HEADER TRANSFERASE 24-JAN-17 5ULK TITLE CRYSTAL STRUCTURE OF RNF165 IN COMPLEX WITH A UBCH5B~UB CONJUGATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2 D2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: (E3-INDEPENDENT) E2 UBIQUITIN-CONJUGATING ENZYME D2,E2 COMPND 5 UBIQUITIN-CONJUGATING ENZYME D2,UBIQUITIN CARRIER PROTEIN D2, COMPND 6 UBIQUITIN-CONJUGATING ENZYME E2(17)KB 2,UBIQUITIN-CONJUGATING ENZYME COMPND 7 E2-17 KDA 2,UBIQUITIN-PROTEIN LIGASE D2,P53-REGULATED UBIQUITIN- COMPND 8 CONJUGATING ENZYME 1; COMPND 9 EC: 2.3.2.23,2.3.2.24; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES; COMPND 12 MOL_ID: 2; COMPND 13 MOLECULE: UBIQUITIN; COMPND 14 CHAIN: B; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 3; COMPND 17 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE RNF165; COMPND 18 CHAIN: C; COMPND 19 FRAGMENT: RESIDUES 292-340; COMPND 20 SYNONYM: RING FINGER PROTEIN 165; COMPND 21 EC: 2.3.2.27; COMPND 22 ENGINEERED: YES; COMPND 23 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UBE2D2, PUBC1, UBC4, UBC5B, UBCH4, UBCH5B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: BL21; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: UBB; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 16 EXPRESSION_SYSTEM_CELL_LINE: BL21; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 19 ORGANISM_COMMON: HUMAN; SOURCE 20 ORGANISM_TAXID: 9606; SOURCE 21 GENE: RNF165; SOURCE 22 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 23 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 24 EXPRESSION_SYSTEM_CELL_LINE: BL21 KEYWDS OPEN CONFORMATION, BACKSIDE, ISOPEPTIDE-LINKED, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.J.MIDDLETON,C.L.DAY,J.D.WRIGHT REVDAT 3 06-MAR-24 5ULK 1 REMARK REVDAT 2 27-SEP-17 5ULK 1 REMARK REVDAT 1 07-JUN-17 5ULK 0 JRNL AUTH A.J.MIDDLETON,J.D.WRIGHT,C.L.DAY JRNL TITL DISCOVERY OF NEW NON-COVALENT UBIQUITIN BINDING SITES ON JRNL TITL 2 UBCH5 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.38 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.38 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 60.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 11834 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 612 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) : 2.38 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 628 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 70.40 REMARK 3 BIN R VALUE (WORKING SET) : 0.4970 REMARK 3 BIN FREE R VALUE SET COUNT : 26 REMARK 3 BIN FREE R VALUE : 0.5350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2164 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 83.06 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 9.73000 REMARK 3 B22 (A**2) : -2.75000 REMARK 3 B33 (A**2) : -6.98000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.416 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.279 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.368 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 39.609 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2209 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2151 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2993 ; 1.484 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4974 ; 0.951 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 267 ; 7.148 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 97 ;36.205 ;24.124 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 401 ;15.733 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;17.168 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 337 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2429 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 476 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 147 REMARK 3 ORIGIN FOR THE GROUP (A): -19.8570 -25.1120 -22.3790 REMARK 3 T TENSOR REMARK 3 T11: 0.0980 T22: 0.0800 REMARK 3 T33: 0.1695 T12: -0.0462 REMARK 3 T13: 0.0185 T23: -0.0526 REMARK 3 L TENSOR REMARK 3 L11: 2.5922 L22: 4.1502 REMARK 3 L33: 10.3533 L12: 0.0174 REMARK 3 L13: -2.6083 L23: 0.7799 REMARK 3 S TENSOR REMARK 3 S11: -0.1134 S12: 0.3828 S13: -0.1199 REMARK 3 S21: 0.0291 S22: 0.1501 S23: -0.1167 REMARK 3 S31: 0.0972 S32: -0.1563 S33: -0.0367 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 73 REMARK 3 ORIGIN FOR THE GROUP (A): -2.8090 -6.9470 -45.9490 REMARK 3 T TENSOR REMARK 3 T11: 0.2809 T22: 0.0205 REMARK 3 T33: 0.1266 T12: 0.0326 REMARK 3 T13: -0.0676 T23: -0.0277 REMARK 3 L TENSOR REMARK 3 L11: 9.2168 L22: 9.2053 REMARK 3 L33: 8.3877 L12: 1.7468 REMARK 3 L13: -0.0671 L23: -1.8397 REMARK 3 S TENSOR REMARK 3 S11: 0.3160 S12: 0.2573 S13: -0.3015 REMARK 3 S21: 0.0751 S22: -0.1809 S23: -0.1343 REMARK 3 S31: 0.4069 S32: 0.2326 S33: -0.1351 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 293 C 340 REMARK 3 ORIGIN FOR THE GROUP (A): -24.9860 -5.7750 -5.7800 REMARK 3 T TENSOR REMARK 3 T11: 0.3684 T22: 0.0379 REMARK 3 T33: 0.0882 T12: -0.0594 REMARK 3 T13: 0.0486 T23: -0.0542 REMARK 3 L TENSOR REMARK 3 L11: 5.4241 L22: 6.7436 REMARK 3 L33: 8.8849 L12: -1.5646 REMARK 3 L13: 0.1100 L23: -0.2690 REMARK 3 S TENSOR REMARK 3 S11: -0.2706 S12: 0.1901 S13: -0.1518 REMARK 3 S21: -0.2017 S22: 0.0764 S23: -0.2332 REMARK 3 S31: -0.0414 S32: -0.1657 S33: 0.1942 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.00 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 5ULK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1000226077. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-NOV-14 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 : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12481 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.381 REMARK 200 RESOLUTION RANGE LOW (A) : 60.779 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06800 REMARK 200 FOR THE DATA SET : 13.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.38 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.51 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.2 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.73400 REMARK 200 R SYM FOR SHELL (I) : 0.73400 REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER, PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM AMMONIUM NITRATE, 20% PEG 3350, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K 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 60.77950 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 60.77950 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 34.55450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 36.85700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 34.55450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 36.85700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 60.77950 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 34.55450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 36.85700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 60.77950 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 34.55450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 36.85700 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 -34.55450 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -36.85700 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -60.77950 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 -4 REMARK 465 PRO A -3 REMARK 465 LEU A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 GLY B 75 REMARK 465 GLY B 76 REMARK 465 GLY C 255 REMARK 465 PRO C 256 REMARK 465 LEU C 257 REMARK 465 GLY C 258 REMARK 465 SER C 259 REMARK 465 GLY C 260 REMARK 465 ALA C 261 REMARK 465 VAL C 262 REMARK 465 GLN C 263 REMARK 465 ASN C 264 REMARK 465 THR C 265 REMARK 465 ILE C 266 REMARK 465 GLU C 267 REMARK 465 ARG C 268 REMARK 465 PHE C 269 REMARK 465 THR C 270 REMARK 465 PHE C 271 REMARK 465 PRO C 272 REMARK 465 HIS C 273 REMARK 465 LYS C 274 REMARK 465 TYR C 275 REMARK 465 LYS C 276 REMARK 465 LYS C 277 REMARK 465 GLY C 278 REMARK 465 LYS C 279 REMARK 465 GLY C 280 REMARK 465 LYS C 281 REMARK 465 LYS C 282 REMARK 465 ASP C 283 REMARK 465 GLU C 284 REMARK 465 GLY C 285 REMARK 465 GLU C 286 REMARK 465 GLU C 287 REMARK 465 SER C 288 REMARK 465 ASP C 289 REMARK 465 THR C 290 REMARK 465 ASP C 291 REMARK 465 GLN C 341 REMARK 465 LEU C 342 REMARK 465 GLY C 343 REMARK 465 ALA C 344 REMARK 465 ASP C 345 REMARK 465 SER C 346 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 GLN A 20 -16.43 67.88 REMARK 500 GLN A 46 131.06 -33.04 REMARK 500 ASN A 81 -31.04 95.62 REMARK 500 ARG A 90 -92.60 -131.82 REMARK 500 LEU B 73 14.97 59.46 REMARK 500 ALA C 313 12.84 89.81 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 ZN C 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 294 SG REMARK 620 2 CYS C 297 SG 115.4 REMARK 620 3 HIS C 317 ND1 110.8 87.9 REMARK 620 4 CYS C 320 SG 122.0 103.6 111.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 312 SG REMARK 620 2 CYS C 331 SG 102.0 REMARK 620 3 CYS C 334 SG 106.3 118.5 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5ULH RELATED DB: PDB REMARK 900 RELATED ID: 5ULF RELATED DB: PDB DBREF 5ULK A 1 147 UNP P62837 UB2D2_HUMAN 1 147 DBREF 5ULK B 1 76 UNP P0CG47 UBB_HUMAN 1 76 DBREF 5ULK C 260 346 UNP Q6ZSG1 RN165_HUMAN 255 346 SEQADV 5ULK GLY A -4 UNP P62837 EXPRESSION TAG SEQADV 5ULK PRO A -3 UNP P62837 EXPRESSION TAG SEQADV 5ULK LEU A -2 UNP P62837 EXPRESSION TAG SEQADV 5ULK GLY A -1 UNP P62837 EXPRESSION TAG SEQADV 5ULK SER A 0 UNP P62837 EXPRESSION TAG SEQADV 5ULK SER A 21 UNP P62837 CYS 21 ENGINEERED MUTATION SEQADV 5ULK LYS A 85 UNP P62837 CYS 85 ENGINEERED MUTATION SEQADV 5ULK SER A 107 UNP P62837 CYS 107 ENGINEERED MUTATION SEQADV 5ULK SER A 111 UNP P62837 CYS 111 ENGINEERED MUTATION SEQADV 5ULK GLY C 255 UNP Q6ZSG1 EXPRESSION TAG SEQADV 5ULK PRO C 256 UNP Q6ZSG1 EXPRESSION TAG SEQADV 5ULK LEU C 257 UNP Q6ZSG1 EXPRESSION TAG SEQADV 5ULK GLY C 258 UNP Q6ZSG1 EXPRESSION TAG SEQADV 5ULK SER C 259 UNP Q6ZSG1 EXPRESSION TAG SEQADV 5ULK C UNP Q6ZSG1 ARG 273 DELETION SEQADV 5ULK C UNP Q6ZSG1 ARG 274 DELETION SEQADV 5ULK C UNP Q6ZSG1 PRO 275 DELETION SEQADV 5ULK C UNP Q6ZSG1 GLN 276 DELETION SEQADV 5ULK C UNP Q6ZSG1 ASP 277 DELETION SEQADV 5ULK ALA C 313 UNP Q6ZSG1 MET 313 ENGINEERED MUTATION SEQRES 1 A 152 GLY PRO LEU GLY SER MET ALA LEU LYS ARG ILE HIS LYS SEQRES 2 A 152 GLU LEU ASN ASP LEU ALA ARG ASP PRO PRO ALA GLN SER SEQRES 3 A 152 SER ALA GLY PRO VAL GLY ASP ASP MET PHE HIS TRP GLN SEQRES 4 A 152 ALA THR ILE MET GLY PRO ASN ASP SER PRO TYR GLN GLY SEQRES 5 A 152 GLY VAL PHE PHE LEU THR ILE HIS PHE PRO THR ASP TYR SEQRES 6 A 152 PRO PHE LYS PRO PRO LYS VAL ALA PHE THR THR ARG ILE SEQRES 7 A 152 TYR HIS PRO ASN ILE ASN SER ASN GLY SER ILE LYS LEU SEQRES 8 A 152 ASP ILE LEU ARG SER GLN TRP SER PRO ALA LEU THR ILE SEQRES 9 A 152 SER LYS VAL LEU LEU SER ILE SER SER LEU LEU SER ASP SEQRES 10 A 152 PRO ASN PRO ASP ASP PRO LEU VAL PRO GLU ILE ALA ARG SEQRES 11 A 152 ILE TYR LYS THR ASP ARG GLU LYS TYR ASN ARG ILE ALA SEQRES 12 A 152 ARG GLU TRP THR GLN LYS TYR ALA MET SEQRES 1 B 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 B 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 B 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 B 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 B 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 B 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY SEQRES 1 C 92 GLY PRO LEU GLY SER GLY ALA VAL GLN ASN THR ILE GLU SEQRES 2 C 92 ARG PHE THR PHE PRO HIS LYS TYR LYS LYS GLY LYS GLY SEQRES 3 C 92 LYS LYS ASP GLU GLY GLU GLU SER ASP THR ASP GLU LYS SEQRES 4 C 92 CYS THR ILE CYS LEU SER MET LEU GLU ASP GLY GLU ASP SEQRES 5 C 92 VAL ARG ARG LEU PRO CYS ALA HIS LEU PHE HIS GLN LEU SEQRES 6 C 92 CYS VAL ASP GLN TRP LEU ALA MET SER LYS LYS CYS PRO SEQRES 7 C 92 ILE CYS ARG VAL ASP ILE GLU THR GLN LEU GLY ALA ASP SEQRES 8 C 92 SER HET ZN C 401 1 HET ZN C 402 1 HETNAM ZN ZINC ION FORMUL 4 ZN 2(ZN 2+) HELIX 1 AA1 MET A 1 ASP A 16 1 16 HELIX 2 AA2 LEU A 86 ARG A 90 5 5 HELIX 3 AA3 THR A 98 ASP A 112 1 15 HELIX 4 AA4 VAL A 120 ASP A 130 1 11 HELIX 5 AA5 ASP A 130 ALA A 146 1 17 HELIX 6 AA6 THR B 22 GLY B 35 1 14 HELIX 7 AA7 PRO B 37 ASP B 39 5 3 HELIX 8 AA8 LEU B 56 ASN B 60 5 5 HELIX 9 AA9 GLN C 318 SER C 328 1 11 SHEET 1 AA1 4 SER A 21 PRO A 25 0 SHEET 2 AA1 4 HIS A 32 MET A 38 -1 O GLN A 34 N GLY A 24 SHEET 3 AA1 4 VAL A 49 HIS A 55 -1 O ILE A 54 N TRP A 33 SHEET 4 AA1 4 LYS A 66 PHE A 69 -1 O LYS A 66 N HIS A 55 SHEET 1 AA2 5 THR B 12 GLU B 16 0 SHEET 2 AA2 5 GLN B 2 THR B 7 -1 N VAL B 5 O ILE B 13 SHEET 3 AA2 5 THR B 66 LEU B 71 1 O LEU B 67 N PHE B 4 SHEET 4 AA2 5 GLN B 41 PHE B 45 -1 N ILE B 44 O HIS B 68 SHEET 5 AA2 5 LYS B 48 GLN B 49 -1 O LYS B 48 N PHE B 45 SHEET 1 AA3 2 VAL C 307 ARG C 309 0 SHEET 2 AA3 2 LEU C 315 HIS C 317 -1 O PHE C 316 N ARG C 308 LINK SG CYS C 294 ZN ZN C 402 1555 1555 2.32 LINK SG CYS C 297 ZN ZN C 402 1555 1555 2.37 LINK SG CYS C 312 ZN ZN C 401 1555 1555 2.44 LINK ND1 HIS C 317 ZN ZN C 402 1555 1555 2.27 LINK SG CYS C 320 ZN ZN C 402 1555 1555 2.18 LINK SG CYS C 331 ZN ZN C 401 1555 1555 2.15 LINK SG CYS C 334 ZN ZN C 401 1555 1555 2.40 CISPEP 1 TYR A 60 PRO A 61 0 3.14 SITE 1 AC1 4 CYS C 312 HIS C 314 CYS C 331 CYS C 334 SITE 1 AC2 4 CYS C 294 CYS C 297 HIS C 317 CYS C 320 CRYST1 69.109 73.714 121.559 90.00 90.00 90.00 C 2 2 21 8 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 0.014470 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013566 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008226 0.00000