAIN: A, B, C, D, E; COMPND 4 FRAGMENT: 97-234; COMPND 5 SYNONYM: VIRB8; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BRUCELLA SUIS; SOURCE 3 ORGANISM_TAXID: 29461; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VARIANT: STAR; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET24D KEYWDS TRANSPORT PROTEIN, BACTERIAL TYPE IV SECRETION EXPDTA X-RAY DIFFRACTION AUTHOR M.COINCON,M.A.SMITH,J.SYGUSCH,C.BARON REVDAT 2 20-DEC-23 4AKY 1 REMARK REVDAT 1 05-SEP-12 4AKY 0 JRNL AUTH M.A.SMITH,M.COINCON,A.PASCHOS,B.JOLICOEUR,P.LAVALLEE, JRNL AUTH 2 J.SYGUSCH,C.BARON JRNL TITL IDENTIFICATION OF THE BINDING SITE OF BRUCELLA VIRB8 JRNL TITL 2 INTERACTION INHIBITORS. JRNL REF CHEM.BIOL. V. 19 1041 2012 JRNL REFN ISSN 1074-5521 JRNL PMID 22921071 JRNL DOI 10.1016/J.CHEMBIOL.2012.07.007 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.57 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.410 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 31867 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.500 REMARK 3 FREE R VALUE TEST SET COUNT : 2717 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 48.5734 - 6.9317 1.00 3055 146 0.2574 0.2818 REMARK 3 2 6.9317 - 5.5043 1.00 3041 141 0.2406 0.2597 REMARK 3 3 5.5043 - 4.8093 1.00 3068 144 0.1757 0.2084 REMARK 3 4 4.8093 - 4.3699 1.00 3018 149 0.1340 0.1708 REMARK 3 5 4.3699 - 4.0568 1.00 3055 143 0.1388 0.1598 REMARK 3 6 4.0568 - 3.8177 1.00 3027 141 0.1606 0.1977 REMARK 3 7 3.8177 - 3.6266 1.00 3057 142 0.1591 0.2437 REMARK 3 8 3.6266 - 3.4688 1.00 3056 145 0.1570 0.2203 REMARK 3 9 3.4688 - 3.3353 1.00 3037 140 0.1626 0.1801 REMARK 3 10 3.3353 - 3.2202 1.00 3043 146 0.1643 0.1853 REMARK 3 11 3.2202 - 3.1195 1.00 3013 142 0.1775 0.2550 REMARK 3 12 3.1195 - 3.0304 1.00 3054 139 0.1961 0.2548 REMARK 3 13 3.0304 - 2.9506 1.00 3074 145 0.2166 0.2580 REMARK 3 14 2.9506 - 2.8786 1.00 3021 146 0.2229 0.3390 REMARK 3 15 2.8786 - 2.8132 1.00 3062 143 0.2379 0.3030 REMARK 3 16 2.8132 - 2.7533 1.00 3045 141 0.2285 0.3059 REMARK 3 17 2.7533 - 2.6983 1.00 3056 141 0.2459 0.2736 REMARK 3 18 2.6983 - 2.6474 1.00 3019 140 0.2574 0.3423 REMARK 3 19 2.6474 - 2.6001 1.00 3071 143 0.2634 0.3144 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 : 0.39 REMARK 3 B_SOL : 90.60 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.440 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.080 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 53.87 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.94560 REMARK 3 B22 (A**2) : 4.94560 REMARK 3 B33 (A**2) : -9.89110 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.009 5534 REMARK 3 ANGLE : 0.733 7514 REMARK 3 CHIRALITY : 0.047 815 REMARK 3 PLANARITY : 0.003 945 REMARK 3 DIHEDRAL : 13.272 1929 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 4AKY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1290051501. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0800 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31872 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 48.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.60 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.67 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 1.22000 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2BHM REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.8 M K2HPO4, 0.04 M NA2HPO4 AND 1% REMARK 280 DMSO, PH 7.6 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 99.22000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 99.22000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.61000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 99.22000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 25.80500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 99.22000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 77.41500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 99.22000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 77.41500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 99.22000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 25.80500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 99.22000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 99.22000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.61000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 99.22000 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 99.22000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 51.61000 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 99.22000 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 77.41500 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 99.22000 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 25.80500 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 99.22000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 25.80500 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 99.22000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 77.41500 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 99.22000 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 99.22000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 51.61000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 350 REMARK 350 BIOMOLECULE: 3 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: C 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 350 REMARK 350 BIOMOLECULE: 4 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: D 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 350 REMARK 350 BIOMOLECULE: 5 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: E 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B2005 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2014 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2042 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2081 LIES ON A SPECIAL POSITION. 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 ASN A 188 REMARK 465 GLU A 189 REMARK 465 THR A 190 REMARK 465 GLY A 191 REMARK 465 ASN B 188 REMARK 465 GLU B 189 REMARK 465 THR B 190 REMARK 465 GLY B 191 REMARK 465 ASN C 188 REMARK 465 GLU C 189 REMARK 465 THR C 190 REMARK 465 GLY C 191 REMARK 465 ASN D 188 REMARK 465 GLU D 189 REMARK 465 THR D 190 REMARK 465 GLY D 191 REMARK 465 ASN E 188 REMARK 465 GLU E 189 REMARK 465 THR E 190 REMARK 465 GLY E 191 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 SER A 97 OG 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 2059 O HOH A 2060 1.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH C 2048 O HOH C 2048 6546 1.71 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 ASN A 171 15.46 -69.95 REMARK 500 ASN C 208 109.53 -46.17 REMARK 500 TYR E 229 106.87 -161.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2052 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH A2062 DISTANCE = 6.60 ANGSTROMS REMARK 525 HOH A2073 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH B2042 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH B2045 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH E2024 DISTANCE = 7.15 ANGSTROMS REMARK 525 HOH E2030 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH E2060 DISTANCE = 6.58 ANGSTROMS REMARK 525 HOH E2061 DISTANCE = 6.60 ANGSTROMS REMARK 525 HOH E2063 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH E2064 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH E2065 DISTANCE = 9.11 ANGSTROMS REMARK 525 HOH E2066 DISTANCE = 8.28 ANGSTROMS REMARK 525 HOH E2067 DISTANCE = 9.32 ANGSTROMS REMARK 525 HOH E2068 DISTANCE = 6.85 ANGSTROMS REMARK 525 HOH E2069 DISTANCE = 7.29 ANGSTROMS REMARK 525 HOH E2071 DISTANCE = 7.82 ANGSTROMS REMARK 525 HOH E2072 DISTANCE = 6.24 ANGSTROMS REMARK 525 HOH E2073 DISTANCE = 7.96 ANGSTROMS REMARK 525 HOH E2074 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH E2075 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH E2076 DISTANCE = 7.68 ANGSTROMS REMARK 525 HOH E2077 DISTANCE = 6.73 ANGSTROMS REMARK 525 HOH E2078 DISTANCE = 7.76 ANGSTROMS REMARK 525 HOH E2079 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH E2080 DISTANCE = 8.68 ANGSTROMS REMARK 525 HOH E2081 DISTANCE = 7.64 ANGSTROMS REMARK 525 HOH E2082 DISTANCE = 7.66 ANGSTROMS REMARK 525 HOH E2084 DISTANCE = 6.41 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4LL A 1235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4LL B 1235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4LL C 1235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4LL D 1235 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4LL E 1235 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BHM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VIRB8 FROM BRUCELLA SUIS REMARK 900 RELATED ID: 4AKZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF VIRB8 FROM BRUCELLA SUIS DBREF 4AKY A 97 234 UNP Q7CEG3 VIRB8_BRUSU 97 234 DBREF 4AKY B 97 234 UNP Q7CEG3 VIRB8_BRUSU 97 234 DBREF 4AKY C 97 234 UNP Q7CEG3 VIRB8_BRUSU 97 234 DBREF 4AKY D 97 234 UNP Q7CEG3 VIRB8_BRUSU 97 234 DBREF 4AKY E 97 234 UNP Q7CEG3 VIRB8_BRUSU 97 234 SEQRES 1 A 138 SER TYR ASP THR VAL MET ASP LYS TYR TRP LEU SER GLN SEQRES 2 A 138 TYR VAL ILE ALA ARG GLU THR TYR ASP TRP TYR THR LEU SEQRES 3 A 138 GLN LYS ASP TYR GLU THR VAL GLY MET LEU SER SER PRO SEQRES 4 A 138 SER GLU GLY GLN SER TYR ALA SER GLN PHE GLN GLY ASP SEQRES 5 A 138 LYS ALA LEU ASP LYS GLN TYR GLY SER ASN VAL ARG THR SEQRES 6 A 138 SER VAL THR ILE VAL SER ILE VAL PRO ASN GLY LYS GLY SEQRES 7 A 138 ILE GLY THR VAL ARG PHE ALA LYS THR THR LYS ARG THR SEQRES 8 A 138 ASN GLU THR GLY ASP GLY GLU THR THR HIS TRP ILE ALA SEQRES 9 A 138 THR ILE GLY TYR GLN TYR VAL ASN PRO SER LEU MET SER SEQRES 10 A 138 GLU SER ALA ARG LEU THR ASN PRO LEU GLY PHE ASN VAL SEQRES 11 A 138 THR SER TYR ARG VAL ASP PRO GLU SEQRES 1 B 138 SER TYR ASP THR VAL MET ASP LYS TYR TRP LEU SER GLN SEQRES 2 B 138 TYR VAL ILE ALA ARG GLU THR TYR ASP TRP TYR THR LEU SEQRES 3 B 138 GLN LYS ASP TYR GLU THR VAL GLY MET LEU SER SER PRO SEQRES 4 B 138 SER GLU GLY GLN SER TYR ALA SER GLN PHE GLN GLY ASP SEQRES 5 B 138 LYS ALA LEU ASP LYS GLN TYR GLY SER ASN VAL ARG THR SEQRES 6 B 138 SER VAL THR ILE VAL SER ILE VAL PRO ASN GLY LYS GLY SEQRES 7 B 138 ILE GLY THR VAL ARG PHE ALA LYS THR THR LYS ARG THR SEQRES 8 B 138 ASN GLU THR GLY ASP GLY GLU THR THR HIS TRP ILE ALA SEQRES 9 B 138 THR ILE GLY TYR GLN TYR VAL ASN PRO SER LEU MET SER SEQRES 10 B 138 GLU SER ALA ARG LEU THR ASN PRO LEU GLY PHE ASN VAL SEQRES 11 B 138 THR SER TYR ARG VAL ASP PRO GLU SEQRES 1 C 138 SER TYR ASP THR VAL MET ASP LYS TYR TRP LEU SER GLN SEQRES 2 C 138 TYR VAL ILE ALA ARG GLU THR TYR ASP TRP TYR THR LEU SEQRES 3 C 138 GLN LYS ASP TYR GLU THR VAL GLY MET LEU SER SER PRO SEQRES 4 C 138 SER GLU GLY GLN SER TYR ALA SER GLN PHE GLN GLY ASP SEQRES 5 C 138 LYS ALA LEU ASP LYS GLN TYR GLY SER ASN VAL ARG THR SEQRES 6 C 138 SER VAL THR ILE VAL SER ILE VAL PRO ASN GLY LYS GLY SEQRES 7 C 138 ILE GLY THR VAL ARG PHE ALA LYS THR THR LYS ARG THR SEQRES 8 C 138 ASN GLU THR GLY ASP GLY GLU THR THR HIS TRP ILE ALA SEQRES 9 C 138 THR ILE GLY TYR GLN TYR VAL ASN PRO SER LEU MET SER SEQRES 10 C 138 GLU SER ALA ARG LEU THR ASN PRO LEU GLY PHE ASN VAL SEQRES 11 C 138 THR SER TYR ARG VAL ASP PRO GLU SEQRES 1 D 138 SER TYR ASP THR VAL MET ASP LYS TYR TRP LEU SER GLN SEQRES 2 D 138 TYR VAL ILE ALA ARG GLU THR TYR ASP TRP TYR THR LEU SEQRES 3 D 138 GLN LYS ASP TYR GLU THR VAL GLY MET LEU SER SER PRO SEQRES 4 D 138 SER GLU GLY GLN SER TYR ALA SER GLN PHE GLN GLY ASP SEQRES 5 D 138 LYS ALA LEU ASP LYS GLN TYR GLY SER ASN VAL ARG THR SEQRES 6 D 138 SER VAL THR ILE VAL SER ILE VAL PRO ASN GLY LYS GLY SEQRES 7 D 138 ILE GLY THR VAL ARG PHE ALA LYS THR THR LYS ARG THR SEQRES 8 D 138 ASN GLU THR GLY ASP GLY GLU THR THR HIS TRP ILE ALA SEQRES 9 D 138 THR ILE GLY TYR GLN TYR VAL ASN PRO SER LEU MET SER SEQRES 10 D 138 GLU SER ALA ARG LEU THR ASN PRO LEU GLY PHE ASN VAL SEQRES 11 D 138 THR SER TYR ARG VAL ASP PRO GLU SEQRES 1 E 138 SER TYR ASP THR VAL MET ASP LYS TYR TRP LEU SER GLN SEQRES 2 E 138 TYR VAL ILE ALA ARG GLU THR TYR ASP TRP TYR THR LEU SEQRES 3 E 138 GLN LYS ASP TYR GLU THR VAL GLY MET LEU SER SER PRO SEQRES 4 E 138 SER GLU GLY GLN SER TYR ALA SER GLN PHE GLN GLY ASP SEQRES 5 E 138 LYS ALA LEU ASP LYS GLN TYR GLY SER ASN VAL ARG THR SEQRES 6 E 138 SER VAL THR ILE VAL SER ILE VAL PRO ASN GLY LYS GLY SEQRES 7 E 138 ILE GLY THR VAL ARG PHE ALA LYS THR THR LYS ARG THR SEQRES 8 E 138 ASN GLU THR GLY ASP GLY GLU THR THR HIS TRP ILE ALA SEQRES 9 E 138 THR ILE GLY TYR GLN TYR VAL ASN PRO SER LEU MET SER SEQRES 10 E 138 GLU SER ALA ARG LEU THR ASN PRO LEU GLY PHE ASN VAL SEQRES 11 E 138 THR SER TYR ARG VAL ASP PRO GLU HET 4LL A1235 16 HET 4LL B1235 16 HET 4LL C1235 16 HET 4LL D1235 16 HET 4LL E1235 16 HETNAM 4LL 2-(BUTYLAMINO)QUINOLIN-8-OL FORMUL 6 4LL 5(C13 H16 N2 O) FORMUL 11 HOH *480(H2 O) HELIX 1 1 SER A 97 THR A 116 1 20 HELIX 2 2 THR A 121 SER A 133 1 13 HELIX 3 3 SER A 134 SER A 143 1 10 HELIX 4 4 GLN A 144 GLN A 146 5 3 HELIX 5 5 ALA A 150 GLY A 156 1 7 HELIX 6 6 ASN A 208 MET A 212 5 5 HELIX 7 7 SER A 213 ASN A 220 1 8 HELIX 8 8 SER B 97 THR B 116 1 20 HELIX 9 9 ASP B 118 TYR B 120 5 3 HELIX 10 10 THR B 121 SER B 133 1 13 HELIX 11 11 SER B 134 SER B 143 1 10 HELIX 12 12 GLN B 144 GLN B 146 5 3 HELIX 13 13 ALA B 150 GLY B 156 1 7 HELIX 14 14 ASN B 208 MET B 212 5 5 HELIX 15 15 SER B 213 ASN B 220 1 8 HELIX 16 16 SER C 97 THR C 116 1 20 HELIX 17 17 THR C 121 SER C 133 1 13 HELIX 18 18 SER C 134 GLN C 144 1 11 HELIX 19 19 ALA C 150 GLY C 156 1 7 HELIX 20 20 ASN C 208 MET C 212 5 5 HELIX 21 21 SER C 213 LEU C 218 1 6 HELIX 22 22 SER D 97 THR D 116 1 20 HELIX 23 23 ASP D 118 TYR D 120 5 3 HELIX 24 24 THR D 121 SER D 133 1 13 HELIX 25 25 SER D 134 SER D 143 1 10 HELIX 26 26 GLN D 144 GLN D 146 5 3 HELIX 27 27 ALA D 150 TYR D 155 1 6 HELIX 28 28 ASN D 208 MET D 212 5 5 HELIX 29 29 SER E 97 THR E 116 1 20 HELIX 30 30 ASP E 118 TYR E 120 5 3 HELIX 31 31 THR E 121 SER E 133 1 13 HELIX 32 32 SER E 134 SER E 143 1 10 HELIX 33 33 GLN E 144 GLN E 146 5 3 HELIX 34 34 ALA E 150 TYR E 155 1 6 HELIX 35 35 ASN E 208 MET E 212 5 5 HELIX 36 36 SER E 213 LEU E 218 1 6 SHEET 1 AA 5 TYR A 117 ASP A 118 0 SHEET 2 AA 5 VAL A 159 PRO A 170 -1 O THR A 161 N TYR A 117 SHEET 3 AA 5 ILE A 175 ARG A 186 -1 O THR A 177 N VAL A 169 SHEET 4 AA 5 GLU A 194 TYR A 206 -1 O GLU A 194 N THR A 184 SHEET 5 AA 5 PHE A 224 PRO A 233 -1 O ASN A 225 N GLN A 205 SHEET 1 BA 4 VAL B 159 PRO B 170 0 SHEET 2 BA 4 ILE B 175 ARG B 186 -1 O THR B 177 N VAL B 169 SHEET 3 BA 4 GLU B 194 TYR B 206 -1 O GLU B 194 N THR B 184 SHEET 4 BA 4 PHE B 224 PRO B 233 -1 O ASN B 225 N GLN B 205 SHEET 1 CA 4 VAL C 159 PRO C 170 0 SHEET 2 CA 4 ILE C 175 ARG C 186 -1 O THR C 177 N VAL C 169 SHEET 3 CA 4 GLU C 194 TYR C 206 -1 O GLU C 194 N THR C 184 SHEET 4 CA 4 PHE C 224 PRO C 233 -1 O ASN C 225 N GLN C 205 SHEET 1 DA 4 VAL D 159 PRO D 170 0 SHEET 2 DA 4 ILE D 175 ARG D 186 -1 O THR D 177 N VAL D 169 SHEET 3 DA 4 GLU D 194 TYR D 206 -1 O GLU D 194 N THR D 184 SHEET 4 DA 4 PHE D 224 PRO D 233 -1 O ASN D 225 N GLN D 205 SHEET 1 EA 4 VAL E 159 PRO E 170 0 SHEET 2 EA 4 ILE E 175 ARG E 186 -1 O THR E 177 N VAL E 169 SHEET 3 EA 4 GLU E 194 TYR E 206 -1 O GLU E 194 N THR E 184 SHEET 4 EA 4 PHE E 224 PRO E 233 -1 O ASN E 225 N GLN E 205 SITE 1 AC1 17 ARG A 114 GLU A 115 THR A 116 TYR A 117 SITE 2 AC1 17 GLN A 144 LYS A 182 TRP A 198 VAL A 231 SITE 3 AC1 17 HOH A2012 HOH A2013 HOH A2016 HOH A2017 SITE 4 AC1 17 HOH A2040 HOH A2074 HOH A2090 HOH A2125 SITE 5 AC1 17 ARG B 230 SITE 1 AC2 16 ARG B 114 GLU B 115 THR B 116 TYR B 117 SITE 2 AC2 16 GLN B 144 LEU B 151 LYS B 182 TRP B 198 SITE 3 AC2 16 VAL B 231 HOH B2017 HOH B2018 HOH B2019 SITE 4 AC2 16 HOH B2020 HOH B2021 HOH B2070 HOH B2097 SITE 1 AC3 12 ARG C 114 GLU C 115 THR C 116 GLN C 144 SITE 2 AC3 12 ASP C 148 LYS C 182 HOH C2011 HOH C2012 SITE 3 AC3 12 HOH C2013 HOH C2014 HOH C2096 HOH C2097 SITE 1 AC4 15 ARG D 114 GLU D 115 THR D 116 TYR D 141 SITE 2 AC4 15 GLN D 144 LYS D 182 VAL D 231 HOH D2010 SITE 3 AC4 15 HOH D2011 HOH D2012 HOH D2014 HOH D2015 SITE 4 AC4 15 HOH D2016 HOH D2075 HOH D2076 SITE 1 AC5 16 ARG E 114 GLU E 115 THR E 116 TYR E 117 SITE 2 AC5 16 GLN E 144 LYS E 182 TRP E 198 VAL E 231 SITE 3 AC5 16 HOH E2009 HOH E2010 HOH E2011 HOH E2032 SITE 4 AC5 16 HOH E2044 HOH E2057 HOH E2058 HOH E2059 CRYST1 198.440 198.440 103.220 90.00 90.00 90.00 I 41 2 2 80 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 0.005039 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005039 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009688 0.00000