HEADER TRANSFERASE 18-MAR-25 9U3W TITLE CRYSTAL STRUCTURE OF THE RIBOKINASE RBK1 IN COMPLEX WITH RIBOSE FROM TITLE 2 SACCHAROMYCES CEREVISIAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBOKINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: RK; COMPND 5 EC: 2.7.1.15; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 3 ORGANISM_TAXID: 559292; SOURCE 4 GENE: RBK1, YCR036W, YCR36W, YCR523; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RIBOKINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR X.Y.YANG,X.H.LIU REVDAT 1 04-MAR-26 9U3W 0 JRNL AUTH S.ZHEN,Z.ZHANG,Y.FAN,Y.LI,C.LIU,F.GUO,Y.ZHU,Y.WANG,J.ZHANG, JRNL AUTH 2 J.XIE,H.ZHOU,X.YANG,X.LIU JRNL TITL STRUCTURAL AND BIOCHEMICAL INSIGHTS INTO THE MOLECULAR JRNL TITL 2 MECHANISM OF RIBOKINASE RBK1 FROM SACCHAROMYCES CEREVISIAE. JRNL REF INT.J.BIOL.MACROMOL. V. 331 48382 2025 JRNL REFN ISSN 0141-8130 JRNL PMID 41110570 JRNL DOI 10.1016/J.IJBIOMAC.2025.148382 REMARK 2 REMARK 2 RESOLUTION. 2.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.20.1_4487: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.47 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 17881 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.243 REMARK 3 R VALUE (WORKING SET) : 0.240 REMARK 3 FREE R VALUE : 0.294 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 890 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 36.4700 - 5.2800 0.98 2942 155 0.2167 0.2753 REMARK 3 2 5.2800 - 4.2000 1.00 2897 133 0.2105 0.2405 REMARK 3 3 4.2000 - 3.6700 0.97 2749 161 0.2550 0.3270 REMARK 3 4 3.6700 - 3.3300 0.97 2765 152 0.2844 0.3278 REMARK 3 5 3.3300 - 3.0900 1.00 2836 136 0.3070 0.3431 REMARK 3 6 3.0900 - 2.9100 1.00 2802 153 0.3905 0.4553 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.570 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.370 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.004 4761 REMARK 3 ANGLE : 0.864 6493 REMARK 3 CHIRALITY : 0.051 773 REMARK 3 PLANARITY : 0.009 846 REMARK 3 DIHEDRAL : 7.771 662 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9U3W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-APR-25. REMARK 100 THE DEPOSITION ID IS D_1300057629. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-SEP-23 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 : SSRF REMARK 200 BEAMLINE : BL10U2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978797 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17881 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.910 REMARK 200 RESOLUTION RANGE LOW (A) : 84.530 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 12.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.99 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M SODIUM FORMATE, 0.1M BICINE PH REMARK 280 8.6, 24% PEG 5000, 0.04% 1,2-DIAMINOCYCLOHEXANE SULFATE, 0.04% REMARK 280 DILOXANIDE FUROATE, 0.04% FUMARIC ACID, 0.04% SPERMINE, 0.04% REMARK 280 SULFAGUANIDINE, 0.004M HEPES SODIUM PH 6.8, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.93500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.93500 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 1.000000 0.000000 0.000000 40.42000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 84.53000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 40.42000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 84.53000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 58.93500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 40.42000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 84.53000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 58.93500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 40.42000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 84.53000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 40.42000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -84.53000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -58.93500 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 VAL A 275 REMARK 465 VAL A 276 REMARK 465 ASP A 277 REMARK 465 THR A 278 REMARK 465 THR A 279 REMARK 465 ILE A 314 REMARK 465 GLN A 315 REMARK 465 ARG A 316 REMARK 465 LYS A 317 REMARK 465 GLY A 318 REMARK 465 ALA A 319 REMARK 465 ALA A 320 REMARK 465 GLU A 321 REMARK 465 SER A 322 REMARK 465 VAL B 273 REMARK 465 SER B 274 REMARK 465 VAL B 275 REMARK 465 VAL B 276 REMARK 465 ASP B 277 REMARK 465 THR B 278 REMARK 465 THR B 279 REMARK 465 THR B 313 REMARK 465 ILE B 314 REMARK 465 GLN B 315 REMARK 465 ARG B 316 REMARK 465 LYS B 317 REMARK 465 GLY B 318 REMARK 465 ALA B 319 REMARK 465 ALA B 320 REMARK 465 GLU B 321 REMARK 465 SER B 322 REMARK 465 MET B 323 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 56 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 60 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 106 CB CG CD CE NZ REMARK 470 GLN A 110 CG CD OE1 NE2 REMARK 470 LYS A 122 CG CD CE NZ REMARK 470 LYS A 128 CG CD CE NZ REMARK 470 GLN A 129 CG CD OE1 NE2 REMARK 470 LEU A 130 CG CD1 CD2 REMARK 470 CYS A 131 SG REMARK 470 GLU A 132 CG CD OE1 OE2 REMARK 470 GLU A 136 CG CD OE1 OE2 REMARK 470 LYS A 138 CG CD CE NZ REMARK 470 GLU A 139 CG CD OE1 OE2 REMARK 470 LYS A 158 CG CD CE NZ REMARK 470 ASN A 166 CG OD1 ND2 REMARK 470 PHE A 176 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 177 CG CD CE NZ REMARK 470 LYS A 181 CG CD CE NZ REMARK 470 LEU A 198 CG CD1 CD2 REMARK 470 VAL A 210 CG1 CG2 REMARK 470 GLU A 211 CG CD OE1 OE2 REMARK 470 GLU A 212 CG CD OE1 OE2 REMARK 470 ARG A 214 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 216 CG CD CE NZ REMARK 470 LYS A 227 CG CD CE NZ REMARK 470 GLU A 234 CG CD OE1 OE2 REMARK 470 LYS A 235 CG CD CE NZ REMARK 470 LEU A 236 CG CD1 CD2 REMARK 470 ASN A 238 CG OD1 ND2 REMARK 470 ARG A 239 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 240 CG CD CE NZ REMARK 470 LYS A 241 CG CD CE NZ REMARK 470 ARG A 242 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 263 CG CD OE1 OE2 REMARK 470 GLN A 271 CG CD OE1 NE2 REMARK 470 ASN A 272 CG OD1 ND2 REMARK 470 LYS A 304 CG CD CE NZ REMARK 470 MET A 323 CG SD CE REMARK 470 LYS A 327 CG CD CE NZ REMARK 470 GLN A 330 CG CD OE1 NE2 REMARK 470 LYS A 331 CG CD CE NZ REMARK 470 ASP A 332 CG OD1 OD2 REMARK 470 ASP B 18 CG OD1 OD2 REMARK 470 ARG B 28 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 33 CG CD OE1 OE2 REMARK 470 HIS B 35 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 49 CG CD CE NZ REMARK 470 LYS B 51 CG CD CE NZ REMARK 470 SER B 54 OG REMARK 470 ARG B 56 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 67 CG OD1 ND2 REMARK 470 LYS B 72 CG CD CE NZ REMARK 470 GLN B 73 CG CD OE1 NE2 REMARK 470 ASP B 76 CG OD1 OD2 REMARK 470 GLU B 104 CG CD OE1 OE2 REMARK 470 LYS B 106 CB CG CD CE NZ REMARK 470 LYS B 138 CG CD CE NZ REMARK 470 GLU B 139 CG CD OE1 OE2 REMARK 470 PHE B 176 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 177 CG CD CE NZ REMARK 470 LYS B 182 CG CD CE NZ REMARK 470 GLU B 208 CG CD OE1 OE2 REMARK 470 LEU B 209 CG CD1 CD2 REMARK 470 VAL B 210 CG1 CG2 REMARK 470 GLU B 211 CG CD OE1 OE2 REMARK 470 ARG B 214 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 215 CG CD OE1 OE2 REMARK 470 LYS B 218 CG CD CE NZ REMARK 470 LYS B 227 NZ REMARK 470 LYS B 235 CG CD CE NZ REMARK 470 ARG B 239 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 240 CG CD CE NZ REMARK 470 LYS B 241 CG CD CE NZ REMARK 470 ARG B 242 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 272 CG OD1 ND2 REMARK 470 LYS B 327 CG CD CE NZ REMARK 470 ASP B 328 CG OD1 OD2 REMARK 470 GLN B 330 CG CD OE1 NE2 REMARK 470 LYS B 331 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO A 175 N - CA - C ANGL. DEV. = -17.9 DEGREES REMARK 500 PRO B 175 N - CA - C 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 ARG A 56 -141.30 47.19 REMARK 500 TYR A 57 170.88 65.11 REMARK 500 LYS A 106 -136.17 -93.68 REMARK 500 ALA A 107 -77.72 -78.43 REMARK 500 GLN A 147 -152.10 -126.63 REMARK 500 PRO A 151 -70.19 -49.19 REMARK 500 ALA A 162 -65.72 -91.51 REMARK 500 PRO A 173 73.64 -68.23 REMARK 500 LYS A 235 43.39 -75.55 REMARK 500 LEU A 236 -85.58 -166.67 REMARK 500 ARG A 239 -146.28 59.14 REMARK 500 LYS A 240 -3.83 67.95 REMARK 500 LYS A 241 79.03 -165.42 REMARK 500 ARG A 242 39.95 35.40 REMARK 500 GLU A 263 -156.99 -116.17 REMARK 500 VAL A 273 -55.66 67.79 REMARK 500 VAL B 65 -162.40 -123.37 REMARK 500 GLU B 92 -60.13 -96.61 REMARK 500 LYS B 106 24.45 43.04 REMARK 500 GLN B 110 -165.40 -119.86 REMARK 500 LYS B 138 109.36 -53.07 REMARK 500 GLN B 147 -147.04 -126.92 REMARK 500 HIS B 148 44.18 -141.53 REMARK 500 PHE B 205 -114.89 -128.54 REMARK 500 VAL B 210 -41.79 -135.40 REMARK 500 LEU B 236 -54.26 67.99 REMARK 500 LYS B 241 -146.05 -90.08 REMARK 500 REMARK 500 REMARK: NULL DBREF 9U3W A 1 333 UNP P25332 RBSK_YEAST 1 333 DBREF 9U3W B 1 333 UNP P25332 RBSK_YEAST 1 333 SEQRES 1 A 333 MET GLY ILE THR VAL ILE GLY SER LEU ASN TYR ASP LEU SEQRES 2 A 333 ASP THR PHE THR ASP ARG LEU PRO ASN ALA GLY GLU THR SEQRES 3 A 333 PHE ARG ALA ASN HIS PHE GLU THR HIS ALA GLY GLY LYS SEQRES 4 A 333 GLY LEU ASN GLN ALA ALA ALA ILE GLY LYS LEU LYS ASN SEQRES 5 A 333 PRO SER SER ARG TYR SER VAL ARG MET ILE GLY ASN VAL SEQRES 6 A 333 GLY ASN ASP THR PHE GLY LYS GLN LEU LYS ASP THR LEU SEQRES 7 A 333 SER ASP CYS GLY VAL ASP ILE THR HIS VAL GLY THR TYR SEQRES 8 A 333 GLU GLY ILE ASN THR GLY THR ALA THR ILE LEU ILE GLU SEQRES 9 A 333 GLU LYS ALA GLY GLY GLN ASN ARG ILE LEU ILE VAL GLU SEQRES 10 A 333 GLY ALA ASN SER LYS THR ILE TYR ASP PRO LYS GLN LEU SEQRES 11 A 333 CYS GLU ILE PHE PRO GLU GLY LYS GLU GLU GLU GLU TYR SEQRES 12 A 333 VAL VAL PHE GLN HIS GLU ILE PRO ASP PRO LEU SER ILE SEQRES 13 A 333 ILE LYS TRP ILE HIS ALA ASN ARG PRO ASN PHE GLN ILE SEQRES 14 A 333 VAL TYR ASN PRO SER PRO PHE LYS ALA MET PRO LYS LYS SEQRES 15 A 333 ASP TRP GLU LEU VAL ASP LEU LEU VAL VAL ASN GLU ILE SEQRES 16 A 333 GLU GLY LEU GLN ILE VAL GLU SER VAL PHE ASP ASN GLU SEQRES 17 A 333 LEU VAL GLU GLU ILE ARG GLU LYS ILE LYS ASP ASP PHE SEQRES 18 A 333 LEU GLY GLU TYR ARG LYS ILE CYS GLU LEU LEU TYR GLU SEQRES 19 A 333 LYS LEU MET ASN ARG LYS LYS ARG GLY ILE VAL VAL MET SEQRES 20 A 333 THR LEU GLY SER ARG GLY VAL LEU PHE CYS SER HIS GLU SEQRES 21 A 333 SER PRO GLU VAL GLN PHE LEU PRO ALA ILE GLN ASN VAL SEQRES 22 A 333 SER VAL VAL ASP THR THR GLY ALA GLY ASP THR PHE LEU SEQRES 23 A 333 GLY GLY LEU VAL THR GLN LEU TYR GLN GLY GLU THR LEU SEQRES 24 A 333 SER THR ALA ILE LYS PHE SER THR LEU ALA SER SER LEU SEQRES 25 A 333 THR ILE GLN ARG LYS GLY ALA ALA GLU SER MET PRO LEU SEQRES 26 A 333 TYR LYS ASP VAL GLN LYS ASP ALA SEQRES 1 B 333 MET GLY ILE THR VAL ILE GLY SER LEU ASN TYR ASP LEU SEQRES 2 B 333 ASP THR PHE THR ASP ARG LEU PRO ASN ALA GLY GLU THR SEQRES 3 B 333 PHE ARG ALA ASN HIS PHE GLU THR HIS ALA GLY GLY LYS SEQRES 4 B 333 GLY LEU ASN GLN ALA ALA ALA ILE GLY LYS LEU LYS ASN SEQRES 5 B 333 PRO SER SER ARG TYR SER VAL ARG MET ILE GLY ASN VAL SEQRES 6 B 333 GLY ASN ASP THR PHE GLY LYS GLN LEU LYS ASP THR LEU SEQRES 7 B 333 SER ASP CYS GLY VAL ASP ILE THR HIS VAL GLY THR TYR SEQRES 8 B 333 GLU GLY ILE ASN THR GLY THR ALA THR ILE LEU ILE GLU SEQRES 9 B 333 GLU LYS ALA GLY GLY GLN ASN ARG ILE LEU ILE VAL GLU SEQRES 10 B 333 GLY ALA ASN SER LYS THR ILE TYR ASP PRO LYS GLN LEU SEQRES 11 B 333 CYS GLU ILE PHE PRO GLU GLY LYS GLU GLU GLU GLU TYR SEQRES 12 B 333 VAL VAL PHE GLN HIS GLU ILE PRO ASP PRO LEU SER ILE SEQRES 13 B 333 ILE LYS TRP ILE HIS ALA ASN ARG PRO ASN PHE GLN ILE SEQRES 14 B 333 VAL TYR ASN PRO SER PRO PHE LYS ALA MET PRO LYS LYS SEQRES 15 B 333 ASP TRP GLU LEU VAL ASP LEU LEU VAL VAL ASN GLU ILE SEQRES 16 B 333 GLU GLY LEU GLN ILE VAL GLU SER VAL PHE ASP ASN GLU SEQRES 17 B 333 LEU VAL GLU GLU ILE ARG GLU LYS ILE LYS ASP ASP PHE SEQRES 18 B 333 LEU GLY GLU TYR ARG LYS ILE CYS GLU LEU LEU TYR GLU SEQRES 19 B 333 LYS LEU MET ASN ARG LYS LYS ARG GLY ILE VAL VAL MET SEQRES 20 B 333 THR LEU GLY SER ARG GLY VAL LEU PHE CYS SER HIS GLU SEQRES 21 B 333 SER PRO GLU VAL GLN PHE LEU PRO ALA ILE GLN ASN VAL SEQRES 22 B 333 SER VAL VAL ASP THR THR GLY ALA GLY ASP THR PHE LEU SEQRES 23 B 333 GLY GLY LEU VAL THR GLN LEU TYR GLN GLY GLU THR LEU SEQRES 24 B 333 SER THR ALA ILE LYS PHE SER THR LEU ALA SER SER LEU SEQRES 25 B 333 THR ILE GLN ARG LYS GLY ALA ALA GLU SER MET PRO LEU SEQRES 26 B 333 TYR LYS ASP VAL GLN LYS ASP ALA HET RIB A 401 10 HET RIB B 401 10 HETNAM RIB ALPHA-D-RIBOFURANOSE HETSYN RIB ALPHA-D-RIBOSE; D-RIBOSE; RIBOSE FORMUL 3 RIB 2(C5 H10 O5) HELIX 1 AA1 GLY A 38 LYS A 51 1 14 HELIX 2 AA2 ASN A 52 ARG A 56 5 5 HELIX 3 AA3 ASP A 68 CYS A 81 1 14 HELIX 4 AA4 GLU A 117 LYS A 122 5 6 HELIX 5 AA5 ASP A 126 PHE A 134 1 9 HELIX 6 AA6 ASP A 152 ARG A 164 1 13 HELIX 7 AA7 PRO A 180 GLU A 185 1 6 HELIX 8 AA8 GLU A 194 PHE A 205 1 12 HELIX 9 AA9 ASP A 206 ILE A 217 1 12 HELIX 10 AB1 ASP A 220 LYS A 235 1 16 HELIX 11 AB2 GLY A 250 ARG A 252 5 3 HELIX 12 AB3 ALA A 281 GLN A 295 1 15 HELIX 13 AB4 THR A 298 THR A 313 1 16 HELIX 14 AB5 LEU A 325 ALA A 333 1 9 HELIX 15 AB6 GLY B 38 LYS B 51 1 14 HELIX 16 AB7 ASN B 52 ARG B 56 5 5 HELIX 17 AB8 ASP B 68 CYS B 81 1 14 HELIX 18 AB9 GLU B 117 THR B 123 5 7 HELIX 19 AC1 ASP B 126 PHE B 134 1 9 HELIX 20 AC2 ASP B 152 ARG B 164 1 13 HELIX 21 AC3 PRO B 180 GLU B 185 1 6 HELIX 22 AC4 GLU B 194 PHE B 205 1 12 HELIX 23 AC5 ASP B 206 LEU B 209 5 4 HELIX 24 AC6 VAL B 210 ASP B 220 1 11 HELIX 25 AC7 ASP B 220 LYS B 235 1 16 HELIX 26 AC8 GLY B 250 ARG B 252 5 3 HELIX 27 AC9 ALA B 281 GLN B 295 1 15 HELIX 28 AD1 THR B 298 LEU B 312 1 15 HELIX 29 AD2 LEU B 325 ALA B 333 1 9 SHEET 1 AA1 9 VAL A 88 TYR A 91 0 SHEET 2 AA1 9 SER A 58 GLY A 66 1 N VAL A 65 O TYR A 91 SHEET 3 AA1 9 GLY A 2 ILE A 6 1 N VAL A 5 O ARG A 60 SHEET 4 AA1 9 TYR A 143 PHE A 146 1 O VAL A 145 N THR A 4 SHEET 5 AA1 9 GLN A 168 TYR A 171 1 O VAL A 170 N VAL A 144 SHEET 6 AA1 9 LEU A 189 ASN A 193 1 O LEU A 189 N TYR A 171 SHEET 7 AA1 9 ILE A 244 THR A 248 1 O THR A 248 N VAL A 192 SHEET 8 AA1 9 VAL A 254 CYS A 257 -1 O LEU A 255 N MET A 247 SHEET 9 AA1 9 GLN A 265 LEU A 267 -1 O LEU A 267 N VAL A 254 SHEET 1 AA2 4 HIS A 31 GLY A 37 0 SHEET 2 AA2 4 ASN A 10 THR A 17 -1 N ASP A 14 O GLU A 33 SHEET 3 AA2 4 GLY A 97 GLU A 104 1 O ILE A 103 N THR A 15 SHEET 4 AA2 4 ASN A 111 VAL A 116 -1 O ARG A 112 N LEU A 102 SHEET 1 AA3 9 VAL B 88 TYR B 91 0 SHEET 2 AA3 9 VAL B 59 GLY B 66 1 N VAL B 65 O GLY B 89 SHEET 3 AA3 9 ILE B 3 ILE B 6 1 N VAL B 5 O ILE B 62 SHEET 4 AA3 9 TYR B 143 PHE B 146 1 O VAL B 145 N THR B 4 SHEET 5 AA3 9 GLN B 168 TYR B 171 1 O VAL B 170 N VAL B 144 SHEET 6 AA3 9 LEU B 189 ASN B 193 1 O LEU B 189 N TYR B 171 SHEET 7 AA3 9 ILE B 244 THR B 248 1 O THR B 248 N VAL B 192 SHEET 8 AA3 9 VAL B 254 CYS B 257 -1 O LEU B 255 N MET B 247 SHEET 9 AA3 9 GLN B 265 LEU B 267 -1 O GLN B 265 N PHE B 256 SHEET 1 AA4 4 HIS B 31 GLY B 37 0 SHEET 2 AA4 4 ASN B 10 THR B 17 -1 N ASP B 12 O HIS B 35 SHEET 3 AA4 4 GLY B 97 GLU B 104 1 O ILE B 103 N THR B 15 SHEET 4 AA4 4 ASN B 111 VAL B 116 -1 O ARG B 112 N LEU B 102 CRYST1 80.840 169.060 117.870 90.00 90.00 90.00 C 2 2 21 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 0.012370 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005915 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008484 0.00000 CONECT 4651 4652 CONECT 4652 4651 4653 CONECT 4653 4652 4654 4655 CONECT 4654 4653 4659 CONECT 4655 4653 4656 4657 CONECT 4656 4655 CONECT 4657 4655 4658 4659 CONECT 4658 4657 CONECT 4659 4654 4657 4660 CONECT 4660 4659 CONECT 4661 4662 CONECT 4662 4661 4663 CONECT 4663 4662 4664 4665 CONECT 4664 4663 4669 CONECT 4665 4663 4666 4667 CONECT 4666 4665 CONECT 4667 4665 4668 4669 CONECT 4668 4667 CONECT 4669 4664 4667 4670 CONECT 4670 4669 MASTER 408 0 2 29 26 0 0 6 4668 2 20 52 END