HEADER HYDROLASE 06-SEP-16 5LTJ TITLE CRYSTAL STRUCTURE OF THE PRP43-ADP-BEF3 COMPLEX (IN ORTHORHOMBIC SPACE TITLE 2 GROUP) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PRE-MRNA-SPLICING FACTOR ATP-DEPENDENT RNA HELICASE PRP43; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: THE PROTEIN WAS EXPRESSED WITH 2 ADDITIONAL N-TERMINAL COMPND 6 AMINO ACIDS (MA) AND A C-TERMINAL STREP-TAG (WSHPQFEK). SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHAETOMIUM THERMOPHILUM VAR. THERMOPHILUM DSM SOURCE 3 1495; SOURCE 4 ORGANISM_TAXID: 759272; SOURCE 5 GENE: CTHT_0005780; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA 2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PETM-13 KEYWDS SPLICEOSOME, RNA HELICASE, DEAH-BOX PROTEIN, DHX15, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.J.TAUCHERT,R.FICNER REVDAT 3 17-JAN-24 5LTJ 1 LINK REVDAT 2 06-SEP-17 5LTJ 1 REMARK REVDAT 1 25-JAN-17 5LTJ 0 JRNL AUTH M.J.TAUCHERT,J.B.FOURMANN,R.LUHRMANN,R.FICNER JRNL TITL STRUCTURAL INSIGHTS INTO THE MECHANISM OF THE DEAH-BOX RNA JRNL TITL 2 HELICASE PRP43. JRNL REF ELIFE V. 6 2017 JRNL REFN ESSN 2050-084X JRNL PMID 28092261 JRNL DOI 10.7554/ELIFE.21510 REMARK 2 REMARK 2 RESOLUTION. 1.78 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 1.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 67.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 107254 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.820 REMARK 3 FREE R VALUE TEST SET COUNT : 1957 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 68.0353 - 4.2899 0.99 7896 147 0.1480 0.1486 REMARK 3 2 4.2899 - 3.4050 1.00 7620 143 0.1346 0.1685 REMARK 3 3 3.4050 - 2.9746 1.00 7599 138 0.1627 0.1868 REMARK 3 4 2.9746 - 2.7026 1.00 7542 140 0.1731 0.2028 REMARK 3 5 2.7026 - 2.5089 1.00 7581 139 0.1768 0.2090 REMARK 3 6 2.5089 - 2.3610 1.00 7496 140 0.1833 0.2182 REMARK 3 7 2.3610 - 2.2427 1.00 7475 140 0.1876 0.1810 REMARK 3 8 2.2427 - 2.1451 1.00 7492 140 0.1939 0.2747 REMARK 3 9 2.1451 - 2.0625 1.00 7477 139 0.2093 0.2259 REMARK 3 10 2.0625 - 1.9913 1.00 7444 134 0.2330 0.2420 REMARK 3 11 1.9913 - 1.9291 1.00 7483 140 0.2569 0.2873 REMARK 3 12 1.9291 - 1.8739 1.00 7479 139 0.2885 0.3214 REMARK 3 13 1.8739 - 1.8246 1.00 7447 140 0.3185 0.3218 REMARK 3 14 1.8246 - 1.7801 0.98 7266 138 0.3547 0.4088 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) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.870 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.30 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 : 0.004 5951 REMARK 3 ANGLE : 0.870 8082 REMARK 3 CHIRALITY : 0.032 899 REMARK 3 PLANARITY : 0.004 1035 REMARK 3 DIHEDRAL : 13.727 2276 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND RESSEQ 60:275 REMARK 3 ORIGIN FOR THE GROUP (A): 11.7562 208.1684 23.3128 REMARK 3 T TENSOR REMARK 3 T11: 0.1195 T22: 0.2481 REMARK 3 T33: 0.1253 T12: 0.0381 REMARK 3 T13: 0.0000 T23: -0.0507 REMARK 3 L TENSOR REMARK 3 L11: 1.0445 L22: 2.1226 REMARK 3 L33: 1.6183 L12: 0.2235 REMARK 3 L13: 0.3132 L23: 0.9556 REMARK 3 S TENSOR REMARK 3 S11: -0.0267 S12: -0.0250 S13: -0.0499 REMARK 3 S21: 0.1092 S22: 0.1607 S23: -0.2031 REMARK 3 S31: 0.0991 S32: 0.3749 S33: -0.0923 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESSEQ 276:460 REMARK 3 ORIGIN FOR THE GROUP (A): -13.8110 218.9174 28.2648 REMARK 3 T TENSOR REMARK 3 T11: 0.1133 T22: 0.2211 REMARK 3 T33: 0.1899 T12: 0.0478 REMARK 3 T13: -0.0191 T23: -0.0694 REMARK 3 L TENSOR REMARK 3 L11: 1.5195 L22: 1.2235 REMARK 3 L33: 2.6145 L12: 0.8881 REMARK 3 L13: 1.4389 L23: 1.2149 REMARK 3 S TENSOR REMARK 3 S11: -0.0417 S12: -0.1113 S13: 0.1487 REMARK 3 S21: -0.0466 S22: -0.1476 S23: 0.2944 REMARK 3 S31: -0.0837 S32: -0.3979 S33: 0.1128 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESSEQ 461:527 REMARK 3 ORIGIN FOR THE GROUP (A): 17.0908 223.9632 49.2582 REMARK 3 T TENSOR REMARK 3 T11: 0.1999 T22: 0.2472 REMARK 3 T33: 0.2072 T12: -0.0234 REMARK 3 T13: -0.0051 T23: -0.0645 REMARK 3 L TENSOR REMARK 3 L11: 0.8763 L22: 0.4320 REMARK 3 L33: 3.8206 L12: -0.0586 REMARK 3 L13: 0.7180 L23: -0.4369 REMARK 3 S TENSOR REMARK 3 S11: -0.0453 S12: 0.1999 S13: -0.0373 REMARK 3 S21: -0.1427 S22: 0.0314 S23: -0.0663 REMARK 3 S31: -0.1318 S32: 0.4973 S33: -0.0116 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND RESSEQ 528:640 REMARK 3 ORIGIN FOR THE GROUP (A): -7.1896 221.5312 62.7010 REMARK 3 T TENSOR REMARK 3 T11: 0.1316 T22: 0.1170 REMARK 3 T33: 0.1798 T12: -0.0462 REMARK 3 T13: -0.0058 T23: 0.0132 REMARK 3 L TENSOR REMARK 3 L11: 2.1560 L22: 1.2919 REMARK 3 L33: 2.2451 L12: 0.0099 REMARK 3 L13: -0.1668 L23: 0.3237 REMARK 3 S TENSOR REMARK 3 S11: -0.0508 S12: -0.0520 S13: -0.4369 REMARK 3 S21: -0.0096 S22: 0.0184 S23: 0.1781 REMARK 3 S31: 0.1890 S32: -0.3438 S33: 0.0160 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN A AND RESSEQ 641:741 REMARK 3 ORIGIN FOR THE GROUP (A): 6.4476 235.0958 69.9814 REMARK 3 T TENSOR REMARK 3 T11: 0.1818 T22: 0.1665 REMARK 3 T33: 0.1575 T12: -0.0097 REMARK 3 T13: -0.0003 T23: -0.0335 REMARK 3 L TENSOR REMARK 3 L11: 2.6538 L22: 1.7413 REMARK 3 L33: 2.5569 L12: -0.2674 REMARK 3 L13: 0.6029 L23: 0.3240 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: -0.2684 S13: 0.1694 REMARK 3 S21: 0.0506 S22: 0.0721 S23: -0.1332 REMARK 3 S31: -0.2722 S32: 0.1168 S33: -0.0498 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN A AND RESSEQ 742:762 REMARK 3 ORIGIN FOR THE GROUP (A): 19.2599 235.6411 85.1153 REMARK 3 T TENSOR REMARK 3 T11: 0.5187 T22: 0.4524 REMARK 3 T33: 0.3366 T12: 0.0457 REMARK 3 T13: -0.1211 T23: -0.2033 REMARK 3 L TENSOR REMARK 3 L11: 3.7013 L22: 5.4915 REMARK 3 L33: 7.6417 L12: -0.4880 REMARK 3 L13: 0.5283 L23: -2.1414 REMARK 3 S TENSOR REMARK 3 S11: -0.2024 S12: -0.8278 S13: -0.3973 REMARK 3 S21: 1.4225 S22: 0.2970 S23: -0.2596 REMARK 3 S31: 0.3883 S32: 0.6422 S33: -0.1340 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 5LTJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1200001326. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P14 (MX2) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97625 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 107277 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 REMARK 200 RESOLUTION RANGE LOW (A) : 79.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 4.710 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.8800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.66 REMARK 200 R MERGE FOR SHELL (I) : 1.23500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.640 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: 5LTA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35 % (V/V) MPD, 1.67 % (W/V) PEG 4000 REMARK 280 AND 100 MM NA HEPES PH 7.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 44.41300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.52500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.81850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.52500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.41300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.81850 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -134.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 59 REMARK 465 LYS A 763 REMARK 465 ALA A 764 REMARK 465 TRP A 765 REMARK 465 SER A 766 REMARK 465 HIS A 767 REMARK 465 PRO A 768 REMARK 465 GLN A 769 REMARK 465 PHE A 770 REMARK 465 GLU A 771 REMARK 465 LYS A 772 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 955 O HOH A 1368 2.16 REMARK 500 O HOH A 1445 O HOH A 1576 2.19 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 GLU A 173 -114.66 -99.34 REMARK 500 PHE A 181 -12.96 83.42 REMARK 500 PHE A 262 55.83 -90.45 REMARK 500 LEU A 313 -169.57 -117.29 REMARK 500 SER A 387 -46.86 70.88 REMARK 500 SER A 387 -47.58 71.56 REMARK 500 CYS A 543 41.96 -154.73 REMARK 500 ALA A 566 20.76 -143.73 REMARK 500 GLN A 664 76.32 -113.23 REMARK 500 THR A 708 -128.84 -125.40 REMARK 500 THR A 715 82.82 66.12 REMARK 500 TYR A 732 40.91 -96.01 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 803 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 126 OG1 REMARK 620 2 ADP A 801 O2B 85.9 REMARK 620 3 HOH A 918 O 85.5 169.7 REMARK 620 4 HOH A 961 O 92.0 87.3 87.4 REMARK 620 5 HOH A1051 O 84.7 100.7 84.0 171.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BEF A 802 BE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP A 801 O3B REMARK 620 2 BEF A 802 F1 117.7 REMARK 620 3 BEF A 802 F2 96.1 116.5 REMARK 620 4 BEF A 802 F3 99.9 113.9 110.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 806 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 807 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 808 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 809 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 810 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MRD A 811 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 812 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 813 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 815 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 816 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residues ADP A 801 and BEF A REMARK 800 802 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5LTA RELATED DB: PDB REMARK 900 5LTA IS THE SAME MOLECULE BUT CONTAINS AN ADDITIONAL U7-RNA DBREF 5LTJ A 61 764 UNP G0RY84 G0RY84_CHATD 61 764 SEQADV 5LTJ MET A 59 UNP G0RY84 INITIATING METHIONINE SEQADV 5LTJ ALA A 60 UNP G0RY84 EXPRESSION TAG SEQADV 5LTJ TRP A 765 UNP G0RY84 EXPRESSION TAG SEQADV 5LTJ SER A 766 UNP G0RY84 EXPRESSION TAG SEQADV 5LTJ HIS A 767 UNP G0RY84 EXPRESSION TAG SEQADV 5LTJ PRO A 768 UNP G0RY84 EXPRESSION TAG SEQADV 5LTJ GLN A 769 UNP G0RY84 EXPRESSION TAG SEQADV 5LTJ PHE A 770 UNP G0RY84 EXPRESSION TAG SEQADV 5LTJ GLU A 771 UNP G0RY84 EXPRESSION TAG SEQADV 5LTJ LYS A 772 UNP G0RY84 EXPRESSION TAG SEQRES 1 A 714 MET ALA THR THR ALA LYS GLN ALA GLU ALA VAL GLU ASP SEQRES 2 A 714 SER ASP ILE ASN PRO TRP THR GLY GLN ARG HIS SER GLU SEQRES 3 A 714 ARG TYR PHE LYS ILE LEU LYS ALA ARG ARG LYS LEU PRO SEQRES 4 A 714 VAL ASN LYS GLN ARG GLN GLU PHE LEU ASP LEU TYR HIS SEQRES 5 A 714 ASN ASN GLN ILE LEU VAL PHE VAL GLY GLU THR GLY SER SEQRES 6 A 714 GLY LYS THR THR GLN ILE PRO GLN TYR VAL LEU TYR ASP SEQRES 7 A 714 GLU LEU PRO HIS GLN THR GLY LYS LEU ILE ALA CYS THR SEQRES 8 A 714 GLN PRO ARG ARG VAL ALA ALA MET SER VAL ALA GLN ARG SEQRES 9 A 714 VAL ALA ASP GLU LEU ASP VAL LYS LEU GLY GLU GLU VAL SEQRES 10 A 714 GLY TYR SER ILE ARG PHE GLU ASN LYS THR SER SER LYS SEQRES 11 A 714 THR LEU LEU LYS TYR MET THR ASP GLY GLN LEU LEU ARG SEQRES 12 A 714 GLU ALA MET HIS ASP ARG ASP MET SER ARG TYR SER CYS SEQRES 13 A 714 ILE ILE LEU ASP GLU ALA HIS GLU ARG THR LEU ALA THR SEQRES 14 A 714 ASP ILE LEU MET ALA LEU LEU LYS GLN LEU SER GLU ARG SEQRES 15 A 714 ARG LYS ASP LEU LYS ILE ILE VAL MET SER ALA THR LEU SEQRES 16 A 714 ASP ALA GLN LYS PHE GLN SER TYR PHE PHE ASN ALA PRO SEQRES 17 A 714 LEU LEU ALA VAL PRO GLY ARG THR HIS PRO VAL GLU ILE SEQRES 18 A 714 PHE TYR THR PRO GLU ALA GLU ARG ASP TYR VAL GLU ALA SEQRES 19 A 714 ALA ILE ARG THR VAL LEU GLN ILE HIS ALA CYS GLU PRO SEQRES 20 A 714 GLU GLY ASP ILE LEU LEU PHE LEU THR GLY GLU GLU GLU SEQRES 21 A 714 ILE GLU ASP ALA CYS ARG ARG ILE SER LEU GLU VAL ASP SEQRES 22 A 714 GLU MET ILE ARG GLU SER ASP ALA GLY PRO MET SER VAL SEQRES 23 A 714 TYR PRO LEU TYR GLY THR LEU PRO PRO HIS GLN GLN GLN SEQRES 24 A 714 ARG ILE PHE GLU LYS ALA PRO GLN PRO PHE ARG PRO GLY SEQRES 25 A 714 GLY ARG PRO GLY ARG LYS CYS ILE VAL ALA THR ASN ILE SEQRES 26 A 714 ALA GLU THR SER LEU THR ILE ASP GLY ILE VAL TYR VAL SEQRES 27 A 714 VAL ASP PRO GLY PHE SER LYS GLN LYS ILE TYR ASN PRO SEQRES 28 A 714 ARG THR ARG VAL GLU SER LEU LEU VAL SER PRO ILE SER SEQRES 29 A 714 LYS ALA SER ALA GLN GLN ARG ALA GLY ARG ALA GLY ARG SEQRES 30 A 714 THR ARG PRO GLY LYS CYS PHE ARG LEU TYR THR GLU GLU SEQRES 31 A 714 ALA PHE LYS LYS GLU LEU ILE GLU GLN THR TYR PRO GLU SEQRES 32 A 714 ILE LEU ARG SER ASN LEU SER ASN THR VAL LEU GLU LEU SEQRES 33 A 714 LYS LYS LEU GLY VAL GLU ASP LEU VAL HIS PHE ASP LEU SEQRES 34 A 714 MET ASP PRO PRO ALA PRO GLU THR MET MET ARG ALA LEU SEQRES 35 A 714 GLU GLU LEU ASN TYR LEU ALA CYS LEU ASP ASP ASP GLY SEQRES 36 A 714 GLU LEU THR PRO LEU GLY ASN LEU ALA SER GLU PHE PRO SEQRES 37 A 714 LEU ASP PRO ALA LEU ALA VAL MET LEU ILE SER SER PRO SEQRES 38 A 714 GLU PHE TYR CYS SER ASN GLU ILE LEU SER ILE THR SER SEQRES 39 A 714 LEU LEU SER VAL PRO GLN ILE TRP VAL ARG PRO ALA ASN SEQRES 40 A 714 ALA ARG LYS ARG ALA ASP GLU MET LYS ALA GLN PHE ALA SEQRES 41 A 714 HIS PRO ASP GLY ASP HIS LEU THR LEU LEU ASN ALA TYR SEQRES 42 A 714 HIS ALA TYR LYS GLY ALA GLU ALA ARG GLY GLU ASP MET SEQRES 43 A 714 LYS LYS TRP CYS HIS GLU HIS PHE LEU SER TYR ARG HIS SEQRES 44 A 714 LEU SER SER ALA ASP ASN VAL ARG ALA GLN LEU LYS LYS SEQRES 45 A 714 ILE MET GLU THR HIS GLY ILE GLU LEU VAL SER THR PRO SEQRES 46 A 714 PHE HIS ASP LYS ASN TYR TYR THR ASN ILE ARG ARG ALA SEQRES 47 A 714 LEU LEU ALA GLY PHE PHE MET GLN VAL ALA MET ARG GLU SEQRES 48 A 714 SER SER ASN SER LYS VAL TYR LYS THR VAL LYS ASP GLU SEQRES 49 A 714 GLN LEU VAL LEU ILE HIS PRO SER THR THR VAL THR THR SEQRES 50 A 714 PRO TYR GLU TRP VAL VAL TYR ASN GLU PHE VAL LEU THR SEQRES 51 A 714 THR LYS GLN TYR VAL ARG THR VAL THR ASN ILE ARG PRO SEQRES 52 A 714 GLU TRP LEU LEU GLU ILE ALA PRO VAL TYR TYR ASP LEU SEQRES 53 A 714 SER THR PHE GLN LYS GLY GLU ILE LYS ASN ALA LEU THR SEQRES 54 A 714 ARG VAL ALA GLU LYS ILE ARG ARG GLN GLN ALA MET LYS SEQRES 55 A 714 ALA SER LYS ALA TRP SER HIS PRO GLN PHE GLU LYS HET ADP A 801 27 HET BEF A 802 4 HET MG A 803 1 HET MPD A 804 8 HET MPD A 805 8 HET MPD A 806 8 HET MPD A 807 8 HET MPD A 808 8 HET MPD A 809 8 HET MPD A 810 8 HET MRD A 811 8 HET SO4 A 812 5 HET CL A 813 1 HET CL A 814 1 HET CL A 815 1 HET CL A 816 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM BEF BERYLLIUM TRIFLUORIDE ION HETNAM MG MAGNESIUM ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 BEF BE F3 1- FORMUL 4 MG MG 2+ FORMUL 5 MPD 7(C6 H14 O2) FORMUL 12 MRD C6 H14 O2 FORMUL 13 SO4 O4 S 2- FORMUL 14 CL 4(CL 1-) FORMUL 18 HOH *688(H2 O) HELIX 1 AA1 THR A 62 ASP A 71 1 10 HELIX 2 AA2 SER A 83 ARG A 94 1 12 HELIX 3 AA3 LYS A 95 LYS A 100 5 6 HELIX 4 AA4 GLN A 101 ASN A 112 1 12 HELIX 5 AA5 GLY A 124 LEU A 138 1 15 HELIX 6 AA6 PRO A 139 GLN A 141 5 3 HELIX 7 AA7 ARG A 152 ASP A 168 1 17 HELIX 8 AA8 ASP A 196 ASP A 206 1 11 HELIX 9 AA9 ALA A 220 ARG A 223 5 4 HELIX 10 AB1 THR A 224 ARG A 241 1 18 HELIX 11 AB2 ASP A 254 PHE A 262 1 9 HELIX 12 AB3 ASP A 288 GLU A 304 1 17 HELIX 13 AB4 GLY A 315 ASP A 338 1 24 HELIX 14 AB5 PRO A 352 GLN A 357 1 6 HELIX 15 AB6 ARG A 358 GLU A 361 5 4 HELIX 16 AB7 ASN A 382 GLU A 385 5 4 HELIX 17 AB8 SER A 422 GLY A 431 1 10 HELIX 18 AB9 THR A 446 LEU A 454 1 9 HELIX 19 AC1 PRO A 460 SER A 465 5 6 HELIX 20 AC2 ASN A 466 LEU A 477 1 12 HELIX 21 AC3 ALA A 492 LEU A 506 1 15 HELIX 22 AC4 THR A 516 SER A 523 1 8 HELIX 23 AC5 ASP A 528 SER A 538 1 11 HELIX 24 AC6 PRO A 539 TYR A 542 5 4 HELIX 25 AC7 CYS A 543 SER A 555 1 13 HELIX 26 AC8 ALA A 566 GLN A 576 1 11 HELIX 27 AC9 GLY A 582 ARG A 600 1 19 HELIX 28 AD1 ASP A 603 PHE A 612 1 10 HELIX 29 AD2 SER A 614 HIS A 635 1 22 HELIX 30 AD3 ASN A 648 LEU A 657 1 10 HELIX 31 AD4 LEU A 657 PHE A 662 1 6 HELIX 32 AD5 ARG A 720 ALA A 728 1 9 HELIX 33 AD6 GLY A 740 SER A 762 1 23 SHEET 1 AA1 8 GLU A 182 LYS A 184 0 SHEET 2 AA1 8 VAL A 175 ILE A 179 -1 N ILE A 179 O GLU A 182 SHEET 3 AA1 8 LEU A 191 THR A 195 1 O TYR A 193 N GLY A 176 SHEET 4 AA1 8 LEU A 145 GLN A 150 1 N ILE A 146 O LYS A 192 SHEET 5 AA1 8 TYR A 212 ASP A 218 1 O ILE A 216 N ALA A 147 SHEET 6 AA1 8 LYS A 245 SER A 250 1 O MET A 249 N LEU A 217 SHEET 7 AA1 8 ILE A 114 GLY A 119 1 N PHE A 117 O VAL A 248 SHEET 8 AA1 8 LEU A 267 VAL A 270 1 O VAL A 270 N VAL A 118 SHEET 1 AA2 6 VAL A 277 TYR A 281 0 SHEET 2 AA2 6 GLY A 439 ARG A 443 1 O CYS A 441 N GLU A 278 SHEET 3 AA2 6 ILE A 393 ASP A 398 1 N VAL A 396 O PHE A 442 SHEET 4 AA2 6 ASP A 308 PHE A 312 1 N LEU A 310 O VAL A 397 SHEET 5 AA2 6 ARG A 375 ALA A 380 1 O ILE A 378 N LEU A 311 SHEET 6 AA2 6 MET A 342 LEU A 347 1 N TYR A 345 O VAL A 379 SHEET 1 AA3 2 PHE A 401 ASN A 408 0 SHEET 2 AA3 2 VAL A 413 PRO A 420 -1 O SER A 419 N SER A 402 SHEET 1 AA4 6 VAL A 665 ARG A 668 0 SHEET 2 AA4 6 TYR A 676 THR A 678 -1 O LYS A 677 N MET A 667 SHEET 3 AA4 6 LEU A 684 ILE A 687 -1 O VAL A 685 N TYR A 676 SHEET 4 AA4 6 GLN A 711 ASN A 718 1 O GLN A 711 N LEU A 686 SHEET 5 AA4 6 TRP A 699 LEU A 707 -1 N GLU A 704 O ARG A 714 SHEET 6 AA4 6 VAL A 665 ARG A 668 -1 N ALA A 666 O VAL A 700 LINK OG1 THR A 126 MG MG A 803 1555 1555 2.09 LINK O3B ADP A 801 BE BEF A 802 1555 1555 2.03 LINK O2B ADP A 801 MG MG A 803 1555 1555 2.10 LINK MG MG A 803 O HOH A 918 1555 1555 2.08 LINK MG MG A 803 O HOH A 961 1555 1555 2.09 LINK MG MG A 803 O HOH A1051 1555 1555 2.08 SITE 1 AC1 7 THR A 126 GLU A 219 ADP A 801 BEF A 802 SITE 2 AC1 7 HOH A 918 HOH A 961 HOH A1051 SITE 1 AC2 3 TYR A 445 GLU A 453 HOH A1388 SITE 1 AC3 9 ARG A 152 GLU A 222 ASN A 382 GLU A 385 SITE 2 AC3 9 THR A 458 ARG A 464 SO4 A 812 HOH A 965 SITE 3 AC3 9 HOH A1206 SITE 1 AC4 1 ARG A 625 SITE 1 AC5 3 GLY A 370 HOH A 939 HOH A1059 SITE 1 AC6 2 LYS A 710 GLN A 711 SITE 1 AC7 6 GLU A 502 PHE A 661 MET A 663 GLN A 664 SITE 2 AC7 6 LYS A 680 HOH A1019 SITE 1 AC8 1 LEU A 518 SITE 1 AC9 3 TYR A 135 PRO A 139 HOH A 947 SITE 1 AD1 5 GLN A 404 LYS A 405 ARG A 464 MPD A 805 SITE 2 AD1 5 HOH A1025 SITE 1 AD2 4 ARG A 153 ARG A 180 THR A 195 ARG A 201 SITE 1 AD3 2 GLY A 349 THR A 381 SITE 1 AD4 2 ARG A 153 HOH A1481 SITE 1 AD5 28 GLU A 120 THR A 121 GLY A 122 SER A 123 SITE 2 AD5 28 GLY A 124 LYS A 125 THR A 126 THR A 127 SITE 3 AD5 28 ARG A 162 GLU A 219 SER A 387 THR A 389 SITE 4 AD5 28 ARG A 432 ARG A 435 THR A 436 MG A 803 SITE 5 AD5 28 HOH A 918 HOH A 928 HOH A 961 HOH A 969 SITE 6 AD5 28 HOH A 980 HOH A1017 HOH A1051 HOH A1092 SITE 7 AD5 28 HOH A1207 HOH A1242 HOH A1266 HOH A1371 CRYST1 88.826 105.637 119.050 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 0.011258 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009466 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008400 0.00000