HEADER HYDROLASE 22-AUG-06 2I4I TITLE CRYSTAL STRUCTURE OF HUMAN DEAD-BOX RNA HELICASE DDX3X COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATP-DEPENDENT RNA HELICASE DDX3X; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DEAD BOX PROTEIN 3, X- CHROMOSOMAL, HELICASE-LIKE PROTEIN 2, COMPND 5 HLP2, DEAD BOX, X ISOFORM; COMPND 6 EC: 3.6.1.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DDX3X; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC-BSA4 KEYWDS RNA, HELICASE, DEAD, STRUCTURAL GENOMICS, SGC, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.HOGBOM,T.KARLBERG,C.ARROWSMITH,H.BERGLUND,R.D.BUSAM,R.COLLINS, AUTHOR 2 A.EDWARDS,M.EHN,S.FLODIN,A.FLORES,S.GRASLUND,B.M.HALLBERG, AUTHOR 3 M.HAMMARSTROM,I.JOHANSSON,T.KOTENYOVA,A.MAGNUSDOTTIR,P.NILSSON-EHLE, AUTHOR 4 P.NORDLUND,T.NYMAN,D.OGG,C.PERSSON,J.SAGEMARK,P.STENMARK, AUTHOR 5 M.SUNDSTROM,A.G.THORSELL,J.UPPENBERG,S.VAN DEN BERG,K.WALLDEN, AUTHOR 6 J.WEIGELT,M.WELIN,L.HOLMBERG-SCHIAVONE,STRUCTURAL GENOMICS AUTHOR 7 CONSORTIUM (SGC) REVDAT 5 30-AUG-23 2I4I 1 REMARK SEQADV REVDAT 4 13-JUL-11 2I4I 1 VERSN REVDAT 3 24-FEB-09 2I4I 1 VERSN REVDAT 2 28-AUG-07 2I4I 1 JRNL REVDAT 1 05-SEP-06 2I4I 0 JRNL AUTH M.HOGBOM,R.COLLINS,S.VAN DEN BERG,R.-M.JENVERT,T.KARLBERG, JRNL AUTH 2 T.KOTENYOVA,A.FLORES,G.B.KARLSSON HEDESTAM, JRNL AUTH 3 L.H.HOLMBERG SCHIAVONE JRNL TITL CRYSTAL STRUCTURE OF CONSERVED DOMAINS 1 AND 2 OF THE HUMAN JRNL TITL 2 DEAD-BOX HELICASE DDX3X IN COMPLEX WITH THE MONONUCLEOTIDE JRNL TITL 3 AMP JRNL REF J.MOL.BIOL. V. 372 150 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17631897 JRNL DOI 10.1016/J.JMB.2007.06.050 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.91 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 32841 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1751 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2321 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.2060 REMARK 3 BIN FREE R VALUE SET COUNT : 145 REMARK 3 BIN FREE R VALUE : 0.2670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3243 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 199 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.91000 REMARK 3 B22 (A**2) : 1.91000 REMARK 3 B33 (A**2) : -2.87000 REMARK 3 B12 (A**2) : 0.96000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.180 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.159 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.119 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.982 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3328 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4493 ; 1.584 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 405 ; 6.456 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 159 ;36.451 ;23.396 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 596 ;15.979 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;18.485 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 496 ; 0.113 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2508 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1446 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2246 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 199 ; 0.183 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 63 ; 0.154 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 0.202 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2099 ; 1.027 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3269 ; 1.650 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1388 ; 2.656 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1224 ; 4.166 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 167 A 249 REMARK 3 ORIGIN FOR THE GROUP (A): 15.0000 -11.7850 20.3820 REMARK 3 T TENSOR REMARK 3 T11: -0.1278 T22: -0.0505 REMARK 3 T33: -0.2512 T12: -0.1190 REMARK 3 T13: -0.0205 T23: -0.0079 REMARK 3 L TENSOR REMARK 3 L11: 2.5592 L22: 1.3003 REMARK 3 L33: 7.3301 L12: 0.8584 REMARK 3 L13: 1.0927 L23: 0.9687 REMARK 3 S TENSOR REMARK 3 S11: -0.0909 S12: -0.0125 S13: 0.0531 REMARK 3 S21: -0.1211 S22: -0.0857 S23: 0.1991 REMARK 3 S31: -0.0871 S32: -0.8485 S33: 0.1766 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 250 A 404 REMARK 3 ORIGIN FOR THE GROUP (A): 32.8590 -9.0030 15.0270 REMARK 3 T TENSOR REMARK 3 T11: -0.0836 T22: -0.1568 REMARK 3 T33: -0.3230 T12: -0.1516 REMARK 3 T13: -0.0038 T23: -0.0074 REMARK 3 L TENSOR REMARK 3 L11: 1.4818 L22: 1.6048 REMARK 3 L33: 3.0366 L12: 0.3191 REMARK 3 L13: -1.1849 L23: -0.3347 REMARK 3 S TENSOR REMARK 3 S11: -0.0654 S12: -0.0306 S13: -0.0548 REMARK 3 S21: -0.2703 S22: 0.0404 S23: -0.1348 REMARK 3 S31: -0.0213 S32: 0.2446 S33: 0.0249 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 405 A 496 REMARK 3 ORIGIN FOR THE GROUP (A): 0.8790 -39.1410 33.0520 REMARK 3 T TENSOR REMARK 3 T11: -0.0325 T22: -0.0406 REMARK 3 T33: -0.2790 T12: -0.1178 REMARK 3 T13: 0.0757 T23: -0.0085 REMARK 3 L TENSOR REMARK 3 L11: 0.4768 L22: 4.1568 REMARK 3 L33: 5.6572 L12: -0.0136 REMARK 3 L13: 0.1620 L23: 3.9907 REMARK 3 S TENSOR REMARK 3 S11: -0.0154 S12: -0.1590 S13: -0.0144 REMARK 3 S21: -0.2341 S22: 0.2068 S23: -0.1118 REMARK 3 S31: -0.1695 S32: 0.2167 S33: -0.1914 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 497 A 580 REMARK 3 ORIGIN FOR THE GROUP (A): 6.0670 -39.1790 18.4090 REMARK 3 T TENSOR REMARK 3 T11: 0.2280 T22: -0.1081 REMARK 3 T33: -0.2283 T12: -0.2727 REMARK 3 T13: 0.1325 T23: -0.0507 REMARK 3 L TENSOR REMARK 3 L11: 2.1515 L22: 2.9310 REMARK 3 L33: 9.8694 L12: -0.3504 REMARK 3 L13: -1.9278 L23: 1.2944 REMARK 3 S TENSOR REMARK 3 S11: 0.1346 S12: -0.1469 S13: 0.1399 REMARK 3 S21: -0.4976 S22: 0.2931 S23: -0.4313 REMARK 3 S31: -1.1652 S32: 0.6649 S33: -0.4277 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2I4I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1000039126. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAY-06 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 : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.072 REMARK 200 MONOCHROMATOR : THREE SETS OF FOUR DIFFERENT REMARK 200 THICKNESS OF ALUMINIUM OR CARBON REMARK 200 FOILS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32841 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 14.910 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 10.60 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1WRB FOR THE DEAD DOMAIN AND 2DB3 FOR REMARK 200 THE HELICASE DOMAIN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.75M NA FORMATE, 0.1M TRIS PH 7.5, REMARK 280 20MM ATPGS AND MGCL2, VAPOR DIFFUSION, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 84.49000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 168.98000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 168.98000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 84.49000 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 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 SER A 166 REMARK 465 ARG A 407 REMARK 465 VAL A 408 REMARK 465 GLY A 409 REMARK 465 SER A 410 REMARK 465 VAL A 535 REMARK 465 GLY A 536 REMARK 465 LYS A 581 REMARK 465 GLY A 582 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 THR A 411 OG1 CG2 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 CB CYS A 223 O HOH A 797 1.85 REMARK 500 O HOH A 692 O HOH A 795 2.01 REMARK 500 O HOH A 664 O HOH A 784 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 578 CG HIS A 578 CD2 0.091 REMARK 500 HIS A 578 CE1 HIS A 578 NE2 0.146 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 252 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES 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 245 57.65 -151.86 REMARK 500 ASP A 368 -143.63 -124.71 REMARK 500 SER A 412 -87.55 -100.23 REMARK 500 LYS A 440 -157.12 48.33 REMARK 500 ASN A 509 31.68 -69.05 REMARK 500 ASN A 546 -158.92 -145.84 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 LYS A 440 ASP A 441 147.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMP A 600 DBREF 2I4I A 168 582 UNP O00571 DDX3X_HUMAN 167 581 SEQADV 2I4I SER A 166 UNP O00571 CLONING ARTIFACT SEQADV 2I4I MET A 167 UNP O00571 CLONING ARTIFACT SEQRES 1 A 417 SER MET VAL GLU ALA THR GLY ASN ASN CYS PRO PRO HIS SEQRES 2 A 417 ILE GLU SER PHE SER ASP VAL GLU MET GLY GLU ILE ILE SEQRES 3 A 417 MET GLY ASN ILE GLU LEU THR ARG TYR THR ARG PRO THR SEQRES 4 A 417 PRO VAL GLN LYS HIS ALA ILE PRO ILE ILE LYS GLU LYS SEQRES 5 A 417 ARG ASP LEU MET ALA CYS ALA GLN THR GLY SER GLY LYS SEQRES 6 A 417 THR ALA ALA PHE LEU LEU PRO ILE LEU SER GLN ILE TYR SEQRES 7 A 417 SER ASP GLY PRO GLY GLU ALA LEU ARG ALA MET LYS GLU SEQRES 8 A 417 ASN GLY ARG TYR GLY ARG ARG LYS GLN TYR PRO ILE SER SEQRES 9 A 417 LEU VAL LEU ALA PRO THR ARG GLU LEU ALA VAL GLN ILE SEQRES 10 A 417 TYR GLU GLU ALA ARG LYS PHE SER TYR ARG SER ARG VAL SEQRES 11 A 417 ARG PRO CYS VAL VAL TYR GLY GLY ALA ASP ILE GLY GLN SEQRES 12 A 417 GLN ILE ARG ASP LEU GLU ARG GLY CYS HIS LEU LEU VAL SEQRES 13 A 417 ALA THR PRO GLY ARG LEU VAL ASP MET MET GLU ARG GLY SEQRES 14 A 417 LYS ILE GLY LEU ASP PHE CYS LYS TYR LEU VAL LEU ASP SEQRES 15 A 417 GLU ALA ASP ARG MET LEU ASP MET GLY PHE GLU PRO GLN SEQRES 16 A 417 ILE ARG ARG ILE VAL GLU GLN ASP THR MET PRO PRO LYS SEQRES 17 A 417 GLY VAL ARG HIS THR MET MET PHE SER ALA THR PHE PRO SEQRES 18 A 417 LYS GLU ILE GLN MET LEU ALA ARG ASP PHE LEU ASP GLU SEQRES 19 A 417 TYR ILE PHE LEU ALA VAL GLY ARG VAL GLY SER THR SER SEQRES 20 A 417 GLU ASN ILE THR GLN LYS VAL VAL TRP VAL GLU GLU SER SEQRES 21 A 417 ASP LYS ARG SER PHE LEU LEU ASP LEU LEU ASN ALA THR SEQRES 22 A 417 GLY LYS ASP SER LEU THR LEU VAL PHE VAL GLU THR LYS SEQRES 23 A 417 LYS GLY ALA ASP SER LEU GLU ASP PHE LEU TYR HIS GLU SEQRES 24 A 417 GLY TYR ALA CYS THR SER ILE HIS GLY ASP ARG SER GLN SEQRES 25 A 417 ARG ASP ARG GLU GLU ALA LEU HIS GLN PHE ARG SER GLY SEQRES 26 A 417 LYS SER PRO ILE LEU VAL ALA THR ALA VAL ALA ALA ARG SEQRES 27 A 417 GLY LEU ASP ILE SER ASN VAL LYS HIS VAL ILE ASN PHE SEQRES 28 A 417 ASP LEU PRO SER ASP ILE GLU GLU TYR VAL HIS ARG ILE SEQRES 29 A 417 GLY ARG THR GLY ARG VAL GLY ASN LEU GLY LEU ALA THR SEQRES 30 A 417 SER PHE PHE ASN GLU ARG ASN ILE ASN ILE THR LYS ASP SEQRES 31 A 417 LEU LEU ASP LEU LEU VAL GLU ALA LYS GLN GLU VAL PRO SEQRES 32 A 417 SER TRP LEU GLU ASN MET ALA TYR GLU HIS HIS TYR LYS SEQRES 33 A 417 GLY HET AMP A 600 23 HETNAM AMP ADENOSINE MONOPHOSPHATE FORMUL 2 AMP C10 H14 N5 O7 P FORMUL 3 HOH *199(H2 O) HELIX 1 1 SER A 181 VAL A 185 5 5 HELIX 2 2 GLY A 188 ARG A 199 1 12 HELIX 3 3 THR A 204 GLU A 216 1 13 HELIX 4 4 GLY A 229 GLY A 246 1 18 HELIX 5 5 GLY A 248 ASN A 257 1 10 HELIX 6 6 THR A 275 TYR A 291 1 17 HELIX 7 7 ASP A 305 GLU A 314 1 10 HELIX 8 8 THR A 323 ARG A 333 1 11 HELIX 9 9 GLU A 348 MET A 355 1 8 HELIX 10 10 PHE A 357 GLU A 366 1 10 HELIX 11 11 PRO A 386 LEU A 397 1 12 HELIX 12 12 GLU A 423 SER A 425 5 3 HELIX 13 13 ASP A 426 ALA A 437 1 12 HELIX 14 14 THR A 450 GLU A 464 1 15 HELIX 15 15 SER A 476 SER A 489 1 14 HELIX 16 16 THR A 498 ARG A 503 1 6 HELIX 17 17 ASP A 521 GLY A 530 1 10 HELIX 18 18 ASN A 546 ASN A 551 5 6 HELIX 19 19 ILE A 552 ALA A 563 1 12 HELIX 20 20 PRO A 568 TYR A 576 1 9 SHEET 1 A 8 VAL A 168 THR A 171 0 SHEET 2 A 8 ILE A 401 VAL A 405 -1 O PHE A 402 N THR A 171 SHEET 3 A 8 LEU A 220 CYS A 223 1 N CYS A 223 O LEU A 403 SHEET 4 A 8 HIS A 377 SER A 382 1 O MET A 380 N ALA A 222 SHEET 5 A 8 TYR A 343 LEU A 346 1 N LEU A 344 O HIS A 377 SHEET 6 A 8 SER A 269 LEU A 272 1 N LEU A 272 O VAL A 345 SHEET 7 A 8 LEU A 319 ALA A 322 1 O ALA A 322 N VAL A 271 SHEET 8 A 8 PRO A 297 VAL A 300 1 N CYS A 298 O VAL A 321 SHEET 1 B 6 ILE A 415 TRP A 421 0 SHEET 2 B 6 GLY A 539 PHE A 545 1 O ALA A 541 N LYS A 418 SHEET 3 B 6 VAL A 510 ASN A 515 1 N ASN A 515 O PHE A 544 SHEET 4 B 6 LEU A 443 PHE A 447 1 N LEU A 445 O ILE A 514 SHEET 5 B 6 ILE A 494 ALA A 497 1 O LEU A 495 N VAL A 446 SHEET 6 B 6 CYS A 468 ILE A 471 1 N THR A 469 O VAL A 496 SITE 1 AC1 14 TYR A 200 ARG A 202 GLN A 207 THR A 226 SITE 2 AC1 14 GLY A 227 SER A 228 GLY A 229 LYS A 230 SITE 3 AC1 14 THR A 231 HOH A 609 HOH A 670 HOH A 683 SITE 4 AC1 14 HOH A 687 HOH A 782 CRYST1 67.288 67.288 253.470 90.00 90.00 120.00 P 31 2 1 6 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014861 0.008580 0.000000 0.00000 SCALE2 0.000000 0.017161 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003945 0.00000