HEADER HYDROLASE 12-JAN-16 5FTE TITLE CRYSTAL STRUCTURE OF PIF1 HELICASE FROM BACTEROIDES IN COMPLEX WITH TITLE 2 ADP-ALF3 AND SSDNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: TPR DOMAIN PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HELICASE; COMPND 5 EC: 3.6.4.12; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*TP*TP*TP*TP*TP*TP)-3'; COMPND 9 CHAIN: D; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES; SOURCE 3 ORGANISM_TAXID: 457390; SOURCE 4 STRAIN: SP. 3_1_23; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET15B-SUMO; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630 KEYWDS HYDROLASE, SF1B, G QUADRUPLEX, SH3 DOMAIN, CONFORMATIONAL CHANGE EXPDTA X-RAY DIFFRACTION AUTHOR W.-F.CHEN,Y.-X.DAI,X.-L.DUAN,N.-N.LIU,W.SHI,M.LI,S.-X.DOU,N.LI,Y.- AUTHOR 2 H.DONG,S.RETY,X.-G.XI REVDAT 4 10-JAN-24 5FTE 1 REMARK LINK REVDAT 3 20-APR-16 5FTE 1 JRNL REVDAT 2 02-MAR-16 5FTE 1 JRNL REVDAT 1 03-FEB-16 5FTE 0 JRNL AUTH W.-F.CHEN,Y.-X.DAI,X.-L.DUAN,N.-N.LIU,W.SHI,N.LI,M.LI, JRNL AUTH 2 S.-X.DOU,Y.-H.DONG,S.RETY,X.-G.XI JRNL TITL CRYSTAL STRUCTURES OF THE BSPIF1 HELICASE REVEAL THAT A JRNL TITL 2 MAJOR MOVEMENT OF THE 2B SH3 DOMAIN IS REQUIRED FOR DNA JRNL TITL 3 UNWINDING JRNL REF NUCLEIC ACIDS RES. V. 44 2949 2016 JRNL REFN ISSN 0305-1048 JRNL PMID 26809678 JRNL DOI 10.1093/NAR/GKW033 REMARK 2 REMARK 2 RESOLUTION. 3.19 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) : 3.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 75.12 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 11302 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 568 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 75.1424 - 5.0630 1.00 2794 148 0.1952 0.2259 REMARK 3 2 5.0630 - 4.0187 1.00 2670 148 0.2041 0.2829 REMARK 3 3 4.0187 - 3.5107 1.00 2645 148 0.2646 0.3669 REMARK 3 4 3.5107 - 3.1897 1.00 2625 124 0.3360 0.4112 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) : 0.540 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.410 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 107.8 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 : 0.003 3696 REMARK 3 ANGLE : 0.732 5022 REMARK 3 CHIRALITY : 0.046 567 REMARK 3 PLANARITY : 0.004 616 REMARK 3 DIHEDRAL : 16.325 2198 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 3 THROUGH 202 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.4076 10.1546 159.5224 REMARK 3 T TENSOR REMARK 3 T11: 0.8090 T22: 0.5604 REMARK 3 T33: 0.7432 T12: -0.0243 REMARK 3 T13: -0.0884 T23: -0.0069 REMARK 3 L TENSOR REMARK 3 L11: 4.5506 L22: 2.2076 REMARK 3 L33: 7.1724 L12: 0.1469 REMARK 3 L13: -1.3555 L23: 0.7999 REMARK 3 S TENSOR REMARK 3 S11: 0.1209 S12: -0.3603 S13: -0.3042 REMARK 3 S21: 0.0646 S22: 0.1034 S23: -0.2512 REMARK 3 S31: 0.3186 S32: 0.4597 S33: -0.1853 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 203 THROUGH 247 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.2179 24.2284 134.1747 REMARK 3 T TENSOR REMARK 3 T11: 1.0586 T22: 1.0398 REMARK 3 T33: 0.8783 T12: -0.0888 REMARK 3 T13: -0.0221 T23: -0.1824 REMARK 3 L TENSOR REMARK 3 L11: 6.5460 L22: 3.2067 REMARK 3 L33: 2.8454 L12: -0.9878 REMARK 3 L13: -1.9366 L23: -1.2765 REMARK 3 S TENSOR REMARK 3 S11: -0.1212 S12: 0.8685 S13: 0.6361 REMARK 3 S21: -0.3742 S22: 0.2226 S23: 0.0854 REMARK 3 S31: -0.0962 S32: -0.2716 S33: -0.1017 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 248 THROUGH 314 ) REMARK 3 ORIGIN FOR THE GROUP (A): -52.2725 19.8456 145.3893 REMARK 3 T TENSOR REMARK 3 T11: 1.1007 T22: 0.7704 REMARK 3 T33: 0.8575 T12: -0.1470 REMARK 3 T13: -0.0294 T23: 0.0109 REMARK 3 L TENSOR REMARK 3 L11: 4.9433 L22: 3.2525 REMARK 3 L33: 5.7776 L12: -0.4761 REMARK 3 L13: 0.2944 L23: 1.3848 REMARK 3 S TENSOR REMARK 3 S11: 0.1657 S12: 0.0422 S13: -0.0290 REMARK 3 S21: -0.1917 S22: -0.1177 S23: 0.1769 REMARK 3 S31: 0.1094 S32: -0.8388 S33: -0.1037 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 315 THROUGH 382 ) REMARK 3 ORIGIN FOR THE GROUP (A): -44.1645 21.0444 152.2178 REMARK 3 T TENSOR REMARK 3 T11: 0.8702 T22: 0.4937 REMARK 3 T33: 0.7294 T12: 0.0300 REMARK 3 T13: 0.0022 T23: 0.1425 REMARK 3 L TENSOR REMARK 3 L11: 4.0499 L22: 0.9814 REMARK 3 L33: 5.7656 L12: 1.2024 REMARK 3 L13: 1.1346 L23: 2.4550 REMARK 3 S TENSOR REMARK 3 S11: -0.2128 S12: 0.0917 S13: -0.3675 REMARK 3 S21: -0.2007 S22: -0.1113 S23: -0.0063 REMARK 3 S31: 0.0643 S32: -0.9174 S33: 0.2291 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 383 THROUGH 431 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.8155 19.3154 148.4610 REMARK 3 T TENSOR REMARK 3 T11: 0.9205 T22: 0.7881 REMARK 3 T33: 1.0648 T12: -0.0844 REMARK 3 T13: -0.0312 T23: -0.1739 REMARK 3 L TENSOR REMARK 3 L11: 3.7223 L22: 2.3129 REMARK 3 L33: 4.0593 L12: 0.9199 REMARK 3 L13: -1.6705 L23: -1.9800 REMARK 3 S TENSOR REMARK 3 S11: -0.5500 S12: 0.1971 S13: -0.2044 REMARK 3 S21: 0.2254 S22: 0.0921 S23: -0.6322 REMARK 3 S31: -0.3893 S32: 0.8443 S33: 0.4792 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 3 THROUGH 8 ) REMARK 3 ORIGIN FOR THE GROUP (A): -38.4085 23.3120 156.6179 REMARK 3 T TENSOR REMARK 3 T11: 1.0296 T22: 1.2144 REMARK 3 T33: 0.9735 T12: 0.0862 REMARK 3 T13: 0.0621 T23: 0.0589 REMARK 3 L TENSOR REMARK 3 L11: 6.2000 L22: 5.6833 REMARK 3 L33: 9.2389 L12: 1.9482 REMARK 3 L13: -3.3226 L23: -4.4943 REMARK 3 S TENSOR REMARK 3 S11: 0.0224 S12: -0.6976 S13: -0.0101 REMARK 3 S21: 1.0601 S22: -0.0011 S23: -0.0679 REMARK 3 S31: -1.3408 S32: -0.5285 S33: -0.1225 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 5FTE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1290066033. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 7.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.977760 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11303 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.190 REMARK 200 RESOLUTION RANGE LOW (A) : 75.120 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.800 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.6200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.20 REMARK 200 R MERGE FOR SHELL (I) : 1.06000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.590 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 5FTB REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH 7.1 3.5M SODIUM FORMATE REMARK 280 5% GLYCEROL 0.01M SPERMIDINE 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 49.74067 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 99.48133 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 99.48133 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 49.74067 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: 2870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 433 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 LEU A 432 CA C O CB CG CD1 CD2 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 OH TYR A 256 O GLU A 306 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 LYS A 44 -63.59 -120.74 REMARK 500 CYS A 49 154.85 174.60 REMARK 500 GLN A 145 -80.74 -80.08 REMARK 500 PHE A 187 -57.69 -120.24 REMARK 500 TYR A 204 -10.74 68.29 REMARK 500 ASP A 227 30.02 -82.23 REMARK 500 ASN A 228 2.89 115.30 REMARK 500 GLU A 229 -148.85 59.22 REMARK 500 TYR A 230 161.58 175.19 REMARK 500 GLU A 252 -74.66 -107.14 REMARK 500 ILE A 253 -155.02 -154.42 REMARK 500 ASP A 262 -131.81 61.12 REMARK 500 ASP A 336 -124.43 42.68 REMARK 500 GLU A 338 163.13 173.19 REMARK 500 PHE A 379 -169.83 -161.22 REMARK 500 CYS A 380 147.18 -173.43 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 46 LYS A 47 148.49 REMARK 500 ASP A 227 ASN A 228 -149.28 REMARK 500 ASN A 228 GLU A 229 143.89 REMARK 500 ILE A 253 ARG A 254 -137.88 REMARK 500 ASP A 336 ASN A 337 146.68 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 A1434 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 35 OG1 REMARK 620 2 GLU A 106 OE1 130.1 REMARK 620 3 ADP A1432 O3B 56.6 149.8 REMARK 620 4 AF3 A1433 F2 96.1 122.3 80.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 AF3 A1433 AL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP A1432 O1B REMARK 620 2 AF3 A1433 F1 118.9 REMARK 620 3 AF3 A1433 F2 87.0 120.8 REMARK 620 4 AF3 A1433 F3 67.3 119.8 119.3 REMARK 620 5 MG A1434 MG 89.2 78.4 47.5 155.0 REMARK 620 N 1 2 3 4 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 1432 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AF3 A 1433 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1434 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FTB RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PIF1 HELICASE FROM BACTEROIDES IN COMPLEX WITH REMARK 900 AMPPNP REMARK 900 RELATED ID: 5FTC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PIF1 HELICASE FROM BACTEROIDES IN COMPLEX WITH REMARK 900 ADP REMARK 900 RELATED ID: 5FTD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PIF1 HELICASE FROM BACTEROIDES APO FORM REMARK 900 RELATED ID: 5FTF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PIF1 HELICASE FROM BACTEROIDES DOUBLE MUTANT REMARK 900 L95C-I339C REMARK 999 REMARK 999 SEQUENCE REMARK 999 NCBI REFERENCE SEQUENCE WP_008647876.1 DBREF 5FTE A 1 433 UNP D7K0H3 D7K0H3_9BACE 1 433 DBREF 5FTE D 3 8 PDB 5FTE 5FTE 3 8 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 ILE 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 D 6 DT DT DT DT DT DT HET ADP A1432 27 HET AF3 A1433 4 HET MG A1434 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM AF3 ALUMINUM FLUORIDE HETNAM MG MAGNESIUM ION FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 AF3 AL F3 FORMUL 5 MG MG 2+ HELIX 1 1 THR A 7 ILE A 17 1 11 HELIX 2 2 GLY A 33 ILE A 42 1 10 HELIX 3 3 THR A 55 GLY A 63 1 9 HELIX 4 4 LEU A 67 PHE A 71 1 5 HELIX 5 5 SER A 89 MET A 99 1 11 HELIX 6 6 ILE A 107 VAL A 110 5 4 HELIX 7 7 ARG A 111 GLU A 127 1 17 HELIX 8 8 GLU A 130 VAL A 135 5 6 HELIX 9 9 LYS A 151 TYR A 162 1 12 HELIX 10 10 PHE A 166 ALA A 170 5 5 HELIX 11 11 ALA A 170 ARG A 175 5 6 HELIX 12 12 GLU A 191 ASN A 203 1 13 HELIX 13 13 GLU A 210 ASP A 219 5 10 HELIX 14 14 HIS A 236 LEU A 248 1 13 HELIX 15 15 THR A 359 GLN A 364 1 6 HELIX 16 16 GLY A 382 ARG A 390 1 9 HELIX 17 17 THR A 404 ILE A 408 5 5 HELIX 18 18 TYR A 412 GLU A 424 1 13 SHEET 1 AA 7 VAL A 65 THR A 66 0 SHEET 2 AA 7 ILE A 50 ALA A 53 1 O VAL A 51 N VAL A 65 SHEET 3 AA 7 LEU A 101 ASP A 105 1 O LEU A 101 N ILE A 50 SHEET 4 AA 7 GLN A 136 PHE A 140 1 O GLN A 136 N LEU A 102 SHEET 5 AA 7 VAL A 24 GLY A 28 1 O VAL A 24 N MET A 139 SHEET 6 AA 7 GLY A 177 LEU A 183 1 O HIS A 179 N PHE A 25 SHEET 7 AA 7 TYR A 427 GLY A 429 -1 O TYR A 428 N PHE A 178 SHEET 1 AB 3 HIS A 232 CYS A 234 0 SHEET 2 AB 3 ILE A 371 HIS A 374 1 O ILE A 372 N ILE A 233 SHEET 3 AB 3 ILE A 397 SER A 399 1 O VAL A 398 N ILE A 373 SHEET 1 AC 2 ASN A 255 ASP A 257 0 SHEET 2 AC 2 HIS A 274 LYS A 276 -1 O LEU A 275 N TYR A 256 SHEET 1 AD 3 VAL A 259 ASP A 262 0 SHEET 2 AD 3 GLU A 343 GLN A 349 -1 O SER A 346 N LYS A 261 SHEET 3 AD 3 TYR A 325 THR A 330 -1 O TYR A 325 N GLN A 349 SHEET 1 AE 5 THR A 319 PHE A 322 0 SHEET 2 AE 5 ILE A 310 MET A 314 -1 O ILE A 310 N PHE A 322 SHEET 3 AE 5 LEU A 299 LEU A 305 -1 O ILE A 301 N ARG A 313 SHEET 4 AE 5 ARG A 282 SER A 285 -1 O VAL A 283 N GLY A 300 SHEET 5 AE 5 LEU A 352 LEU A 354 -1 O THR A 353 N MET A 284 SHEET 1 AF 2 THR A 333 LYS A 335 0 SHEET 2 AF 2 GLU A 338 VAL A 340 -1 O GLU A 338 N LYS A 335 LINK OG1 THR A 35 MG MG A1434 1555 1555 2.74 LINK OE1 GLU A 106 MG MG A1434 1555 1555 2.80 LINK O1B ADP A1432 AL AF3 A1433 1555 1555 2.88 LINK O3B ADP A1432 MG MG A1434 1555 1555 2.09 LINK AL AF3 A1433 MG MG A1434 1555 1555 2.63 LINK F2 AF3 A1433 MG MG A1434 1555 1555 1.94 CISPEP 1 VAL A 149 THR A 150 0 17.64 CISPEP 2 SER A 224 SER A 225 0 -1.88 SITE 1 AC1 16 MET A 4 ILE A 5 LYS A 29 ALA A 30 SITE 2 AC1 16 GLY A 31 SER A 32 GLY A 33 LYS A 34 SITE 3 AC1 16 THR A 35 THR A 36 PHE A 187 ARG A 188 SITE 4 AC1 16 THR A 367 ARG A 392 AF3 A1433 MG A1434 SITE 1 AC2 11 ALA A 30 GLY A 31 LYS A 34 THR A 35 SITE 2 AC2 11 GLU A 106 GLN A 145 ARG A 188 GLY A 365 SITE 3 AC2 11 ARG A 390 ADP A1432 MG A1434 SITE 1 AC3 5 THR A 35 GLU A 106 GLY A 365 ADP A1432 SITE 2 AC3 5 AF3 A1433 CRYST1 86.743 86.743 149.222 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 0.011528 0.006656 0.000000 0.00000 SCALE2 0.000000 0.013312 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006701 0.00000