HEADER HYDROLASE 25-JUN-19 6S3O TITLE CRYSTAL STRUCTURE OF HELICASE PIF1 FROM THERMUS OSHIMAI IN COMPLEX TITLE 2 WITH SSDNA (DT)18 AND ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PIF1 HELICASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*T)-3'); COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS OSHIMAI; SOURCE 3 ORGANISM_TAXID: 56957; SOURCE 4 GENE: THEOS_1468; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 83333; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: C2566H; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B-SUMO; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: THERMUS OSHIMAI; SOURCE 13 ORGANISM_TAXID: 56957 KEYWDS DNA HELICASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.X.DAI,W.F.CHEN,F.Y.TENG,N.N.LIU,X.M.HOU,S.X.DOU,S.RETY,X.G.XI REVDAT 4 24-JAN-24 6S3O 1 REMARK REVDAT 3 28-APR-21 6S3O 1 JRNL REVDAT 2 07-APR-21 6S3O 1 JRNL REVDAT 1 13-JAN-21 6S3O 0 JRNL AUTH Y.X.DAI,W.F.CHEN,N.N.LIU,F.Y.TENG,H.L.GUO,X.M.HOU,S.X.DOU, JRNL AUTH 2 S.RETY,X.G.XI JRNL TITL STRUCTURAL AND FUNCTIONAL STUDIES OF SF1B PIF1 FROM THERMUS JRNL TITL 2 OSHIMAI REVEAL DIMERIZATION-INDUCED HELICASE INHIBITION. JRNL REF NUCLEIC ACIDS RES. V. 49 4129 2021 JRNL REFN ESSN 1362-4962 JRNL PMID 33784404 JRNL DOI 10.1093/NAR/GKAB188 REMARK 2 REMARK 2 RESOLUTION. 1.97 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14RC1_3177: ???) 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) : 1.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.24 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.310 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.7 REMARK 3 NUMBER OF REFLECTIONS : 35915 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 1815 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 44.3314 - 4.6395 0.99 3161 158 0.1688 0.1859 REMARK 3 2 4.6395 - 3.6831 0.96 2957 158 0.1435 0.1774 REMARK 3 3 3.6831 - 3.2177 0.88 2612 175 0.1703 0.2173 REMARK 3 4 3.2177 - 2.9235 1.00 3016 160 0.1913 0.2237 REMARK 3 5 2.9235 - 2.7140 1.00 2969 179 0.2036 0.2322 REMARK 3 6 2.7140 - 2.5540 0.70 2109 97 0.2036 0.2608 REMARK 3 7 2.5540 - 2.4261 1.00 2965 149 0.2194 0.2759 REMARK 3 8 2.4261 - 2.3205 1.00 2987 157 0.2128 0.2511 REMARK 3 9 2.3205 - 2.2312 0.71 2083 114 0.2314 0.2669 REMARK 3 10 2.2312 - 2.1542 1.00 2955 146 0.2196 0.2963 REMARK 3 11 2.1542 - 2.0868 0.99 2831 148 0.2291 0.2563 REMARK 3 12 2.0868 - 2.0272 0.95 747 31 0.2814 0.3950 REMARK 3 13 2.0272 - 1.9738 0.93 2708 143 0.3169 0.3777 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.36 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 : 0.005 3770 REMARK 3 ANGLE : 0.718 5150 REMARK 3 CHIRALITY : 0.047 567 REMARK 3 PLANARITY : 0.005 644 REMARK 3 DIHEDRAL : 25.303 1442 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 68 THROUGH 145 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.4896 2.2546 -12.7010 REMARK 3 T TENSOR REMARK 3 T11: 0.2726 T22: 0.1729 REMARK 3 T33: 0.1815 T12: -0.0322 REMARK 3 T13: 0.0540 T23: -0.0421 REMARK 3 L TENSOR REMARK 3 L11: 1.2391 L22: 1.2743 REMARK 3 L33: 2.5632 L12: -0.0615 REMARK 3 L13: 0.3313 L23: -0.1491 REMARK 3 S TENSOR REMARK 3 S11: 0.0063 S12: -0.0409 S13: -0.0769 REMARK 3 S21: 0.3547 S22: -0.0733 S23: 0.0777 REMARK 3 S31: 0.3754 S32: -0.0559 S33: 0.0615 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 146 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.3970 4.2735 -23.6575 REMARK 3 T TENSOR REMARK 3 T11: 0.1621 T22: 0.2061 REMARK 3 T33: 0.2055 T12: -0.0468 REMARK 3 T13: 0.0470 T23: -0.0551 REMARK 3 L TENSOR REMARK 3 L11: 1.5486 L22: 2.2837 REMARK 3 L33: 2.4284 L12: 0.0113 REMARK 3 L13: 0.0072 L23: -0.5766 REMARK 3 S TENSOR REMARK 3 S11: 0.0178 S12: 0.1297 S13: -0.1380 REMARK 3 S21: 0.0745 S22: -0.0165 S23: 0.3047 REMARK 3 S31: 0.2482 S32: -0.1961 S33: -0.0028 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 232 THROUGH 286 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.5347 19.9165 -9.7676 REMARK 3 T TENSOR REMARK 3 T11: 0.3467 T22: 0.2030 REMARK 3 T33: 0.2147 T12: -0.0156 REMARK 3 T13: -0.0122 T23: -0.0373 REMARK 3 L TENSOR REMARK 3 L11: 2.4871 L22: 1.2671 REMARK 3 L33: 0.9465 L12: 1.6148 REMARK 3 L13: 0.4923 L23: 0.2344 REMARK 3 S TENSOR REMARK 3 S11: 0.1994 S12: -0.1767 S13: 0.0570 REMARK 3 S21: 0.5439 S22: -0.1834 S23: 0.0212 REMARK 3 S31: -0.1318 S32: -0.0101 S33: 0.0039 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 287 THROUGH 317 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.9439 17.1646 -26.5980 REMARK 3 T TENSOR REMARK 3 T11: 0.2361 T22: 0.3665 REMARK 3 T33: 0.3495 T12: -0.0620 REMARK 3 T13: -0.0494 T23: -0.0640 REMARK 3 L TENSOR REMARK 3 L11: 0.7721 L22: 2.8584 REMARK 3 L33: 1.2850 L12: -0.5803 REMARK 3 L13: -0.9314 L23: 1.3454 REMARK 3 S TENSOR REMARK 3 S11: -0.1570 S12: 0.0724 S13: 0.1384 REMARK 3 S21: -0.0382 S22: 0.3502 S23: -0.6766 REMARK 3 S31: -0.1947 S32: 0.5612 S33: -0.1630 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 318 THROUGH 404 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.5243 1.3233 -34.4602 REMARK 3 T TENSOR REMARK 3 T11: 0.1618 T22: 0.1845 REMARK 3 T33: 0.1821 T12: -0.0100 REMARK 3 T13: -0.0101 T23: -0.0361 REMARK 3 L TENSOR REMARK 3 L11: 2.5600 L22: 1.7695 REMARK 3 L33: 1.9647 L12: -0.8744 REMARK 3 L13: 0.2321 L23: -0.2721 REMARK 3 S TENSOR REMARK 3 S11: 0.0582 S12: 0.0862 S13: -0.0669 REMARK 3 S21: 0.0396 S22: -0.0314 S23: -0.0822 REMARK 3 S31: -0.0574 S32: 0.1710 S33: -0.0140 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 405 THROUGH 455 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.0812 13.0069 -31.5106 REMARK 3 T TENSOR REMARK 3 T11: 0.1779 T22: 0.2284 REMARK 3 T33: 0.1373 T12: -0.0259 REMARK 3 T13: 0.0088 T23: -0.0311 REMARK 3 L TENSOR REMARK 3 L11: 0.2270 L22: 2.4787 REMARK 3 L33: 1.8086 L12: -0.3309 REMARK 3 L13: -0.1714 L23: 0.6651 REMARK 3 S TENSOR REMARK 3 S11: 0.0249 S12: 0.0904 S13: -0.0649 REMARK 3 S21: 0.0561 S22: -0.0569 S23: -0.0164 REMARK 3 S31: 0.0322 S32: -0.1146 S33: -0.0526 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 456 THROUGH 502 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.3579 22.0235 -14.7634 REMARK 3 T TENSOR REMARK 3 T11: 0.2976 T22: 0.1525 REMARK 3 T33: 0.1604 T12: -0.0141 REMARK 3 T13: -0.0159 T23: -0.0313 REMARK 3 L TENSOR REMARK 3 L11: 4.9451 L22: 2.9413 REMARK 3 L33: 1.5928 L12: 1.1794 REMARK 3 L13: 0.2493 L23: 0.8476 REMARK 3 S TENSOR REMARK 3 S11: -0.1266 S12: 0.0140 S13: 0.1086 REMARK 3 S21: 0.2470 S22: 0.0182 S23: 0.2542 REMARK 3 S31: -0.0798 S32: 0.0320 S33: 0.0560 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 8 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.9062 12.4550 -31.9422 REMARK 3 T TENSOR REMARK 3 T11: 0.1761 T22: 0.2856 REMARK 3 T33: 0.2029 T12: -0.0218 REMARK 3 T13: -0.0473 T23: -0.0158 REMARK 3 L TENSOR REMARK 3 L11: 6.0491 L22: 0.0552 REMARK 3 L33: 6.6039 L12: -0.5363 REMARK 3 L13: 0.2706 L23: -0.2499 REMARK 3 S TENSOR REMARK 3 S11: -0.3407 S12: 0.5514 S13: 0.5192 REMARK 3 S21: -0.6061 S22: 0.1689 S23: 0.3994 REMARK 3 S31: -0.3013 S32: 0.0006 S33: 0.1242 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 6S3O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1292103092. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUN-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35963 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.974 REMARK 200 RESOLUTION RANGE LOW (A) : 32.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.7 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.12440 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.8100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.97 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : 0.82550 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.320 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: 5FTD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS-HCL 0.1M NAF 0.03M NABR 0.03M NAI REMARK 280 0.03M MES 0.03M PEG 4K 10% GLYCEROL 20%, PH 8.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 30.50600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.41450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.24450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.41450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.50600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.24450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 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 THR A 64 REMARK 465 PRO A 65 REMARK 465 GLU A 66 REMARK 465 GLY A 503 REMARK 465 TRP A 504 REMARK 465 PRO A 505 REMARK 465 SER A 506 REMARK 465 LEU A 507 REMARK 465 DT B 9 REMARK 465 DT B 10 REMARK 465 DT B 11 REMARK 465 DT B 12 REMARK 465 DT B 13 REMARK 465 DT B 14 REMARK 465 DT B 15 REMARK 465 DT B 16 REMARK 465 DT B 17 REMARK 465 DT B 18 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 DT B 8 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DT B 8 N1 C2 O2 N3 C4 O4 C5 REMARK 470 DT B 8 C7 C6 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 1403 O HOH A 1428 1.85 REMARK 500 O HOH A 1469 O HOH A 1480 1.86 REMARK 500 O HOH A 1126 O HOH A 1189 1.89 REMARK 500 O HOH A 1390 O HOH B 124 1.90 REMARK 500 O HOH A 1392 O HOH A 1447 1.90 REMARK 500 O HOH A 1263 O HOH A 1442 1.93 REMARK 500 O HOH B 118 O HOH B 124 1.96 REMARK 500 NH2 ARG A 211 OE1 GLU A 487 1.96 REMARK 500 O ARG A 407 O HOH A 1101 1.97 REMARK 500 O HOH A 1414 O HOH A 1423 1.99 REMARK 500 O HOH A 1195 O HOH A 1380 2.00 REMARK 500 O HOH A 1434 O HOH A 1439 2.01 REMARK 500 O HOH A 1364 O HOH A 1380 2.02 REMARK 500 NZ LYS A 160 O HOH A 1102 2.04 REMARK 500 NE2 GLN A 350 O HOH A 1103 2.05 REMARK 500 OE1 GLU A 397 O HOH A 1104 2.08 REMARK 500 O HOH A 1403 O HOH A 1405 2.09 REMARK 500 O HOH A 1280 O HOH A 1391 2.09 REMARK 500 O HOH A 1427 O HOH A 1438 2.09 REMARK 500 OH TYR A 143 O HOH A 1105 2.10 REMARK 500 OG1 THR A 98 O HOH A 1106 2.13 REMARK 500 OE2 GLU A 166 O HOH A 1107 2.16 REMARK 500 O HOH A 1164 O HOH A 1464 2.18 REMARK 500 OE2 GLU A 197 O HOH A 1108 2.18 REMARK 500 O HOH A 1478 O HOH A 1483 2.19 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 A 1474 O HOH A 1488 3544 1.87 REMARK 500 O HOH A 1386 O HOH A 1407 1655 1.97 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 ASP A 260 83.22 -151.42 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 TYR A 108 LYS A 109 -132.24 REMARK 500 GLU A 408 GLU A 409 145.85 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 A1488 DISTANCE = 5.90 ANGSTROMS 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 A1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 98 OG1 REMARK 620 2 ADP A1001 O3B 66.4 REMARK 620 3 HOH A1106 O 50.5 107.8 REMARK 620 4 HOH A1119 O 51.1 69.7 91.5 REMARK 620 5 HOH A1153 O 126.4 121.7 80.6 167.7 REMARK 620 6 HOH A1250 O 119.3 89.2 147.9 68.6 113.9 REMARK 620 7 HOH A1322 O 85.9 144.4 64.9 75.5 92.5 85.3 REMARK 620 N 1 2 3 4 5 6 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 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 1002 DBREF 6S3O A 64 507 UNP K7RJ88 K7RJ88_THEOS 64 507 DBREF 6S3O B 1 18 PDB 6S3O 6S3O 1 18 SEQADV 6S3O THR A 64 UNP K7RJ88 ALA 64 CONFLICT SEQADV 6S3O ILE A 162 UNP K7RJ88 MET 162 CONFLICT SEQADV 6S3O LEU A 456 UNP K7RJ88 PRO 456 CONFLICT SEQRES 1 A 444 THR PRO GLU GLY LEU SER SER GLU GLN GLN ARG ALA PHE SEQRES 2 A 444 LEU ALA VAL THR GLN THR PRO HIS PRO ALA HIS LEU ILE SEQRES 3 A 444 THR GLY PRO ALA GLY THR GLY LYS THR THR LEU LEU TYR SEQRES 4 A 444 ALA LEU GLN GLU PHE TYR LYS GLY ARG ALA VAL THR LEU SEQRES 5 A 444 ALA PRO THR GLY THR ALA ALA LEU GLN ALA ARG GLY GLN SEQRES 6 A 444 THR VAL HIS SER PHE PHE ARG PHE PRO ALA ARG LEU LEU SEQRES 7 A 444 ARG TYR ARG HIS PRO GLU ASP ILE ARG PRO PRO GLY PRO SEQRES 8 A 444 HIS SER PRO LEU ARG LYS ALA ILE GLU GLN MET GLU VAL SEQRES 9 A 444 LEU ILE LEU ASP GLU VAL GLY MET VAL ARG VAL ASP LEU SEQRES 10 A 444 LEU GLU ALA MET ASP TRP ALA LEU ARG LYS THR ARG LYS SEQRES 11 A 444 ARG LEU GLU GLU PRO PHE GLY GLY VAL LYS VAL LEU LEU SEQRES 12 A 444 LEU GLY ASP THR ARG GLN LEU GLU PRO VAL VAL PRO GLY SEQRES 13 A 444 GLY GLU GLU ALA LEU TYR ILE ALA ARG THR TRP GLY GLY SEQRES 14 A 444 PRO PHE PHE PHE GLN ALA HIS VAL TRP GLU GLU VAL ALA SEQRES 15 A 444 LEU ARG VAL HIS ARG LEU TRP GLU SER GLN ARG GLN ARG SEQRES 16 A 444 GLU ASP PRO LEU PHE ALA GLU LEU LEU LYS ARG LEU ARG SEQRES 17 A 444 GLN GLY ASP PRO GLN ALA LEU GLU THR LEU ASN ARG ALA SEQRES 18 A 444 ALA VAL ARG PRO ASP GLY GLY GLU GLU PRO GLY THR LEU SEQRES 19 A 444 ILE LEU THR PRO ARG ARG LYS GLU ALA ASP ALA LEU ASN SEQRES 20 A 444 LEU LYS ARG LEU GLU ALA LEU PRO GLY LYS PRO LEU GLU SEQRES 21 A 444 TYR GLN ALA GLN VAL LYS GLY GLU PHE ALA GLU THR ASP SEQRES 22 A 444 PHE PRO THR GLU ALA ALA LEU THR LEU LYS LYS GLY ALA SEQRES 23 A 444 GLN VAL ILE LEU LEU ARG ASN ASP PRO LEU GLY GLU TYR SEQRES 24 A 444 PHE ASN GLY ASP LEU GLY TRP VAL GLU ASP LEU GLU ALA SEQRES 25 A 444 GLU ALA LEU ALA VAL ARG LEU LYS ARG ASN GLY ARG ARG SEQRES 26 A 444 VAL VAL ILE ARG PRO PHE VAL TRP GLU LYS ILE VAL TYR SEQRES 27 A 444 THR TYR ASP SER GLU ARG GLU GLU ILE LYS PRO GLN VAL SEQRES 28 A 444 VAL GLY THR PHE ARG GLN VAL PRO VAL ARG LEU ALA TRP SEQRES 29 A 444 ALA LEU THR VAL HIS LYS ALA GLN GLY LEU THR LEU ASP SEQRES 30 A 444 LYS VAL HIS LEU GLU LEU GLY ARG GLY LEU PHE ALA HIS SEQRES 31 A 444 GLY GLN LEU TYR VAL ALA LEU THR ARG VAL ARG ARG LEU SEQRES 32 A 444 GLN ASP LEU SER LEU SER ARG PRO ILE ALA PRO THR GLU SEQRES 33 A 444 LEU LEU TRP ARG PRO GLU VAL GLU VAL PHE GLU THR ARG SEQRES 34 A 444 ILE GLN GLU GLY ILE TRP GLN LYS SER HIS GLY TRP PRO SEQRES 35 A 444 SER LEU SEQRES 1 B 18 DT DT DT DT DT DT DT DT DT DT DT DT DT SEQRES 2 B 18 DT DT DT DT DT HET ADP A1001 27 HET MG A1002 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 MG MG 2+ FORMUL 5 HOH *414(H2 O) HELIX 1 AA1 SER A 69 GLN A 81 1 13 HELIX 2 AA2 GLY A 96 LYS A 109 1 14 HELIX 3 AA3 THR A 118 ALA A 125 1 8 HELIX 4 AA4 VAL A 130 ARG A 135 1 6 HELIX 5 AA5 SER A 156 MET A 165 1 10 HELIX 6 AA6 GLU A 172 VAL A 176 5 5 HELIX 7 AA7 ARG A 177 LYS A 193 1 17 HELIX 8 AA8 GLU A 197 VAL A 202 5 6 HELIX 9 AA9 GLY A 220 GLY A 231 1 12 HELIX 10 AB1 PHE A 234 GLU A 243 5 10 HELIX 11 AB2 SER A 254 ASP A 260 1 7 HELIX 12 AB3 ASP A 260 GLN A 272 1 13 HELIX 13 AB4 ASP A 274 GLN A 276 5 3 HELIX 14 AB5 ALA A 277 VAL A 286 1 10 HELIX 15 AB6 ARG A 287 GLU A 293 5 7 HELIX 16 AB7 ARG A 302 LEU A 317 1 16 HELIX 17 AB8 ALA A 333 PHE A 337 5 5 HELIX 18 AB9 VAL A 431 GLN A 435 1 5 HELIX 19 AC1 GLY A 454 THR A 461 1 8 HELIX 20 AC2 ARG A 465 GLN A 467 5 3 HELIX 21 AC3 ALA A 476 LEU A 480 5 5 HELIX 22 AC4 ARG A 483 ILE A 493 1 11 SHEET 1 AA1 7 GLN A 128 THR A 129 0 SHEET 2 AA1 7 ALA A 112 ALA A 116 1 N THR A 114 O GLN A 128 SHEET 3 AA1 7 VAL A 167 LEU A 170 1 O ILE A 169 N LEU A 115 SHEET 4 AA1 7 LYS A 203 GLY A 208 1 O LEU A 205 N LEU A 168 SHEET 5 AA1 7 ALA A 86 THR A 90 1 N HIS A 87 O LEU A 206 SHEET 6 AA1 7 LEU A 246 ARG A 250 1 O ARG A 247 N LEU A 88 SHEET 7 AA1 7 ILE A 497 TRP A 498 -1 O TRP A 498 N LEU A 246 SHEET 1 AA2 4 ALA A 428 THR A 430 0 SHEET 2 AA2 4 LEU A 297 THR A 300 1 N ILE A 298 O LEU A 429 SHEET 3 AA2 4 VAL A 442 LEU A 444 1 O HIS A 443 N LEU A 299 SHEET 4 AA2 4 LEU A 469 LEU A 471 1 O SER A 470 N LEU A 444 SHEET 1 AA3 2 LEU A 322 GLN A 325 0 SHEET 2 AA3 2 ALA A 342 LEU A 345 -1 O LEU A 343 N TYR A 324 SHEET 1 AA4 3 GLN A 327 GLY A 330 0 SHEET 2 AA4 3 ILE A 410 GLN A 420 -1 O ARG A 419 N GLN A 327 SHEET 3 AA4 3 PHE A 394 TYR A 403 -1 N TRP A 396 O PHE A 418 SHEET 1 AA5 5 ARG A 388 ILE A 391 0 SHEET 2 AA5 5 ALA A 377 LEU A 382 -1 N LEU A 378 O ILE A 391 SHEET 3 AA5 5 LEU A 367 GLU A 374 -1 N GLU A 371 O ALA A 379 SHEET 4 AA5 5 GLN A 350 LEU A 353 -1 N VAL A 351 O GLY A 368 SHEET 5 AA5 5 VAL A 423 LEU A 425 -1 O ARG A 424 N ILE A 352 LINK OG1 THR A 98 MG MG A1002 1555 1555 2.67 LINK O3B ADP A1001 MG MG A1002 1555 1555 2.65 LINK MG MG A1002 O HOH A1106 1555 1555 2.23 LINK MG MG A1002 O HOH A1119 1555 1555 2.87 LINK MG MG A1002 O HOH A1153 1555 1555 2.40 LINK MG MG A1002 O HOH A1250 1555 1555 2.78 LINK MG MG A1002 O HOH A1322 1555 1555 2.34 SITE 1 AC1 14 GLY A 67 LEU A 68 SER A 69 GLN A 72 SITE 2 AC1 14 PRO A 92 GLY A 94 THR A 95 GLY A 96 SITE 3 AC1 14 LYS A 97 THR A 98 THR A 99 MG A1002 SITE 4 AC1 14 HOH A1250 HOH A1277 SITE 1 AC2 7 THR A 98 ADP A1001 HOH A1106 HOH A1119 SITE 2 AC2 7 HOH A1153 HOH A1250 HOH A1322 CRYST1 61.012 64.489 144.829 90.00 90.00 90.00 P 21 21 21 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 0.016390 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015507 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006905 0.00000