PDB Short entry for 2RB4 HEADER HYDROLASE 18-SEP-07 2RB4 TITLE CRYSTAL STRUCTURE OF THE HELICASE DOMAIN OF HUMAN DDX25 RNA HELICASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATP-DEPENDENT RNA HELICASE DDX25; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: HELICASE DOMAIN: RESIDUES 307-479; COMPND 5 SYNONYM: DEAD BOX PROTEIN 25, GONADOTROPIN-REGULATED TESTICULAR RNA COMPND 6 HELICASE; 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: DDX25, GRTH; 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, ROSSMANN FOLD, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, ALTERNATIVE INITIATION, ATP-BINDING, DEVELOPMENTAL KEYWDS 3 PROTEIN, DIFFERENTIATION, HYDROLASE, MRNA TRANSPORT, NUCLEOTIDE- KEYWDS 4 BINDING, NUCLEUS, PHOSPHORYLATION, RNA-BINDING, SPERMATOGENESIS, KEYWDS 5 TRANSLATION REGULATION, TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR L.LEHTIO,M.HOGBOM,J.UPPENBERG,C.H.ARROWSMITH,H.BERGLUND,A.M.EDWARDS, AUTHOR 2 M.EHN,S.FLODIN,A.FLORES,S.GRASLUND,B.M.HALLBERG,M.HAMMARSTROM, AUTHOR 3 T.KOTENYOVA,P.NILSSON-EHLE,P.NORDLUND,T.NYMAN,D.OGG,C.PERSSON, AUTHOR 4 J.SAGEMARK,P.STENMARK,M.SUNDSTROM,A.G.THORSELL,S.VAN DEN BERG, AUTHOR 5 J.WEIGELT,L.HOLMBERG-SCHIAVONE,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 5 30-AUG-23 2RB4 1 REMARK SEQADV LINK REVDAT 4 11-OCT-17 2RB4 1 REMARK REVDAT 3 27-OCT-10 2RB4 1 JRNL REVDAT 2 24-FEB-09 2RB4 1 VERSN REVDAT 1 02-OCT-07 2RB4 0 SPRSDE 02-OCT-07 2RB4 2G2J 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. 2.80 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.44 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 11208 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) : 0.236 REMARK 3 R VALUE (WORKING SET) : 0.233 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.000 REMARK 3 FREE R VALUE TEST SET COUNT : 974 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 790 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3630 REMARK 3 BIN FREE R VALUE SET COUNT : 69 REMARK 3 BIN FREE R VALUE : 0.3620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2623 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 13 REMARK 3 SOLVENT ATOMS : 5 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 64.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 82.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.22000 REMARK 3 B22 (A**2) : -0.22000 REMARK 3 B33 (A**2) : 0.45000 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): 1.361 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.373 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.361 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 41.767 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2667 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3595 ; 1.244 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 321 ; 6.446 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 132 ;38.818 ;24.545 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 498 ;18.195 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;22.595 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 415 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1962 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1088 ; 0.225 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1806 ; 0.311 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 77 ; 0.137 ; 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): 56 ; 0.275 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.186 ; 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): 1663 ; 0.389 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2620 ; 0.721 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1117 ; 0.926 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 975 ; 1.573 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 7 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 307 A 311 1 REMARK 3 1 B 307 B 311 1 REMARK 3 2 A 313 A 337 1 REMARK 3 2 B 313 B 337 1 REMARK 3 3 A 339 A 397 1 REMARK 3 3 B 339 B 397 1 REMARK 3 4 A 399 A 417 1 REMARK 3 4 B 399 B 417 1 REMARK 3 5 A 420 A 422 1 REMARK 3 5 B 420 B 422 1 REMARK 3 6 A 423 A 429 1 REMARK 3 6 B 423 B 429 1 REMARK 3 7 A 431 A 480 1 REMARK 3 7 B 431 B 480 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 1275 ; 0.04 ; 0.05 REMARK 3 TIGHT THERMAL 1 A (A**2): 1275 ; 0.06 ; 0.50 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 REMARK 4 REMARK 4 2RB4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-SEP-07. REMARK 100 THE DEPOSITION ID IS D_1000044646. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JAN-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95373 REMARK 200 MONOCHROMATOR : SI-111 CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MACSCIENCE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12185 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 8.800 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.6500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.10 REMARK 200 R MERGE FOR SHELL (I) : 0.82000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.590 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 1FUK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS PROPANE, 2.5 M AMMONIUM REMARK 280 SULFATE PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 93.56000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 35.15500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 35.15500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 140.34000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 35.15500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 35.15500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 46.78000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 35.15500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.15500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 140.34000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 35.15500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 35.15500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 46.78000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 93.56000 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 300 REMARK: EACH MONOMER REPRESENTS BIOLOGICAL UNIT 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 305 REMARK 465 MET A 306 REMARK 465 LYS A 418 REMARK 465 GLN A 419 REMARK 465 GLY A 436 REMARK 465 ARG A 437 REMARK 465 PHE A 438 REMARK 465 GLY A 439 REMARK 465 GLU A 477 REMARK 465 ILE A 478 REMARK 465 GLU A 479 REMARK 465 SER B 305 REMARK 465 MET B 306 REMARK 465 LYS B 418 REMARK 465 GLN B 419 REMARK 465 GLY B 436 REMARK 465 ARG B 437 REMARK 465 PHE B 438 REMARK 465 GLY B 439 REMARK 465 LYS B 440 REMARK 465 GLU B 477 REMARK 465 ILE B 478 REMARK 465 GLU B 479 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 GLU A 421 CG CD OE1 OE2 REMARK 470 MET A 475 CG SD CE REMARK 470 GLU B 421 CG CD OE1 OE2 REMARK 470 MET B 475 CG SD CE 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 LEU A 309 -169.43 -111.79 REMARK 500 ASN A 311 61.83 -107.83 REMARK 500 ILE A 338 -79.13 -94.81 REMARK 500 ASP A 403 73.80 -65.80 REMARK 500 PRO A 416 92.28 -63.88 REMARK 500 ASN A 464 45.58 38.51 REMARK 500 ASN A 471 -169.63 -124.31 REMARK 500 ALA A 472 61.55 -62.51 REMARK 500 GLU A 473 94.25 179.79 REMARK 500 LEU B 309 -167.89 -112.06 REMARK 500 ASN B 311 61.93 -108.62 REMARK 500 ILE B 338 -73.15 -96.47 REMARK 500 ASP B 403 77.14 -69.17 REMARK 500 PRO B 416 94.28 -65.34 REMARK 500 ASN B 464 49.18 34.88 REMARK 500 ASN B 471 -167.43 -123.45 REMARK 500 ALA B 472 60.67 -64.02 REMARK 500 GLU B 473 93.23 -178.87 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 ZN A 481 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 398 SG REMARK 620 2 HIS A 430 ND1 89.7 REMARK 620 3 CYS B 398 SG 145.9 121.4 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 480 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 481 DBREF 2RB4 A 307 479 UNP Q9UHL0 DDX25_HUMAN 307 479 DBREF 2RB4 B 307 479 UNP Q9UHL0 DDX25_HUMAN 307 479 SEQADV 2RB4 SER A 305 UNP Q9UHL0 EXPRESSION TAG SEQADV 2RB4 MET A 306 UNP Q9UHL0 EXPRESSION TAG SEQADV 2RB4 SER B 305 UNP Q9UHL0 EXPRESSION TAG SEQADV 2RB4 MET B 306 UNP Q9UHL0 EXPRESSION TAG SEQRES 1 A 175 SER MET LEU THR LEU ASN ASN ILE ARG GLN TYR TYR VAL SEQRES 2 A 175 LEU CYS GLU HIS ARG LYS ASP LYS TYR GLN ALA LEU CYS SEQRES 3 A 175 ASN ILE TYR GLY SER ILE THR ILE GLY GLN ALA ILE ILE SEQRES 4 A 175 PHE CYS GLN THR ARG ARG ASN ALA LYS TRP LEU THR VAL SEQRES 5 A 175 GLU MET ILE GLN ASP GLY HIS GLN VAL SER LEU LEU SER SEQRES 6 A 175 GLY GLU LEU THR VAL GLU GLN ARG ALA SER ILE ILE GLN SEQRES 7 A 175 ARG PHE ARG ASP GLY LYS GLU LYS VAL LEU ILE THR THR SEQRES 8 A 175 ASN VAL CYS ALA ARG GLY ILE ASP VAL LYS GLN VAL THR SEQRES 9 A 175 ILE VAL VAL ASN PHE ASP LEU PRO VAL LYS GLN GLY GLU SEQRES 10 A 175 GLU PRO ASP TYR GLU THR TYR LEU HIS ARG ILE GLY ARG SEQRES 11 A 175 THR GLY ARG PHE GLY LYS LYS GLY LEU ALA PHE ASN MET SEQRES 12 A 175 ILE GLU VAL ASP GLU LEU PRO SER LEU MET LYS ILE GLN SEQRES 13 A 175 ASP HIS PHE ASN SER SER ILE LYS GLN LEU ASN ALA GLU SEQRES 14 A 175 ASP MET ASP GLU ILE GLU SEQRES 1 B 175 SER MET LEU THR LEU ASN ASN ILE ARG GLN TYR TYR VAL SEQRES 2 B 175 LEU CYS GLU HIS ARG LYS ASP LYS TYR GLN ALA LEU CYS SEQRES 3 B 175 ASN ILE TYR GLY SER ILE THR ILE GLY GLN ALA ILE ILE SEQRES 4 B 175 PHE CYS GLN THR ARG ARG ASN ALA LYS TRP LEU THR VAL SEQRES 5 B 175 GLU MET ILE GLN ASP GLY HIS GLN VAL SER LEU LEU SER SEQRES 6 B 175 GLY GLU LEU THR VAL GLU GLN ARG ALA SER ILE ILE GLN SEQRES 7 B 175 ARG PHE ARG ASP GLY LYS GLU LYS VAL LEU ILE THR THR SEQRES 8 B 175 ASN VAL CYS ALA ARG GLY ILE ASP VAL LYS GLN VAL THR SEQRES 9 B 175 ILE VAL VAL ASN PHE ASP LEU PRO VAL LYS GLN GLY GLU SEQRES 10 B 175 GLU PRO ASP TYR GLU THR TYR LEU HIS ARG ILE GLY ARG SEQRES 11 B 175 THR GLY ARG PHE GLY LYS LYS GLY LEU ALA PHE ASN MET SEQRES 12 B 175 ILE GLU VAL ASP GLU LEU PRO SER LEU MET LYS ILE GLN SEQRES 13 B 175 ASP HIS PHE ASN SER SER ILE LYS GLN LEU ASN ALA GLU SEQRES 14 B 175 ASP MET ASP GLU ILE GLU HET CL A 1 1 HET CL A 2 1 HET SO4 A 480 5 HET ZN A 481 1 HET SO4 B 1 5 HETNAM CL CHLORIDE ION HETNAM SO4 SULFATE ION HETNAM ZN ZINC ION FORMUL 3 CL 2(CL 1-) FORMUL 5 SO4 2(O4 S 2-) FORMUL 6 ZN ZN 2+ FORMUL 8 HOH *5(H2 O) HELIX 1 1 HIS A 321 GLY A 334 1 14 HELIX 2 2 THR A 347 GLN A 360 1 14 HELIX 3 3 THR A 373 ASP A 386 1 14 HELIX 4 4 ASP A 424 GLY A 433 1 10 HELIX 5 5 GLU A 449 ASP A 451 5 3 HELIX 6 6 GLU A 452 ASN A 464 1 13 HELIX 7 7 HIS B 321 GLY B 334 1 14 HELIX 8 8 THR B 347 GLN B 360 1 14 HELIX 9 9 THR B 373 ASP B 386 1 14 HELIX 10 10 ASP B 424 GLY B 433 1 10 HELIX 11 11 GLU B 449 ASP B 451 5 3 HELIX 12 12 GLU B 452 ASN B 464 1 13 SHEET 1 A 7 VAL A 365 LEU A 368 0 SHEET 2 A 7 VAL A 391 THR A 394 1 O ILE A 393 N LEU A 368 SHEET 3 A 7 GLN A 340 PHE A 344 1 N ILE A 343 O LEU A 392 SHEET 4 A 7 VAL A 407 ASN A 412 1 O VAL A 411 N PHE A 344 SHEET 5 A 7 GLY A 442 ILE A 448 1 O PHE A 445 N ASN A 412 SHEET 6 A 7 ILE A 312 LEU A 318 1 N ARG A 313 O ALA A 444 SHEET 7 A 7 LYS A 468 LEU A 470 1 O LEU A 470 N TYR A 316 SHEET 1 B 7 VAL B 365 LEU B 368 0 SHEET 2 B 7 VAL B 391 THR B 394 1 O ILE B 393 N LEU B 368 SHEET 3 B 7 GLN B 340 PHE B 344 1 N ILE B 343 O LEU B 392 SHEET 4 B 7 VAL B 407 ASN B 412 1 O VAL B 411 N PHE B 344 SHEET 5 B 7 GLY B 442 ILE B 448 1 O PHE B 445 N ASN B 412 SHEET 6 B 7 ILE B 312 LEU B 318 1 N VAL B 317 O ILE B 448 SHEET 7 B 7 ILE B 467 LEU B 470 1 O LYS B 468 N TYR B 316 LINK SG CYS A 398 ZN ZN A 481 1555 1555 2.25 LINK ND1 HIS A 430 ZN ZN A 481 1555 1555 2.64 LINK ZN ZN A 481 SG CYS B 398 1555 1555 2.28 SITE 1 AC1 1 ARG A 400 SITE 1 AC2 1 ARG A 348 SITE 1 AC3 3 LEU A 307 GLN B 382 ARG B 385 SITE 1 AC4 2 GLN A 382 ARG A 385 SITE 1 AC5 5 CYS A 398 HIS A 430 CYS B 398 ARG B 400 SITE 2 AC5 5 HIS B 430 CRYST1 70.310 70.310 187.120 90.00 90.00 90.00 P 43 21 2 16 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 0.014223 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014223 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005344 0.00000