HEADER HYDROLASE/RNA 27-OCT-10 3PEW TITLE S. CEREVISIAE DBP5 L327V BOUND TO RNA AND ADP BEF3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATP-DEPENDENT RNA HELICASE DBP5; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DEAD BOX PROTEIN 5, HELICASE CA5/6, RIBONUCLEIC ACID- COMPND 5 TRAFFICKING PROTEIN 8; COMPND 6 EC: 3.6.4.13; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: RNA (5'-R(P*UP*UP*UP*UP*UP*U)-3'); COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: DBP5, RAT8, YOR046C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES KEYWDS RECA, DEAD-BOX, ATPASE, HELICASE, MRNA EXPORT, NUCLEAR PORE, KEYWDS 2 HYDROLASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.MONTPETIT,N.D.THOMSEN,K.J.HELMKE,M.A.SEELIGER,J.M.BERGER,K.WEIS REVDAT 3 08-NOV-17 3PEW 1 REMARK REVDAT 2 27-APR-11 3PEW 1 JRNL REVDAT 1 23-MAR-11 3PEW 0 JRNL AUTH B.MONTPETIT,N.D.THOMSEN,K.J.HELMKE,M.A.SEELIGER,J.M.BERGER, JRNL AUTH 2 K.WEIS JRNL TITL A CONSERVED MECHANISM OF DEAD-BOX ATPASE ACTIVATION BY JRNL TITL 2 NUCLEOPORINS AND INSP(6) IN MRNA EXPORT. JRNL REF NATURE V. 472 238 2011 JRNL REFN ISSN 0028-0836 JRNL PMID 21441902 JRNL DOI 10.1038/NATURE09862 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.4_486 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.36 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 64601 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3232 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 34.3690 - 4.2663 1.00 2919 155 0.1715 0.1875 REMARK 3 2 4.2663 - 3.3873 0.81 2264 121 0.1394 0.1442 REMARK 3 3 3.3873 - 2.9594 1.00 2757 144 0.1602 0.1857 REMARK 3 4 2.9594 - 2.6889 1.00 2730 144 0.1624 0.1875 REMARK 3 5 2.6889 - 2.4962 1.00 2722 144 0.1614 0.2100 REMARK 3 6 2.4962 - 2.3491 1.00 2708 143 0.1608 0.1688 REMARK 3 7 2.3491 - 2.2315 0.98 2654 140 0.1655 0.1922 REMARK 3 8 2.2315 - 2.1344 0.99 2671 139 0.1601 0.1720 REMARK 3 9 2.1344 - 2.0522 1.00 2720 144 0.1661 0.1839 REMARK 3 10 2.0522 - 1.9814 1.00 2670 141 0.1618 0.2073 REMARK 3 11 1.9814 - 1.9194 1.00 2687 140 0.1637 0.2036 REMARK 3 12 1.9194 - 1.8646 0.99 2666 142 0.1634 0.2034 REMARK 3 13 1.8646 - 1.8155 1.00 2687 141 0.1553 0.1861 REMARK 3 14 1.8155 - 1.7712 1.00 2657 141 0.1537 0.1903 REMARK 3 15 1.7712 - 1.7309 1.00 2693 142 0.1535 0.2111 REMARK 3 16 1.7309 - 1.6941 1.00 2642 138 0.1627 0.1899 REMARK 3 17 1.6941 - 1.6602 1.00 2726 145 0.1602 0.1807 REMARK 3 18 1.6602 - 1.6289 1.00 2651 137 0.1717 0.2010 REMARK 3 19 1.6289 - 1.5998 1.00 2692 143 0.1784 0.2158 REMARK 3 20 1.5998 - 1.5727 1.00 2652 139 0.2001 0.2268 REMARK 3 21 1.5727 - 1.5473 0.99 2668 141 0.2143 0.2345 REMARK 3 22 1.5473 - 1.5235 0.99 2634 138 0.2425 0.2895 REMARK 3 23 1.5235 - 1.5011 0.93 2499 130 0.2454 0.2697 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.34 REMARK 3 B_SOL : 42.31 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.55 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.57660 REMARK 3 B22 (A**2) : 8.16510 REMARK 3 B33 (A**2) : -4.58850 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.013 3494 REMARK 3 ANGLE : 1.503 4790 REMARK 3 CHIRALITY : 0.084 568 REMARK 3 PLANARITY : 0.009 599 REMARK 3 DIHEDRAL : 14.476 1414 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND RESSEQ 90:295 REMARK 3 ORIGIN FOR THE GROUP (A): -3.5089 -8.5021 41.1998 REMARK 3 T TENSOR REMARK 3 T11: 0.0675 T22: 0.0633 REMARK 3 T33: 0.0604 T12: -0.0037 REMARK 3 T13: -0.0016 T23: 0.0065 REMARK 3 L TENSOR REMARK 3 L11: 0.7656 L22: 0.6958 REMARK 3 L33: 0.6475 L12: -0.0017 REMARK 3 L13: -0.1197 L23: -0.0030 REMARK 3 S TENSOR REMARK 3 S11: 0.0040 S12: -0.0976 S13: -0.0397 REMARK 3 S21: 0.0478 S22: -0.0133 S23: -0.0021 REMARK 3 S31: 0.0421 S32: 0.0006 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESSEQ 296:481 REMARK 3 ORIGIN FOR THE GROUP (A): -5.6599 -13.9103 13.2170 REMARK 3 T TENSOR REMARK 3 T11: 0.0721 T22: 0.0611 REMARK 3 T33: 0.0786 T12: -0.0151 REMARK 3 T13: 0.0064 T23: -0.0055 REMARK 3 L TENSOR REMARK 3 L11: 0.4886 L22: 0.9210 REMARK 3 L33: 1.5016 L12: -0.0057 REMARK 3 L13: 0.0483 L23: -0.3080 REMARK 3 S TENSOR REMARK 3 S11: -0.0265 S12: 0.0356 S13: -0.0437 REMARK 3 S21: -0.0735 S22: 0.0134 S23: -0.0177 REMARK 3 S31: 0.0476 S32: -0.0244 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESSEQ 1000:1002 REMARK 3 ORIGIN FOR THE GROUP (A): 3.0377 -5.1770 29.1344 REMARK 3 T TENSOR REMARK 3 T11: 0.1018 T22: 0.1018 REMARK 3 T33: 0.1242 T12: -0.0045 REMARK 3 T13: 0.0012 T23: -0.0033 REMARK 3 L TENSOR REMARK 3 L11: 0.0003 L22: 0.0050 REMARK 3 L33: 0.0079 L12: 0.0005 REMARK 3 L13: 0.0008 L23: -0.0037 REMARK 3 S TENSOR REMARK 3 S11: -0.0481 S12: -0.0157 S13: -0.0545 REMARK 3 S21: 0.0408 S22: 0.0145 S23: -0.0121 REMARK 3 S31: 0.0297 S32: 0.0060 S33: -0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -15.3398 -22.3553 29.5862 REMARK 3 T TENSOR REMARK 3 T11: 0.1513 T22: 0.2099 REMARK 3 T33: 0.1693 T12: -0.0363 REMARK 3 T13: 0.0043 T23: 0.0206 REMARK 3 L TENSOR REMARK 3 L11: 0.0771 L22: 0.0961 REMARK 3 L33: 0.0786 L12: 0.0197 REMARK 3 L13: -0.0131 L23: 0.0740 REMARK 3 S TENSOR REMARK 3 S11: 0.0287 S12: -0.1655 S13: -0.3178 REMARK 3 S21: 0.0625 S22: 0.1494 S23: 0.1568 REMARK 3 S31: 0.2540 S32: -0.7199 S33: -0.0000 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 3PEW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1000062293. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JAN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.116 REMARK 200 MONOCHROMATOR : DOUBLE FLAT CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64800 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.32800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.2.0 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 200 MM MGNO3, 10 MM REMARK 280 HEPES PH 7.5, 100 MM NACL, 1MM DTT, 0.5 MM IP6, 5 MM MGCL2, 1 MM REMARK 280 ADP, 3 MM BECL2, 15 MM NAF, 5% GLYCEROL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 291K 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 21.15450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.56150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.40500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.56150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.15450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.40500 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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: 3580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 GLY A 88 REMARK 465 ALA A 89 REMARK 465 MET A 90 REMARK 465 ASP A 482 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 U B 6 C5' C4' O4' C3' O3' C2' O2' REMARK 470 U B 6 C1' N1 C2 O2 N3 C4 O4 REMARK 470 U B 6 C5 C6 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 312 -41.92 75.39 REMARK 500 THR A 387 -169.08 -101.45 REMARK 500 ASP A 468 74.33 -150.57 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 BEF A1002 BE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP A1000 O1B REMARK 620 2 BEF A1002 F1 99.6 REMARK 620 3 BEF A1002 F2 104.5 117.0 REMARK 620 4 BEF A1002 F3 104.7 115.0 113.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP A1000 O2B REMARK 620 2 HOH A1010 O 94.6 REMARK 620 3 HOH A1107 O 88.0 95.6 REMARK 620 4 HOH A1017 O 98.7 85.9 173.0 REMARK 620 5 HOH A1096 O 176.3 86.0 88.3 85.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1004 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1166 O REMARK 620 2 HOH A1161 O 95.1 REMARK 620 3 HOH A1163 O 83.0 168.9 REMARK 620 4 HOH A1453 O 84.6 90.9 99.8 REMARK 620 5 ASP A 264 OD1 93.6 87.9 81.3 177.7 REMARK 620 6 HOH A1164 O 147.0 112.6 73.0 77.7 104.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1004 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 264 OD1 REMARK 620 2 HOH A1163 O 96.0 REMARK 620 3 HOH A1162 O 109.7 88.3 REMARK 620 4 HOH A1478 O 89.7 174.2 88.9 REMARK 620 5 HOH A1161 O 75.9 97.9 171.2 84.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1003 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1204 O REMARK 620 2 HOH A1279 O 173.3 REMARK 620 3 HOH A1357 O 87.7 93.1 REMARK 620 4 HOH A1184 O 92.1 94.6 89.9 REMARK 620 5 HOH A1350 O 79.0 100.0 166.7 91.1 REMARK 620 6 HOH A1448 O 83.4 90.0 87.6 175.0 90.3 REMARK 620 N 1 2 3 4 5 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 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEF A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 1007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 1008 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 B 1009 DBREF 3PEW A 91 482 UNP P20449 DBP5_YEAST 91 482 DBREF 3PEW B 1 6 PDB 3PEW 3PEW 1 6 SEQADV 3PEW GLY A 88 UNP P20449 EXPRESSION TAG SEQADV 3PEW ALA A 89 UNP P20449 EXPRESSION TAG SEQADV 3PEW MET A 90 UNP P20449 EXPRESSION TAG SEQADV 3PEW VAL A 327 UNP P20449 LEU 327 ENGINEERED MUTATION SEQRES 1 A 395 GLY ALA MET ALA LYS SER PHE ASP GLU LEU GLY LEU ALA SEQRES 2 A 395 PRO GLU LEU LEU LYS GLY ILE TYR ALA MET LYS PHE GLN SEQRES 3 A 395 LYS PRO SER LYS ILE GLN GLU ARG ALA LEU PRO LEU LEU SEQRES 4 A 395 LEU HIS ASN PRO PRO ARG ASN MET ILE ALA GLN SER GLN SEQRES 5 A 395 SER GLY THR GLY LYS THR ALA ALA PHE SER LEU THR MET SEQRES 6 A 395 LEU THR ARG VAL ASN PRO GLU ASP ALA SER PRO GLN ALA SEQRES 7 A 395 ILE CYS LEU ALA PRO SER ARG GLU LEU ALA ARG GLN THR SEQRES 8 A 395 LEU GLU VAL VAL GLN GLU MET GLY LYS PHE THR LYS ILE SEQRES 9 A 395 THR SER GLN LEU ILE VAL PRO ASP SER PHE GLU LYS ASN SEQRES 10 A 395 LYS GLN ILE ASN ALA GLN VAL ILE VAL GLY THR PRO GLY SEQRES 11 A 395 THR VAL LEU ASP LEU MET ARG ARG LYS LEU MET GLN LEU SEQRES 12 A 395 GLN LYS ILE LYS ILE PHE VAL LEU ASP GLU ALA ASP ASN SEQRES 13 A 395 MET LEU ASP GLN GLN GLY LEU GLY ASP GLN CYS ILE ARG SEQRES 14 A 395 VAL LYS ARG PHE LEU PRO LYS ASP THR GLN LEU VAL LEU SEQRES 15 A 395 PHE SER ALA THR PHE ALA ASP ALA VAL ARG GLN TYR ALA SEQRES 16 A 395 LYS LYS ILE VAL PRO ASN ALA ASN THR LEU GLU LEU GLN SEQRES 17 A 395 THR ASN GLU VAL ASN VAL ASP ALA ILE LYS GLN LEU TYR SEQRES 18 A 395 MET ASP CYS LYS ASN GLU ALA ASP LYS PHE ASP VAL LEU SEQRES 19 A 395 THR GLU LEU TYR GLY VAL MET THR ILE GLY SER SER ILE SEQRES 20 A 395 ILE PHE VAL ALA THR LYS LYS THR ALA ASN VAL LEU TYR SEQRES 21 A 395 GLY LYS LEU LYS SER GLU GLY HIS GLU VAL SER ILE LEU SEQRES 22 A 395 HIS GLY ASP LEU GLN THR GLN GLU ARG ASP ARG LEU ILE SEQRES 23 A 395 ASP ASP PHE ARG GLU GLY ARG SER LYS VAL LEU ILE THR SEQRES 24 A 395 THR ASN VAL LEU ALA ARG GLY ILE ASP ILE PRO THR VAL SEQRES 25 A 395 SER MET VAL VAL ASN TYR ASP LEU PRO THR LEU ALA ASN SEQRES 26 A 395 GLY GLN ALA ASP PRO ALA THR TYR ILE HIS ARG ILE GLY SEQRES 27 A 395 ARG THR GLY ARG PHE GLY ARG LYS GLY VAL ALA ILE SER SEQRES 28 A 395 PHE VAL HIS ASP LYS ASN SER PHE ASN ILE LEU SER ALA SEQRES 29 A 395 ILE GLN LYS TYR PHE GLY ASP ILE GLU MET THR ARG VAL SEQRES 30 A 395 PRO THR ASP ASP TRP ASP GLU VAL GLU LYS ILE VAL LYS SEQRES 31 A 395 LYS VAL LEU LYS ASP SEQRES 1 B 6 U U U U U U HET ADP A1000 27 HET MG A1001 1 HET BEF A1002 4 HET MG A1003 1 HET MG A1004 2 HET NO3 A1005 4 HET NO3 A1006 4 HET NO3 A1007 4 HET NO3 A1008 4 HET NO3 B1009 4 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM BEF BERYLLIUM TRIFLUORIDE ION HETNAM NO3 NITRATE ION FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 MG 3(MG 2+) FORMUL 5 BEF BE F3 1- FORMUL 8 NO3 5(N O3 1-) FORMUL 13 HOH *532(H2 O) HELIX 1 1 ALA A 100 MET A 110 1 11 HELIX 2 2 SER A 116 HIS A 128 1 13 HELIX 3 3 GLY A 143 VAL A 156 1 14 HELIX 4 4 SER A 171 GLY A 186 1 16 HELIX 5 5 THR A 215 ARG A 225 1 11 HELIX 6 6 GLU A 240 GLN A 247 1 8 HELIX 7 7 GLY A 249 LEU A 261 1 13 HELIX 8 8 ALA A 275 VAL A 286 1 12 HELIX 9 9 GLN A 295 VAL A 299 5 5 HELIX 10 10 ALA A 315 THR A 329 1 15 HELIX 11 11 THR A 339 GLU A 353 1 15 HELIX 12 12 GLN A 365 GLU A 378 1 14 HELIX 13 13 ASN A 388 ALA A 391 5 4 HELIX 14 14 ASP A 416 GLY A 425 1 10 HELIX 15 15 ASP A 442 PHE A 456 1 15 HELIX 16 16 ASP A 468 LYS A 481 1 14 SHEET 1 A 7 SER A 193 ILE A 196 0 SHEET 2 A 7 VAL A 211 GLY A 214 1 O VAL A 213 N ILE A 196 SHEET 3 A 7 ALA A 165 LEU A 168 1 N ALA A 165 O ILE A 212 SHEET 4 A 7 ILE A 235 ASP A 239 1 O VAL A 237 N ILE A 166 SHEET 5 A 7 GLN A 266 SER A 271 1 O VAL A 268 N LEU A 238 SHEET 6 A 7 MET A 134 GLN A 137 1 N ALA A 136 O LEU A 269 SHEET 7 A 7 ASN A 290 LEU A 292 1 O ASN A 290 N ILE A 135 SHEET 1 B 7 SER A 358 LEU A 360 0 SHEET 2 B 7 VAL A 383 THR A 386 1 O ILE A 385 N SER A 358 SHEET 3 B 7 SER A 332 PHE A 336 1 N ILE A 335 O THR A 386 SHEET 4 B 7 VAL A 399 ASN A 404 1 O VAL A 403 N PHE A 336 SHEET 5 B 7 GLY A 434 VAL A 440 1 O ILE A 437 N ASN A 404 SHEET 6 B 7 ILE A 304 ASP A 310 1 N LEU A 307 O ALA A 436 SHEET 7 B 7 THR A 462 ARG A 463 1 O THR A 462 N TYR A 308 LINK O1B ADP A1000 BE BEF A1002 1555 1555 1.82 LINK O2B ADP A1000 MG MG A1001 1555 1555 2.03 LINK MG A MG A1004 O AHOH A1166 1555 1555 1.84 LINK MG A MG A1004 O HOH A1161 1555 1555 1.86 LINK MG A MG A1004 O HOH A1163 1555 1555 1.90 LINK OD1 ASP A 264 MG B MG A1004 1555 1555 1.92 LINK MG B MG A1004 O HOH A1163 1555 1555 1.99 LINK MG MG A1001 O HOH A1010 1555 1555 2.04 LINK MG MG A1001 O HOH A1107 1555 1555 2.13 LINK MG MG A1001 O HOH A1017 1555 1555 2.15 LINK MG MG A1003 O HOH A1204 1555 1555 2.15 LINK MG MG A1003 O HOH A1279 1555 1555 2.15 LINK MG MG A1001 O HOH A1096 1555 1555 2.15 LINK MG MG A1003 O HOH A1357 1555 1555 2.17 LINK MG MG A1003 O HOH A1184 1555 1555 2.19 LINK MG A MG A1004 O HOH A1453 1555 1555 2.20 LINK MG MG A1003 O HOH A1350 1555 1555 2.21 LINK MG B MG A1004 O HOH A1162 1555 1555 2.21 LINK MG B MG A1004 O HOH A1478 1555 1555 2.23 LINK MG MG A1003 O HOH A1448 1555 1555 2.31 LINK OD1 ASP A 264 MG A MG A1004 1555 1555 2.51 LINK MG A MG A1004 O AHOH A1164 1555 1555 2.62 LINK MG B MG A1004 O HOH A1161 1555 1555 2.90 CISPEP 1 ASN A 129 PRO A 130 0 0.11 SITE 1 AC1 22 PHE A 112 LYS A 114 GLN A 119 GLY A 141 SITE 2 AC1 22 THR A 142 GLY A 143 LYS A 144 THR A 145 SITE 3 AC1 22 ASP A 395 ARG A 429 PHE A 430 MG A1001 SITE 4 AC1 22 BEF A1002 HOH A1010 HOH A1013 HOH A1033 SITE 5 AC1 22 HOH A1053 HOH A1087 HOH A1101 HOH A1107 SITE 6 AC1 22 HOH A1108 HOH A1322 SITE 1 AC2 6 ADP A1000 BEF A1002 HOH A1010 HOH A1017 SITE 2 AC2 6 HOH A1096 HOH A1107 SITE 1 AC3 13 SER A 140 LYS A 144 GLU A 240 GLY A 393 SITE 2 AC3 13 ARG A 426 ARG A 429 ADP A1000 MG A1001 SITE 3 AC3 13 HOH A1011 HOH A1017 HOH A1062 HOH A1096 SITE 4 AC3 13 HOH A1107 SITE 1 AC4 6 HOH A1184 HOH A1204 HOH A1279 HOH A1350 SITE 2 AC4 6 HOH A1357 HOH A1448 SITE 1 AC5 10 ASP A 264 HOH A1161 HOH A1162 HOH A1163 SITE 2 AC5 10 HOH A1164 HOH A1165 HOH A1166 HOH A1167 SITE 3 AC5 10 HOH A1453 HOH A1478 SITE 1 AC6 6 LYS A 105 PHE A 188 ILE A 255 LYS A 258 SITE 2 AC6 6 ARG A 259 ILE A 285 SITE 1 AC7 8 LYS A 117 ILE A 118 SER A 138 GLN A 139 SITE 2 AC7 8 THR A 142 HOH A1171 HOH A1355 HOH A1463 SITE 1 AC8 8 ARG A 132 ASN A 288 ARG A 463 PRO A 465 SITE 2 AC8 8 HOH A1058 HOH A1177 HOH A1428 HOH A1455 SITE 1 AC9 5 ASN A 208 ARG A 224 ARG A 256 PHE A 260 SITE 2 AC9 5 HOH A1296 SITE 1 BC1 3 GLN A 253 U B 4 U B 5 CRYST1 42.309 90.810 105.123 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 0.023636 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011012 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009513 0.00000 MASTER 413 0 10 16 14 0 26 6 0 0 0 32 END