HEADER TRANSFERASE 21-JUN-17 5W7Z TITLE CRYSTAL STRUCTURE OF DNA POLYMERASE III SUBUNIT BETA FROM RICKETTSIA TITLE 2 CONORII COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE III SUBUNIT BETA; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.7.7; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RICKETTSIA CONORII (STRAIN ATCC VR-613 / MALISH SOURCE 3 7); SOURCE 4 ORGANISM_TAXID: 272944; SOURCE 5 STRAIN: ATCC VR-613 / MALISH 7; SOURCE 6 ATCC: VR-613; SOURCE 7 GENE: DNAN, RC0583; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: RICO.17987.A.B1 KEYWDS STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR KEYWDS 2 INFECTIOUS DISEASE, SSGCID, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 4 03-APR-24 5W7Z 1 REMARK REVDAT 3 13-MAR-24 5W7Z 1 REMARK REVDAT 2 11-OCT-17 5W7Z 1 REMARK REVDAT 1 26-JUL-17 5W7Z 0 JRNL AUTH K.BOWATTE,D.G.CONRADY,J.ABENDROTH,D.D.LORIMER,T.E.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF DNA POLYMERASE III SUBUNIT BETA FROM JRNL TITL 2 RICKETTSIA CONORII JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.12RC1_2807 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.28 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 102941 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.940 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 36.2835 - 4.0954 0.99 7342 133 0.1438 0.1581 REMARK 3 2 4.0954 - 3.2513 1.00 7268 138 0.1426 0.1367 REMARK 3 3 3.2513 - 2.8405 1.00 7210 140 0.1628 0.1897 REMARK 3 4 2.8405 - 2.5809 1.00 7227 146 0.1661 0.1927 REMARK 3 5 2.5809 - 2.3959 1.00 7199 143 0.1673 0.2001 REMARK 3 6 2.3959 - 2.2547 1.00 7198 150 0.1644 0.1966 REMARK 3 7 2.2547 - 2.1418 1.00 7203 139 0.1675 0.1956 REMARK 3 8 2.1418 - 2.0486 1.00 7200 168 0.1730 0.2057 REMARK 3 9 2.0486 - 1.9697 1.00 7169 155 0.1764 0.1889 REMARK 3 10 1.9697 - 1.9017 1.00 7207 129 0.1777 0.2446 REMARK 3 11 1.9017 - 1.8423 1.00 7201 134 0.2070 0.2462 REMARK 3 12 1.8423 - 1.7896 1.00 7194 140 0.2231 0.2619 REMARK 3 13 1.7896 - 1.7425 1.00 7145 146 0.2248 0.2903 REMARK 3 14 1.7425 - 1.7000 1.00 7178 139 0.2450 0.2856 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.400 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.35 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.55 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 : 0.006 6159 REMARK 3 ANGLE : 0.830 8414 REMARK 3 CHIRALITY : 0.058 1031 REMARK 3 PLANARITY : 0.005 1074 REMARK 3 DIHEDRAL : 13.087 3915 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 0 THROUGH 125 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.8235 -1.1858 10.8713 REMARK 3 T TENSOR REMARK 3 T11: 0.1079 T22: 0.1258 REMARK 3 T33: 0.1432 T12: -0.0042 REMARK 3 T13: -0.0014 T23: -0.0041 REMARK 3 L TENSOR REMARK 3 L11: 1.4229 L22: 0.9308 REMARK 3 L33: 4.6493 L12: -0.0019 REMARK 3 L13: -0.4829 L23: 0.4657 REMARK 3 S TENSOR REMARK 3 S11: -0.0206 S12: -0.0362 S13: -0.0935 REMARK 3 S21: 0.0025 S22: -0.0151 S23: -0.0008 REMARK 3 S31: 0.1109 S32: -0.1266 S33: 0.0332 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 126 THROUGH 257 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.9842 1.9011 38.8187 REMARK 3 T TENSOR REMARK 3 T11: 0.1408 T22: 0.1162 REMARK 3 T33: 0.1583 T12: -0.0017 REMARK 3 T13: 0.0150 T23: -0.0049 REMARK 3 L TENSOR REMARK 3 L11: 2.2583 L22: 0.5809 REMARK 3 L33: 3.2022 L12: 0.0400 REMARK 3 L13: 1.3057 L23: -0.0357 REMARK 3 S TENSOR REMARK 3 S11: 0.0233 S12: -0.1478 S13: -0.0430 REMARK 3 S21: 0.0067 S22: 0.0213 S23: 0.0371 REMARK 3 S31: 0.0283 S32: -0.1815 S33: -0.0355 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 258 THROUGH 379 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.6909 0.7697 47.1153 REMARK 3 T TENSOR REMARK 3 T11: 0.1428 T22: 0.1369 REMARK 3 T33: 0.1367 T12: -0.0160 REMARK 3 T13: 0.0101 T23: -0.0178 REMARK 3 L TENSOR REMARK 3 L11: 2.9760 L22: 0.9000 REMARK 3 L33: 1.2522 L12: -0.5170 REMARK 3 L13: -0.7386 L23: 0.0618 REMARK 3 S TENSOR REMARK 3 S11: 0.0414 S12: -0.1657 S13: 0.1264 REMARK 3 S21: 0.0313 S22: 0.0295 S23: -0.0374 REMARK 3 S31: -0.1377 S32: 0.0795 S33: -0.0544 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID -1 THROUGH 115 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.6757 -11.3569 28.4856 REMARK 3 T TENSOR REMARK 3 T11: 0.0986 T22: 0.1100 REMARK 3 T33: 0.1356 T12: 0.0040 REMARK 3 T13: -0.0009 T23: 0.0147 REMARK 3 L TENSOR REMARK 3 L11: 1.6828 L22: 2.1404 REMARK 3 L33: 2.6817 L12: 0.2400 REMARK 3 L13: -0.2089 L23: 0.2735 REMARK 3 S TENSOR REMARK 3 S11: -0.0016 S12: 0.0073 S13: -0.0059 REMARK 3 S21: -0.0058 S22: 0.0251 S23: 0.1193 REMARK 3 S31: 0.0414 S32: -0.0177 S33: -0.0172 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 116 THROUGH 257 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.4771 -18.5019 0.8576 REMARK 3 T TENSOR REMARK 3 T11: 0.2252 T22: 0.2061 REMARK 3 T33: 0.1786 T12: 0.0384 REMARK 3 T13: -0.0157 T23: -0.0400 REMARK 3 L TENSOR REMARK 3 L11: 2.1456 L22: 0.5302 REMARK 3 L33: 3.0979 L12: -0.4819 REMARK 3 L13: 1.4667 L23: -0.3902 REMARK 3 S TENSOR REMARK 3 S11: 0.2207 S12: 0.4259 S13: -0.2148 REMARK 3 S21: -0.0880 S22: -0.1582 S23: 0.0117 REMARK 3 S31: 0.3478 S32: 0.3531 S33: -0.0368 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 258 THROUGH 379 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.8660 -8.3922 -10.8469 REMARK 3 T TENSOR REMARK 3 T11: 0.1375 T22: 0.2102 REMARK 3 T33: 0.1172 T12: -0.0068 REMARK 3 T13: -0.0047 T23: -0.0330 REMARK 3 L TENSOR REMARK 3 L11: 2.5998 L22: 1.0770 REMARK 3 L33: 1.5814 L12: -0.6450 REMARK 3 L13: 0.1532 L23: -0.2481 REMARK 3 S TENSOR REMARK 3 S11: 0.0824 S12: 0.3575 S13: -0.0937 REMARK 3 S21: -0.0561 S22: -0.0816 S23: 0.0450 REMARK 3 S31: 0.0153 S32: 0.0473 S33: 0.0128 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 5W7Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1000228572. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-MAY-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000000 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 102967 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 36.275 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.2900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.11 REMARK 200 R MERGE FOR SHELL (I) : 0.56400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.120 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MORDA REMARK 200 STARTING MODEL: PDN ENTRY: 4TSZA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: RIGAKU REAGENTS PRECIPITANT SYNERGY REMARK 280 SCREEN 2, CONDITION E8:2.01 %V/V MPD, 13.4%W/V PEG 8000, 100 MM REMARK 280 IMIDAZOLE/HYDROCHLORIC ACID PH 6.5: RICOA.17987.A.B1.PW38227 AT REMARK 280 20 MG/ML, CRYO 20% EG, TRAY 290986E8, PUCK SGK8-4, VAPOR REMARK 280 DIFFUSION, SITTING DROP 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 43.45500 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 300 REMARK: DIMER AS DETERMINED BY GEL FILTRATION 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: 3210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 1.0 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 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 -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 MET B -7 REMARK 465 ALA B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 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 ARG A 25 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 26 CG OD1 ND2 REMARK 470 VAL A 27 CG1 CG2 REMARK 470 ILE A 28 CG1 CG2 CD1 REMARK 470 TYR A 31 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 150 CG CD OE1 OE2 REMARK 470 TYR A 153 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASP A 164 CG OD1 OD2 REMARK 470 GLU A 185 CG CD OE1 OE2 REMARK 470 LYS A 186 CG CD CE NZ REMARK 470 GLN A 187 CG CD OE1 NE2 REMARK 470 LYS A 211 CG CD CE NZ REMARK 470 GLU A 254 CG CD OE1 OE2 REMARK 470 GLU A 280 CG CD OE1 OE2 REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 LYS A 345 CG CD CE NZ REMARK 470 LYS A 378 CG CD CE NZ REMARK 470 HIS B -1 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 9 CG CD CE NZ REMARK 470 LYS B 24 CG CD CE NZ REMARK 470 ARG B 25 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 26 CG OD1 ND2 REMARK 470 MET B 50 CG SD CE REMARK 470 TYR B 153 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASP B 164 CG OD1 OD2 REMARK 470 LYS B 165 CG CD CE NZ REMARK 470 GLU B 185 CG CD OE1 OE2 REMARK 470 LYS B 186 CG CD CE NZ REMARK 470 GLN B 187 CG CD OE1 NE2 REMARK 470 ILE B 188 CG1 CG2 CD1 REMARK 470 LYS B 189 CG CD CE NZ REMARK 470 PHE B 191 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 211 CG CD CE NZ REMARK 470 SER B 249 OG REMARK 470 THR B 250 OG1 CG2 REMARK 470 PHE B 251 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 254 CG CD OE1 OE2 REMARK 470 GLU B 280 CG CD OE1 OE2 REMARK 470 LYS B 281 CG CD CE NZ REMARK 470 LYS B 342 CG CD CE NZ REMARK 470 LYS B 345 CG CD CE NZ REMARK 470 LYS B 378 CG CD CE NZ 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 ASP A 164 O HOH A 501 2.18 REMARK 500 OE1 GLU B 338 O HOH B 501 2.18 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 156 46.20 -90.83 REMARK 500 ASP A 164 -112.91 57.85 REMARK 500 GLU A 215 -153.41 -110.47 REMARK 500 GLU A 232 -48.01 72.90 REMARK 500 PHE A 282 69.51 -152.78 REMARK 500 SER A 354 -115.98 -114.77 REMARK 500 ARG B 25 -111.52 -130.25 REMARK 500 ARG B 152 68.09 -100.14 REMARK 500 ASN B 156 30.37 -85.31 REMARK 500 ASP B 164 -125.82 61.56 REMARK 500 LYS B 165 35.01 -98.27 REMARK 500 GLU B 215 -154.45 -110.70 REMARK 500 GLU B 232 -44.77 75.69 REMARK 500 PHE B 282 67.39 -164.10 REMARK 500 ARG B 303 -54.07 -123.38 REMARK 500 ASN B 323 31.51 -88.11 REMARK 500 ASN B 323 51.08 -102.95 REMARK 500 SER B 354 -118.96 -122.47 REMARK 500 SER B 354 -120.41 -121.23 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 EDO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MRD A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 400 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SSGCID-RICOA.17987.A RELATED DB: TARGETTRACK DBREF 5W7Z A 1 379 UNP Q92I37 DPO3B_RICCN 1 379 DBREF 5W7Z B 1 379 UNP Q92I37 DPO3B_RICCN 1 379 SEQADV 5W7Z MET A -7 UNP Q92I37 INITIATING METHIONINE SEQADV 5W7Z ALA A -6 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS A -5 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS A -4 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS A -3 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS A -2 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS A -1 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS A 0 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z MET B -7 UNP Q92I37 INITIATING METHIONINE SEQADV 5W7Z ALA B -6 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS B -5 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS B -4 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS B -3 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS B -2 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS B -1 UNP Q92I37 EXPRESSION TAG SEQADV 5W7Z HIS B 0 UNP Q92I37 EXPRESSION TAG SEQRES 1 A 387 MET ALA HIS HIS HIS HIS HIS HIS MET LEU LYS LEU ILE SEQRES 2 A 387 VAL GLU THR LYS THR LEU VAL GLN SER LEU GLY PHE ALA SEQRES 3 A 387 SER SER VAL VAL GLU LYS ARG ASN VAL ILE PRO GLU TYR SEQRES 4 A 387 ALA ASN ILE LYS LEU SER ALA LYS ASP GLY ASN LEU GLU SEQRES 5 A 387 LEU SER SER THR ASN MET ASP LEU TYR LEU SER GLN LYS SEQRES 6 A 387 ILE ALA VAL GLN VAL VAL SER GLU GLY GLU CYS THR VAL SEQRES 7 A 387 SER THR LYS THR LEU ASN ASP ILE VAL ARG LYS LEU PRO SEQRES 8 A 387 ASP SER GLU LEU THR LEU THR ASP LEU GLY THR THR GLY SEQRES 9 A 387 LEU GLU ILE LYS GLY LYS ASN CYS LYS PHE ASN LEU PHE SEQRES 10 A 387 THR LEU PRO VAL SER SER PHE PRO ALA MET ASP SER ILE SEQRES 11 A 387 ASN PRO GLU ALA SER PHE LYS ILE SER CYS THR ASP PHE SEQRES 12 A 387 ALA LYS ILE ILE GLU SER THR LYS PHE SER ILE SER LEU SEQRES 13 A 387 ASP GLU THR ARG TYR ASN LEU ASN GLY VAL TYR LEU HIS SEQRES 14 A 387 ILE LYS ASP LYS GLU PHE CYS SER ALA SER THR ASP GLY SEQRES 15 A 387 HIS ARG LEU SER ILE SER TRP VAL THR LEU GLU LYS GLN SEQRES 16 A 387 ILE LYS ASN PHE GLY VAL ILE LEU PRO GLN LYS SER ALA SEQRES 17 A 387 GLU GLU ILE LEU LYS ILE VAL LYS ASP PRO LYS ASN ILE SEQRES 18 A 387 ASN GLU ASP ILE GLU ILE LEU LEU SER SER ASN LYS ILE SEQRES 19 A 387 LYS PHE ILE CYS ASN GLU ASN THR SER MET LEU SER LYS SEQRES 20 A 387 LEU ILE ASP GLY THR PHE PRO ASP TYR SER THR PHE ILE SEQRES 21 A 387 PRO GLU SER SER SER SER LYS LEU VAL ILE ASN ARG LYS SEQRES 22 A 387 MET PHE ALA ASP SER ILE GLU ARG ILE ALA ILE ILE THR SEQRES 23 A 387 VAL GLU LYS PHE ARG ALA VAL LYS LEU SER LEU SER ARG SEQRES 24 A 387 GLU THR LEU GLU ILE SER ALA VAL GLY GLU ALA ARG GLY SEQRES 25 A 387 ASN ALA LYS GLU VAL ILE ASN SER SER GLN ASP LYS GLU SEQRES 26 A 387 SER PHE TYR GLU TYR ASN SER ASP GLU SER LEU ALA ILE SEQRES 27 A 387 GLY PHE ASN PRO GLN TYR LEU GLU ASP VAL LEU LYS ALA SEQRES 28 A 387 VAL LYS SER ASP VAL VAL GLU LEU TYR PHE SER ASP VAL SEQRES 29 A 387 SER ALA PRO VAL LEU ILE LYS PHE PRO GLU ASN PRO LYS SEQRES 30 A 387 ASP ILE PHE VAL VAL MET PRO VAL LYS VAL SEQRES 1 B 387 MET ALA HIS HIS HIS HIS HIS HIS MET LEU LYS LEU ILE SEQRES 2 B 387 VAL GLU THR LYS THR LEU VAL GLN SER LEU GLY PHE ALA SEQRES 3 B 387 SER SER VAL VAL GLU LYS ARG ASN VAL ILE PRO GLU TYR SEQRES 4 B 387 ALA ASN ILE LYS LEU SER ALA LYS ASP GLY ASN LEU GLU SEQRES 5 B 387 LEU SER SER THR ASN MET ASP LEU TYR LEU SER GLN LYS SEQRES 6 B 387 ILE ALA VAL GLN VAL VAL SER GLU GLY GLU CYS THR VAL SEQRES 7 B 387 SER THR LYS THR LEU ASN ASP ILE VAL ARG LYS LEU PRO SEQRES 8 B 387 ASP SER GLU LEU THR LEU THR ASP LEU GLY THR THR GLY SEQRES 9 B 387 LEU GLU ILE LYS GLY LYS ASN CYS LYS PHE ASN LEU PHE SEQRES 10 B 387 THR LEU PRO VAL SER SER PHE PRO ALA MET ASP SER ILE SEQRES 11 B 387 ASN PRO GLU ALA SER PHE LYS ILE SER CYS THR ASP PHE SEQRES 12 B 387 ALA LYS ILE ILE GLU SER THR LYS PHE SER ILE SER LEU SEQRES 13 B 387 ASP GLU THR ARG TYR ASN LEU ASN GLY VAL TYR LEU HIS SEQRES 14 B 387 ILE LYS ASP LYS GLU PHE CYS SER ALA SER THR ASP GLY SEQRES 15 B 387 HIS ARG LEU SER ILE SER TRP VAL THR LEU GLU LYS GLN SEQRES 16 B 387 ILE LYS ASN PHE GLY VAL ILE LEU PRO GLN LYS SER ALA SEQRES 17 B 387 GLU GLU ILE LEU LYS ILE VAL LYS ASP PRO LYS ASN ILE SEQRES 18 B 387 ASN GLU ASP ILE GLU ILE LEU LEU SER SER ASN LYS ILE SEQRES 19 B 387 LYS PHE ILE CYS ASN GLU ASN THR SER MET LEU SER LYS SEQRES 20 B 387 LEU ILE ASP GLY THR PHE PRO ASP TYR SER THR PHE ILE SEQRES 21 B 387 PRO GLU SER SER SER SER LYS LEU VAL ILE ASN ARG LYS SEQRES 22 B 387 MET PHE ALA ASP SER ILE GLU ARG ILE ALA ILE ILE THR SEQRES 23 B 387 VAL GLU LYS PHE ARG ALA VAL LYS LEU SER LEU SER ARG SEQRES 24 B 387 GLU THR LEU GLU ILE SER ALA VAL GLY GLU ALA ARG GLY SEQRES 25 B 387 ASN ALA LYS GLU VAL ILE ASN SER SER GLN ASP LYS GLU SEQRES 26 B 387 SER PHE TYR GLU TYR ASN SER ASP GLU SER LEU ALA ILE SEQRES 27 B 387 GLY PHE ASN PRO GLN TYR LEU GLU ASP VAL LEU LYS ALA SEQRES 28 B 387 VAL LYS SER ASP VAL VAL GLU LEU TYR PHE SER ASP VAL SEQRES 29 B 387 SER ALA PRO VAL LEU ILE LYS PHE PRO GLU ASN PRO LYS SEQRES 30 B 387 ASP ILE PHE VAL VAL MET PRO VAL LYS VAL HET EDO A 401 4 HET EDO A 402 4 HET MRD A 403 8 HET EDO B 400 4 HETNAM EDO 1,2-ETHANEDIOL HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 3(C2 H6 O2) FORMUL 5 MRD C6 H14 O2 FORMUL 7 HOH *921(H2 O) HELIX 1 AA1 THR A 8 VAL A 22 1 15 HELIX 2 AA2 ILE A 28 TYR A 31 5 4 HELIX 3 AA3 THR A 72 ARG A 80 1 9 HELIX 4 AA4 PRO A 112 PHE A 116 5 5 HELIX 5 AA5 CYS A 132 SER A 141 1 10 HELIX 6 AA6 THR A 142 ILE A 146 5 5 HELIX 7 AA7 ARG A 152 LEU A 155 5 4 HELIX 8 AA8 GLN A 197 LYS A 208 1 12 HELIX 9 AA9 TYR A 248 ILE A 252 5 5 HELIX 10 AB1 ARG A 264 ILE A 276 1 13 HELIX 11 AB2 ILE A 277 THR A 278 5 2 HELIX 12 AB3 VAL A 279 ARG A 283 5 5 HELIX 13 AB4 ASP A 315 SER A 318 5 4 HELIX 14 AB5 ASN A 333 VAL A 344 1 12 HELIX 15 AB6 THR B 8 GLU B 23 1 16 HELIX 16 AB7 THR B 72 ARG B 80 1 9 HELIX 17 AB8 GLY B 93 THR B 95 5 3 HELIX 18 AB9 PRO B 112 PHE B 116 5 5 HELIX 19 AC1 CYS B 132 SER B 141 1 10 HELIX 20 AC2 THR B 142 ILE B 146 5 5 HELIX 21 AC3 ARG B 152 LEU B 155 5 4 HELIX 22 AC4 GLN B 197 ASP B 209 1 13 HELIX 23 AC5 TYR B 248 ILE B 252 5 5 HELIX 24 AC6 ARG B 264 ILE B 276 1 13 HELIX 25 AC7 ILE B 277 THR B 278 5 2 HELIX 26 AC8 VAL B 279 ARG B 283 5 5 HELIX 27 AC9 ASP B 315 SER B 318 5 4 HELIX 28 AD1 ASN B 333 VAL B 344 1 12 SHEET 1 AA1 9 GLN A 61 SER A 64 0 SHEET 2 AA1 9 LYS A 3 GLU A 7 -1 N ILE A 5 O GLN A 61 SHEET 3 AA1 9 GLU A 86 ASP A 91 -1 O LEU A 89 N LEU A 4 SHEET 4 AA1 9 LEU A 97 GLY A 101 -1 O GLU A 98 N THR A 90 SHEET 5 AA1 9 CYS A 104 LEU A 108 -1 O PHE A 106 N ILE A 99 SHEET 6 AA1 9 GLY B 304 ASN B 311 -1 O ASN B 305 N ASN A 107 SHEET 7 AA1 9 THR B 293 GLY B 300 -1 N LEU B 294 O ILE B 310 SHEET 8 AA1 9 VAL B 285 LEU B 289 -1 N LYS B 286 O SER B 297 SHEET 9 AA1 9 LEU B 328 PHE B 332 -1 O LEU B 328 N LEU B 289 SHEET 1 AA2 8 GLY A 66 SER A 71 0 SHEET 2 AA2 8 ASN A 33 LYS A 39 -1 N LEU A 36 O CYS A 68 SHEET 3 AA2 8 ASN A 42 THR A 48 -1 O GLU A 44 N SER A 37 SHEET 4 AA2 8 LEU A 52 ALA A 59 -1 O LEU A 54 N SER A 47 SHEET 5 AA2 8 THR A 234 LYS A 239 -1 O SER A 235 N SER A 55 SHEET 6 AA2 8 LYS A 225 CYS A 230 -1 N CYS A 230 O THR A 234 SHEET 7 AA2 8 ASP A 216 LEU A 221 -1 N GLU A 218 O ILE A 229 SHEET 8 AA2 8 ALA A 126 SER A 131 -1 N ALA A 126 O LEU A 221 SHEET 1 AA3 9 PHE A 191 PRO A 196 0 SHEET 2 AA3 9 GLY A 157 LYS A 163 -1 N VAL A 158 O LEU A 195 SHEET 3 AA3 9 GLU A 166 THR A 172 -1 O CYS A 168 N HIS A 161 SHEET 4 AA3 9 ARG A 176 THR A 183 -1 O SER A 180 N SER A 169 SHEET 5 AA3 9 ASN A 367 VAL A 374 -1 O ILE A 371 N ILE A 179 SHEET 6 AA3 9 VAL A 360 PHE A 364 -1 N ILE A 362 O PHE A 372 SHEET 7 AA3 9 VAL A 348 PHE A 353 -1 N GLU A 350 O LYS A 363 SHEET 8 AA3 9 SER A 258 ASN A 263 -1 N LEU A 260 O LEU A 351 SHEET 9 AA3 9 TYR A 320 TYR A 322 -1 O GLU A 321 N VAL A 261 SHEET 1 AA4 9 LEU A 328 PHE A 332 0 SHEET 2 AA4 9 VAL A 285 LEU A 289 -1 N LEU A 287 O ILE A 330 SHEET 3 AA4 9 THR A 293 GLY A 300 -1 O SER A 297 N LYS A 286 SHEET 4 AA4 9 GLY A 304 ASN A 311 -1 O ILE A 310 N LEU A 294 SHEET 5 AA4 9 CYS B 104 LEU B 108 -1 O ASN B 107 N ASN A 305 SHEET 6 AA4 9 LEU B 97 LYS B 100 -1 N LEU B 97 O LEU B 108 SHEET 7 AA4 9 GLU B 86 ASP B 91 -1 N THR B 90 O GLU B 98 SHEET 8 AA4 9 LYS B 3 GLU B 7 -1 N LEU B 4 O LEU B 89 SHEET 9 AA4 9 GLN B 61 SER B 64 -1 O GLN B 61 N ILE B 5 SHEET 1 AA5 8 GLY B 66 SER B 71 0 SHEET 2 AA5 8 ASN B 33 LYS B 39 -1 N LEU B 36 O CYS B 68 SHEET 3 AA5 8 ASN B 42 THR B 48 -1 O GLU B 44 N SER B 37 SHEET 4 AA5 8 LEU B 52 ALA B 59 -1 O GLN B 56 N LEU B 45 SHEET 5 AA5 8 THR B 234 LYS B 239 -1 O SER B 235 N SER B 55 SHEET 6 AA5 8 LYS B 225 CYS B 230 -1 N PHE B 228 O MET B 236 SHEET 7 AA5 8 ASP B 216 LEU B 221 -1 N LEU B 220 O LYS B 227 SHEET 8 AA5 8 ALA B 126 SER B 131 -1 N ALA B 126 O LEU B 221 SHEET 1 AA6 9 GLY B 192 PRO B 196 0 SHEET 2 AA6 9 GLY B 157 LYS B 163 -1 N VAL B 158 O LEU B 195 SHEET 3 AA6 9 GLU B 166 THR B 172 -1 O GLU B 166 N LYS B 163 SHEET 4 AA6 9 ARG B 176 THR B 183 -1 O VAL B 182 N PHE B 167 SHEET 5 AA6 9 ASP B 370 VAL B 374 -1 O VAL B 373 N LEU B 177 SHEET 6 AA6 9 VAL B 360 LYS B 363 -1 N ILE B 362 O PHE B 372 SHEET 7 AA6 9 VAL B 348 PHE B 353 -1 N GLU B 350 O LYS B 363 SHEET 8 AA6 9 SER B 258 ASN B 263 -1 N LEU B 260 O LEU B 351 SHEET 9 AA6 9 TYR B 320 TYR B 322 -1 O GLU B 321 N VAL B 261 SITE 1 AC1 7 ASP A 51 TYR A 53 LEU A 237 LYS A 239 SITE 2 AC1 7 HOH A 619 HOH A 649 HOH A 698 SITE 1 AC2 5 VAL A 356 SER A 357 VAL A 377 LYS A 378 SITE 2 AC2 5 HOH A 605 SITE 1 AC3 3 THR A 172 GLY A 174 PHE A 251 SITE 1 AC4 7 ASP B 51 TYR B 53 ASP B 120 LYS B 225 SITE 2 AC4 7 LEU B 237 LYS B 239 HOH B 663 CRYST1 76.520 86.910 79.510 90.00 115.39 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 0.013068 0.000000 0.006202 0.00000 SCALE2 0.000000 0.011506 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013922 0.00000