PDB Short entry for 3IUY HEADER HYDROLASE 31-AUG-09 3IUY TITLE CRYSTAL STRUCTURE OF DDX53 DEAD-BOX DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE ATP-DEPENDENT RNA HELICASE DDX53; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 204-430, HELICASE ATP-BINDING DOMAIN; COMPND 5 SYNONYM: DEAD BOX PROTEIN 53, DEAD BOX PROTEIN CAGE, CANCER- COMPND 6 ASSOCIATED GENE PROTEIN, CANCER/TESTIS ANTIGEN 26, CT26; COMPND 7 EC: 3.6.1.-; COMPND 8 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: DDX53, CAGE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) R3 PRARE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC-BSA4 KEYWDS REC-A-LIKE, DEAD-BOX, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, ATP-BINDING, HELICASE, HYDROLASE, NUCLEOTIDE- KEYWDS 3 BINDING, NUCLEUS, RNA-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR P.SCHUTZ,T.KARLBERG,R.COLLINS,C.H.ARROWSMITH,H.BERGLUND,C.BOUNTRA, AUTHOR 2 A.M.EDWARDS,S.FLODIN,A.FLORES,S.GRASLUND,M.HAMMARSTROM,A.JOHANSSON, AUTHOR 3 I.JOHANSSON,A.KALLAS,P.KRAULIS,T.KOTENYOVA,A.KOTZSCH,N.MARKOVA, AUTHOR 4 M.MOCHE,T.K.NIELSEN,P.NORDLUND,T.NYMAN,C.PERSSON,A.K.ROOS, AUTHOR 5 M.I.SIPONEN,L.SVENSSON,A.G.THORSELL,L.TRESAUGUES,S.VAN DEN BERG, AUTHOR 6 E.WAHLBERG,J.WEIGELT,M.WELIN,M.WISNIEWSKA,H.M.SCHULER,STRUCTURAL AUTHOR 7 GENOMICS CONSORTIUM (SGC) REVDAT 4 21-FEB-24 3IUY 1 REMARK SEQADV REVDAT 3 24-JAN-18 3IUY 1 AUTHOR REMARK REVDAT 2 27-OCT-10 3IUY 1 JRNL REVDAT 1 20-OCT-09 3IUY 0 JRNL AUTH P.SCHUTZ,T.KARLBERG,S.VAN DEN BERG,R.COLLINS,L.LEHTIO, JRNL AUTH 2 M.HOGBOM,L.HOLMBERG-SCHIAVONE,W.TEMPEL,H.W.PARK, JRNL AUTH 3 M.HAMMARSTROM,M.MOCHE,A.G.THORSELL,H.SCHULER JRNL TITL COMPARATIVE STRUCTURAL ANALYSIS OF HUMAN DEAD-BOX RNA JRNL TITL 2 HELICASES. JRNL REF PLOS ONE V. 5 12791 2010 JRNL REFN ESSN 1932-6203 JRNL PMID 20941364 JRNL DOI 10.1371/JOURNAL.PONE.0012791 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0035 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.13 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 17613 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) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 926 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1259 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2320 REMARK 3 BIN FREE R VALUE SET COUNT : 64 REMARK 3 BIN FREE R VALUE : 0.3160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3184 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 155 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.01000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.515 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.276 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.203 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.703 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.927 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.882 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3299 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4496 ; 1.157 ; 2.015 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 413 ; 5.313 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 112 ;37.891 ;24.464 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 560 ;14.417 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;13.328 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 545 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2369 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2095 ; 0.386 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3407 ; 0.725 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1204 ; 0.876 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1089 ; 1.498 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3IUY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000054896. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.25 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17649 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 65.382 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.300 REMARK 200 R MERGE (I) : 0.18700 REMARK 200 R SYM (I) : 0.18700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.50 REMARK 200 R MERGE FOR SHELL (I) : 0.57800 REMARK 200 R SYM FOR SHELL (I) : 0.57800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.200 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 27% PEG6000, 0.1M MES PH 6, 0.2M REMARK 280 AMMONIUMCHLORIDE, 15% GLYCEROL, 0.2M NACL , VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 30.62550 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 SER A 295 REMARK 465 GLN A 296 REMARK 465 PRO A 297 REMARK 465 ILE A 298 REMARK 465 SER A 299 REMARK 465 ARG A 300 REMARK 465 GLU A 301 REMARK 465 GLN A 302 REMARK 465 ARG A 303 REMARK 465 GLY A 341 REMARK 465 ARG A 342 REMARK 465 ASN A 343 REMARK 465 ARG A 344 REMARK 465 ASN A 345 REMARK 465 GLY A 346 REMARK 465 GLN B 296 REMARK 465 PRO B 297 REMARK 465 ILE B 298 REMARK 465 SER B 299 REMARK 465 ARG B 300 REMARK 465 GLU B 301 REMARK 465 GLN B 302 REMARK 465 ARG B 303 REMARK 465 GLY B 340 REMARK 465 GLY B 341 REMARK 465 ARG B 342 REMARK 465 ASN B 343 REMARK 465 ARG B 344 REMARK 465 ASN B 345 REMARK 465 GLY B 346 REMARK 465 GLN B 347 REMARK 465 ILE B 348 REMARK 465 GLU B 349 REMARK 465 ASP B 350 REMARK 465 ILE B 351 REMARK 465 SER B 352 REMARK 465 LYS B 353 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 LYS A 227 CD CE NZ REMARK 470 LYS A 233 NZ REMARK 470 GLN A 237 CG CD OE1 NE2 REMARK 470 LYS A 244 CG CD CE NZ REMARK 470 ARG A 248 NE CZ NH1 NH2 REMARK 470 LYS A 253 CE NZ REMARK 470 ASP A 294 CG OD1 OD2 REMARK 470 ASN A 304 CG OD1 ND2 REMARK 470 GLU A 316 CG CD OE1 OE2 REMARK 470 LYS A 334 CD CE NZ REMARK 470 ILE A 336 CD1 REMARK 470 GLN A 347 CB CG CD OE1 NE2 REMARK 470 ILE A 348 CG1 CG2 CD1 REMARK 470 GLU A 349 CG CD OE1 OE2 REMARK 470 ILE A 351 CG1 CG2 CD1 REMARK 470 SER A 352 OG REMARK 470 LYS A 353 CB CG CD CE NZ REMARK 470 ARG A 364 CZ NH1 NH2 REMARK 470 LYS A 389 CG CD CE NZ REMARK 470 GLU A 396 CD OE1 OE2 REMARK 470 LYS A 401 CE NZ REMARK 470 ASP A 405 CG OD1 OD2 REMARK 470 GLN A 425 CD OE1 NE2 REMARK 470 LYS B 227 CD CE NZ REMARK 470 LYS B 233 CD CE NZ REMARK 470 GLN B 237 CG CD OE1 NE2 REMARK 470 ASP B 241 CG OD1 OD2 REMARK 470 LYS B 244 CB CG CD CE NZ REMARK 470 ILE B 247 CD1 REMARK 470 ARG B 248 CD NE CZ NH1 NH2 REMARK 470 LEU B 252 CD1 CD2 REMARK 470 MET B 287 CE REMARK 470 LYS B 331 CG CD CE NZ REMARK 470 LYS B 334 CE NZ REMARK 470 ARG B 364 CZ NH1 NH2 REMARK 470 ARG B 400 NE CZ NH1 NH2 REMARK 470 LYS B 401 CE NZ REMARK 470 GLN B 425 CD OE1 NE2 REMARK 470 LYS B 432 CD CE NZ 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 ASP A 385 CB - CG - OD2 ANGL. DEV. = 5.8 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 ALA A 275 134.21 -171.21 REMARK 500 SER A 416 141.05 -170.12 REMARK 500 ASP A 433 58.91 38.42 REMARK 500 ASP B 433 61.77 35.71 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 160 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMP B 160 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 1 DBREF 3IUY A 213 439 UNP Q86TM3 DDX53_HUMAN 204 430 DBREF 3IUY B 213 439 UNP Q86TM3 DDX53_HUMAN 204 430 SEQADV 3IUY MET A 212 UNP Q86TM3 EXPRESSION TAG SEQADV 3IUY LEU A 252 UNP Q86TM3 VAL 243 VARIANT SEQADV 3IUY MET B 212 UNP Q86TM3 EXPRESSION TAG SEQADV 3IUY LEU B 252 UNP Q86TM3 VAL 243 VARIANT SEQRES 1 A 228 MET THR CYS ASP ASP LEU LYS SER GLY GLU LYS ARG LEU SEQRES 2 A 228 ILE PRO LYS PRO THR CYS ARG PHE LYS ASP ALA PHE GLN SEQRES 3 A 228 GLN TYR PRO ASP LEU LEU LYS SER ILE ILE ARG VAL GLY SEQRES 4 A 228 ILE LEU LYS PRO THR PRO ILE GLN SER GLN ALA TRP PRO SEQRES 5 A 228 ILE ILE LEU GLN GLY ILE ASP LEU ILE VAL VAL ALA GLN SEQRES 6 A 228 THR GLY THR GLY LYS THR LEU SER TYR LEU MET PRO GLY SEQRES 7 A 228 PHE ILE HIS LEU ASP SER GLN PRO ILE SER ARG GLU GLN SEQRES 8 A 228 ARG ASN GLY PRO GLY MET LEU VAL LEU THR PRO THR ARG SEQRES 9 A 228 GLU LEU ALA LEU HIS VAL GLU ALA GLU CYS SER LYS TYR SEQRES 10 A 228 SER TYR LYS GLY LEU LYS SER ILE CYS ILE TYR GLY GLY SEQRES 11 A 228 ARG ASN ARG ASN GLY GLN ILE GLU ASP ILE SER LYS GLY SEQRES 12 A 228 VAL ASP ILE ILE ILE ALA THR PRO GLY ARG LEU ASN ASP SEQRES 13 A 228 LEU GLN MET ASN ASN SER VAL ASN LEU ARG SER ILE THR SEQRES 14 A 228 TYR LEU VAL ILE ASP GLU ALA ASP LYS MET LEU ASP MET SEQRES 15 A 228 GLU PHE GLU PRO GLN ILE ARG LYS ILE LEU LEU ASP VAL SEQRES 16 A 228 ARG PRO ASP ARG GLN THR VAL MET THR SER ALA THR TRP SEQRES 17 A 228 PRO ASP THR VAL ARG GLN LEU ALA LEU SER TYR LEU LYS SEQRES 18 A 228 ASP PRO MET ILE VAL TYR VAL SEQRES 1 B 228 MET THR CYS ASP ASP LEU LYS SER GLY GLU LYS ARG LEU SEQRES 2 B 228 ILE PRO LYS PRO THR CYS ARG PHE LYS ASP ALA PHE GLN SEQRES 3 B 228 GLN TYR PRO ASP LEU LEU LYS SER ILE ILE ARG VAL GLY SEQRES 4 B 228 ILE LEU LYS PRO THR PRO ILE GLN SER GLN ALA TRP PRO SEQRES 5 B 228 ILE ILE LEU GLN GLY ILE ASP LEU ILE VAL VAL ALA GLN SEQRES 6 B 228 THR GLY THR GLY LYS THR LEU SER TYR LEU MET PRO GLY SEQRES 7 B 228 PHE ILE HIS LEU ASP SER GLN PRO ILE SER ARG GLU GLN SEQRES 8 B 228 ARG ASN GLY PRO GLY MET LEU VAL LEU THR PRO THR ARG SEQRES 9 B 228 GLU LEU ALA LEU HIS VAL GLU ALA GLU CYS SER LYS TYR SEQRES 10 B 228 SER TYR LYS GLY LEU LYS SER ILE CYS ILE TYR GLY GLY SEQRES 11 B 228 ARG ASN ARG ASN GLY GLN ILE GLU ASP ILE SER LYS GLY SEQRES 12 B 228 VAL ASP ILE ILE ILE ALA THR PRO GLY ARG LEU ASN ASP SEQRES 13 B 228 LEU GLN MET ASN ASN SER VAL ASN LEU ARG SER ILE THR SEQRES 14 B 228 TYR LEU VAL ILE ASP GLU ALA ASP LYS MET LEU ASP MET SEQRES 15 B 228 GLU PHE GLU PRO GLN ILE ARG LYS ILE LEU LEU ASP VAL SEQRES 16 B 228 ARG PRO ASP ARG GLN THR VAL MET THR SER ALA THR TRP SEQRES 17 B 228 PRO ASP THR VAL ARG GLN LEU ALA LEU SER TYR LEU LYS SEQRES 18 B 228 ASP PRO MET ILE VAL TYR VAL HET AMP A 160 23 HET CL A 1 1 HET AMP B 160 23 HET CL B 1 1 HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM CL CHLORIDE ION FORMUL 3 AMP 2(C10 H14 N5 O7 P) FORMUL 4 CL 2(CL 1-) FORMUL 7 HOH *155(H2 O) HELIX 1 1 ARG A 231 GLN A 237 1 7 HELIX 2 2 TYR A 239 GLY A 250 1 12 HELIX 3 3 THR A 255 GLN A 267 1 13 HELIX 4 4 GLY A 280 ASP A 294 1 15 HELIX 5 5 THR A 314 SER A 329 1 16 HELIX 6 6 GLN A 347 LYS A 353 1 7 HELIX 7 7 THR A 361 ASN A 371 1 11 HELIX 8 8 GLU A 386 MET A 393 1 8 HELIX 9 9 PHE A 395 VAL A 406 1 12 HELIX 10 10 PRO A 420 SER A 429 1 10 HELIX 11 11 ARG B 231 GLN B 237 1 7 HELIX 12 12 TYR B 239 GLY B 250 1 12 HELIX 13 13 THR B 255 GLN B 267 1 13 HELIX 14 14 GLY B 280 ASP B 294 1 15 HELIX 15 15 THR B 314 SER B 329 1 16 HELIX 16 16 THR B 361 ASN B 371 1 11 HELIX 17 17 GLU B 386 MET B 393 1 8 HELIX 18 18 PHE B 395 VAL B 406 1 12 HELIX 19 19 PRO B 420 LEU B 431 1 12 SHEET 1 A 8 THR A 213 ASP A 216 0 SHEET 2 A 8 MET A 435 TYR A 438 -1 O TYR A 438 N THR A 213 SHEET 3 A 8 LEU A 271 VAL A 274 1 N VAL A 274 O VAL A 437 SHEET 4 A 8 GLN A 411 SER A 416 1 O MET A 414 N VAL A 273 SHEET 5 A 8 TYR A 381 ILE A 384 1 N LEU A 382 O GLN A 411 SHEET 6 A 8 MET A 308 LEU A 311 1 N LEU A 309 O VAL A 383 SHEET 7 A 8 ILE A 357 ALA A 360 1 O ALA A 360 N VAL A 310 SHEET 8 A 8 SER A 335 ILE A 338 1 N ILE A 338 O ILE A 359 SHEET 1 B 8 THR B 213 ASP B 216 0 SHEET 2 B 8 MET B 435 TYR B 438 -1 O TYR B 438 N THR B 213 SHEET 3 B 8 LEU B 271 VAL B 274 1 N VAL B 274 O VAL B 437 SHEET 4 B 8 GLN B 411 SER B 416 1 O MET B 414 N VAL B 273 SHEET 5 B 8 TYR B 381 ILE B 384 1 N LEU B 382 O GLN B 411 SHEET 6 B 8 MET B 308 LEU B 311 1 N LEU B 309 O VAL B 383 SHEET 7 B 8 ILE B 357 ALA B 360 1 O ILE B 358 N MET B 308 SHEET 8 B 8 SER B 335 ILE B 338 1 N ILE B 338 O ILE B 359 SITE 1 AC1 18 HOH A 7 HOH A 12 HOH A 20 HOH A 21 SITE 2 AC1 18 HOH A 29 HOH A 67 ILE A 251 LYS A 253 SITE 3 AC1 18 GLN A 258 THR A 277 GLY A 278 THR A 279 SITE 4 AC1 18 GLY A 280 LYS A 281 THR A 282 LEU A 283 SITE 5 AC1 18 HIS A 320 GLU A 324 SITE 1 AC2 2 THR A 213 CYS A 214 SITE 1 AC3 16 HOH B 18 HOH B 38 HOH B 44 HOH B 51 SITE 2 AC3 16 ILE B 251 LYS B 253 GLN B 258 THR B 277 SITE 3 AC3 16 GLY B 278 THR B 279 GLY B 280 LYS B 281 SITE 4 AC3 16 THR B 282 LEU B 283 HIS B 320 GLU B 324 SITE 1 AC4 4 HOH A 28 HOH A 69 ASP A 433 ARG B 377 CRYST1 56.442 61.251 65.787 90.00 96.36 90.00 P 1 21 1 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 0.017717 0.000000 0.001975 0.00000 SCALE2 0.000000 0.016326 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015295 0.00000