HEADER CHAPERONE 20-SEP-11 3TVV TITLE STRUCTURE OF THE TANDEM PH DOMAINS OF RTT106 (RESIDUES 68-315) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE CHAPERONE RTT106; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 68-315; COMPND 5 SYNONYM: REGULATOR OF TY1 TRANSPOSITION PROTEIN 106; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: N1346, RTT106, YNL206C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PTEV KEYWDS TANDEM PLECKSTRIN-HOMOLOGY DOMAINS, CHROMOSOMAL PROTEIN, NUCLEUS, KEYWDS 2 PHOSPHOPROTEIN, TRANSCRIPTION, TRANSCRIPTION REGULATION, CHAPERONE EXPDTA X-RAY DIFFRACTION AUTHOR D.SU,J.R.THOMPSON,G.MER REVDAT 7 20-NOV-24 3TVV 1 REMARK REVDAT 6 06-DEC-23 3TVV 1 REMARK REVDAT 5 13-SEP-23 3TVV 1 SEQADV REVDAT 4 17-JUL-19 3TVV 1 REMARK LINK REVDAT 3 07-MAR-12 3TVV 1 JRNL REVDAT 2 22-FEB-12 3TVV 1 JRNL REVDAT 1 01-FEB-12 3TVV 0 JRNL AUTH D.SU,Q.HU,Q.LI,J.R.THOMPSON,G.CUI,A.FAZLY,B.A.DAVIES, JRNL AUTH 2 M.V.BOTUYAN,Z.ZHANG,G.MER JRNL TITL STRUCTURAL BASIS FOR RECOGNITION OF H3K56-ACETYLATED HISTONE JRNL TITL 2 H3-H4 BY THE CHAPERONE RTT106. JRNL REF NATURE V. 483 104 2012 JRNL REFN ISSN 0028-0836 JRNL PMID 22307274 JRNL DOI 10.1038/NATURE10861 REMARK 2 REMARK 2 RESOLUTION. 2.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX DEV_886 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) : 2.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.31 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 83.6 REMARK 3 NUMBER OF REFLECTIONS : 16799 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.241 REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.294 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.130 REMARK 3 FREE R VALUE TEST SET COUNT : 862 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 31.3094 - 4.6993 0.97 3153 177 0.2292 0.2872 REMARK 3 2 4.6993 - 3.7320 0.99 3117 185 0.1923 0.2511 REMARK 3 3 3.7320 - 3.2608 1.00 3200 141 0.2482 0.2873 REMARK 3 4 3.2608 - 2.9629 0.99 3123 181 0.2930 0.3589 REMARK 3 5 2.9629 - 2.7507 0.79 2481 133 0.3279 0.4126 REMARK 3 6 2.7507 - 2.5890 0.27 863 45 0.3868 0.4974 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.73 REMARK 3 K_SOL : 0.28 REMARK 3 B_SOL : 29.31 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.030 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) : -13.87770 REMARK 3 B22 (A**2) : 13.49150 REMARK 3 B33 (A**2) : 0.38610 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.66760 REMARK 3 B23 (A**2) : 0.00000 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 : 0.002 3960 REMARK 3 ANGLE : 0.648 5357 REMARK 3 CHIRALITY : 0.040 610 REMARK 3 PLANARITY : 0.003 678 REMARK 3 DIHEDRAL : 11.325 1532 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 0:130) REMARK 3 ORIGIN FOR THE GROUP (A): 55.8227 5.3864 45.4532 REMARK 3 T TENSOR REMARK 3 T11: 0.5596 T22: 0.3818 REMARK 3 T33: 0.5359 T12: -0.0389 REMARK 3 T13: -0.0119 T23: -0.0994 REMARK 3 L TENSOR REMARK 3 L11: 8.0785 L22: 8.7747 REMARK 3 L33: 4.4335 L12: 4.0793 REMARK 3 L13: 0.3146 L23: -1.6500 REMARK 3 S TENSOR REMARK 3 S11: 0.3936 S12: -0.9202 S13: 0.8147 REMARK 3 S21: 1.1888 S22: -0.4152 S23: -0.0012 REMARK 3 S31: -0.5388 S32: 0.3575 S33: 0.0026 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 131:310) REMARK 3 ORIGIN FOR THE GROUP (A): 44.9861 -7.7105 33.9718 REMARK 3 T TENSOR REMARK 3 T11: 0.3423 T22: 0.3408 REMARK 3 T33: 0.3692 T12: 0.0064 REMARK 3 T13: 0.0423 T23: -0.0064 REMARK 3 L TENSOR REMARK 3 L11: 2.3876 L22: 9.8647 REMARK 3 L33: 4.4512 L12: 1.8858 REMARK 3 L13: 0.9964 L23: 2.7686 REMARK 3 S TENSOR REMARK 3 S11: 0.1054 S12: 0.1333 S13: 0.3081 REMARK 3 S21: 0.0775 S22: -0.0925 S23: 0.0821 REMARK 3 S31: 0.1039 S32: 0.2238 S33: -0.0138 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESSEQ -1:95) REMARK 3 ORIGIN FOR THE GROUP (A): 19.2425 -2.3574 1.8000 REMARK 3 T TENSOR REMARK 3 T11: 0.8156 T22: 0.6786 REMARK 3 T33: 0.5792 T12: 0.0031 REMARK 3 T13: -0.1479 T23: -0.1676 REMARK 3 L TENSOR REMARK 3 L11: 9.5550 L22: 2.0009 REMARK 3 L33: 8.6306 L12: -5.4059 REMARK 3 L13: -2.0444 L23: 3.2150 REMARK 3 S TENSOR REMARK 3 S11: 0.1174 S12: 0.6189 S13: -0.9113 REMARK 3 S21: -1.4529 S22: -0.9450 S23: 2.6086 REMARK 3 S31: 0.5168 S32: -0.6415 S33: 0.8428 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESSEQ 96:130) REMARK 3 ORIGIN FOR THE GROUP (A): 28.0825 -2.4236 1.3352 REMARK 3 T TENSOR REMARK 3 T11: 0.6942 T22: 0.5521 REMARK 3 T33: 0.3357 T12: -0.0240 REMARK 3 T13: 0.0177 T23: -0.1131 REMARK 3 L TENSOR REMARK 3 L11: 4.2469 L22: 7.2549 REMARK 3 L33: 3.0747 L12: -2.0555 REMARK 3 L13: -0.0911 L23: 1.1832 REMARK 3 S TENSOR REMARK 3 S11: 0.1341 S12: 0.9919 S13: -0.3706 REMARK 3 S21: -0.6177 S22: -0.3547 S23: 0.0972 REMARK 3 S31: 0.8775 S32: -0.1460 S33: 0.2128 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESSEQ 131:153) REMARK 3 ORIGIN FOR THE GROUP (A): 28.3197 8.0066 6.5041 REMARK 3 T TENSOR REMARK 3 T11: 0.7442 T22: 0.6656 REMARK 3 T33: 0.4909 T12: -0.1057 REMARK 3 T13: -0.1634 T23: -0.0763 REMARK 3 L TENSOR REMARK 3 L11: 2.0121 L22: 9.8322 REMARK 3 L33: 4.9178 L12: -2.7109 REMARK 3 L13: -6.2265 L23: 1.3624 REMARK 3 S TENSOR REMARK 3 S11: -0.0499 S12: 0.9942 S13: 0.5316 REMARK 3 S21: -0.6737 S22: 0.2344 S23: -0.0475 REMARK 3 S31: 0.6836 S32: -0.4331 S33: -0.1905 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESSEQ 154:219) REMARK 3 ORIGIN FOR THE GROUP (A): 19.6270 -1.2132 15.6081 REMARK 3 T TENSOR REMARK 3 T11: 0.8897 T22: 0.2898 REMARK 3 T33: 0.5222 T12: -0.0459 REMARK 3 T13: -0.1486 T23: 0.0254 REMARK 3 L TENSOR REMARK 3 L11: 6.1348 L22: 6.1296 REMARK 3 L33: 5.7999 L12: -2.7767 REMARK 3 L13: -1.6753 L23: -0.6166 REMARK 3 S TENSOR REMARK 3 S11: -0.2029 S12: -0.3346 S13: -0.7287 REMARK 3 S21: 0.3591 S22: 0.2144 S23: 0.9125 REMARK 3 S31: 0.7509 S32: -0.1374 S33: -0.0173 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESSEQ 220:287) REMARK 3 ORIGIN FOR THE GROUP (A): 33.2820 22.7241 15.6140 REMARK 3 T TENSOR REMARK 3 T11: 0.3907 T22: 0.2921 REMARK 3 T33: 0.2355 T12: -0.0072 REMARK 3 T13: 0.0007 T23: -0.0164 REMARK 3 L TENSOR REMARK 3 L11: 7.2554 L22: 8.1015 REMARK 3 L33: 8.2561 L12: 2.0882 REMARK 3 L13: 0.0318 L23: 1.7947 REMARK 3 S TENSOR REMARK 3 S11: 0.1362 S12: 0.2946 S13: 0.3000 REMARK 3 S21: -0.5335 S22: -0.2260 S23: 0.4477 REMARK 3 S31: -0.2805 S32: 0.3280 S33: 0.0614 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESSEQ 288:311) REMARK 3 ORIGIN FOR THE GROUP (A): 42.1982 16.6557 25.3310 REMARK 3 T TENSOR REMARK 3 T11: 1.0400 T22: 0.5473 REMARK 3 T33: 0.8972 T12: -0.1841 REMARK 3 T13: -0.1763 T23: -0.0168 REMARK 3 L TENSOR REMARK 3 L11: 2.0085 L22: 2.0173 REMARK 3 L33: 8.4044 L12: -9.0472 REMARK 3 L13: -7.2117 L23: 4.0492 REMARK 3 S TENSOR REMARK 3 S11: -0.2487 S12: -1.3484 S13: 0.6099 REMARK 3 S21: 0.9953 S22: 0.3551 S23: -0.9074 REMARK 3 S31: -0.0581 S32: 1.1960 S33: -0.0954 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3TVV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-SEP-11. REMARK 100 THE DEPOSITION ID IS D_1000067984. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19166 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.563 REMARK 200 RESOLUTION RANGE LOW (A) : 34.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.56 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 66.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.45000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3FSS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% V/V TACSIMATE, 20% PEG3350, PH 5.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 288K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 30.32000 REMARK 290 SMTRY3 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 GLY A -2 REMARK 465 HIS A -1 REMARK 465 ASN A 206 REMARK 465 SER A 207 REMARK 465 THR A 208 REMARK 465 LEU A 209 REMARK 465 VAL A 210 REMARK 465 ASP A 211 REMARK 465 THR A 212 REMARK 465 ASP A 213 REMARK 465 ALA A 214 REMARK 465 GLU A 215 REMARK 465 LYS A 216 REMARK 465 GLU A 311 REMARK 465 LEU A 312 REMARK 465 LYS A 313 REMARK 465 ALA A 314 REMARK 465 LYS A 315 REMARK 465 GLY B -2 REMARK 465 ASN B 206 REMARK 465 SER B 207 REMARK 465 THR B 208 REMARK 465 LEU B 209 REMARK 465 VAL B 210 REMARK 465 ASP B 211 REMARK 465 THR B 212 REMARK 465 ASP B 213 REMARK 465 ALA B 214 REMARK 465 GLU B 215 REMARK 465 LYS B 216 REMARK 465 LEU B 312 REMARK 465 LYS B 313 REMARK 465 ALA B 314 REMARK 465 LYS B 315 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 O HOH A 10 O HOH A 350 2.16 REMARK 500 O HOH A 60 O HOH A 326 2.19 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 THR A 145 -63.68 -92.33 REMARK 500 PHE A 204 36.47 -97.37 REMARK 500 ASN A 218 85.78 -67.83 REMARK 500 ASN A 218 85.65 -67.71 REMARK 500 SER A 263 48.73 37.22 REMARK 500 LEU B 114 137.43 -173.23 REMARK 500 GLN B 118 61.76 39.75 REMARK 500 LYS B 134 80.96 -153.02 REMARK 500 ASP B 149 72.78 -119.74 REMARK 500 LYS B 151 -57.84 77.09 REMARK 500 VAL B 186 -72.48 -55.39 REMARK 500 GLU B 187 -55.54 -27.25 REMARK 500 ASN B 202 68.58 -154.52 REMARK 500 SER B 263 56.64 36.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 243 PHE A 244 145.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3FSS RELATED DB: PDB REMARK 900 RELATED ID: 3HKH RELATED DB: PDB REMARK 900 RELATED ID: 3TW1 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 MUTATION N171K IS A NATURAL VARIANT. DBREF 3TVV A 68 315 UNP P40161 RT106_YEAST 68 315 DBREF 3TVV B 68 315 UNP P40161 RT106_YEAST 68 315 SEQADV 3TVV GLY A -2 UNP P40161 EXPRESSION TAG SEQADV 3TVV HIS A -1 UNP P40161 EXPRESSION TAG SEQADV 3TVV MSE A 0 UNP P40161 EXPRESSION TAG SEQADV 3TVV LYS A 171 UNP P40161 ASN 171 SEE REMARK 999 SEQADV 3TVV GLY B -2 UNP P40161 EXPRESSION TAG SEQADV 3TVV HIS B -1 UNP P40161 EXPRESSION TAG SEQADV 3TVV MSE B 0 UNP P40161 EXPRESSION TAG SEQADV 3TVV LYS B 171 UNP P40161 ASN 171 SEE REMARK 999 SEQRES 1 A 251 GLY HIS MSE SER GLU THR ASN THR ILE PHE LYS LEU GLU SEQRES 2 A 251 GLY VAL SER VAL LEU SER PRO LEU ARG LYS LYS LEU ASP SEQRES 3 A 251 LEU VAL PHE TYR LEU SER ASN VAL ASP GLY SER PRO VAL SEQRES 4 A 251 ILE THR LEU LEU LYS GLY ASN ASP ARG GLU LEU SER ILE SEQRES 5 A 251 TYR GLN LEU ASN LYS ASN ILE LYS MSE ALA SER PHE LEU SEQRES 6 A 251 PRO VAL PRO GLU LYS PRO ASN LEU ILE TYR LEU PHE MSE SEQRES 7 A 251 THR TYR THR SER CYS GLU ASP ASN LYS PHE SER GLU PRO SEQRES 8 A 251 VAL VAL MSE THR LEU ASN LYS GLU ASN THR LEU ASN GLN SEQRES 9 A 251 PHE LYS LYS LEU GLY LEU LEU ASP SER ASN VAL THR ASP SEQRES 10 A 251 PHE GLU LYS CYS VAL GLU TYR ILE ARG LYS GLN ALA ILE SEQRES 11 A 251 LEU THR GLY PHE LYS ILE SER ASN PRO PHE VAL ASN SER SEQRES 12 A 251 THR LEU VAL ASP THR ASP ALA GLU LYS ILE ASN SER PHE SEQRES 13 A 251 HIS LEU GLN CYS HIS ARG GLY THR LYS GLU GLY THR LEU SEQRES 14 A 251 TYR PHE LEU PRO ASP HIS ILE ILE PHE GLY PHE LYS LYS SEQRES 15 A 251 PRO ILE LEU LEU PHE ASP ALA SER ASP ILE GLU SER ILE SEQRES 16 A 251 THR TYR SER SER ILE THR ARG LEU THR PHE ASN ALA SER SEQRES 17 A 251 LEU VAL THR LYS ASP GLY GLU LYS TYR GLU PHE SER MSE SEQRES 18 A 251 ILE ASP GLN THR GLU TYR ALA LYS ILE ASP ASP TYR VAL SEQRES 19 A 251 LYS ARG LYS GLN MSE LYS ASP LYS SER MSE SER GLU GLU SEQRES 20 A 251 LEU LYS ALA LYS SEQRES 1 B 251 GLY HIS MSE SER GLU THR ASN THR ILE PHE LYS LEU GLU SEQRES 2 B 251 GLY VAL SER VAL LEU SER PRO LEU ARG LYS LYS LEU ASP SEQRES 3 B 251 LEU VAL PHE TYR LEU SER ASN VAL ASP GLY SER PRO VAL SEQRES 4 B 251 ILE THR LEU LEU LYS GLY ASN ASP ARG GLU LEU SER ILE SEQRES 5 B 251 TYR GLN LEU ASN LYS ASN ILE LYS MSE ALA SER PHE LEU SEQRES 6 B 251 PRO VAL PRO GLU LYS PRO ASN LEU ILE TYR LEU PHE MSE SEQRES 7 B 251 THR TYR THR SER CYS GLU ASP ASN LYS PHE SER GLU PRO SEQRES 8 B 251 VAL VAL MSE THR LEU ASN LYS GLU ASN THR LEU ASN GLN SEQRES 9 B 251 PHE LYS LYS LEU GLY LEU LEU ASP SER ASN VAL THR ASP SEQRES 10 B 251 PHE GLU LYS CYS VAL GLU TYR ILE ARG LYS GLN ALA ILE SEQRES 11 B 251 LEU THR GLY PHE LYS ILE SER ASN PRO PHE VAL ASN SER SEQRES 12 B 251 THR LEU VAL ASP THR ASP ALA GLU LYS ILE ASN SER PHE SEQRES 13 B 251 HIS LEU GLN CYS HIS ARG GLY THR LYS GLU GLY THR LEU SEQRES 14 B 251 TYR PHE LEU PRO ASP HIS ILE ILE PHE GLY PHE LYS LYS SEQRES 15 B 251 PRO ILE LEU LEU PHE ASP ALA SER ASP ILE GLU SER ILE SEQRES 16 B 251 THR TYR SER SER ILE THR ARG LEU THR PHE ASN ALA SER SEQRES 17 B 251 LEU VAL THR LYS ASP GLY GLU LYS TYR GLU PHE SER MSE SEQRES 18 B 251 ILE ASP GLN THR GLU TYR ALA LYS ILE ASP ASP TYR VAL SEQRES 19 B 251 LYS ARG LYS GLN MSE LYS ASP LYS SER MSE SER GLU GLU SEQRES 20 B 251 LEU LYS ALA LYS MODRES 3TVV MSE A 0 MET SELENOMETHIONINE MODRES 3TVV MSE A 125 MET SELENOMETHIONINE MODRES 3TVV MSE A 142 MET SELENOMETHIONINE MODRES 3TVV MSE A 158 MET SELENOMETHIONINE MODRES 3TVV MSE A 285 MET SELENOMETHIONINE MODRES 3TVV MSE A 303 MET SELENOMETHIONINE MODRES 3TVV MSE A 308 MET SELENOMETHIONINE MODRES 3TVV MSE B 0 MET SELENOMETHIONINE MODRES 3TVV MSE B 125 MET SELENOMETHIONINE MODRES 3TVV MSE B 142 MET SELENOMETHIONINE MODRES 3TVV MSE B 158 MET SELENOMETHIONINE MODRES 3TVV MSE B 285 MET SELENOMETHIONINE MODRES 3TVV MSE B 303 MET SELENOMETHIONINE MODRES 3TVV MSE B 308 MET SELENOMETHIONINE HET MSE A 0 16 HET MSE A 125 17 HET MSE A 142 17 HET MSE A 158 17 HET MSE A 285 17 HET MSE A 303 17 HET MSE A 308 17 HET MSE B 0 17 HET MSE B 125 17 HET MSE B 142 17 HET MSE B 158 17 HET MSE B 285 17 HET MSE B 303 17 HET MSE B 308 17 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 14(C5 H11 N O2 SE) FORMUL 3 HOH *147(H2 O) HELIX 1 1 GLN A 118 ASN A 122 1 5 HELIX 2 2 CYS A 147 LYS A 151 5 5 HELIX 3 3 LYS A 162 LEU A 172 1 11 HELIX 4 4 PHE A 182 GLY A 197 1 16 HELIX 5 5 GLU A 290 SER A 309 1 20 HELIX 6 6 GLN B 118 ASN B 122 1 5 HELIX 7 7 LYS B 162 LEU B 172 1 11 HELIX 8 8 ASP B 181 THR B 196 1 16 HELIX 9 9 GLU B 290 GLU B 311 1 22 SHEET 1 A 7 ASP A 111 TYR A 117 0 SHEET 2 A 7 PRO A 102 LYS A 108 -1 N LYS A 108 O ASP A 111 SHEET 3 A 7 LYS A 87 LEU A 95 -1 N ASP A 90 O LEU A 107 SHEET 4 A 7 THR A 72 SER A 83 -1 N LEU A 76 O LEU A 91 SHEET 5 A 7 VAL A 156 ASN A 161 -1 O THR A 159 N SER A 80 SHEET 6 A 7 LEU A 137 TYR A 144 -1 N MSE A 142 O VAL A 156 SHEET 7 A 7 ILE A 123 PRO A 130 -1 N LYS A 124 O THR A 143 SHEET 1 B 4 PHE A 220 ARG A 226 0 SHEET 2 B 4 LYS A 229 PHE A 235 -1 O PHE A 235 N PHE A 220 SHEET 3 B 4 HIS A 239 PHE A 242 -1 O ILE A 241 N TYR A 234 SHEET 4 B 4 LEU A 249 ASP A 252 -1 O PHE A 251 N ILE A 240 SHEET 1 C 3 ILE A 256 SER A 262 0 SHEET 2 C 3 THR A 268 THR A 275 -1 O VAL A 274 N GLU A 257 SHEET 3 C 3 LYS A 280 ASP A 287 -1 O ILE A 286 N PHE A 269 SHEET 1 D 7 ASP B 111 ILE B 116 0 SHEET 2 D 7 PRO B 102 LYS B 108 -1 N LEU B 106 O GLU B 113 SHEET 3 D 7 LYS B 87 LEU B 95 -1 N TYR B 94 O VAL B 103 SHEET 4 D 7 THR B 72 SER B 83 -1 N PHE B 74 O PHE B 93 SHEET 5 D 7 GLU B 154 ASN B 161 -1 O VAL B 157 N LEU B 82 SHEET 6 D 7 LEU B 137 TYR B 144 -1 N LEU B 140 O MSE B 158 SHEET 7 D 7 ILE B 123 PRO B 130 -1 N SER B 127 O PHE B 141 SHEET 1 E 4 PHE B 220 ARG B 226 0 SHEET 2 E 4 LYS B 229 PHE B 235 -1 O PHE B 235 N PHE B 220 SHEET 3 E 4 HIS B 239 GLY B 243 -1 O GLY B 243 N THR B 232 SHEET 4 E 4 LEU B 249 ASP B 252 -1 O LEU B 249 N PHE B 242 SHEET 1 F 3 ILE B 256 SER B 262 0 SHEET 2 F 3 THR B 268 THR B 275 -1 O ASN B 270 N SER B 262 SHEET 3 F 3 LYS B 280 ASP B 287 -1 O ILE B 286 N PHE B 269 LINK C MSE A 0 N SER A 68 1555 1555 1.33 LINK C LYS A 124 N MSE A 125 1555 1555 1.33 LINK C MSE A 125 N ALA A 126 1555 1555 1.33 LINK C PHE A 141 N MSE A 142 1555 1555 1.33 LINK C MSE A 142 N THR A 143 1555 1555 1.33 LINK C VAL A 157 N MSE A 158 1555 1555 1.33 LINK C MSE A 158 N THR A 159 1555 1555 1.33 LINK C SER A 284 N MSE A 285 1555 1555 1.33 LINK C MSE A 285 N ILE A 286 1555 1555 1.33 LINK C GLN A 302 N MSE A 303 1555 1555 1.33 LINK C MSE A 303 N LYS A 304 1555 1555 1.33 LINK C SER A 307 N MSE A 308 1555 1555 1.33 LINK C MSE A 308 N SER A 309 1555 1555 1.33 LINK C HIS B -1 N MSE B 0 1555 1555 1.33 LINK C MSE B 0 N SER B 68 1555 1555 1.33 LINK C LYS B 124 N MSE B 125 1555 1555 1.33 LINK C MSE B 125 N ALA B 126 1555 1555 1.33 LINK C PHE B 141 N MSE B 142 1555 1555 1.33 LINK C MSE B 142 N THR B 143 1555 1555 1.33 LINK C VAL B 157 N MSE B 158 1555 1555 1.33 LINK C MSE B 158 N THR B 159 1555 1555 1.33 LINK C SER B 284 N MSE B 285 1555 1555 1.33 LINK C MSE B 285 N ILE B 286 1555 1555 1.33 LINK C GLN B 302 N MSE B 303 1555 1555 1.33 LINK C MSE B 303 N LYS B 304 1555 1555 1.33 LINK C SER B 307 N MSE B 308 1555 1555 1.33 LINK C MSE B 308 N SER B 309 1555 1555 1.33 CISPEP 1 SER A 83 PRO A 84 0 -1.43 CISPEP 2 LYS A 246 PRO A 247 0 -1.30 CISPEP 3 SER B 83 PRO B 84 0 0.43 CISPEP 4 GLY B 243 PHE B 244 0 -2.11 CISPEP 5 LYS B 246 PRO B 247 0 -2.56 CRYST1 70.660 60.640 77.170 90.00 102.49 90.00 P 1 21 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 0.014152 0.000000 0.003135 0.00000 SCALE2 0.000000 0.016491 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013273 0.00000 HETATM 1 N MSE A 0 63.318 13.890 48.992 1.00 98.76 N ANISOU 1 N MSE A 0 13899 10527 13098 -3245 -1847 -2359 N HETATM 2 CA MSE A 0 62.005 13.479 49.567 1.00 98.37 C ANISOU 2 CA MSE A 0 14173 10472 12730 -3038 -1458 -2670 C HETATM 3 C MSE A 0 61.477 14.541 50.526 1.00103.26 C ANISOU 3 C MSE A 0 15298 10752 13184 -3327 -1229 -3330 C HETATM 4 O MSE A 0 61.780 14.520 51.719 1.00108.03 O ANISOU 4 O MSE A 0 16167 11611 13267 -3616 -1387 -3518 O HETATM 5 CB MSE A 0 62.144 12.141 50.295 1.00 99.02 C ANISOU 5 CB MSE A 0 14294 11068 12259 -3079 -1663 -2468 C HETATM 6 CG MSE A 0 60.879 11.678 51.002 1.00 99.79 C ANISOU 6 CG MSE A 0 14733 11224 11960 -2961 -1275 -2759 C HETATM 7 SE MSE A 0 59.378 11.405 49.788 1.00163.84 SE ANISOU 7 SE MSE A 0 22595 19072 20584 -2286 -697 -2672 SE HETATM 8 CE MSE A 0 58.023 10.917 51.103 1.00 73.54 C ANISOU 8 CE MSE A 0 11606 7779 8557 -2333 -252 -3096 C HETATM 9 HA MSE A 0 61.361 13.360 48.837 1.00118.68 H HETATM 10 HB2 MSE A 0 62.388 11.459 49.649 1.00119.46 H HETATM 11 HB3 MSE A 0 62.843 12.222 50.964 1.00119.46 H HETATM 12 HG2 MSE A 0 61.059 10.835 51.449 1.00120.39 H HETATM 13 HG3 MSE A 0 60.619 12.348 51.653 1.00120.39 H HETATM 14 HE1 MSE A 0 57.195 10.745 50.649 1.00 88.88 H HETATM 15 HE2 MSE A 0 58.310 10.129 51.570 1.00 88.88 H HETATM 16 HE3 MSE A 0 57.913 11.643 51.722 1.00 88.88 H