HEADER RNA BINDING PROTEIN 09-AUG-16 5LOP TITLE STRUCTURE OF THE ACTIVE FORM OF /K. LACTIS/ DCP1-DCP2-EDC3 DECAPPING TITLE 2 COMPLEX BOUND TO M7GDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: KLLA0F23980P; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: KLLA0E01827P; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: KLLA0A11308P; COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLUYVEROMYCES LACTIS NRRL Y-1140; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 284590; SOURCE 5 GENE: KLLA0_F23980G; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: CODON+; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: KLUYVEROMYCES LACTIS NRRL Y-1140; SOURCE 11 ORGANISM_COMMON: YEAST; SOURCE 12 ORGANISM_TAXID: 284590; SOURCE 13 GENE: KLLA0_E01827G; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_VARIANT: CODON+; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: KLUYVEROMYCES LACTIS NRRL Y-1140; SOURCE 19 ORGANISM_COMMON: YEAST; SOURCE 20 ORGANISM_TAXID: 284590; SOURCE 21 GENE: KLLA0_A11308G; SOURCE 22 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 23 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 24 EXPRESSION_SYSTEM_VARIANT: CODON+ KEYWDS RNA DECAY, MULTIPROTEIN COMPLEX, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.CHARENTON,V.TAVERNITI,C.GAUDON-PLESSE,R.BACK,B.SERAPHIN,M.GRAILLE REVDAT 4 06-SEP-17 5LOP 1 REMARK REVDAT 3 16-NOV-16 5LOP 1 JRNL REVDAT 2 19-OCT-16 5LOP 1 JRNL REVDAT 1 05-OCT-16 5LOP 0 JRNL AUTH C.CHARENTON,V.TAVERNITI,C.GAUDON-PLESSE,R.BACK,B.SERAPHIN, JRNL AUTH 2 M.GRAILLE JRNL TITL STRUCTURE OF THE ACTIVE FORM OF DCP1-DCP2 DECAPPING ENZYME JRNL TITL 2 BOUND TO M(7)GDP AND ITS EDC3 ACTIVATOR. JRNL REF NAT.STRUCT.MOL.BIOL. V. 23 982 2016 JRNL REFN ESSN 1545-9985 JRNL PMID 27694841 JRNL DOI 10.1038/NSMB.3300 REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 13889 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 697 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 7 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.49 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.77 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.25 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2770 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2530 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2629 REMARK 3 BIN R VALUE (WORKING SET) : 0.2500 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.09 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 141 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4036 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 7 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 205.9 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 230.4 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -17.28180 REMARK 3 B22 (A**2) : -17.28180 REMARK 3 B33 (A**2) : 34.56360 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.520 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.497 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4158 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 5627 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1481 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 113 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 576 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4158 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 3 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 534 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 4881 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.31 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.98 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 25.56 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 55.3136 32.6680 5.0229 REMARK 3 T TENSOR REMARK 3 T11: -0.2126 T22: -0.2333 REMARK 3 T33: -0.2505 T12: 0.0267 REMARK 3 T13: 0.3141 T23: -0.1696 REMARK 3 L TENSOR REMARK 3 L11: 2.9985 L22: 3.7557 REMARK 3 L33: 3.8131 L12: -2.8691 REMARK 3 L13: -1.3745 L23: 1.9906 REMARK 3 S TENSOR REMARK 3 S11: -0.3014 S12: -0.3506 S13: -0.3840 REMARK 3 S21: 0.5025 S22: 0.2994 S23: 0.4648 REMARK 3 S31: 0.5686 S32: 0.3718 S33: 0.0020 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 60.8454 64.6411 6.2651 REMARK 3 T TENSOR REMARK 3 T11: 0.1139 T22: -0.1176 REMARK 3 T33: -0.1083 T12: -0.4030 REMARK 3 T13: 0.1204 T23: -0.2815 REMARK 3 L TENSOR REMARK 3 L11: 12.0119 L22: 8.1518 REMARK 3 L33: 7.2610 L12: -0.1491 REMARK 3 L13: -4.0071 L23: 2.1245 REMARK 3 S TENSOR REMARK 3 S11: -0.1286 S12: -0.2689 S13: 0.1656 REMARK 3 S21: 0.7481 S22: -0.3989 S23: -0.6040 REMARK 3 S31: -0.3861 S32: 0.4069 S33: 0.5275 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { C|* } REMARK 3 ORIGIN FOR THE GROUP (A): 102.2446 12.9757 6.7455 REMARK 3 T TENSOR REMARK 3 T11: 0.0727 T22: 0.0258 REMARK 3 T33: -0.3288 T12: 0.2577 REMARK 3 T13: -0.1472 T23: -0.2356 REMARK 3 L TENSOR REMARK 3 L11: 6.4264 L22: 0.5930 REMARK 3 L33: 8.1740 L12: -1.1501 REMARK 3 L13: -1.4574 L23: 3.2357 REMARK 3 S TENSOR REMARK 3 S11: -0.0654 S12: -0.1447 S13: 0.2365 REMARK 3 S21: 0.2160 S22: -0.0182 S23: 0.0630 REMARK 3 S31: -0.1234 S32: 0.1424 S33: 0.0835 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5LOP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1200001111. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-FEB-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0725 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13907 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.500 REMARK 200 RESOLUTION RANGE LOW (A) : 48.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 21.20 REMARK 200 R MERGE (I) : 0.02600 REMARK 200 R SYM (I) : 0.08500 REMARK 200 FOR THE DATA SET : 19.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 21.20 REMARK 200 R MERGE FOR SHELL (I) : 1.38000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 400, 100 MM MGCL2, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+1/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 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 24.73000 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 49.46000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 24.73000 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 49.46000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 24.73000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 49.46000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 24.73000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 49.46000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -67.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 SER A 219 REMARK 465 ALA A 220 REMARK 465 LYS A 221 REMARK 465 VAL A 222 REMARK 465 LYS A 265 REMARK 465 GLU A 266 REMARK 465 ASN A 267 REMARK 465 LYS A 268 REMARK 465 ILE A 269 REMARK 465 VAL A 270 REMARK 465 LEU A 271 REMARK 465 ASP A 272 REMARK 465 ALA A 273 REMARK 465 GLY A 274 REMARK 465 ARG A 275 REMARK 465 HIS A 276 REMARK 465 HIS A 277 REMARK 465 HIS A 278 REMARK 465 HIS A 279 REMARK 465 HIS A 280 REMARK 465 HIS A 281 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 TYR B 74 REMARK 465 ASP B 75 REMARK 465 ASP B 76 REMARK 465 THR B 77 REMARK 465 ILE B 78 REMARK 465 THR B 79 REMARK 465 GLY B 80 REMARK 465 GLN B 81 REMARK 465 GLN B 82 REMARK 465 SER B 83 REMARK 465 SER B 186 REMARK 465 PHE B 187 REMARK 465 THR B 188 REMARK 465 MET C 1 REMARK 465 LEU C 2 REMARK 465 ASN C 65 REMARK 465 ALA C 66 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 B 70 O 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 GLU A 19 -39.82 -39.76 REMARK 500 ASP A 20 -72.11 -63.79 REMARK 500 PHE A 25 -70.22 -106.30 REMARK 500 ILE A 26 -79.53 -74.77 REMARK 500 LEU A 27 -41.66 -29.96 REMARK 500 ASN A 28 68.77 -112.03 REMARK 500 PRO A 31 -2.23 -50.23 REMARK 500 PHE A 54 -50.63 -126.45 REMARK 500 LYS A 68 -71.05 -47.60 REMARK 500 PRO A 88 -8.46 -59.54 REMARK 500 LYS A 100 -7.01 -59.12 REMARK 500 ILE A 123 -66.49 -13.95 REMARK 500 SER A 129 -155.30 -143.09 REMARK 500 THR A 158 -71.23 -5.47 REMARK 500 ASN A 172 73.05 40.21 REMARK 500 ASN A 216 80.61 62.05 REMARK 500 LYS A 257 26.64 -75.77 REMARK 500 SER A 258 -20.84 -159.55 REMARK 500 LEU A 260 -63.62 -142.23 REMARK 500 LYS B 24 64.58 -101.97 REMARK 500 ASP B 42 58.85 -96.80 REMARK 500 GLU B 49 20.67 -64.15 REMARK 500 TYR B 97 96.05 -48.86 REMARK 500 MET B 104 77.76 -61.16 REMARK 500 PRO B 130 6.03 -66.14 REMARK 500 ASN B 131 93.21 -68.95 REMARK 500 GLU B 133 -62.03 -92.64 REMARK 500 PRO B 138 107.98 -43.99 REMARK 500 LYS B 155 -6.09 54.33 REMARK 500 GLU B 180 -62.01 -102.32 REMARK 500 THR C 20 -151.07 -96.84 REMARK 500 GLN C 39 26.03 -70.38 REMARK 500 TYR C 55 -85.38 -115.43 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 MG A 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 132 O REMARK 620 2 GLU A 152 OE2 72.6 REMARK 620 3 HOH A 407 O 140.2 139.9 REMARK 620 4 M7G A 303 O2B 113.1 65.7 103.6 REMARK 620 5 M7G A 303 O3B 105.2 120.4 79.1 61.2 REMARK 620 6 HOH A 404 O 95.4 65.9 84.9 111.0 159.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 148 OE1 REMARK 620 2 GLU A 152 OE2 108.9 REMARK 620 3 GLU A 197 OE2 135.1 114.1 REMARK 620 4 M7G A 303 O2B 115.4 101.2 68.3 REMARK 620 5 HOH A 402 O 79.5 117.7 69.9 131.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 403 O REMARK 620 2 HOH A 406 O 76.3 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue M7G A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 304 DBREF 5LOP A 1 275 UNP Q6CIU1 Q6CIU1_KLULA 1 275 DBREF 5LOP B 1 188 UNP Q6CPV9 Q6CPV9_KLULA 1 188 DBREF 5LOP C 1 66 UNP Q6CX48 Q6CX48_KLULA 1 66 SEQADV 5LOP HIS A 276 UNP Q6CIU1 EXPRESSION TAG SEQADV 5LOP HIS A 277 UNP Q6CIU1 EXPRESSION TAG SEQADV 5LOP HIS A 278 UNP Q6CIU1 EXPRESSION TAG SEQADV 5LOP HIS A 279 UNP Q6CIU1 EXPRESSION TAG SEQADV 5LOP HIS A 280 UNP Q6CIU1 EXPRESSION TAG SEQADV 5LOP HIS A 281 UNP Q6CIU1 EXPRESSION TAG SEQRES 1 A 281 MET SER LEU PRO LEU LEU ARG PRO PHE GLU THR VAL SER SEQRES 2 A 281 LEU GLU ASN ALA VAL GLU ASP LEU VAL VAL ARG PHE ILE SEQRES 3 A 281 LEU ASN VAL PRO PRO GLU ASP LEU SER THR VAL GLU ARG SEQRES 4 A 281 VAL LEU PHE HIS PHE GLU GLU ALA SER TRP PHE TYR THR SEQRES 5 A 281 ASP PHE VAL LYS LEU MET ASN PRO TYR LEU PRO ASN LEU SEQRES 6 A 281 SER ILE LYS SER PHE SER LYS ILE VAL ILE ASP ILE CYS SEQRES 7 A 281 PRO LEU ILE TRP ASN TRP ASP ILE THR PRO GLU ASN ALA SEQRES 8 A 281 LEU VAL LYS PHE SER ASN TYR LYS LYS THR ILE PRO VAL SEQRES 9 A 281 ARG GLY ALA ALA ILE PHE ASN ASP SER LEU SER LYS ILE SEQRES 10 A 281 LEU LEU LEU ARG GLY ILE ASN SER LYS HIS TRP SER PHE SEQRES 11 A 281 PRO ARG GLY LYS ILE GLY LYS ASP GLU ASP ASP VAL ALA SEQRES 12 A 281 CYS CYS ILE ARG GLU VAL LYS GLU GLU THR GLY PHE ASP SEQRES 13 A 281 LEU THR GLY PHE ILE ASP ALA ASP GLN TYR VAL GLU ARG SEQRES 14 A 281 ASN MET ASN GLY LYS ASN PHE LYS ILE PHE LEU VAL LYS SEQRES 15 A 281 GLY VAL PRO GLU ASP PHE GLU PHE LYS PRO GLU HIS LYS SEQRES 16 A 281 ASN GLU ILE GLN ALA ILE GLU TRP LYS ASP PHE LYS LYS SEQRES 17 A 281 LEU SER LYS ALA ILE THR LYS ASN GLU GLY SER ALA LYS SEQRES 18 A 281 VAL PHE LEU VAL ASN SER MET ILE ARG PRO LEU SER LEU SEQRES 19 A 281 TYR VAL LYS ASN GLU LYS ARG ALA LYS ASP GLU ASN LYS SEQRES 20 A 281 LEU LYS LEU TYR ALA GLU GLU HIS LEU LYS SER ILE LEU SEQRES 21 A 281 GLY LEU ASN LYS LYS GLU ASN LYS ILE VAL LEU ASP ALA SEQRES 22 A 281 GLY ARG HIS HIS HIS HIS HIS HIS SEQRES 1 B 188 MET SER THR GLU THR LEU GLU ILE TYR ARG LYS ALA LEU SEQRES 2 B 188 ASN PHE ASN VAL ILE ALA ARG TYR ASP PRO LYS ILE LYS SEQRES 3 B 188 GLN LEU LEU PHE HIS THR PRO HIS ALA THR VAL TYR LYS SEQRES 4 B 188 TRP GLY ASP ASP ASN TRP ASN LYS LEU GLU TYR GLN GLY SEQRES 5 B 188 VAL LEU ALA ILE TYR LEU ARG ASP VAL GLY ASP LYS GLU SEQRES 6 B 188 ALA ILE LEU PRO GLU VAL SER SER TYR ASP ASP THR ILE SEQRES 7 B 188 THR GLY GLN GLN SER GLU ALA ASN THR PRO HIS VAL LEU SEQRES 8 B 188 THR GLY HIS ASP ILE TYR ASN TYR GLY LEU ILE ILE MET SEQRES 9 B 188 ASN ARG ILE ASN PRO ASP ASN PHE SER LEU ALA ILE ALA SEQRES 10 B 188 PRO ASN SER VAL LEU ASN LYS ARG LYS LEU PHE ALA PRO SEQRES 11 B 188 ASN ARG GLU GLU GLU LEU GLU PRO MET LYS VAL GLU VAL SEQRES 12 B 188 ARG ASP ASP LEU VAL MET ILE LYS THR LEU LYS LYS GLU SEQRES 13 B 188 VAL TYR GLY ILE TRP VAL HIS THR PRO GLU ASP ARG GLN SEQRES 14 B 188 ASN ILE TYR GLU LEU ILE LYS TYR LEU LEU GLU ASN GLU SEQRES 15 B 188 PRO THR ASP SER PHE THR SEQRES 1 C 66 MET LEU ASN PHE LYS GLY TYR GLN ILE GLU ILE GLU LEU SEQRES 2 C 66 LYS ASP GLY LYS ARG ILE THR GLY THR LEU LYS GLN VAL SEQRES 3 C 66 SER PRO LYS SER LEU THR LEU THR ASP ALA VAL PHE GLN SEQRES 4 C 66 ASP GLY GLY VAL SER PRO VAL PHE LYS ILE LYS ALA ASP SEQRES 5 C 66 LYS LEU TYR ASP LEU LYS VAL LEU LYS LEU PRO PRO ASN SEQRES 6 C 66 ALA HET MG A 301 1 HET MG A 302 1 HET M7G A 303 29 HET MG A 304 1 HETNAM MG MAGNESIUM ION HETNAM M7G 7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE FORMUL 4 MG 3(MG 2+) FORMUL 6 M7G C11 H19 N5 O11 P2 FORMUL 8 HOH *7(H2 O) HELIX 1 AA1 SER A 13 SER A 13 1 1 HELIX 2 AA2 GLU A 15 PHE A 25 1 11 HELIX 3 AA3 PRO A 30 LEU A 34 5 5 HELIX 4 AA4 THR A 36 THR A 52 1 17 HELIX 5 AA5 PHE A 54 ASN A 59 1 6 HELIX 6 AA6 SER A 66 CYS A 78 1 13 HELIX 7 AA7 THR A 87 LYS A 100 1 14 HELIX 8 AA8 ASP A 140 GLY A 154 1 15 HELIX 9 AA9 LEU A 157 ILE A 161 5 5 HELIX 10 AB1 PHE A 206 THR A 214 1 9 HELIX 11 AB2 PHE A 223 SER A 227 5 5 HELIX 12 AB3 MET A 228 LEU A 260 1 33 HELIX 13 AB4 GLU B 4 ALA B 19 1 16 HELIX 14 AB5 LEU B 122 ALA B 129 1 8 HELIX 15 AB6 THR B 164 ASN B 181 1 18 HELIX 16 AB7 ASP C 52 LEU C 54 5 3 SHEET 1 AA1 4 ARG A 132 LYS A 134 0 SHEET 2 AA1 4 VAL A 104 ASN A 111 -1 N ARG A 105 O GLY A 133 SHEET 3 AA1 4 ASN A 175 VAL A 184 1 O PHE A 179 N GLY A 106 SHEET 4 AA1 4 TYR A 166 ASN A 170 -1 N VAL A 167 O ILE A 178 SHEET 1 AA2 4 ARG A 132 LYS A 134 0 SHEET 2 AA2 4 VAL A 104 ASN A 111 -1 N ARG A 105 O GLY A 133 SHEET 3 AA2 4 LYS A 116 GLY A 122 -1 O LEU A 118 N ILE A 109 SHEET 4 AA2 4 ILE A 198 ASP A 205 -1 O ALA A 200 N ARG A 121 SHEET 1 AA3 4 GLN B 27 THR B 32 0 SHEET 2 AA3 4 TRP B 45 LEU B 58 -1 O LEU B 58 N GLN B 27 SHEET 3 AA3 4 TYR B 99 ASN B 105 -1 O GLY B 100 N TYR B 57 SHEET 4 AA3 4 PHE B 112 ILE B 116 -1 O ILE B 116 N TYR B 99 SHEET 1 AA4 6 GLN B 27 THR B 32 0 SHEET 2 AA4 6 TRP B 45 LEU B 58 -1 O LEU B 58 N GLN B 27 SHEET 3 AA4 6 THR B 36 TRP B 40 -1 N LYS B 39 O ASN B 46 SHEET 4 AA4 6 VAL B 157 ILE B 160 -1 O GLY B 159 N TYR B 38 SHEET 5 AA4 6 LEU B 147 LYS B 151 -1 N ILE B 150 O TYR B 158 SHEET 6 AA4 6 LYS B 140 ARG B 144 -1 N LYS B 140 O LYS B 151 SHEET 1 AA5 2 ILE B 67 LEU B 68 0 SHEET 2 AA5 2 GLY B 93 HIS B 94 -1 O GLY B 93 N LEU B 68 SHEET 1 AA6 3 ARG C 18 ILE C 19 0 SHEET 2 AA6 3 GLN C 8 GLU C 12 -1 N ILE C 11 O ILE C 19 SHEET 3 AA6 3 ASP C 56 LYS C 61 -1 O LYS C 58 N GLU C 10 SHEET 1 AA7 3 THR C 22 VAL C 26 0 SHEET 2 AA7 3 SER C 30 PHE C 38 -1 O THR C 34 N THR C 22 SHEET 3 AA7 3 GLY C 42 LYS C 50 -1 O GLY C 42 N PHE C 38 LINK O ARG A 132 MG MG A 301 1555 1555 2.20 LINK OE1 GLU A 148 MG MG A 302 1555 1555 2.29 LINK OE2 GLU A 152 MG MG A 301 1555 1555 2.81 LINK OE2 GLU A 152 MG MG A 302 1555 1555 1.94 LINK OE2 GLU A 197 MG MG A 302 1555 1555 2.69 LINK MG MG A 301 O HOH A 407 1555 1555 2.80 LINK MG MG A 301 O2B M7G A 303 1555 1555 2.72 LINK MG MG A 301 O3B M7G A 303 1555 1555 2.02 LINK MG MG A 301 O HOH A 404 1555 1555 2.11 LINK MG MG A 302 O2B M7G A 303 1555 1555 1.94 LINK MG MG A 302 O HOH A 402 1555 1555 1.93 LINK MG MG A 304 O HOH A 403 1555 1555 2.25 LINK MG MG A 304 O HOH A 406 1555 1555 2.79 CISPEP 1 VAL B 61 GLY B 62 0 1.44 SITE 1 AC1 6 ARG A 132 GLU A 152 MG A 302 M7G A 303 SITE 2 AC1 6 HOH A 404 HOH A 407 SITE 1 AC2 7 GLU A 148 GLU A 152 GLU A 197 MG A 301 SITE 2 AC2 7 M7G A 303 HOH A 401 HOH A 402 SITE 1 AC3 18 TRP A 49 ASP A 53 LYS A 99 ILE A 123 SITE 2 AC3 18 ARG A 132 GLY A 133 LYS A 134 GLU A 148 SITE 3 AC3 18 GLU A 152 HIS A 194 LYS A 195 ASN A 196 SITE 4 AC3 18 GLU A 197 MG A 301 MG A 302 MG A 304 SITE 5 AC3 18 HOH A 401 HOH A 403 SITE 1 AC4 6 ARG A 147 GLU A 148 M7G A 303 HOH A 401 SITE 2 AC4 6 HOH A 403 HOH A 406 CRYST1 219.810 219.810 74.190 90.00 90.00 120.00 P 64 2 2 12 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 0.004549 0.002627 0.000000 0.00000 SCALE2 0.000000 0.005253 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013479 0.00000