HEADER HYDROLASE/DNA 22-DEC-15 5FHE TITLE CRYSTAL STRUCTURE OF BACTEROIDES PIF1 BOUND TO SSDNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PIF1; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(P*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3'); COMPND 8 CHAIN: C; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES SP. 2_1_16; SOURCE 3 ORGANISM_TAXID: 469587; SOURCE 4 GENE: HMPREF0101_01022; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630 KEYWDS PIF1 HELICASE, DNA HELICASE, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.ZHOU,W.REN,S.R.BHARATH,H.SONG REVDAT 3 20-MAR-24 5FHE 1 REMARK REVDAT 2 27-SEP-17 5FHE 1 REMARK REVDAT 1 30-MAR-16 5FHE 0 JRNL AUTH X.ZHOU,W.REN,S.R.BHARATH,X.TANG,Y.HE,C.CHEN,Z.LIU,D.LI, JRNL AUTH 2 H.SONG JRNL TITL STRUCTURAL AND FUNCTIONAL INSIGHTS INTO THE UNWINDING JRNL TITL 2 MECHANISM OF BACTEROIDES SP PIF1 JRNL REF CELL REP V. 14 2030 2016 JRNL REFN ESSN 2211-1247 JRNL PMID 26904952 JRNL DOI 10.1016/J.CELREP.2016.02.008 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.79 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 15209 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.226 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.380 REMARK 3 FREE R VALUE TEST SET COUNT : 818 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 33.7945 - 5.2645 1.00 2542 131 0.1903 0.2539 REMARK 3 2 5.2645 - 4.1811 1.00 2382 158 0.1825 0.2126 REMARK 3 3 4.1811 - 3.6533 1.00 2402 124 0.2249 0.2988 REMARK 3 4 3.6533 - 3.3196 1.00 2352 148 0.2688 0.3575 REMARK 3 5 3.3196 - 3.0818 1.00 2349 137 0.3364 0.3756 REMARK 3 6 3.0818 - 2.9002 1.00 2364 120 0.3647 0.4226 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) : 0.440 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.009 3558 REMARK 3 ANGLE : 1.154 4855 REMARK 3 CHIRALITY : 0.059 564 REMARK 3 PLANARITY : 0.005 592 REMARK 3 DIHEDRAL : 17.588 2088 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 55 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.2508 55.8465 70.5026 REMARK 3 T TENSOR REMARK 3 T11: 0.5563 T22: 0.9874 REMARK 3 T33: 0.9685 T12: -0.1921 REMARK 3 T13: 0.0815 T23: 0.0810 REMARK 3 L TENSOR REMARK 3 L11: 0.0634 L22: 0.8133 REMARK 3 L33: 0.1565 L12: -0.6796 REMARK 3 L13: 0.0086 L23: -0.2927 REMARK 3 S TENSOR REMARK 3 S11: 0.3507 S12: 0.2598 S13: -0.1327 REMARK 3 S21: 0.5232 S22: -0.4019 S23: 0.6428 REMARK 3 S31: 0.1139 S32: -0.8984 S33: 0.4193 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 56 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.2982 55.7608 58.7964 REMARK 3 T TENSOR REMARK 3 T11: 0.6915 T22: 0.5217 REMARK 3 T33: 0.5530 T12: -0.1411 REMARK 3 T13: -0.0307 T23: 0.0413 REMARK 3 L TENSOR REMARK 3 L11: 2.7968 L22: 0.5464 REMARK 3 L33: 2.8718 L12: -0.5822 REMARK 3 L13: -0.4103 L23: -0.6222 REMARK 3 S TENSOR REMARK 3 S11: 0.2021 S12: 0.1004 S13: 0.0515 REMARK 3 S21: -0.2558 S22: -0.1984 S23: 0.1468 REMARK 3 S31: 0.1426 S32: -0.0921 S33: 0.0003 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 177 THROUGH 215 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.6846 70.9935 82.5842 REMARK 3 T TENSOR REMARK 3 T11: 0.9823 T22: 0.7709 REMARK 3 T33: 0.9039 T12: 0.0558 REMARK 3 T13: 0.0792 T23: -0.0040 REMARK 3 L TENSOR REMARK 3 L11: 0.3883 L22: 0.5787 REMARK 3 L33: 0.2352 L12: -1.0991 REMARK 3 L13: 0.0978 L23: 0.2950 REMARK 3 S TENSOR REMARK 3 S11: -0.1977 S12: 0.0611 S13: 0.4384 REMARK 3 S21: 0.3872 S22: 0.2016 S23: 0.2071 REMARK 3 S31: -1.2053 S32: -0.2100 S33: 0.0001 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 216 THROUGH 246 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.4660 57.7165 89.5525 REMARK 3 T TENSOR REMARK 3 T11: 0.9286 T22: 0.7829 REMARK 3 T33: 0.6739 T12: -0.1693 REMARK 3 T13: 0.0839 T23: 0.0786 REMARK 3 L TENSOR REMARK 3 L11: 0.3860 L22: 0.3531 REMARK 3 L33: 0.2673 L12: -0.4910 REMARK 3 L13: 0.5191 L23: 0.0743 REMARK 3 S TENSOR REMARK 3 S11: -0.0847 S12: -0.0877 S13: -0.3728 REMARK 3 S21: 0.4685 S22: -0.3325 S23: -0.8819 REMARK 3 S31: -0.4996 S32: 0.9282 S33: -0.0013 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 247 THROUGH 314 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.1498 40.6082 79.5000 REMARK 3 T TENSOR REMARK 3 T11: 0.7405 T22: 0.7595 REMARK 3 T33: 0.5703 T12: -0.1806 REMARK 3 T13: -0.0122 T23: 0.0164 REMARK 3 L TENSOR REMARK 3 L11: 0.6560 L22: 2.3579 REMARK 3 L33: 0.8455 L12: -0.7777 REMARK 3 L13: 1.2144 L23: -0.5229 REMARK 3 S TENSOR REMARK 3 S11: 0.1203 S12: -0.1814 S13: 0.1830 REMARK 3 S21: -0.2405 S22: 0.0532 S23: 0.0443 REMARK 3 S31: 0.4334 S32: 0.2478 S33: 0.0005 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 315 THROUGH 349 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.5921 39.7761 63.6761 REMARK 3 T TENSOR REMARK 3 T11: 1.1891 T22: 0.7466 REMARK 3 T33: 0.7721 T12: 0.1556 REMARK 3 T13: 0.1237 T23: 0.1848 REMARK 3 L TENSOR REMARK 3 L11: -0.0004 L22: -0.0210 REMARK 3 L33: 0.0547 L12: 0.6272 REMARK 3 L13: -0.2391 L23: -0.1461 REMARK 3 S TENSOR REMARK 3 S11: 0.3354 S12: -0.3546 S13: 0.5797 REMARK 3 S21: -0.7093 S22: -0.3328 S23: 0.3181 REMARK 3 S31: 0.3124 S32: 0.4823 S33: -0.0278 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 350 THROUGH 432 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.4065 65.1374 78.0620 REMARK 3 T TENSOR REMARK 3 T11: 0.5666 T22: 0.4950 REMARK 3 T33: 0.6335 T12: -0.0919 REMARK 3 T13: 0.0677 T23: -0.0049 REMARK 3 L TENSOR REMARK 3 L11: 0.0215 L22: 2.0688 REMARK 3 L33: 2.4118 L12: 1.1980 REMARK 3 L13: 0.1675 L23: 0.2279 REMARK 3 S TENSOR REMARK 3 S11: -0.0398 S12: -0.0554 S13: 0.2208 REMARK 3 S21: 0.5455 S22: -0.1607 S23: 0.2423 REMARK 3 S31: -0.4046 S32: 0.0429 S33: 0.0003 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 3 THROUGH 8 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.7478 54.2628 67.5667 REMARK 3 T TENSOR REMARK 3 T11: 0.8724 T22: 0.9764 REMARK 3 T33: 0.8043 T12: -0.1007 REMARK 3 T13: 0.0045 T23: -0.0204 REMARK 3 L TENSOR REMARK 3 L11: -0.1481 L22: 0.0191 REMARK 3 L33: 0.3621 L12: 0.0977 REMARK 3 L13: 0.1030 L23: -0.0634 REMARK 3 S TENSOR REMARK 3 S11: 0.0309 S12: 0.5425 S13: 0.2387 REMARK 3 S21: -1.3150 S22: -0.8253 S23: 0.2645 REMARK 3 S31: -0.5362 S32: 0.1877 S33: -0.0005 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 5FHE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-DEC-15. REMARK 100 THE DEPOSITION ID IS D_1000214870. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JUL-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.1 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AIMLESS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15236 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 33.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 10.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4 M SODIUM FORMATE, 0.1 M HEPES, 5% REMARK 280 GLYCEROL, PH 7.1, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.94067 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 99.88133 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 99.88133 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 49.94067 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 GLU A 2 REMARK 465 ASP A 19 REMARK 465 ASP A 20 REMARK 465 TYR A 226 REMARK 465 ASP A 227 REMARK 465 ASP A 433 REMARK 465 DT C 1 REMARK 465 DT C 2 REMARK 465 DT C 9 REMARK 465 DT C 10 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 ASP A 3 CG OD1 OD2 REMARK 470 MET A 4 CG SD CE REMARK 470 GLU A 8 CG CD OE1 OE2 REMARK 470 GLN A 11 CG CD OE1 NE2 REMARK 470 LYS A 12 CG CD CE NZ REMARK 470 GLN A 18 CG CD OE1 NE2 REMARK 470 GLU A 21 CG CD OE1 OE2 REMARK 470 GLU A 43 CG CD OE1 OE2 REMARK 470 LYS A 44 CG CD CE NZ REMARK 470 GLU A 85 CG CD OE1 OE2 REMARK 470 LYS A 92 CG CD CE NZ REMARK 470 LYS A 174 CG CD CE NZ REMARK 470 ARG A 175 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 185 CG CD CE NZ REMARK 470 GLU A 193 CG CD OE1 OE2 REMARK 470 GLU A 216 CG CD OE1 OE2 REMARK 470 LYS A 218 CG CD CE NZ REMARK 470 ASP A 219 CG OD1 OD2 REMARK 470 LYS A 221 CG CD CE NZ REMARK 470 ILE A 222 CG1 CG2 CD1 REMARK 470 SER A 223 OG REMARK 470 SER A 224 OG REMARK 470 SER A 225 OG REMARK 470 ASN A 228 CG OD1 ND2 REMARK 470 LYS A 261 CG CD CE NZ REMARK 470 LYS A 263 CG CD CE NZ REMARK 470 LYS A 335 CG CD CE NZ REMARK 470 LYS A 341 CG CD CE NZ REMARK 470 GLU A 342 CG CD OE1 OE2 REMARK 470 GLU A 343 CG CD OE1 OE2 REMARK 470 ARG A 431 CG CD NE CZ NH1 NH2 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 OE2 GLU A 9 OG1 THR A 184 2.05 REMARK 500 O2B ADP A 501 F3 ALF A 503 2.12 REMARK 500 NH1 ARG A 220 O GLU A 395 2.18 REMARK 500 OD2 ASP A 142 NH1 ARG A 202 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 VAL A 312 CB VAL A 312 CG1 -0.154 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ILE A 320 CG1 - CB - CG2 ANGL. DEV. = -14.7 DEGREES REMARK 500 DT C 7 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 DT C 7 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES 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 LYS A 44 43.68 -73.86 REMARK 500 GLN A 145 -137.28 -104.82 REMARK 500 LYS A 152 -61.86 71.55 REMARK 500 ASP A 219 63.23 72.40 REMARK 500 LYS A 247 -171.58 -64.01 REMARK 500 LEU A 248 -61.26 65.31 REMARK 500 ASP A 262 -99.41 -130.25 REMARK 500 PHE A 264 93.95 -167.92 REMARK 500 ALA A 304 114.64 -160.27 REMARK 500 LYS A 335 -137.64 -115.55 REMARK 500 ASP A 336 67.31 -69.95 REMARK 500 ALA A 355 41.37 -143.02 REMARK 500 PHE A 379 -7.94 -149.81 REMARK 500 GLU A 395 -33.45 -29.78 REMARK 500 GLU A 424 50.74 -105.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 35 OG1 REMARK 620 2 ADP A 501 O2B 61.5 REMARK 620 N 1 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ALF A 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FHD RELATED DB: PDB REMARK 900 RELATED ID: 5FHF RELATED DB: PDB REMARK 900 RELATED ID: 5FHG RELATED DB: PDB REMARK 900 RELATED ID: 5FHH RELATED DB: PDB DBREF 5FHE A 1 433 UNP D1JM21 D1JM21_9BACE 1 433 DBREF 5FHE C 1 10 PDB 5FHE 5FHE 1 10 SEQRES 1 A 433 MET GLU ASP MET ILE LEU THR GLU GLU MET GLN LYS ILE SEQRES 2 A 433 MET ASN LEU ILE GLN ASP ASP GLU ASN ASN VAL PHE VAL SEQRES 3 A 433 THR GLY LYS ALA GLY SER GLY LYS THR THR PHE LEU LYS SEQRES 4 A 433 TYR LEU ILE GLU LYS SER GLY LYS ASN CYS ILE VAL ALA SEQRES 5 A 433 ALA PRO THR GLY ILE ALA ALA ILE ASN ALA GLY GLY VAL SEQRES 6 A 433 THR LEU HIS SER LEU PHE GLY ILE PRO PHE GLY PRO ILE SEQRES 7 A 433 THR PRO TYR ASP ARG LEU GLU ASN LYS PHE SER GLU TYR SEQRES 8 A 433 LYS VAL GLU LEU LEU LEU LYS MET GLU LEU LEU ILE ILE SEQRES 9 A 433 ASP GLU ILE SER MET VAL ARG PRO ASP ILE LEU ASP THR SEQRES 10 A 433 ILE ASP ARG LYS LEU ARG TRP VAL TYR GLU SER ASP GLU SEQRES 11 A 433 PRO PHE GLY GLY VAL GLN VAL VAL MET PHE GLY ASP LEU SEQRES 12 A 433 PHE GLN LEU PRO PRO VAL THR LYS LYS GLN GLU ARG GLU SEQRES 13 A 433 ILE LEU SER ASP PHE TYR ASP GLY PHE PHE PHE PHE ASN SEQRES 14 A 433 ALA LEU VAL PHE LYS ARG THR GLY PHE HIS ILE VAL GLU SEQRES 15 A 433 LEU THR LYS ILE PHE ARG GLN THR GLU PRO GLU PHE ILE SEQRES 16 A 433 ASN VAL LEU ASN ASN ILE ARG ASN TYR GLN VAL THR SER SEQRES 17 A 433 ASP GLU LEU ASP LEU LEU SER GLU LEU LYS ASP ARG LYS SEQRES 18 A 433 ILE SER SER SER TYR ASP ASN GLU TYR ILE HIS ILE CYS SEQRES 19 A 433 THR HIS LYS ALA ASP VAL GLU LYS ILE ASN ALA ASP LYS SEQRES 20 A 433 LEU GLY GLU GLN GLU ILE ARG ASN TYR ASP ILE VAL ILE SEQRES 21 A 433 LYS ASP LYS PHE PRO GLU SER SER ILE PRO CYS ASP LEU SEQRES 22 A 433 HIS LEU LYS LEU ARG VAL GLY ALA ARG VAL MET SER LEU SEQRES 23 A 433 VAL ASN ASP SER LEU LYS GLY TYR TYR ASN GLY MET LEU SEQRES 24 A 433 GLY ILE VAL THR ALA LEU GLU ASP ASN VAL ILE THR VAL SEQRES 25 A 433 ARG MET ASP ASN GLY ARG THR ILE LYS PHE GLU ARG TYR SEQRES 26 A 433 THR TRP SER ASN THR GLN TYR THR LEU LYS ASP ASN GLU SEQRES 27 A 433 ILE VAL LYS GLU GLU ILE GLY SER CYS THR GLN PHE PRO SEQRES 28 A 433 LEU THR LEU ALA TRP ALA ILE THR ILE HIS LYS SER GLN SEQRES 29 A 433 GLY LEU THR PHE ASP LYS ILE ILE ILE HIS VAL SER HIS SEQRES 30 A 433 THR PHE CYS PRO GLY GLN LEU TYR VAL ALA LEU SER ARG SEQRES 31 A 433 CYS ARG THR LEU GLU GLY ILE VAL SER ASP ALA PHE ILE SEQRES 32 A 433 THR LYS GLN MET ILE ILE PRO GLU TYR ALA LEU ILE ASP SEQRES 33 A 433 PHE GLU ARG ALA TYR LYS SER GLU GLY ASN TYR TYR GLY SEQRES 34 A 433 LYS ARG LEU ASP SEQRES 1 C 10 DT DT DT DT DT DT DT DT DT DT HET ADP A 501 27 HET MG A 502 1 HET ALF A 503 5 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM ALF TETRAFLUOROALUMINATE ION FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 MG MG 2+ FORMUL 5 ALF AL F4 1- HELIX 1 AA1 THR A 7 ASN A 15 1 9 HELIX 2 AA2 GLY A 33 LYS A 44 1 12 HELIX 3 AA3 THR A 55 GLY A 63 1 9 HELIX 4 AA4 LEU A 67 GLY A 72 1 6 HELIX 5 AA5 SER A 89 MET A 99 1 11 HELIX 6 AA6 GLU A 106 VAL A 110 5 5 HELIX 7 AA7 ARG A 111 TYR A 126 1 16 HELIX 8 AA8 GLU A 130 GLY A 134 5 5 HELIX 9 AA9 LYS A 152 ASP A 160 1 9 HELIX 10 AB1 PHE A 166 ARG A 175 5 10 HELIX 11 AB2 GLU A 191 ASN A 203 1 13 HELIX 12 AB3 ASP A 209 GLU A 216 5 8 HELIX 13 AB4 HIS A 236 LYS A 247 1 12 HELIX 14 AB5 GLY A 382 ARG A 390 1 9 HELIX 15 AB6 THR A 404 ILE A 408 5 5 HELIX 16 AB7 GLU A 411 GLU A 424 1 14 SHEET 1 AA1 7 VAL A 65 THR A 66 0 SHEET 2 AA1 7 CYS A 49 ALA A 53 1 N ALA A 53 O VAL A 65 SHEET 3 AA1 7 LEU A 101 ILE A 104 1 O ILE A 103 N ILE A 50 SHEET 4 AA1 7 GLN A 136 PHE A 140 1 O PHE A 140 N ILE A 104 SHEET 5 AA1 7 ASN A 23 GLY A 28 1 N VAL A 26 O MET A 139 SHEET 6 AA1 7 GLY A 177 LEU A 183 1 O HIS A 179 N PHE A 25 SHEET 7 AA1 7 TYR A 427 GLY A 429 -1 O TYR A 428 N PHE A 178 SHEET 1 AA2 4 ALA A 357 THR A 359 0 SHEET 2 AA2 4 ILE A 231 CYS A 234 1 N CYS A 234 O ILE A 358 SHEET 3 AA2 4 ILE A 371 HIS A 374 1 O ILE A 372 N ILE A 231 SHEET 4 AA2 4 ILE A 397 SER A 399 1 O VAL A 398 N ILE A 373 SHEET 1 AA3 2 ARG A 254 ASP A 257 0 SHEET 2 AA3 2 HIS A 274 LEU A 277 -1 O LEU A 277 N ARG A 254 SHEET 1 AA4 3 VAL A 259 ILE A 260 0 SHEET 2 AA4 3 ILE A 339 GLN A 349 -1 O THR A 348 N VAL A 259 SHEET 3 AA4 3 TYR A 325 LEU A 334 -1 N THR A 333 O VAL A 340 SHEET 1 AA5 5 THR A 319 PHE A 322 0 SHEET 2 AA5 5 ILE A 310 MET A 314 -1 N ILE A 310 O PHE A 322 SHEET 3 AA5 5 LEU A 299 LEU A 305 -1 N THR A 303 O THR A 311 SHEET 4 AA5 5 ARG A 282 SER A 285 -1 N VAL A 283 O GLY A 300 SHEET 5 AA5 5 LEU A 352 LEU A 354 -1 O THR A 353 N MET A 284 LINK OG1 THR A 35 MG MG A 502 1555 1555 1.78 LINK O2B ADP A 501 MG MG A 502 1555 1555 2.56 CISPEP 1 SER A 224 SER A 225 0 -2.56 SITE 1 AC1 13 ILE A 5 ALA A 30 GLY A 31 GLY A 33 SITE 2 AC1 13 LYS A 34 THR A 35 THR A 36 PHE A 187 SITE 3 AC1 13 ARG A 188 THR A 367 ARG A 392 MG A 502 SITE 4 AC1 13 ALF A 503 SITE 1 AC2 5 THR A 35 ASP A 105 GLU A 106 ADP A 501 SITE 2 AC2 5 ALF A 503 SITE 1 AC3 11 ALA A 30 GLY A 31 LYS A 34 THR A 35 SITE 2 AC3 11 GLU A 106 GLN A 145 ARG A 188 GLY A 365 SITE 3 AC3 11 ARG A 390 ADP A 501 MG A 502 CRYST1 87.442 87.442 149.822 90.00 90.00 120.00 P 31 2 1 6 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 0.011436 0.006603 0.000000 0.00000 SCALE2 0.000000 0.013205 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006675 0.00000