HEADER HYDROLASE INHIBITOR/HYDROLASE 23-MAY-11 2YJT TITLE CRYSTAL STRUCTURE OF E. COLI DEAD-BOX PROTEIN SRMB BOUND TO REGULATOR TITLE 2 OF RIBONUCLEASE ACTIVITY A (RRAA) COMPND MOL_ID: 1; COMPND 2 MOLECULE: REGULATOR OF RIBONUCLEASE ACTIVITY A; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: RRAA; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ATP-DEPENDENT RNA HELICASE SRMB; COMPND 8 CHAIN: D; COMPND 9 FRAGMENT: RESIDUES 219-388; COMPND 10 EC: 3.6.4.13; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET28A; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 12 ORGANISM_TAXID: 83333; SOURCE 13 STRAIN: K-12; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_VECTOR: PET11A KEYWDS HYDROLASE INHIBITOR-HYDROLASE COMPLEX, DEAD BOX RNA HELICASES EXPDTA X-RAY DIFFRACTION AUTHOR Z.PIETRAS,S.W.HARDWICK,B.F.LUISI REVDAT 6 20-DEC-23 2YJT 1 REMARK REVDAT 5 15-MAY-19 2YJT 1 REMARK REVDAT 4 08-MAY-19 2YJT 1 REMARK REVDAT 3 13-NOV-13 2YJT 1 JRNL REVDAT 2 02-OCT-13 2YJT 1 JRNL REVDAT 1 06-JUN-12 2YJT 0 JRNL AUTH Z.PIETRAS,S.W.HARDWICK,S.SWIEZEWSKI,B.F.LUISI JRNL TITL POTENTIAL REGULATORY INTERACTIONS OF ESCHERICHIA COLI RRAA JRNL TITL 2 PROTEIN WITH DEAD-BOX HELICASES. JRNL REF J.BIOL.CHEM. V. 288 31919 2013 JRNL REFN ISSN 0021-9258 JRNL PMID 24045937 JRNL DOI 10.1074/JBC.M113.502146 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 74.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 15208 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 804 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) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1082 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.2680 REMARK 3 BIN FREE R VALUE SET COUNT : 52 REMARK 3 BIN FREE R VALUE : 0.3160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4964 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 29 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.97000 REMARK 3 B22 (A**2) : 0.97000 REMARK 3 B33 (A**2) : -1.45000 REMARK 3 B12 (A**2) : 0.48000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.435 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.305 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.027 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.928 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): 5040 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6820 ; 1.590 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 640 ; 7.124 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 259 ;38.334 ;24.286 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 832 ;20.397 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 44 ;21.774 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 760 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3904 ; 0.005 ; 0.020 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): 3157 ; 0.674 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5038 ; 1.310 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1883 ; 1.742 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1782 ; 3.107 ; 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 C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 2 A 159 4 REMARK 3 1 B 2 B 159 4 REMARK 3 1 C 2 C 159 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1196 ; 0.41 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 B (A): 1196 ; 0.51 ; 0.50 REMARK 3 MEDIUM POSITIONAL 1 C (A): 1196 ; 0.53 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1196 ; 0.70 ; 2.00 REMARK 3 MEDIUM THERMAL 1 B (A**2): 1196 ; 0.68 ; 2.00 REMARK 3 MEDIUM THERMAL 1 C (A**2): 1196 ; 0.72 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2YJT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-MAY-11. REMARK 100 THE DEPOSITION ID IS D_1290048377. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JAN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : SILICON CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15208 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 63.560 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 6.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.51000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1Q5X REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE PREPARED USING THE REMARK 280 HANGING DROP METHOD AT 16 DEG. C BY MIXING 1:1 PROTEIN SAMPLE REMARK 280 WITH MOTHER LIQUOR: 100 MM MAGNESIUM ACETATE, 100 MM MOPS PH 7.2 REMARK 280 AND 12% W/V PEG 8000.THE CRYSTALS WERE TRANSFERRED BRIEFLY TO REMARK 280 RESERVOIR SOLUTION SUPPLEMENTED WITH 25% (V/V) GLYCEROL AND REMARK 280 FLASH FROZEN IN LIQUID NITROGEN., VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 148.59400 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 74.29700 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 74.29700 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 148.59400 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.6 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 MET A 1 REMARK 465 ILE A 160 REMARK 465 GLU A 161 REMARK 465 MET B 1 REMARK 465 ILE B 160 REMARK 465 GLU B 161 REMARK 465 MET C 1 REMARK 465 ILE C 160 REMARK 465 GLU C 161 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 OE1 GLU D 279 OE1 GLU D 281 1.36 REMARK 500 NZ LYS A 40 O HOH A 2005 1.58 REMARK 500 O ILE C 124 O HOH C 2003 1.59 REMARK 500 O GLY C 65 O HOH C 2004 1.59 REMARK 500 NH2 ARG B 57 OE1 GLU B 86 1.87 REMARK 500 CB GLU D 233 O HOH D 2001 1.93 REMARK 500 O ALA D 265 ND2 ASN D 275 2.02 REMARK 500 O ARG D 269 N GLY D 272 2.05 REMARK 500 OE1 GLN D 224 OH TYR D 332 2.08 REMARK 500 O ARG D 293 O GLU D 296 2.11 REMARK 500 O GLU D 296 N ARG D 298 2.13 REMARK 500 OG SER C 6 O HOH C 2001 2.16 REMARK 500 OD1 ASP D 230 OG1 THR D 383 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OD2 ASP C 156 OH TYR D 226 3555 2.00 REMARK 500 NH1 ARG D 344 N HIS D 355 4455 2.15 REMARK 500 NH1 ARG D 344 CB HIS D 355 4455 2.16 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 LEU A 81 CA - CB - CG ANGL. DEV. = 16.2 DEGREES REMARK 500 PRO D 246 C - N - CD ANGL. DEV. = -14.8 DEGREES REMARK 500 LEU D 360 CA - CB - CG ANGL. DEV. = 16.2 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 GLN A 13 -118.74 58.11 REMARK 500 PHE A 32 175.50 179.89 REMARK 500 ASN A 85 30.57 -99.88 REMARK 500 GLN A 98 64.91 62.39 REMARK 500 GLN B 13 -119.81 52.90 REMARK 500 ASP B 75 -167.71 -103.57 REMARK 500 ASN B 85 30.58 -81.78 REMARK 500 ASP B 106 67.75 -69.38 REMARK 500 ALA B 120 172.95 -57.88 REMARK 500 GLN C 13 -120.85 57.17 REMARK 500 ALA C 113 -175.07 -176.24 REMARK 500 PHE C 133 153.97 179.15 REMARK 500 LYS D 220 173.03 -52.44 REMARK 500 THR D 249 -60.50 -127.23 REMARK 500 ALA D 308 -14.40 -42.15 REMARK 500 ALA D 340 -128.82 63.26 REMARK 500 ARG D 341 16.48 88.82 REMARK 500 ALA D 342 2.36 -64.60 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 GLU D 296 GLY D 297 -143.28 REMARK 500 ALA D 340 ARG D 341 -145.32 REMARK 500 ALA D 342 GLY D 343 -131.20 REMARK 500 GLY D 343 ARG D 344 -145.51 REMARK 500 ARG D 344 LYS D 345 -140.20 REMARK 500 ILE D 367 GLU D 368 -148.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YJV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF E. COLI REGULATOR OF RIBONUCLEASE ACTIVITY A REMARK 900 (RRAA) BOUND TO FRAGMENT OF DEAD-BOX PROTEIN RHLB DBREF 2YJT A 1 161 UNP D8AM26 D8AM26_ECOLX 1 161 DBREF 2YJT B 1 161 UNP D8AM26 D8AM26_ECOLX 1 161 DBREF 2YJT C 1 161 UNP D8AM26 D8AM26_ECOLX 1 161 DBREF 2YJT D 219 388 UNP P21507 SRMB_ECOLI 219 388 SEQRES 1 A 161 MET LYS TYR ASP THR SER GLU LEU CYS ASP ILE TYR GLN SEQRES 2 A 161 GLU ASP VAL ASN VAL VAL GLU PRO LEU PHE SER ASN PHE SEQRES 3 A 161 GLY GLY ARG ALA SER PHE GLY GLY GLN ILE ILE THR VAL SEQRES 4 A 161 LYS CYS PHE GLU ASP ASN GLY LEU LEU TYR ASP LEU LEU SEQRES 5 A 161 GLU GLN ASN GLY ARG GLY ARG VAL LEU VAL VAL ASP GLY SEQRES 6 A 161 GLY GLY SER VAL ARG ARG ALA LEU VAL ASP ALA GLU LEU SEQRES 7 A 161 ALA ARG LEU ALA VAL GLN ASN GLU TRP GLU GLY LEU VAL SEQRES 8 A 161 ILE TYR GLY ALA VAL ARG GLN VAL ASP ASP LEU GLU GLU SEQRES 9 A 161 LEU ASP ILE GLY ILE GLN ALA MET ALA ALA ILE PRO VAL SEQRES 10 A 161 GLY ALA ALA GLY GLU GLY ILE GLY GLU SER ASP VAL ARG SEQRES 11 A 161 VAL ASN PHE GLY GLY VAL THR PHE PHE SER GLY ASP HIS SEQRES 12 A 161 LEU TYR ALA ASP ASN THR GLY ILE ILE LEU SER GLU ASP SEQRES 13 A 161 PRO LEU ASP ILE GLU SEQRES 1 B 161 MET LYS TYR ASP THR SER GLU LEU CYS ASP ILE TYR GLN SEQRES 2 B 161 GLU ASP VAL ASN VAL VAL GLU PRO LEU PHE SER ASN PHE SEQRES 3 B 161 GLY GLY ARG ALA SER PHE GLY GLY GLN ILE ILE THR VAL SEQRES 4 B 161 LYS CYS PHE GLU ASP ASN GLY LEU LEU TYR ASP LEU LEU SEQRES 5 B 161 GLU GLN ASN GLY ARG GLY ARG VAL LEU VAL VAL ASP GLY SEQRES 6 B 161 GLY GLY SER VAL ARG ARG ALA LEU VAL ASP ALA GLU LEU SEQRES 7 B 161 ALA ARG LEU ALA VAL GLN ASN GLU TRP GLU GLY LEU VAL SEQRES 8 B 161 ILE TYR GLY ALA VAL ARG GLN VAL ASP ASP LEU GLU GLU SEQRES 9 B 161 LEU ASP ILE GLY ILE GLN ALA MET ALA ALA ILE PRO VAL SEQRES 10 B 161 GLY ALA ALA GLY GLU GLY ILE GLY GLU SER ASP VAL ARG SEQRES 11 B 161 VAL ASN PHE GLY GLY VAL THR PHE PHE SER GLY ASP HIS SEQRES 12 B 161 LEU TYR ALA ASP ASN THR GLY ILE ILE LEU SER GLU ASP SEQRES 13 B 161 PRO LEU ASP ILE GLU SEQRES 1 C 161 MET LYS TYR ASP THR SER GLU LEU CYS ASP ILE TYR GLN SEQRES 2 C 161 GLU ASP VAL ASN VAL VAL GLU PRO LEU PHE SER ASN PHE SEQRES 3 C 161 GLY GLY ARG ALA SER PHE GLY GLY GLN ILE ILE THR VAL SEQRES 4 C 161 LYS CYS PHE GLU ASP ASN GLY LEU LEU TYR ASP LEU LEU SEQRES 5 C 161 GLU GLN ASN GLY ARG GLY ARG VAL LEU VAL VAL ASP GLY SEQRES 6 C 161 GLY GLY SER VAL ARG ARG ALA LEU VAL ASP ALA GLU LEU SEQRES 7 C 161 ALA ARG LEU ALA VAL GLN ASN GLU TRP GLU GLY LEU VAL SEQRES 8 C 161 ILE TYR GLY ALA VAL ARG GLN VAL ASP ASP LEU GLU GLU SEQRES 9 C 161 LEU ASP ILE GLY ILE GLN ALA MET ALA ALA ILE PRO VAL SEQRES 10 C 161 GLY ALA ALA GLY GLU GLY ILE GLY GLU SER ASP VAL ARG SEQRES 11 C 161 VAL ASN PHE GLY GLY VAL THR PHE PHE SER GLY ASP HIS SEQRES 12 C 161 LEU TYR ALA ASP ASN THR GLY ILE ILE LEU SER GLU ASP SEQRES 13 C 161 PRO LEU ASP ILE GLU SEQRES 1 D 170 ARG LYS LYS ILE HIS GLN TRP TYR TYR ARG ALA ASP ASP SEQRES 2 D 170 LEU GLU HIS LYS THR ALA LEU LEU VAL HIS LEU LEU LYS SEQRES 3 D 170 GLN PRO GLU ALA THR ARG SER ILE VAL PHE VAL ARG LYS SEQRES 4 D 170 ARG GLU ARG VAL HIS GLU LEU ALA ASN TRP LEU ARG GLU SEQRES 5 D 170 ALA GLY ILE ASN ASN CYS TYR LEU GLU GLY GLU MET VAL SEQRES 6 D 170 GLN GLY LYS ARG ASN GLU ALA ILE LYS ARG LEU THR GLU SEQRES 7 D 170 GLY ARG VAL ASN VAL LEU VAL ALA THR ASP VAL ALA ALA SEQRES 8 D 170 ARG GLY ILE ASP ILE PRO ASP VAL SER HIS VAL PHE ASN SEQRES 9 D 170 PHE ASP MET PRO ARG SER GLY ASP THR TYR LEU HIS ARG SEQRES 10 D 170 ILE GLY ARG THR ALA ARG ALA GLY ARG LYS GLY THR ALA SEQRES 11 D 170 ILE SER LEU VAL GLU ALA HIS ASP HIS LEU LEU LEU GLY SEQRES 12 D 170 LYS VAL GLY ARG TYR ILE GLU GLU PRO ILE LYS ALA ARG SEQRES 13 D 170 VAL ILE ASP GLU LEU ARG PRO LYS THR ARG ALA PRO SER SEQRES 14 D 170 GLU FORMUL 5 HOH *29(H2 O) HELIX 1 1 ASP A 4 GLN A 13 1 10 HELIX 2 2 GLU A 14 VAL A 16 5 3 HELIX 3 3 ASN A 45 LEU A 52 1 8 HELIX 4 4 ASP A 75 ASN A 85 1 11 HELIX 5 5 GLN A 98 GLU A 104 1 7 HELIX 6 6 ASP B 4 GLN B 13 1 10 HELIX 7 7 GLU B 14 VAL B 16 5 3 HELIX 8 8 ASN B 45 GLU B 53 1 9 HELIX 9 9 ASP B 75 ASN B 85 1 11 HELIX 10 10 GLN B 98 GLU B 104 1 7 HELIX 11 11 ASP C 4 GLN C 13 1 10 HELIX 12 12 GLU C 14 VAL C 16 5 3 HELIX 13 13 ASN C 45 GLU C 53 1 9 HELIX 14 14 ASP C 75 ASN C 85 1 11 HELIX 15 15 GLN C 98 GLU C 103 1 6 HELIX 16 16 ASP D 231 LYS D 244 1 14 HELIX 17 17 ARG D 258 ILE D 273 1 16 HELIX 18 18 VAL D 283 THR D 295 1 13 HELIX 19 19 ASP D 306 ARG D 310 5 5 HELIX 20 20 SER D 328 ILE D 336 1 9 HELIX 21 21 GLY D 337 THR D 339 5 3 HELIX 22 22 ASP D 356 ILE D 367 1 12 SHEET 1 AA 5 ASN A 17 VAL A 18 0 SHEET 2 AA 5 ILE A 151 SER A 154 -1 O LEU A 153 N ASN A 17 SHEET 3 AA 5 HIS A 143 ALA A 146 -1 O HIS A 143 N SER A 154 SHEET 4 AA 5 PHE A 32 LYS A 40 -1 O PHE A 32 N ALA A 146 SHEET 5 AA 5 GLU A 126 SER A 127 -1 O GLU A 126 N LYS A 40 SHEET 1 AB 8 ASN A 17 VAL A 18 0 SHEET 2 AB 8 ILE A 151 SER A 154 -1 O LEU A 153 N ASN A 17 SHEET 3 AB 8 HIS A 143 ALA A 146 -1 O HIS A 143 N SER A 154 SHEET 4 AB 8 PHE A 32 LYS A 40 -1 O PHE A 32 N ALA A 146 SHEET 5 AB 8 ARG A 59 ASP A 64 1 O VAL A 60 N ILE A 37 SHEET 6 AB 8 GLY A 89 VAL A 96 1 O GLY A 89 N LEU A 61 SHEET 7 AB 8 GLY A 108 ALA A 114 -1 O GLY A 108 N LEU A 90 SHEET 8 AB 8 SER A 24 ASN A 25 1 O SER A 24 N ALA A 111 SHEET 1 AC 7 ASN A 17 VAL A 18 0 SHEET 2 AC 7 ILE A 151 SER A 154 -1 O LEU A 153 N ASN A 17 SHEET 3 AC 7 HIS A 143 ALA A 146 -1 O HIS A 143 N SER A 154 SHEET 4 AC 7 PHE A 32 LYS A 40 -1 O PHE A 32 N ALA A 146 SHEET 5 AC 7 ARG A 59 ASP A 64 1 O VAL A 60 N ILE A 37 SHEET 6 AC 7 GLY A 89 VAL A 96 1 O GLY A 89 N LEU A 61 SHEET 7 AC 7 ALA A 72 VAL A 74 1 N LEU A 73 O ALA A 95 SHEET 1 AD 2 GLU A 126 SER A 127 0 SHEET 2 AD 2 PHE A 32 LYS A 40 -1 O LYS A 40 N GLU A 126 SHEET 1 AE 2 VAL A 131 PHE A 133 0 SHEET 2 AE 2 VAL A 136 PHE A 138 -1 O VAL A 136 N PHE A 133 SHEET 1 BA 5 ASN B 17 VAL B 18 0 SHEET 2 BA 5 ILE B 151 SER B 154 -1 O LEU B 153 N ASN B 17 SHEET 3 BA 5 HIS B 143 ALA B 146 -1 O HIS B 143 N SER B 154 SHEET 4 BA 5 PHE B 32 LYS B 40 -1 O PHE B 32 N ALA B 146 SHEET 5 BA 5 GLU B 126 SER B 127 1 O GLU B 126 N LYS B 40 SHEET 1 BB 8 ASN B 17 VAL B 18 0 SHEET 2 BB 8 ILE B 151 SER B 154 -1 O LEU B 153 N ASN B 17 SHEET 3 BB 8 HIS B 143 ALA B 146 -1 O HIS B 143 N SER B 154 SHEET 4 BB 8 PHE B 32 LYS B 40 -1 O PHE B 32 N ALA B 146 SHEET 5 BB 8 ARG B 59 ASP B 64 1 O VAL B 60 N ILE B 37 SHEET 6 BB 8 GLY B 89 TYR B 93 1 O GLY B 89 N LEU B 61 SHEET 7 BB 8 ILE B 109 ALA B 111 1 O GLN B 110 N ILE B 92 SHEET 8 BB 8 SER B 24 ASN B 25 -1 O SER B 24 N ALA B 111 SHEET 1 BC 2 GLU B 126 SER B 127 0 SHEET 2 BC 2 PHE B 32 LYS B 40 1 O LYS B 40 N GLU B 126 SHEET 1 BD 3 ALA B 72 VAL B 74 0 SHEET 2 BD 3 ALA B 95 VAL B 96 1 O ALA B 95 N LEU B 73 SHEET 3 BD 3 ALA B 113 ALA B 114 1 O ALA B 113 N VAL B 96 SHEET 1 BE 2 VAL B 131 PHE B 133 0 SHEET 2 BE 2 VAL B 136 PHE B 138 -1 O VAL B 136 N PHE B 133 SHEET 1 CA 5 ASN C 17 VAL C 18 0 SHEET 2 CA 5 ILE C 151 SER C 154 1 O LEU C 153 N ASN C 17 SHEET 3 CA 5 HIS C 143 ALA C 146 -1 O HIS C 143 N SER C 154 SHEET 4 CA 5 PHE C 32 CYS C 41 1 O PHE C 32 N ALA C 146 SHEET 5 CA 5 GLY C 125 SER C 127 -1 O GLU C 126 N LYS C 40 SHEET 1 CB 8 ASN C 17 VAL C 18 0 SHEET 2 CB 8 ILE C 151 SER C 154 1 O LEU C 153 N ASN C 17 SHEET 3 CB 8 HIS C 143 ALA C 146 -1 O HIS C 143 N SER C 154 SHEET 4 CB 8 PHE C 32 CYS C 41 1 O PHE C 32 N ALA C 146 SHEET 5 CB 8 ARG C 59 ASP C 64 1 O VAL C 60 N ILE C 37 SHEET 6 CB 8 GLY C 89 TYR C 93 1 O GLY C 89 N LEU C 61 SHEET 7 CB 8 GLY C 108 ALA C 111 1 O GLY C 108 N LEU C 90 SHEET 8 CB 8 SER C 24 ASN C 25 -1 O SER C 24 N ALA C 111 SHEET 1 CC 2 GLY C 125 SER C 127 0 SHEET 2 CC 2 PHE C 32 CYS C 41 -1 O LYS C 40 N GLU C 126 SHEET 1 CD 3 ALA C 72 VAL C 74 0 SHEET 2 CD 3 ALA C 95 VAL C 96 1 O ALA C 95 N LEU C 73 SHEET 3 CD 3 ALA C 113 ALA C 114 1 O ALA C 113 N VAL C 96 SHEET 1 CE 2 VAL C 131 PHE C 133 0 SHEET 2 CE 2 VAL C 136 PHE C 138 -1 O VAL C 136 N PHE C 133 SHEET 1 DA 7 CYS D 276 LEU D 278 0 SHEET 2 DA 7 VAL D 301 ALA D 304 1 O VAL D 301 N CYS D 276 SHEET 3 DA 7 SER D 251 PHE D 254 1 O SER D 251 N LEU D 302 SHEET 4 DA 7 HIS D 319 ASN D 322 1 O HIS D 319 N ILE D 252 SHEET 5 DA 7 THR D 347 GLU D 353 1 O THR D 347 N VAL D 320 SHEET 6 DA 7 HIS D 223 ALA D 229 1 O HIS D 223 N ALA D 348 SHEET 7 DA 7 LYS D 372 ALA D 373 1 O LYS D 372 N TYR D 226 CRYST1 73.390 73.390 222.891 90.00 90.00 120.00 P 32 2 1 18 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 0.013626 0.007867 0.000000 0.00000 SCALE2 0.000000 0.015734 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004486 0.00000