HEADER TRANSFERASE 12-OCT-07 2RIM TITLE CRYSTAL STRUCTURE OF RTT109 COMPND MOL_ID: 1; COMPND 2 MOLECULE: REGULATOR OF TY1 TRANSPOSITION PROTEIN 109; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RTT109; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: RTT109, KIM2, REM50; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS RTT109 STRUCTURE, DNA DAMAGE, DNA REPAIR, NUCLEUS, TRANSCRIPTION, KEYWDS 2 TRANSCRIPTION REGULATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.A.YUAN REVDAT 4 13-JUL-11 2RIM 1 VERSN REVDAT 3 24-FEB-09 2RIM 1 VERSN REVDAT 2 04-NOV-08 2RIM 1 JRNL REVDAT 1 02-SEP-08 2RIM 0 JRNL AUTH C.LIN,Y.A.YUAN JRNL TITL STRUCTURAL INSIGHTS INTO HISTONE H3 LYSINE 56 ACETYLATION BY JRNL TITL 2 RTT109 JRNL REF STRUCTURE V. 16 1503 2008 JRNL REFN ISSN 0969-2126 JRNL PMID 18707894 JRNL DOI 10.1016/J.STR.2008.07.006 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 3 NUMBER OF REFLECTIONS : 30288 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) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1619 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) : 2.08 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.13 REMARK 3 REFLECTION IN BIN (WORKING SET) : 824 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 34.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.2700 REMARK 3 BIN FREE R VALUE SET COUNT : 38 REMARK 3 BIN FREE R VALUE : 0.3910 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3039 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 112 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.80000 REMARK 3 B22 (A**2) : -2.38000 REMARK 3 B33 (A**2) : -1.86000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.53000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.197 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.180 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.146 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.035 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3103 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4193 ; 1.388 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 370 ; 6.083 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 138 ;34.635 ;23.551 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 563 ;16.236 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;17.908 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 471 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2295 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1290 ; 0.209 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2076 ; 0.307 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 118 ; 0.142 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 70 ; 0.164 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.476 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1929 ; 0.955 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3042 ; 1.419 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1341 ; 1.892 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1151 ; 2.861 ; 4.500 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 142 REMARK 3 RESIDUE RANGE : A 175 A 404 REMARK 3 ORIGIN FOR THE GROUP (A): 27.3684 30.7892 15.2560 REMARK 3 T TENSOR REMARK 3 T11: -0.2673 T22: -0.1986 REMARK 3 T33: -0.2165 T12: -0.0106 REMARK 3 T13: 0.0117 T23: 0.0246 REMARK 3 L TENSOR REMARK 3 L11: 0.6111 L22: 2.9240 REMARK 3 L33: 2.9743 L12: -0.4836 REMARK 3 L13: 0.5954 L23: 0.6506 REMARK 3 S TENSOR REMARK 3 S11: -0.0485 S12: -0.0376 S13: 0.0682 REMARK 3 S21: 0.0625 S22: 0.0222 S23: 0.0800 REMARK 3 S31: -0.0302 S32: -0.1910 S33: 0.0263 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2RIM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-OCT-07. REMARK 100 THE RCSB ID CODE IS RCSB044902. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X12C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30288 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.080 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 1.0 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09800 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 1.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.54100 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: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG550 MME, AMMONIUM CITRATE, REMARK 280 GLYCEROL, TRIS, PH8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 73.70050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.61650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 73.70050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.61650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.3 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 SER A -8 REMARK 465 SER A -7 REMARK 465 GLY A -6 REMARK 465 LEU A -5 REMARK 465 VAL A -4 REMARK 465 PRO A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 THR A 143 REMARK 465 PRO A 144 REMARK 465 ALA A 145 REMARK 465 ARG A 146 REMARK 465 THR A 147 REMARK 465 LEU A 148 REMARK 465 ARG A 149 REMARK 465 ILE A 150 REMARK 465 LEU A 151 REMARK 465 ALA A 152 REMARK 465 ARG A 153 REMARK 465 ARG A 154 REMARK 465 LEU A 155 REMARK 465 LYS A 156 REMARK 465 GLN A 157 REMARK 465 SER A 158 REMARK 465 GLY A 159 REMARK 465 SER A 160 REMARK 465 THR A 161 REMARK 465 VAL A 162 REMARK 465 LEU A 163 REMARK 465 LYS A 164 REMARK 465 GLU A 165 REMARK 465 ILE A 166 REMARK 465 GLU A 167 REMARK 465 SER A 168 REMARK 465 PRO A 169 REMARK 465 ARG A 170 REMARK 465 PHE A 171 REMARK 465 GLN A 172 REMARK 465 GLN A 173 REMARK 465 ASP A 174 REMARK 465 ARG A 405 REMARK 465 GLU A 406 REMARK 465 ARG A 407 REMARK 465 ASN A 408 REMARK 465 GLN A 409 REMARK 465 PRO A 410 REMARK 465 VAL A 411 REMARK 465 PRO A 412 REMARK 465 ALA A 413 REMARK 465 SER A 414 REMARK 465 ASN A 415 REMARK 465 ILE A 416 REMARK 465 ASN A 417 REMARK 465 THR A 418 REMARK 465 LEU A 419 REMARK 465 ALA A 420 REMARK 465 ILE A 421 REMARK 465 THR A 422 REMARK 465 MET A 423 REMARK 465 LEU A 424 REMARK 465 LYS A 425 REMARK 465 PRO A 426 REMARK 465 ARG A 427 REMARK 465 LYS A 428 REMARK 465 LYS A 429 REMARK 465 ALA A 430 REMARK 465 LYS A 431 REMARK 465 ALA A 432 REMARK 465 LEU A 433 REMARK 465 PRO A 434 REMARK 465 LYS A 435 REMARK 465 THR A 436 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 HIS A 1B CG ND1 CD2 CE1 NE2 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 NH2 ARG A 194 OE1 GLN A 319 1.52 REMARK 500 NE2 GLN A 316 OE2 GLU A 320 1.52 REMARK 500 O GLU A 317 CD1 PHE A 321 1.70 REMARK 500 CD GLN A 316 OE2 GLU A 320 1.74 REMARK 500 CG GLN A 316 OE2 GLU A 320 1.75 REMARK 500 O GLU A 274 CB ASN A 275 1.79 REMARK 500 O HOH A 492 O HOH A 541 1.97 REMARK 500 O PRO A 245 OE1 GLN A 316 1.99 REMARK 500 NH2 ARG A 194 CD GLN A 319 2.12 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 NH2 ARG A 251 O HOH A 497 4546 1.93 REMARK 500 OE2 GLU A 317 O LEU A 389 1556 1.97 REMARK 500 O HOH A 496 O HOH A 498 4556 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 134 CA SER A 134 C 0.396 REMARK 500 SER A 134 C SER A 134 O 0.326 REMARK 500 SER A 134 C PRO A 135 N -0.135 REMARK 500 GLU A 136 CD GLU A 136 OE1 0.076 REMARK 500 GLU A 136 CD GLU A 136 OE2 0.106 REMARK 500 LEU A 137 C LEU A 137 O 0.129 REMARK 500 SER A 139 CB SER A 139 OG 0.138 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 SER A 134 CB - CA - C ANGL. DEV. = -35.3 DEGREES REMARK 500 SER A 134 N - CA - C ANGL. DEV. = -16.8 DEGREES REMARK 500 ASN A 275 CA - C - N ANGL. DEV. = -13.6 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 MSE A 1 -55.43 -124.77 REMARK 500 PHE A 62 -16.32 -143.27 REMARK 500 TYR A 93 51.62 -98.83 REMARK 500 PRO A 249 6.64 -67.90 REMARK 500 ASN A 275 -0.49 105.68 REMARK 500 ASN A 281 -34.87 -136.26 REMARK 500 LEU A 323 46.40 -172.60 REMARK 500 SER A 324 129.47 0.27 REMARK 500 VAL A 325 143.81 172.54 REMARK 500 SER A 341 14.51 -142.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 SER A 134 11.79 REMARK 500 REMARK 500 REMARK: NULL DBREF 2RIM A 1 436 UNP Q07794 RT109_YEAST 1 436 SEQADV 2RIM MET A -18 UNP Q07794 EXPRESSION TAG SEQADV 2RIM GLY A -17 UNP Q07794 EXPRESSION TAG SEQADV 2RIM SER A -16 UNP Q07794 EXPRESSION TAG SEQADV 2RIM SER A -15 UNP Q07794 EXPRESSION TAG SEQADV 2RIM HIS A -14 UNP Q07794 EXPRESSION TAG SEQADV 2RIM HIS A -13 UNP Q07794 EXPRESSION TAG SEQADV 2RIM HIS A -12 UNP Q07794 EXPRESSION TAG SEQADV 2RIM HIS A -11 UNP Q07794 EXPRESSION TAG SEQADV 2RIM HIS A -10 UNP Q07794 EXPRESSION TAG SEQADV 2RIM HIS A -9 UNP Q07794 EXPRESSION TAG SEQADV 2RIM SER A -8 UNP Q07794 EXPRESSION TAG SEQADV 2RIM SER A -7 UNP Q07794 EXPRESSION TAG SEQADV 2RIM GLY A -6 UNP Q07794 EXPRESSION TAG SEQADV 2RIM LEU A -5 UNP Q07794 EXPRESSION TAG SEQADV 2RIM VAL A -4 UNP Q07794 EXPRESSION TAG SEQADV 2RIM PRO A -3 UNP Q07794 EXPRESSION TAG SEQADV 2RIM ARG A -2 UNP Q07794 EXPRESSION TAG SEQADV 2RIM GLY A -1 UNP Q07794 EXPRESSION TAG SEQADV 2RIM SER A 0 UNP Q07794 EXPRESSION TAG SEQADV 2RIM HIS A 1B UNP Q07794 EXPRESSION TAG SEQADV 2RIM MSE A 1A UNP Q07794 EXPRESSION TAG SEQRES 1 A 457 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 457 LEU VAL PRO ARG GLY SER HIS MSE MSE SER LEU ASN ASP SEQRES 3 A 457 PHE LEU SER SER VAL LEU PRO VAL SER GLU GLN PHE GLU SEQRES 4 A 457 TYR LEU SER LEU GLN SER ILE PRO LEU GLU THR HIS ALA SEQRES 5 A 457 VAL VAL THR PRO ASN LYS ASP ASP LYS ARG VAL PRO LYS SEQRES 6 A 457 SER THR ILE LYS THR GLN HIS PHE PHE SER LEU PHE HIS SEQRES 7 A 457 GLN GLY LYS VAL PHE PHE SER LEU GLU VAL TYR VAL TYR SEQRES 8 A 457 VAL THR LEU TRP ASP GLU ALA ASP ALA GLU ARG LEU ILE SEQRES 9 A 457 PHE VAL SER LYS ALA ASP THR ASN GLY TYR CYS ASN THR SEQRES 10 A 457 ARG VAL SER VAL ARG ASP ILE THR LYS ILE ILE LEU GLU SEQRES 11 A 457 PHE ILE LEU SER ILE ASP PRO ASN TYR TYR LEU GLN LYS SEQRES 12 A 457 VAL LYS PRO ALA ILE ARG SER TYR LYS LYS ILE SER PRO SEQRES 13 A 457 GLU LEU ILE SER ALA ALA SER THR PRO ALA ARG THR LEU SEQRES 14 A 457 ARG ILE LEU ALA ARG ARG LEU LYS GLN SER GLY SER THR SEQRES 15 A 457 VAL LEU LYS GLU ILE GLU SER PRO ARG PHE GLN GLN ASP SEQRES 16 A 457 LEU TYR LEU SER PHE THR CYS PRO ARG GLU ILE LEU THR SEQRES 17 A 457 LYS ILE CYS LEU PHE THR ARG PRO ALA SER GLN TYR LEU SEQRES 18 A 457 PHE PRO ASP SER SER LYS ASN SER LYS LYS HIS ILE LEU SEQRES 19 A 457 ASN GLY GLU GLU LEU MSE LYS TRP TRP GLY PHE ILE LEU SEQRES 20 A 457 ASP ARG LEU LEU ILE GLU CYS PHE GLN ASN ASP THR GLN SEQRES 21 A 457 ALA LYS LEU ARG ILE PRO GLY GLU ASP PRO ALA ARG VAL SEQRES 22 A 457 ARG SER TYR LEU ARG GLY MSE LYS TYR PRO LEU TRP GLN SEQRES 23 A 457 VAL GLY ASP ILE PHE THR SER LYS GLU ASN SER LEU ALA SEQRES 24 A 457 VAL TYR ASN ILE PRO LEU PHE PRO ASP ASP PRO LYS ALA SEQRES 25 A 457 ARG PHE ILE HIS GLN LEU ALA GLU GLU ASP ARG LEU LEU SEQRES 26 A 457 LYS VAL SER LEU SER SER PHE TRP ILE GLU LEU GLN GLU SEQRES 27 A 457 ARG GLN GLU PHE LYS LEU SER VAL THR SER SER VAL MSE SEQRES 28 A 457 GLY ILE SER GLY TYR SER LEU ALA THR PRO SER LEU PHE SEQRES 29 A 457 PRO SER SER ALA ASP VAL ILE VAL PRO LYS SER ARG LYS SEQRES 30 A 457 GLN PHE ARG ALA ILE LYS LYS TYR ILE THR GLY GLU GLU SEQRES 31 A 457 TYR ASP THR GLU GLU GLY ALA ILE GLU ALA PHE THR ASN SEQRES 32 A 457 ILE ARG ASP PHE LEU LEU LEU ARG MSE ALA THR ASN LEU SEQRES 33 A 457 GLN SER LEU THR GLY LYS ARG GLU HIS ARG GLU ARG ASN SEQRES 34 A 457 GLN PRO VAL PRO ALA SER ASN ILE ASN THR LEU ALA ILE SEQRES 35 A 457 THR MET LEU LYS PRO ARG LYS LYS ALA LYS ALA LEU PRO SEQRES 36 A 457 LYS THR MODRES 2RIM MSE A 1A MET SELENOMETHIONINE MODRES 2RIM MSE A 1 MET SELENOMETHIONINE MODRES 2RIM MSE A 219 MET SELENOMETHIONINE MODRES 2RIM MSE A 259 MET SELENOMETHIONINE MODRES 2RIM MSE A 330 MET SELENOMETHIONINE MODRES 2RIM MSE A 391 MET SELENOMETHIONINE HET MSE A 1A 8 HET MSE A 1 8 HET MSE A 219 8 HET MSE A 259 8 HET MSE A 330 8 HET MSE A 391 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 HOH *112(H2 O) HELIX 1 1 SER A 2 LEU A 11 1 10 HELIX 2 2 SER A 99 SER A 113 1 15 HELIX 3 3 PRO A 116 GLN A 121 1 6 HELIX 4 4 SER A 134 ILE A 138 5 5 HELIX 5 5 ASP A 203 ASN A 207 5 5 HELIX 6 6 ASN A 214 PHE A 234 1 21 HELIX 7 7 ASP A 248 ARG A 257 1 10 HELIX 8 8 SER A 272 SER A 276 5 5 HELIX 9 9 LEU A 277 ASN A 281 5 5 HELIX 10 10 ASP A 288 GLU A 299 1 12 HELIX 11 11 SER A 307 SER A 324 1 18 HELIX 12 12 SER A 354 GLY A 367 1 14 HELIX 13 13 THR A 372 ALA A 392 1 21 SHEET 1 A 8 LEU A 27 GLU A 28 0 SHEET 2 A 8 SER A 45 HIS A 57 -1 O LYS A 48 N LEU A 27 SHEET 3 A 8 LYS A 60 LEU A 73 -1 O LEU A 73 N SER A 45 SHEET 4 A 8 ALA A 79 THR A 90 -1 O LYS A 87 N GLU A 66 SHEET 5 A 8 LEU A 186 THR A 193 1 O LYS A 188 N ILE A 83 SHEET 6 A 8 SER A 328 GLY A 334 -1 O ILE A 332 N ILE A 189 SHEET 7 A 8 GLN A 239 ARG A 243 -1 N LYS A 241 O GLY A 331 SHEET 8 A 8 TRP A 264 VAL A 266 1 O GLN A 265 N ALA A 240 SHEET 1 B 4 LEU A 27 GLU A 28 0 SHEET 2 B 4 SER A 45 HIS A 57 -1 O LYS A 48 N LEU A 27 SHEET 3 B 4 GLN A 16 GLN A 23 -1 N GLU A 18 O PHE A 56 SHEET 4 B 4 GLN A 396 THR A 399 -1 O LEU A 398 N PHE A 17 LINK C HIS A 1B N MSE A 1A 1555 1555 1.31 LINK C MSE A 1A N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N SER A 2 1555 1555 1.30 LINK C LEU A 218 N MSE A 219 1555 1555 1.34 LINK C MSE A 219 N LYS A 220 1555 1555 1.33 LINK C GLY A 258 N MSE A 259 1555 1555 1.33 LINK C MSE A 259 N LYS A 260 1555 1555 1.33 LINK C VAL A 329 N MSE A 330 1555 1555 1.32 LINK C MSE A 330 N GLY A 331 1555 1555 1.33 LINK C ARG A 390 N MSE A 391 1555 1555 1.33 LINK C MSE A 391 N ALA A 392 1555 1555 1.33 CRYST1 147.401 69.233 55.661 90.00 94.93 90.00 C 1 2 1 4 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 0.006784 0.000000 0.000585 0.00000 SCALE2 0.000000 0.014444 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018033 0.00000