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 4 21-FEB-24 3PEW 1 REMARK SEQADV LINK 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 MG A1004 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 264 OD1 REMARK 620 2 HOH A1161 O 75.9 REMARK 620 3 HOH A1162 O 109.7 171.2 REMARK 620 4 HOH A1163 O 96.0 97.9 88.3 REMARK 620 5 HOH A1478 O 89.7 84.3 88.9 174.2 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 ASP A 264 OD1 REMARK 620 2 HOH A1161 O 87.9 REMARK 620 3 HOH A1163 O 81.3 168.9 REMARK 620 4 HOH A1164 O 104.6 112.6 73.0 REMARK 620 5 HOH A1166 O 93.6 95.1 83.0 147.0 REMARK 620 6 HOH A1453 O 177.7 90.9 99.8 77.7 84.6 REMARK 620 N 1 2 3 4 5 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 A1017 O 98.7 85.9 REMARK 620 4 HOH A1096 O 176.3 86.0 85.0 REMARK 620 5 HOH A1107 O 88.0 95.6 173.0 88.3 REMARK 620 N 1 2 3 4 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 A1003 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1184 O REMARK 620 2 HOH A1204 O 92.1 REMARK 620 3 HOH A1279 O 94.6 173.3 REMARK 620 4 HOH A1350 O 91.1 79.0 100.0 REMARK 620 5 HOH A1357 O 89.9 87.7 93.1 166.7 REMARK 620 6 HOH A1448 O 175.0 83.4 90.0 90.3 87.6 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 OD1 ASP A 264 MG B MG A1004 1555 1555 1.92 LINK OD1 ASP A 264 MG A MG A1004 1555 1555 2.51 LINK O2B ADP A1000 MG MG A1001 1555 1555 2.03 LINK O1B ADP A1000 BE BEF A1002 1555 1555 1.82 LINK MG MG A1001 O HOH A1010 1555 1555 2.04 LINK MG MG A1001 O HOH A1017 1555 1555 2.15 LINK MG MG A1001 O HOH A1096 1555 1555 2.15 LINK MG MG A1001 O HOH A1107 1555 1555 2.13 LINK MG MG A1003 O HOH A1184 1555 1555 2.19 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 A1003 O HOH A1350 1555 1555 2.21 LINK MG MG A1003 O HOH A1357 1555 1555 2.17 LINK MG MG A1003 O HOH A1448 1555 1555 2.31 LINK MG A MG A1004 O HOH A1161 1555 1555 1.86 LINK MG B MG A1004 O HOH A1161 1555 1555 2.90 LINK MG B MG A1004 O HOH A1162 1555 1555 2.21 LINK MG A MG A1004 O HOH A1163 1555 1555 1.90 LINK MG B MG A1004 O HOH A1163 1555 1555 1.99 LINK MG A MG A1004 O AHOH A1164 1555 1555 2.62 LINK MG A MG A1004 O AHOH A1166 1555 1555 1.84 LINK MG A MG A1004 O HOH A1453 1555 1555 2.20 LINK MG B MG A1004 O HOH A1478 1555 1555 2.23 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