HEADER LIGASE/TRANSFERASE 11-FEB-19 6NYD TITLE CRYSTAL STRUCTURE OF S. CEREVISIAE UBC3 (CDC34) COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2-34 KDA; COMPND 3 CHAIN: C; COMPND 4 FRAGMENT: RESIDUES 3-195; COMPND 5 SYNONYM: CELL DIVISION CONTROL PROTEIN 34,E2 UBIQUITIN-CONJUGATING COMPND 6 ENZYME 3,E3 UBIQUITIN LIGASE COMPLEX SCF SUBUNIT CDC34,UBIQUITIN COMPND 7 CARRIER PROTEIN,UBIQUITIN-PROTEIN LIGASE; COMPND 8 EC: 2.3.2.23; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / SOURCE 3 S288C); SOURCE 4 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 5 ORGANISM_TAXID: 559292; SOURCE 6 STRAIN: ATCC 204508 / S288C; SOURCE 7 GENE: CDC34, DNA6, UBC3, YDR054C, D4211, YD9609.08C; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) CODON PLUS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET29NTEV KEYWDS CONFORMATIONAL CHANGE, THIOESTER, ADENYLATION, THIOESTER TRANSFER, KEYWDS 2 TRANSTHIOESTERIFICATION, ATP-BINDING, UBIQUITIN E2-BINDING, KEYWDS 3 UBIQUITINATION, LIGASE, LIGASE-TRANSFERASE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.K.OLSEN,K.M.WILLIAMS,J.H.ATKISON REVDAT 3 11-OCT-23 6NYD 1 LINK REVDAT 2 01-JAN-20 6NYD 1 REMARK REVDAT 1 07-AUG-19 6NYD 0 JRNL AUTH K.M.WILLIAMS,S.QIE,J.H.ATKISON,S.SALAZAR-ARANGO, JRNL AUTH 2 J.ALAN DIEHL,S.K.OLSEN JRNL TITL STRUCTURAL INSIGHTS INTO E1 RECOGNITION AND THE JRNL TITL 2 UBIQUITIN-CONJUGATING ACTIVITY OF THE E2 ENZYME CDC34. JRNL REF NAT COMMUN V. 10 3296 2019 JRNL REFN ESSN 2041-1723 JRNL PMID 31341161 JRNL DOI 10.1038/S41467-019-11061-8 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.39 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 25353 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.880 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 37.3969 - 3.9704 0.97 1754 150 0.1731 0.1972 REMARK 3 2 3.9704 - 3.1519 1.00 1720 147 0.1547 0.1824 REMARK 3 3 3.1519 - 2.7536 1.00 1692 145 0.1709 0.1977 REMARK 3 4 2.7536 - 2.5019 1.00 1674 144 0.1666 0.2039 REMARK 3 5 2.5019 - 2.3226 1.00 1679 143 0.1613 0.1958 REMARK 3 6 2.3226 - 2.1857 1.00 1652 142 0.1568 0.1869 REMARK 3 7 2.1857 - 2.0763 1.00 1674 142 0.1625 0.1850 REMARK 3 8 2.0763 - 1.9859 1.00 1646 141 0.1728 0.2146 REMARK 3 9 1.9859 - 1.9094 1.00 1644 141 0.1808 0.2111 REMARK 3 10 1.9094 - 1.8436 1.00 1660 142 0.1997 0.2196 REMARK 3 11 1.8436 - 1.7859 1.00 1647 141 0.2114 0.2538 REMARK 3 12 1.7859 - 1.7349 1.00 1634 140 0.2212 0.2714 REMARK 3 13 1.7349 - 1.6892 1.00 1638 141 0.2484 0.2597 REMARK 3 14 1.6892 - 1.6480 0.99 1640 140 0.2906 0.3315 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.370 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 : 0.010 1450 REMARK 3 ANGLE : 1.072 1978 REMARK 3 CHIRALITY : 0.059 212 REMARK 3 PLANARITY : 0.008 264 REMARK 3 DIHEDRAL : 13.221 901 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 3 THROUGH 20 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.4364 -15.0201 -1.0817 REMARK 3 T TENSOR REMARK 3 T11: 0.2091 T22: 0.3176 REMARK 3 T33: 0.2388 T12: -0.0183 REMARK 3 T13: -0.0160 T23: 0.0457 REMARK 3 L TENSOR REMARK 3 L11: 6.8802 L22: 6.7381 REMARK 3 L33: 3.9576 L12: -2.1779 REMARK 3 L13: -1.7077 L23: 2.9135 REMARK 3 S TENSOR REMARK 3 S11: -0.0442 S12: -0.2036 S13: -0.4272 REMARK 3 S21: 0.0136 S22: -0.2833 S23: 0.2189 REMARK 3 S31: 0.6059 S32: -0.3050 S33: 0.1604 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 21 THROUGH 37 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.7942 -18.2288 -12.5315 REMARK 3 T TENSOR REMARK 3 T11: 0.4081 T22: 0.4863 REMARK 3 T33: 0.4632 T12: 0.0611 REMARK 3 T13: -0.0273 T23: -0.0381 REMARK 3 L TENSOR REMARK 3 L11: 5.2987 L22: 2.1193 REMARK 3 L33: 5.3770 L12: 0.0787 REMARK 3 L13: 2.4727 L23: 2.2408 REMARK 3 S TENSOR REMARK 3 S11: 0.3304 S12: 0.2238 S13: -0.4299 REMARK 3 S21: 0.0291 S22: 0.1197 S23: -0.5966 REMARK 3 S31: 0.5372 S32: 0.4758 S33: -0.2023 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 38 THROUGH 59 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.5655 -15.0377 -21.7969 REMARK 3 T TENSOR REMARK 3 T11: 0.2823 T22: 0.2496 REMARK 3 T33: 0.2966 T12: -0.0308 REMARK 3 T13: 0.0292 T23: 0.0096 REMARK 3 L TENSOR REMARK 3 L11: 3.2710 L22: 2.2199 REMARK 3 L33: 7.0562 L12: 0.8993 REMARK 3 L13: 1.1940 L23: 0.2990 REMARK 3 S TENSOR REMARK 3 S11: 0.0315 S12: 0.3082 S13: -0.1962 REMARK 3 S21: -0.2269 S22: 0.1235 S23: -0.2812 REMARK 3 S31: 0.6346 S32: -0.0399 S33: -0.1399 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 60 THROUGH 75 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.9573 -7.1750 -8.4290 REMARK 3 T TENSOR REMARK 3 T11: 0.2065 T22: 0.2618 REMARK 3 T33: 0.2924 T12: -0.0130 REMARK 3 T13: -0.0214 T23: 0.0147 REMARK 3 L TENSOR REMARK 3 L11: 4.3550 L22: 2.0337 REMARK 3 L33: 3.0843 L12: -1.4827 REMARK 3 L13: -1.4612 L23: 1.0204 REMARK 3 S TENSOR REMARK 3 S11: 0.1662 S12: -0.5038 S13: 0.2209 REMARK 3 S21: 0.1045 S22: 0.1217 S23: -0.1365 REMARK 3 S31: -0.5517 S32: 0.0911 S33: -0.1168 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 76 THROUGH 84 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.4645 -4.3300 -22.0443 REMARK 3 T TENSOR REMARK 3 T11: 0.3043 T22: 0.2375 REMARK 3 T33: 0.3644 T12: 0.0282 REMARK 3 T13: 0.0259 T23: 0.0477 REMARK 3 L TENSOR REMARK 3 L11: 3.7162 L22: 1.3952 REMARK 3 L33: 6.6116 L12: 0.1701 REMARK 3 L13: -0.3627 L23: -2.4240 REMARK 3 S TENSOR REMARK 3 S11: 0.2029 S12: 0.2496 S13: 0.5127 REMARK 3 S21: 0.1235 S22: -0.0374 S23: -0.4756 REMARK 3 S31: -1.0134 S32: 0.2398 S33: 0.0357 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 85 THROUGH 99 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.7263 -3.0104 -21.0386 REMARK 3 T TENSOR REMARK 3 T11: 0.3348 T22: 0.2206 REMARK 3 T33: 0.3575 T12: 0.0181 REMARK 3 T13: -0.0259 T23: 0.0212 REMARK 3 L TENSOR REMARK 3 L11: 4.4068 L22: 1.2352 REMARK 3 L33: 7.6004 L12: -2.2781 REMARK 3 L13: 0.9519 L23: 0.1379 REMARK 3 S TENSOR REMARK 3 S11: -0.1670 S12: 0.0092 S13: 0.5700 REMARK 3 S21: -0.1015 S22: 0.1792 S23: -0.0105 REMARK 3 S31: -0.5830 S32: -0.5890 S33: -0.1394 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 100 THROUGH 120 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.0258 -9.8348 -8.0642 REMARK 3 T TENSOR REMARK 3 T11: 0.2602 T22: 0.3857 REMARK 3 T33: 0.3541 T12: 0.0340 REMARK 3 T13: 0.0203 T23: 0.0356 REMARK 3 L TENSOR REMARK 3 L11: 9.5614 L22: 6.7732 REMARK 3 L33: 4.0745 L12: -5.1023 REMARK 3 L13: 3.6067 L23: -5.0925 REMARK 3 S TENSOR REMARK 3 S11: 0.0025 S12: 0.9066 S13: 0.4673 REMARK 3 S21: 0.0241 S22: 0.0792 S23: 0.4744 REMARK 3 S31: -0.4622 S32: -0.5200 S33: -0.1565 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 121 THROUGH 152 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.1175 -8.6704 -26.5384 REMARK 3 T TENSOR REMARK 3 T11: 0.3174 T22: 0.1944 REMARK 3 T33: 0.2756 T12: 0.0139 REMARK 3 T13: -0.0314 T23: -0.0031 REMARK 3 L TENSOR REMARK 3 L11: 2.1439 L22: 2.9819 REMARK 3 L33: 6.8617 L12: -1.2434 REMARK 3 L13: 2.5668 L23: -3.4069 REMARK 3 S TENSOR REMARK 3 S11: -0.0049 S12: 0.0363 S13: 0.0913 REMARK 3 S21: -0.3737 S22: -0.0468 S23: 0.0239 REMARK 3 S31: 0.0816 S32: -0.0681 S33: -0.1497 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 153 THROUGH 170 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.1300 -8.9479 -35.2112 REMARK 3 T TENSOR REMARK 3 T11: 0.5456 T22: 0.4219 REMARK 3 T33: 0.3846 T12: -0.0338 REMARK 3 T13: 0.1014 T23: 0.0081 REMARK 3 L TENSOR REMARK 3 L11: 3.9172 L22: 4.7569 REMARK 3 L33: 8.4055 L12: -3.4950 REMARK 3 L13: 4.7646 L23: -2.5127 REMARK 3 S TENSOR REMARK 3 S11: 0.1365 S12: 1.1794 S13: 0.3067 REMARK 3 S21: -1.3257 S22: -0.4231 S23: -0.7818 REMARK 3 S31: 0.1845 S32: 0.9218 S33: 0.2161 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 171 THROUGH 178 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.1530 -19.3868 -24.0609 REMARK 3 T TENSOR REMARK 3 T11: 0.5511 T22: 0.7525 REMARK 3 T33: 0.9223 T12: 0.1202 REMARK 3 T13: 0.0505 T23: -0.1793 REMARK 3 L TENSOR REMARK 3 L11: 6.6348 L22: 4.5773 REMARK 3 L33: 6.4177 L12: -5.2171 REMARK 3 L13: -2.0476 L23: -0.0286 REMARK 3 S TENSOR REMARK 3 S11: -0.8515 S12: 0.6692 S13: -0.5017 REMARK 3 S21: 0.7067 S22: 0.3060 S23: -1.1321 REMARK 3 S31: 0.4190 S32: 0.0044 S33: 0.2474 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 6NYD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1000239665. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-NOV-16 REMARK 200 TEMPERATURE (KELVIN) : 108 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25422 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.71 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.15100 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: PHASER REMARK 200 STARTING MODEL: 4MDK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.06 M ZINC ACETATE, 0.108MM SODIUM REMARK 280 CACODYLATE, 14.4% PEG 8,000, 20% GLYCEROL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 291K 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 20.04200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.84200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.51100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.84200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.04200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.51100 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 C -1 REMARK 465 ALA C 0 REMARK 465 MET C 1 REMARK 465 ALA C 2 REMARK 465 GLY C 103 REMARK 465 ASP C 104 REMARK 465 PRO C 105 REMARK 465 MET C 106 REMARK 465 THR C 107 REMARK 465 ASP C 108 REMARK 465 GLU C 109 REMARK 465 PRO C 110 REMARK 465 ASP C 111 REMARK 465 ALA C 112 REMARK 465 THR C 179 REMARK 465 SER C 180 REMARK 465 GLU C 181 REMARK 465 SER C 182 REMARK 465 ALA C 183 REMARK 465 TYR C 184 REMARK 465 ILE C 185 REMARK 465 SER C 186 REMARK 465 GLN C 187 REMARK 465 SER C 188 REMARK 465 LYS C 189 REMARK 465 LEU C 190 REMARK 465 ASP C 191 REMARK 465 GLU C 192 REMARK 465 PRO C 193 REMARK 465 GLU C 194 REMARK 465 SER C 195 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 C 816 O HOH C 868 2.08 REMARK 500 O THR C 114 O HOH C 801 2.09 REMARK 500 OE1 GLU C 163 O HOH C 802 2.12 REMARK 500 O HOH C 830 O HOH C 834 2.16 REMARK 500 OH TYR C 55 O HOH C 803 2.18 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 ASP C 36 16.29 59.91 REMARK 500 SER C 37 -13.88 -148.22 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 703 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 30 NE2 REMARK 620 2 GLU C 32 OE2 102.0 REMARK 620 3 HOH C 888 O 118.3 103.0 REMARK 620 4 HOH C 897 O 131.5 102.1 96.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 52 OD1 REMARK 620 2 ASP C 52 OD2 57.9 REMARK 620 3 CYS C 95 SG 3.0 55.9 REMARK 620 4 HIS C 100 NE2 2.2 60.0 5.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 704 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 56 NE2 REMARK 620 2 HOH C 889 O 100.1 REMARK 620 N 1 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 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT C 705 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT C 706 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT C 707 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NYA RELATED DB: PDB REMARK 900 RELATED ID: 6NYO RELATED DB: PDB DBREF 6NYD C 3 195 UNP P14682 UBC3_YEAST 3 195 SEQADV 6NYD GLY C -1 UNP P14682 EXPRESSION TAG SEQADV 6NYD ALA C 0 UNP P14682 EXPRESSION TAG SEQADV 6NYD MET C 1 UNP P14682 EXPRESSION TAG SEQADV 6NYD ALA C 2 UNP P14682 EXPRESSION TAG SEQRES 1 C 197 GLY ALA MET ALA SER ARG LYS SER THR ALA SER SER LEU SEQRES 2 C 197 LEU LEU ARG GLN TYR ARG GLU LEU THR ASP PRO LYS LYS SEQRES 3 C 197 ALA ILE PRO SER PHE HIS ILE GLU LEU GLU ASP ASP SER SEQRES 4 C 197 ASN ILE PHE THR TRP ASN ILE GLY VAL MET VAL LEU ASN SEQRES 5 C 197 GLU ASP SER ILE TYR HIS GLY GLY PHE PHE LYS ALA GLN SEQRES 6 C 197 MET ARG PHE PRO GLU ASP PHE PRO PHE SER PRO PRO GLN SEQRES 7 C 197 PHE ARG PHE THR PRO ALA ILE TYR HIS PRO ASN VAL TYR SEQRES 8 C 197 ARG ASP GLY ARG LEU CYS ILE SER ILE LEU HIS GLN SER SEQRES 9 C 197 GLY ASP PRO MET THR ASP GLU PRO ASP ALA GLU THR TRP SEQRES 10 C 197 SER PRO VAL GLN THR VAL GLU SER VAL LEU ILE SER ILE SEQRES 11 C 197 VAL SER LEU LEU GLU ASP PRO ASN ILE ASN SER PRO ALA SEQRES 12 C 197 ASN VAL ASP ALA ALA VAL ASP TYR ARG LYS ASN PRO GLU SEQRES 13 C 197 GLN TYR LYS GLN ARG VAL LYS MET GLU VAL GLU ARG SER SEQRES 14 C 197 LYS GLN ASP ILE PRO LYS GLY PHE ILE MET PRO THR SER SEQRES 15 C 197 GLU SER ALA TYR ILE SER GLN SER LYS LEU ASP GLU PRO SEQRES 16 C 197 GLU SER HET ZN C 701 1 HET ZN C 702 1 HET ZN C 703 1 HET ZN C 704 1 HET ACT C 705 7 HET ACT C 706 7 HET ACT C 707 7 HETNAM ZN ZINC ION HETNAM ACT ACETATE ION FORMUL 2 ZN 4(ZN 2+) FORMUL 6 ACT 3(C2 H3 O2 1-) FORMUL 9 HOH *103(H2 O) HELIX 1 AA1 SER C 3 ASP C 21 1 19 HELIX 2 AA2 ASP C 35 SER C 37 5 3 HELIX 3 AA3 ILE C 96 HIS C 100 5 5 HELIX 4 AA4 THR C 120 ASP C 134 1 15 HELIX 5 AA5 ASN C 142 ASN C 152 1 11 HELIX 6 AA6 ASN C 152 LYS C 168 1 17 HELIX 7 AA7 GLN C 169 ILE C 171 5 3 SHEET 1 AA1 4 PHE C 29 GLU C 34 0 SHEET 2 AA1 4 ASN C 38 VAL C 46 -1 O THR C 41 N GLU C 34 SHEET 3 AA1 4 PHE C 60 ARG C 65 -1 O PHE C 60 N VAL C 46 SHEET 4 AA1 4 GLN C 76 PHE C 79 -1 O ARG C 78 N GLN C 63 LINK NE2 HIS C 30 ZN ZN C 703 1555 1555 1.95 LINK OE2 GLU C 32 ZN ZN C 703 1555 1555 2.00 LINK OD1 ASP C 52 ZN ZN C 701 1555 3544 2.38 LINK OD2 ASP C 52 ZN ZN C 701 1555 3544 2.20 LINK NE2 HIS C 56 ZN ZN C 704 1555 1555 2.14 LINK SG CYS C 95 ZN ZN C 701 1555 1555 2.23 LINK NE2 HIS C 100 ZN ZN C 701 1555 1555 1.93 LINK ZN ZN C 703 O HOH C 888 1555 1555 2.20 LINK ZN ZN C 703 O HOH C 897 1555 1555 2.63 LINK ZN ZN C 704 O HOH C 889 1555 1555 2.20 CISPEP 1 PHE C 70 PRO C 71 0 7.81 CISPEP 2 THR C 80 PRO C 81 0 7.30 CISPEP 3 GLN C 101 SER C 102 0 15.31 SITE 1 AC1 3 ASP C 52 CYS C 95 HIS C 100 SITE 1 AC2 4 ASP C 144 ASP C 148 GLN C 155 HOH C 806 SITE 1 AC3 4 HIS C 30 GLU C 32 HOH C 888 HOH C 897 SITE 1 AC4 3 GLU C 51 HIS C 56 HOH C 889 SITE 1 AC5 4 SER C 127 SER C 130 ASP C 144 HOH C 815 SITE 1 AC6 8 LEU C 13 ARG C 17 PHE C 72 SER C 73 SITE 2 AC6 8 GLN C 101 SER C 102 TRP C 115 HOH C 860 SITE 1 AC7 5 SER C 37 ASN C 38 ILE C 39 PRO C 117 SITE 2 AC7 5 HOH C 811 CRYST1 40.084 49.022 103.684 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 0.024948 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020399 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009645 0.00000