HEADER HYDROLASE 18-AUG-22 7YV4 TITLE CRYSTAL STRUCTURE OF HUMAN UCHL3 IN COMPLEX WITH FARREROL COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE ISOZYME L3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UCH-L3,UBIQUITIN THIOESTERASE L3; COMPND 5 EC: 3.4.19.12; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UCHL3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA PHAGE ECSZW-2; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 2419741 KEYWDS ACTIVATOR, COMPLEX, UBIQUITINASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.Y.MAO,X.J.XU,W.T.ZHANG REVDAT 2 29-NOV-23 7YV4 1 REMARK REVDAT 1 19-APR-23 7YV4 0 JRNL AUTH W.ZHANG,M.WANG,Z.SONG,Q.FU,J.CHEN,W.ZHANG,S.GAO,X.SUN, JRNL AUTH 2 G.YANG,Q.ZHANG,J.YANG,H.TANG,H.WANG,X.KOU,H.WANG,Z.MAO,X.XU, JRNL AUTH 3 S.GAO,Y.JIANG JRNL TITL FARREROL DIRECTLY ACTIVATES THE DEUBIQUTINASE UCHL3 TO JRNL TITL 2 PROMOTE DNA REPAIR AND REPROGRAMMING WHEN MEDIATED BY JRNL TITL 3 SOMATIC CELL NUCLEAR TRANSFER. JRNL REF NAT COMMUN V. 14 1838 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 37012254 JRNL DOI 10.1038/S41467-023-37576-9 REMARK 2 REMARK 2 RESOLUTION. 1.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.1_4122 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) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.60 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 32507 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.150 REMARK 3 FREE R VALUE TEST SET COUNT : 1999 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 24.6000 - 3.8000 1.00 2335 154 0.1639 0.1820 REMARK 3 2 3.8000 - 3.0200 1.00 2244 147 0.1634 0.1897 REMARK 3 3 3.0200 - 2.6400 1.00 2193 143 0.1912 0.2024 REMARK 3 4 2.6400 - 2.4000 1.00 2210 145 0.1772 0.2040 REMARK 3 5 2.4000 - 2.2300 1.00 2177 142 0.1668 0.1895 REMARK 3 6 2.2300 - 2.0900 1.00 2178 144 0.1717 0.1976 REMARK 3 7 2.0900 - 1.9900 1.00 2163 141 0.1784 0.2410 REMARK 3 8 1.9900 - 1.9000 1.00 2183 144 0.1915 0.2546 REMARK 3 9 1.9000 - 1.8300 1.00 2161 141 0.1884 0.2196 REMARK 3 10 1.8300 - 1.7700 1.00 2149 140 0.1915 0.2172 REMARK 3 11 1.7700 - 1.7100 1.00 2165 141 0.2085 0.2510 REMARK 3 12 1.7100 - 1.6600 1.00 2159 142 0.2150 0.2666 REMARK 3 13 1.6600 - 1.6200 1.00 2110 138 0.2552 0.3020 REMARK 3 14 1.6200 - 1.5800 0.96 2081 137 0.2895 0.3067 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.04 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.15 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 6 THROUGH 22 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.9267 -7.2800 2.0215 REMARK 3 T TENSOR REMARK 3 T11: 0.2801 T22: 0.2283 REMARK 3 T33: 0.2349 T12: 0.0452 REMARK 3 T13: -0.0588 T23: 0.0359 REMARK 3 L TENSOR REMARK 3 L11: 7.3527 L22: 4.1383 REMARK 3 L33: 3.8001 L12: 1.4684 REMARK 3 L13: -0.4980 L23: 0.4418 REMARK 3 S TENSOR REMARK 3 S11: 0.1076 S12: -0.7691 S13: -0.3818 REMARK 3 S21: 0.4734 S22: -0.0239 S23: -0.2744 REMARK 3 S31: 0.4238 S32: 0.2623 S33: 0.0029 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 23 THROUGH 59 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.5788 5.2785 5.0889 REMARK 3 T TENSOR REMARK 3 T11: 0.1312 T22: 0.1317 REMARK 3 T33: 0.1312 T12: -0.0081 REMARK 3 T13: -0.0185 T23: 0.0287 REMARK 3 L TENSOR REMARK 3 L11: 2.7992 L22: 1.3695 REMARK 3 L33: 2.0957 L12: -0.1689 REMARK 3 L13: -0.0284 L23: 0.2858 REMARK 3 S TENSOR REMARK 3 S11: -0.0720 S12: -0.1507 S13: -0.0252 REMARK 3 S21: 0.0938 S22: 0.1002 S23: -0.0256 REMARK 3 S31: -0.0007 S32: 0.1368 S33: -0.0380 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 60 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): -34.7293 3.6698 -5.5874 REMARK 3 T TENSOR REMARK 3 T11: 0.1372 T22: 0.1940 REMARK 3 T33: 0.2334 T12: -0.0156 REMARK 3 T13: 0.0076 T23: -0.0551 REMARK 3 L TENSOR REMARK 3 L11: 3.3756 L22: 6.7882 REMARK 3 L33: 8.9880 L12: -0.9958 REMARK 3 L13: 1.5334 L23: -5.3050 REMARK 3 S TENSOR REMARK 3 S11: 0.0335 S12: -0.1532 S13: -0.2538 REMARK 3 S21: -0.2413 S22: 0.0150 S23: 0.3694 REMARK 3 S31: 0.2622 S32: -0.4359 S33: -0.0313 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 77 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.1502 0.7100 -9.7661 REMARK 3 T TENSOR REMARK 3 T11: 0.1566 T22: 0.1730 REMARK 3 T33: 0.1388 T12: 0.0024 REMARK 3 T13: 0.0150 T23: -0.0373 REMARK 3 L TENSOR REMARK 3 L11: 4.0948 L22: 1.4848 REMARK 3 L33: 2.7997 L12: -0.9299 REMARK 3 L13: 1.2437 L23: 0.2884 REMARK 3 S TENSOR REMARK 3 S11: 0.0323 S12: 0.2521 S13: -0.1346 REMARK 3 S21: 0.0240 S22: 0.0383 S23: 0.1036 REMARK 3 S31: 0.0704 S32: 0.0369 S33: -0.0486 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 130 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.9922 -2.8159 -14.7728 REMARK 3 T TENSOR REMARK 3 T11: 0.1888 T22: 0.2989 REMARK 3 T33: 0.1898 T12: 0.0174 REMARK 3 T13: 0.0333 T23: -0.0673 REMARK 3 L TENSOR REMARK 3 L11: 3.4233 L22: 2.1213 REMARK 3 L33: 3.1069 L12: 1.1936 REMARK 3 L13: 1.1067 L23: 1.4635 REMARK 3 S TENSOR REMARK 3 S11: -0.0083 S12: 0.3883 S13: -0.2296 REMARK 3 S21: -0.0519 S22: 0.1677 S23: -0.3257 REMARK 3 S31: 0.1768 S32: 0.6795 S33: -0.1688 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 131 THROUGH 140 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.2262 -8.7590 -16.5664 REMARK 3 T TENSOR REMARK 3 T11: 0.2440 T22: 0.3215 REMARK 3 T33: 0.2215 T12: -0.0485 REMARK 3 T13: 0.0397 T23: -0.1272 REMARK 3 L TENSOR REMARK 3 L11: 5.3801 L22: 7.3399 REMARK 3 L33: 6.2332 L12: -2.9677 REMARK 3 L13: 2.2252 L23: -1.8995 REMARK 3 S TENSOR REMARK 3 S11: 0.0510 S12: 0.7231 S13: -0.8280 REMARK 3 S21: -0.3016 S22: -0.2025 S23: 0.2395 REMARK 3 S31: 0.5608 S32: -0.5710 S33: 0.0528 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 141 THROUGH 215 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.3578 6.2311 -3.1974 REMARK 3 T TENSOR REMARK 3 T11: 0.1452 T22: 0.1152 REMARK 3 T33: 0.1134 T12: -0.0026 REMARK 3 T13: -0.0074 T23: 0.0052 REMARK 3 L TENSOR REMARK 3 L11: 2.9129 L22: 1.4684 REMARK 3 L33: 2.4500 L12: -0.2528 REMARK 3 L13: 0.0404 L23: 0.9634 REMARK 3 S TENSOR REMARK 3 S11: -0.0465 S12: 0.0652 S13: -0.0929 REMARK 3 S21: 0.0033 S22: 0.0187 S23: 0.0348 REMARK 3 S31: 0.0527 S32: 0.0244 S33: 0.0607 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 216 THROUGH 230 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.1320 3.1498 7.7698 REMARK 3 T TENSOR REMARK 3 T11: 0.2521 T22: 0.2109 REMARK 3 T33: 0.1505 T12: -0.0309 REMARK 3 T13: 0.0300 T23: 0.0401 REMARK 3 L TENSOR REMARK 3 L11: 2.2792 L22: 1.8920 REMARK 3 L33: 2.3221 L12: -1.2058 REMARK 3 L13: 1.3233 L23: 0.6991 REMARK 3 S TENSOR REMARK 3 S11: -0.0077 S12: -0.5704 S13: -0.5130 REMARK 3 S21: 0.3306 S22: 0.0367 S23: 0.1028 REMARK 3 S31: 0.1706 S32: -0.2046 S33: 0.0190 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 7YV4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-SEP-22. REMARK 100 THE DEPOSITION ID IS D_1300031689. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-FEB-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL02U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9798 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 S 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32507 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 24.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 200 DATA REDUNDANCY : 12.50 REMARK 200 R MERGE (I) : 0.15800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.6700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.15800 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: 6ISU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4M SODIUM CITRATE TRIBASIC REMARK 280 DIHYDRATE, 0.1M HEPES SODIUM PH 7.0, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 289.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 23.52700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 38.58050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.93650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 38.58050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.52700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.93650 REMARK 290 SMTRY3 4 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: 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 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 GLU A 2 REMARK 465 GLY A 3 REMARK 465 GLN A 4 REMARK 465 ARG A 5 REMARK 465 THR A 147 REMARK 465 HIS A 148 REMARK 465 GLU A 149 REMARK 465 THR A 150 REMARK 465 SER A 151 REMARK 465 ALA A 152 REMARK 465 HIS A 153 REMARK 465 GLU A 154 REMARK 465 GLY A 155 REMARK 465 GLN A 156 REMARK 465 THR A 157 REMARK 465 GLU A 158 REMARK 465 ALA A 159 REMARK 465 PRO A 160 REMARK 465 SER A 161 REMARK 465 ILE A 162 REMARK 465 ASP A 163 REMARK 465 GLU A 164 REMARK 465 LYS A 165 REMARK 465 VAL A 166 REMARK 465 ASP A 167 REMARK 465 ASP A 218 REMARK 465 GLU A 219 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 ASP A 216 O HOH A 401 1.99 REMARK 500 O HOH A 497 O HOH A 575 2.03 REMARK 500 N GLY A 116 O HOH A 402 2.05 REMARK 500 O HOH A 542 O HOH A 626 2.05 REMARK 500 O HOH A 572 O HOH A 576 2.07 REMARK 500 OE1 GLU A 60 O HOH A 403 2.16 REMARK 500 N TRP A 6 O HOH A 404 2.19 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 O HOH A 605 O HOH A 632 4455 2.04 REMARK 500 O HOH A 597 O HOH A 632 4455 2.13 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 PRO A 27 33.10 -83.53 REMARK 500 REMARK 500 REMARK: NULL DBREF 7YV4 A 1 230 UNP P15374 UCHL3_HUMAN 1 230 SEQRES 1 A 230 MET GLU GLY GLN ARG TRP LEU PRO LEU GLU ALA ASN PRO SEQRES 2 A 230 GLU VAL THR ASN GLN PHE LEU LYS GLN LEU GLY LEU HIS SEQRES 3 A 230 PRO ASN TRP GLN PHE VAL ASP VAL TYR GLY MET ASP PRO SEQRES 4 A 230 GLU LEU LEU SER MET VAL PRO ARG PRO VAL CYS ALA VAL SEQRES 5 A 230 LEU LEU LEU PHE PRO ILE THR GLU LYS TYR GLU VAL PHE SEQRES 6 A 230 ARG THR GLU GLU GLU GLU LYS ILE LYS SER GLN GLY GLN SEQRES 7 A 230 ASP VAL THR SER SER VAL TYR PHE MET LYS GLN THR ILE SEQRES 8 A 230 SER ASN ALA CYS GLY THR ILE GLY LEU ILE HIS ALA ILE SEQRES 9 A 230 ALA ASN ASN LYS ASP LYS MET HIS PHE GLU SER GLY SER SEQRES 10 A 230 THR LEU LYS LYS PHE LEU GLU GLU SER VAL SER MET SER SEQRES 11 A 230 PRO GLU GLU ARG ALA ARG TYR LEU GLU ASN TYR ASP ALA SEQRES 12 A 230 ILE ARG VAL THR HIS GLU THR SER ALA HIS GLU GLY GLN SEQRES 13 A 230 THR GLU ALA PRO SER ILE ASP GLU LYS VAL ASP LEU HIS SEQRES 14 A 230 PHE ILE ALA LEU VAL HIS VAL ASP GLY HIS LEU TYR GLU SEQRES 15 A 230 LEU ASP GLY ARG LYS PRO PHE PRO ILE ASN HIS GLY GLU SEQRES 16 A 230 THR SER ASP GLU THR LEU LEU GLU ASP ALA ILE GLU VAL SEQRES 17 A 230 CYS LYS LYS PHE MET GLU ARG ASP PRO ASP GLU LEU ARG SEQRES 18 A 230 PHE ASN ALA ILE ALA LEU SER ALA ALA HET JXY A 301 38 HETNAM JXY (2~{S})-2-(4-HYDROXYPHENYL)-6,8-DIMETHYL-5,7- HETNAM 2 JXY BIS(OXIDANYL)-2,3-DIHYDROCHROMEN-4-ONE HETSYN JXY FARREROL FORMUL 2 JXY C17 H16 O5 FORMUL 3 HOH *261(H2 O) HELIX 1 AA1 ASN A 12 LEU A 23 1 12 HELIX 2 AA2 ASP A 38 SER A 43 1 6 HELIX 3 AA3 THR A 59 GLY A 77 1 19 HELIX 4 AA4 ILE A 91 ASN A 93 5 3 HELIX 5 AA5 ALA A 94 ASN A 106 1 13 HELIX 6 AA6 ASN A 107 MET A 111 5 5 HELIX 7 AA7 SER A 117 VAL A 127 1 11 HELIX 8 AA8 SER A 130 TYR A 141 1 12 HELIX 9 AA9 ASP A 142 ARG A 145 5 4 HELIX 10 AB1 THR A 200 GLU A 214 1 15 SHEET 1 AA1 6 TRP A 29 VAL A 34 0 SHEET 2 AA1 6 ALA A 224 ALA A 229 -1 O SER A 228 N GLN A 30 SHEET 3 AA1 6 VAL A 49 PHE A 56 -1 N LEU A 53 O ILE A 225 SHEET 4 AA1 6 HIS A 169 VAL A 176 -1 O HIS A 169 N PHE A 56 SHEET 5 AA1 6 HIS A 179 LEU A 183 -1 O LEU A 183 N ALA A 172 SHEET 6 AA1 6 ILE A 191 GLU A 195 -1 O HIS A 193 N LEU A 180 CISPEP 1 ARG A 47 PRO A 48 0 -3.43 CRYST1 47.054 63.873 77.161 90.00 90.00 90.00 P 21 21 21 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 0.021252 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015656 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012960 0.00000