HEADER HYDROLASE/RNA 21-JAN-20 6LT7 TITLE CRYSTAL STRUCTURE OF HUMAN RPP20-RPP25 PROTEINS IN COMPLEX WITH THE P3 TITLE 2 DOMAIN OF LNCRNA RMRP COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEASE P PROTEIN SUBUNIT P20; COMPND 3 CHAIN: A, D; COMPND 4 SYNONYM: RNASEP PROTEIN P20,RIBONUCLEASES P/MRP PROTEIN SUBUNIT POP7 COMPND 5 HOMOLOG,HPOP7; COMPND 6 EC: 3.1.26.5; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: RIBONUCLEASE P PROTEIN SUBUNIT P25; COMPND 10 CHAIN: B, E; COMPND 11 SYNONYM: RNASE P PROTEIN SUBUNIT P25; COMPND 12 EC: 3.1.26.5; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: 50-MER RNA; COMPND 16 CHAIN: C, F; COMPND 17 SYNONYM: RMRP_P3; COMPND 18 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: POP7, RPP20; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: RPP25; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 17 MOL_ID: 3; SOURCE 18 SYNTHETIC: YES; SOURCE 19 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 20 ORGANISM_TAXID: 32630 KEYWDS RIBONUCLEOPROTEIN COMPLEX, RNASE MRP, RMRP, CARTILAGE HAIR KEYWDS 2 HYPOPLASIA, ALBA, RNA BINDING PROTEIN, HYDROLASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.HUANG,C.YIN REVDAT 2 07-APR-21 6LT7 1 JRNL REVDAT 1 27-JAN-21 6LT7 0 JRNL AUTH C.YIN,G.BAI,Y.ZHANG,J.HUANG JRNL TITL CRYSTAL STRUCTURE OF HUMAN RPP20-RPP25 PROTEINS IN COMPLEX JRNL TITL 2 WITH THE P3 DOMAIN OF LNCRNA RMRP. JRNL REF J.STRUCT.BIOL. V. 213 07704 2021 JRNL REFN ESSN 1095-8657 JRNL PMID 33571640 JRNL DOI 10.1016/J.JSB.2021.107704 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0232 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 44933 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2250 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3335 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.3460 REMARK 3 BIN FREE R VALUE SET COUNT : 161 REMARK 3 BIN FREE R VALUE : 0.4020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3670 REMARK 3 NUCLEIC ACID ATOMS : 2060 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 271 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.96000 REMARK 3 B22 (A**2) : 0.96000 REMARK 3 B33 (A**2) : -3.12000 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): 0.283 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.240 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.178 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.844 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6039 ; 0.010 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 4627 ; 0.002 ; 0.018 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8616 ; 1.813 ; 1.512 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10803 ; 1.374 ; 1.881 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 472 ; 7.894 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 203 ;29.236 ;19.557 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 613 ;18.000 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 45 ;22.920 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 899 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5282 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1293 ; 0.001 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL 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 6LT7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1300015410. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-16 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97776 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47259 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.20 REMARK 200 R MERGE (I) : 0.18700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 8.10 REMARK 200 R MERGE FOR SHELL (I) : 0.80300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXCD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% OF PEG 3350, 0.2 M AMMONIUM REMARK 280 TARTRATE DIBASIC, PH 6.6, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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 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 49.48200 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 24.74100 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -89.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 0 REMARK 465 MSE A 1 REMARK 465 ALA A 2 REMARK 465 GLU A 3 REMARK 465 ASN A 4 REMARK 465 ARG A 5 REMARK 465 GLU A 6 REMARK 465 PRO A 7 REMARK 465 ARG A 8 REMARK 465 GLY A 9 REMARK 465 ALA A 10 REMARK 465 VAL A 11 REMARK 465 GLU A 12 REMARK 465 ALA A 13 REMARK 465 GLU A 14 REMARK 465 LEU A 15 REMARK 465 ASP A 16 REMARK 465 GLU B 2 REMARK 465 ASN B 3 REMARK 465 PHE B 4 REMARK 465 ARG B 5 REMARK 465 LYS B 6 REMARK 465 VAL B 7 REMARK 465 ARG B 8 REMARK 465 ALA B 14 REMARK 465 GLY B 15 REMARK 465 CYS B 16 REMARK 465 GLY B 17 REMARK 465 ALA B 18 REMARK 465 GLU B 19 REMARK 465 GLY B 20 REMARK 465 GLY B 21 REMARK 465 GLY B 22 REMARK 465 PRO B 23 REMARK 465 GLY B 24 REMARK 465 VAL B 105 REMARK 465 TRP B 106 REMARK 465 GLN B 107 REMARK 465 SER B 108 REMARK 465 LEU B 109 REMARK 465 PRO B 110 REMARK 465 PRO B 111 REMARK 465 GLY B 112 REMARK 465 PRO B 113 REMARK 465 THR B 114 REMARK 465 GLN B 115 REMARK 465 GLY B 116 REMARK 465 GLN B 117 REMARK 465 THR B 118 REMARK 465 PRO B 119 REMARK 465 GLY B 120 REMARK 465 GLU B 121 REMARK 465 PRO B 122 REMARK 465 ALA B 123 REMARK 465 ALA B 124 REMARK 465 SER B 125 REMARK 465 LEU B 126 REMARK 465 SER B 127 REMARK 465 GLY B 159 REMARK 465 PRO B 160 REMARK 465 SER B 161 REMARK 465 SER B 162 REMARK 465 PRO B 163 REMARK 465 PRO B 164 REMARK 465 ALA B 165 REMARK 465 ALA B 166 REMARK 465 PRO B 167 REMARK 465 ALA B 168 REMARK 465 SER B 169 REMARK 465 LYS B 170 REMARK 465 ARG B 171 REMARK 465 SER B 172 REMARK 465 LEU B 173 REMARK 465 GLY B 174 REMARK 465 GLU B 175 REMARK 465 PRO B 176 REMARK 465 ALA B 177 REMARK 465 ALA B 178 REMARK 465 GLY B 179 REMARK 465 GLU B 180 REMARK 465 GLY B 181 REMARK 465 SER B 182 REMARK 465 ALA B 183 REMARK 465 LYS B 184 REMARK 465 ARG B 185 REMARK 465 SER B 186 REMARK 465 GLN B 187 REMARK 465 PRO B 188 REMARK 465 GLU B 189 REMARK 465 PRO B 190 REMARK 465 GLY B 191 REMARK 465 VAL B 192 REMARK 465 ALA B 193 REMARK 465 ASP B 194 REMARK 465 GLU B 195 REMARK 465 ASP B 196 REMARK 465 GLN B 197 REMARK 465 THR B 198 REMARK 465 ALA B 199 REMARK 465 C C 44 REMARK 465 SER D 0 REMARK 465 MSE D 1 REMARK 465 ALA D 2 REMARK 465 GLU D 3 REMARK 465 ASN D 4 REMARK 465 ARG D 5 REMARK 465 GLU D 6 REMARK 465 PRO D 7 REMARK 465 ARG D 8 REMARK 465 GLY D 9 REMARK 465 ALA D 10 REMARK 465 VAL D 11 REMARK 465 GLU D 12 REMARK 465 ALA D 13 REMARK 465 GLU D 14 REMARK 465 LEU D 15 REMARK 465 ASP D 16 REMARK 465 GLU E 2 REMARK 465 ASN E 3 REMARK 465 PHE E 4 REMARK 465 ARG E 5 REMARK 465 LYS E 6 REMARK 465 VAL E 7 REMARK 465 ARG E 8 REMARK 465 GLY E 15 REMARK 465 CYS E 16 REMARK 465 GLY E 17 REMARK 465 ALA E 18 REMARK 465 GLU E 19 REMARK 465 GLY E 20 REMARK 465 GLY E 21 REMARK 465 GLY E 22 REMARK 465 PRO E 23 REMARK 465 GLY E 24 REMARK 465 SER E 25 REMARK 465 VAL E 105 REMARK 465 TRP E 106 REMARK 465 GLN E 107 REMARK 465 SER E 108 REMARK 465 LEU E 109 REMARK 465 PRO E 110 REMARK 465 PRO E 111 REMARK 465 GLY E 112 REMARK 465 PRO E 113 REMARK 465 THR E 114 REMARK 465 GLN E 115 REMARK 465 GLY E 116 REMARK 465 GLN E 117 REMARK 465 THR E 118 REMARK 465 PRO E 119 REMARK 465 GLY E 120 REMARK 465 GLU E 121 REMARK 465 PRO E 122 REMARK 465 ALA E 123 REMARK 465 ALA E 124 REMARK 465 SER E 125 REMARK 465 LEU E 126 REMARK 465 SER E 127 REMARK 465 GLY E 159 REMARK 465 PRO E 160 REMARK 465 SER E 161 REMARK 465 SER E 162 REMARK 465 PRO E 163 REMARK 465 PRO E 164 REMARK 465 ALA E 165 REMARK 465 ALA E 166 REMARK 465 PRO E 167 REMARK 465 ALA E 168 REMARK 465 SER E 169 REMARK 465 LYS E 170 REMARK 465 ARG E 171 REMARK 465 SER E 172 REMARK 465 LEU E 173 REMARK 465 GLY E 174 REMARK 465 GLU E 175 REMARK 465 PRO E 176 REMARK 465 ALA E 177 REMARK 465 ALA E 178 REMARK 465 GLY E 179 REMARK 465 GLU E 180 REMARK 465 GLY E 181 REMARK 465 SER E 182 REMARK 465 ALA E 183 REMARK 465 LYS E 184 REMARK 465 ARG E 185 REMARK 465 SER E 186 REMARK 465 GLN E 187 REMARK 465 PRO E 188 REMARK 465 GLU E 189 REMARK 465 PRO E 190 REMARK 465 GLY E 191 REMARK 465 VAL E 192 REMARK 465 ALA E 193 REMARK 465 ASP E 194 REMARK 465 GLU E 195 REMARK 465 ASP E 196 REMARK 465 GLN E 197 REMARK 465 THR E 198 REMARK 465 ALA E 199 REMARK 465 C F 44 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 ARG A 32 CG CD NE CZ NH1 NH2 REMARK 470 SER B 25 OG REMARK 470 GLU B 104 CG CD OE1 OE2 REMARK 470 VAL B 128 CG1 CG2 REMARK 470 ARG D 32 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 33 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 140 CG CD CE NZ REMARK 470 LYS E 45 CG CD CE NZ REMARK 470 VAL E 128 CG1 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 N7 G F 66 O HOH F 101 2.02 REMARK 500 O LEU A 22 O HOH A 301 2.10 REMARK 500 O LYS E 85 O HOH E 301 2.16 REMARK 500 OP1 U C 58 O HOH C 301 2.19 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 MSE B 38 CG - SE - CE ANGL. DEV. = 14.9 DEGREES REMARK 500 G C 19 O5' - P - OP1 ANGL. DEV. = 13.5 DEGREES REMARK 500 U C 36 O5' - P - OP1 ANGL. DEV. = -8.9 DEGREES REMARK 500 U C 57 N1 - C1' - C2' ANGL. DEV. = 9.6 DEGREES REMARK 500 MSE E 38 CG - SE - CE ANGL. DEV. = 13.9 DEGREES REMARK 500 G F 19 O5' - P - OP1 ANGL. DEV. = 14.2 DEGREES REMARK 500 U F 36 O5' - P - OP1 ANGL. DEV. = -6.7 DEGREES REMARK 500 U F 58 C2' - C3' - O3' ANGL. DEV. = 13.0 DEGREES REMARK 500 C F 63 O5' - P - OP2 ANGL. DEV. = -5.9 DEGREES REMARK 500 G F 68 C3' - C2' - O2' ANGL. DEV. = -18.8 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 LEU A 22 50.06 -116.70 REMARK 500 PRO A 27 82.08 -51.08 REMARK 500 SER A 28 -140.01 54.25 REMARK 500 PRO A 31 74.97 -62.40 REMARK 500 LYS A 42 -70.79 -120.12 REMARK 500 THR A 43 154.35 -49.36 REMARK 500 ASP A 116 -51.66 -28.91 REMARK 500 ALA B 12 162.68 174.10 REMARK 500 ALA B 32 79.70 -162.02 REMARK 500 SER B 44 123.09 -35.63 REMARK 500 PRO D 27 74.36 -52.23 REMARK 500 SER D 28 -149.71 62.86 REMARK 500 PRO D 31 90.44 -63.47 REMARK 500 LYS D 42 -71.70 -115.22 REMARK 500 THR D 43 153.20 -47.36 REMARK 500 ARG D 61 55.64 -113.76 REMARK 500 PRO D 113 117.89 -36.69 REMARK 500 ALA E 12 161.91 156.75 REMARK 500 PRO E 13 -176.83 -61.61 REMARK 500 ALA E 32 78.03 -164.45 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 EDO A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO E 201 DBREF 6LT7 A 1 140 UNP O75817 POP7_HUMAN 1 140 DBREF 6LT7 B 2 199 UNP Q9BUL9 RPP25_HUMAN 2 199 DBREF 6LT7 C 19 68 PDB 6LT7 6LT7 19 68 DBREF 6LT7 D 1 140 UNP O75817 POP7_HUMAN 1 140 DBREF 6LT7 E 2 199 UNP Q9BUL9 RPP25_HUMAN 2 199 DBREF 6LT7 F 19 68 PDB 6LT7 6LT7 19 68 SEQADV 6LT7 SER A 0 UNP O75817 EXPRESSION TAG SEQADV 6LT7 SER D 0 UNP O75817 EXPRESSION TAG SEQRES 1 A 141 SER MSE ALA GLU ASN ARG GLU PRO ARG GLY ALA VAL GLU SEQRES 2 A 141 ALA GLU LEU ASP PRO VAL GLU TYR THR LEU ARG LYS ARG SEQRES 3 A 141 LEU PRO SER ARG LEU PRO ARG ARG PRO ASN ASP ILE TYR SEQRES 4 A 141 VAL ASN MSE LYS THR ASP PHE LYS ALA GLN LEU ALA ARG SEQRES 5 A 141 CYS GLN LYS LEU LEU ASP GLY GLY ALA ARG GLY GLN ASN SEQRES 6 A 141 ALA CYS SER GLU ILE TYR ILE HIS GLY LEU GLY LEU ALA SEQRES 7 A 141 ILE ASN ARG ALA ILE ASN ILE ALA LEU GLN LEU GLN ALA SEQRES 8 A 141 GLY SER PHE GLY SER LEU GLN VAL ALA ALA ASN THR SER SEQRES 9 A 141 THR VAL GLU LEU VAL ASP GLU LEU GLU PRO GLU THR ASP SEQRES 10 A 141 THR ARG GLU PRO LEU THR ARG ILE ARG ASN ASN SER ALA SEQRES 11 A 141 ILE HIS ILE ARG VAL PHE ARG VAL THR PRO LYS SEQRES 1 B 198 GLU ASN PHE ARG LYS VAL ARG SER GLU GLU ALA PRO ALA SEQRES 2 B 198 GLY CYS GLY ALA GLU GLY GLY GLY PRO GLY SER GLY PRO SEQRES 3 B 198 PHE ALA ASP LEU ALA PRO GLY ALA VAL HIS MSE ARG VAL SEQRES 4 B 198 LYS GLU GLY SER LYS ILE ARG ASN LEU MSE ALA PHE ALA SEQRES 5 B 198 THR ALA SER MSE ALA GLN PRO ALA THR ARG ALA ILE VAL SEQRES 6 B 198 PHE SER GLY CYS GLY ARG ALA THR THR LYS THR VAL THR SEQRES 7 B 198 CYS ALA GLU ILE LEU LYS ARG ARG LEU ALA GLY LEU HIS SEQRES 8 B 198 GLN VAL THR ARG LEU ARG TYR ARG SER VAL ARG GLU VAL SEQRES 9 B 198 TRP GLN SER LEU PRO PRO GLY PRO THR GLN GLY GLN THR SEQRES 10 B 198 PRO GLY GLU PRO ALA ALA SER LEU SER VAL LEU LYS ASN SEQRES 11 B 198 VAL PRO GLY LEU ALA ILE LEU LEU SER LYS ASP ALA LEU SEQRES 12 B 198 ASP PRO ARG GLN PRO GLY TYR GLN PRO PRO ASN PRO HIS SEQRES 13 B 198 PRO GLY PRO SER SER PRO PRO ALA ALA PRO ALA SER LYS SEQRES 14 B 198 ARG SER LEU GLY GLU PRO ALA ALA GLY GLU GLY SER ALA SEQRES 15 B 198 LYS ARG SER GLN PRO GLU PRO GLY VAL ALA ASP GLU ASP SEQRES 16 B 198 GLN THR ALA SEQRES 1 C 50 G G U C C U A G G C U A C SEQRES 2 C 50 A C A C U G A G G A C U C SEQRES 3 C 50 U G U U C C U C C C C U U SEQRES 4 C 50 U C C G C C U A G G G SEQRES 1 D 141 SER MSE ALA GLU ASN ARG GLU PRO ARG GLY ALA VAL GLU SEQRES 2 D 141 ALA GLU LEU ASP PRO VAL GLU TYR THR LEU ARG LYS ARG SEQRES 3 D 141 LEU PRO SER ARG LEU PRO ARG ARG PRO ASN ASP ILE TYR SEQRES 4 D 141 VAL ASN MSE LYS THR ASP PHE LYS ALA GLN LEU ALA ARG SEQRES 5 D 141 CYS GLN LYS LEU LEU ASP GLY GLY ALA ARG GLY GLN ASN SEQRES 6 D 141 ALA CYS SER GLU ILE TYR ILE HIS GLY LEU GLY LEU ALA SEQRES 7 D 141 ILE ASN ARG ALA ILE ASN ILE ALA LEU GLN LEU GLN ALA SEQRES 8 D 141 GLY SER PHE GLY SER LEU GLN VAL ALA ALA ASN THR SER SEQRES 9 D 141 THR VAL GLU LEU VAL ASP GLU LEU GLU PRO GLU THR ASP SEQRES 10 D 141 THR ARG GLU PRO LEU THR ARG ILE ARG ASN ASN SER ALA SEQRES 11 D 141 ILE HIS ILE ARG VAL PHE ARG VAL THR PRO LYS SEQRES 1 E 198 GLU ASN PHE ARG LYS VAL ARG SER GLU GLU ALA PRO ALA SEQRES 2 E 198 GLY CYS GLY ALA GLU GLY GLY GLY PRO GLY SER GLY PRO SEQRES 3 E 198 PHE ALA ASP LEU ALA PRO GLY ALA VAL HIS MSE ARG VAL SEQRES 4 E 198 LYS GLU GLY SER LYS ILE ARG ASN LEU MSE ALA PHE ALA SEQRES 5 E 198 THR ALA SER MSE ALA GLN PRO ALA THR ARG ALA ILE VAL SEQRES 6 E 198 PHE SER GLY CYS GLY ARG ALA THR THR LYS THR VAL THR SEQRES 7 E 198 CYS ALA GLU ILE LEU LYS ARG ARG LEU ALA GLY LEU HIS SEQRES 8 E 198 GLN VAL THR ARG LEU ARG TYR ARG SER VAL ARG GLU VAL SEQRES 9 E 198 TRP GLN SER LEU PRO PRO GLY PRO THR GLN GLY GLN THR SEQRES 10 E 198 PRO GLY GLU PRO ALA ALA SER LEU SER VAL LEU LYS ASN SEQRES 11 E 198 VAL PRO GLY LEU ALA ILE LEU LEU SER LYS ASP ALA LEU SEQRES 12 E 198 ASP PRO ARG GLN PRO GLY TYR GLN PRO PRO ASN PRO HIS SEQRES 13 E 198 PRO GLY PRO SER SER PRO PRO ALA ALA PRO ALA SER LYS SEQRES 14 E 198 ARG SER LEU GLY GLU PRO ALA ALA GLY GLU GLY SER ALA SEQRES 15 E 198 LYS ARG SER GLN PRO GLU PRO GLY VAL ALA ASP GLU ASP SEQRES 16 E 198 GLN THR ALA SEQRES 1 F 50 G G U C C U A G G C U A C SEQRES 2 F 50 A C A C U G A G G A C U C SEQRES 3 F 50 U G U U C C U C C C C U U SEQRES 4 F 50 U C C G C C U A G G G MODRES 6LT7 MSE A 41 MET MODIFIED RESIDUE MODRES 6LT7 MSE B 38 MET MODIFIED RESIDUE MODRES 6LT7 MSE B 50 MET MODIFIED RESIDUE MODRES 6LT7 MSE B 57 MET MODIFIED RESIDUE MODRES 6LT7 MSE D 41 MET MODIFIED RESIDUE MODRES 6LT7 MSE E 38 MET MODIFIED RESIDUE MODRES 6LT7 MSE E 50 MET MODIFIED RESIDUE MODRES 6LT7 MSE E 57 MET MODIFIED RESIDUE HET MSE A 41 8 HET MSE B 38 8 HET MSE B 50 8 HET MSE B 57 8 HET MSE D 41 8 HET MSE E 38 8 HET MSE E 50 8 HET MSE E 57 8 HET EDO A 201 4 HET EDO A 202 4 HET EDO B 201 4 HET EDO C 201 4 HET EDO C 202 4 HET EDO E 201 4 HETNAM MSE SELENOMETHIONINE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 7 EDO 6(C2 H6 O2) FORMUL 13 HOH *271(H2 O) HELIX 1 AA1 ASP A 44 GLY A 58 1 15 HELIX 2 AA2 LEU A 76 GLY A 91 1 16 HELIX 3 AA3 LYS B 45 GLN B 59 1 15 HELIX 4 AA4 ALA B 73 ARG B 87 1 15 HELIX 5 AA5 ASP D 44 GLY D 58 1 15 HELIX 6 AA6 LEU D 76 GLY D 91 1 16 HELIX 7 AA7 LYS E 45 GLN E 59 1 15 HELIX 8 AA8 ALA E 73 ARG E 87 1 15 SHEET 1 AA1 4 ASP A 36 TYR A 38 0 SHEET 2 AA1 4 GLU A 68 LEU A 74 1 O HIS A 72 N ILE A 37 SHEET 3 AA1 4 LEU A 121 ARG A 136 -1 O ILE A 132 N ILE A 71 SHEET 4 AA1 4 LEU A 96 GLU A 112 -1 N LEU A 107 O ARG A 125 SHEET 1 AA2 4 ASP A 36 TYR A 38 0 SHEET 2 AA2 4 GLU A 68 LEU A 74 1 O HIS A 72 N ILE A 37 SHEET 3 AA2 4 LEU A 121 ARG A 136 -1 O ILE A 132 N ILE A 71 SHEET 4 AA2 4 LEU E 88 ALA E 89 -1 O ALA E 89 N THR A 122 SHEET 1 AA3 5 GLU B 10 ALA B 12 0 SHEET 2 AA3 5 HIS B 92 ARG B 103 -1 O SER B 101 N ALA B 12 SHEET 3 AA3 5 LYS B 130 SER B 140 -1 O ALA B 136 N ARG B 96 SHEET 4 AA3 5 ALA B 64 CYS B 70 -1 N GLY B 69 O LEU B 135 SHEET 5 AA3 5 VAL B 36 ARG B 39 1 N MSE B 38 O VAL B 66 SHEET 1 AA4 3 GLU B 10 ALA B 12 0 SHEET 2 AA4 3 HIS B 92 ARG B 103 -1 O SER B 101 N ALA B 12 SHEET 3 AA4 3 TYR B 151 GLN B 152 -1 O GLN B 152 N GLN B 93 SHEET 1 AA5 4 LEU B 88 ALA B 89 0 SHEET 2 AA5 4 LEU D 121 ARG D 136 -1 O THR D 122 N ALA B 89 SHEET 3 AA5 4 GLU D 68 LEU D 74 -1 N GLY D 73 O ILE D 130 SHEET 4 AA5 4 ASP D 36 TYR D 38 1 N ILE D 37 O HIS D 72 SHEET 1 AA6 3 LEU B 88 ALA B 89 0 SHEET 2 AA6 3 LEU D 121 ARG D 136 -1 O THR D 122 N ALA B 89 SHEET 3 AA6 3 LEU D 96 GLU D 112 -1 N LEU D 107 O ARG D 125 SHEET 1 AA7 5 VAL E 36 ARG E 39 0 SHEET 2 AA7 5 ALA E 64 CYS E 70 1 O VAL E 66 N MSE E 38 SHEET 3 AA7 5 LYS E 130 SER E 140 -1 O LEU E 139 N ILE E 65 SHEET 4 AA7 5 HIS E 92 VAL E 102 -1 N VAL E 94 O LEU E 138 SHEET 5 AA7 5 TYR E 151 GLN E 152 -1 O GLN E 152 N GLN E 93 LINK C ASN A 40 N MSE A 41 1555 1555 1.33 LINK C MSE A 41 N LYS A 42 1555 1555 1.34 LINK C HIS B 37 N MSE B 38 1555 1555 1.33 LINK C MSE B 38 N ARG B 39 1555 1555 1.33 LINK C LEU B 49 N MSE B 50 1555 1555 1.33 LINK C MSE B 50 N ALA B 51 1555 1555 1.33 LINK C SER B 56 N MSE B 57 1555 1555 1.33 LINK C MSE B 57 N ALA B 58 1555 1555 1.34 LINK C ASN D 40 N MSE D 41 1555 1555 1.33 LINK C MSE D 41 N LYS D 42 1555 1555 1.34 LINK C HIS E 37 N MSE E 38 1555 1555 1.33 LINK C MSE E 38 N ARG E 39 1555 1555 1.33 LINK C LEU E 49 N MSE E 50 1555 1555 1.33 LINK C MSE E 50 N ALA E 51 1555 1555 1.33 LINK C SER E 56 N MSE E 57 1555 1555 1.33 LINK C MSE E 57 N ALA E 58 1555 1555 1.34 SITE 1 AC1 4 ASN A 126 EDO A 202 HOH A 332 HOH A 344 SITE 1 AC2 5 ASN A 126 EDO A 201 HOH A 333 ARG E 87 SITE 2 AC2 5 U F 36 SITE 1 AC3 2 ARG B 87 ASN D 126 SITE 1 AC4 5 HIS A 72 HIS A 131 A C 30 HOH C 303 SITE 2 AC4 5 HOH C 327 SITE 1 AC5 3 U C 51 C C 52 G C 68 SITE 1 AC6 1 HOH E 320 CRYST1 144.168 144.168 74.223 90.00 90.00 120.00 P 32 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 0.006936 0.004005 0.000000 0.00000 SCALE2 0.000000 0.008009 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013473 0.00000