HEADER HYDROLASE 21-AUG-17 6AQR TITLE SAGA DUB MODULE UBP8(C146A)/SGF11/SUS1/SGF73 BOUND TO MONOUBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 8; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DEUBIQUITINATING ENZYME 8,UBIQUITIN THIOESTERASE 8, COMPND 5 UBIQUITIN-SPECIFIC-PROCESSING PROTEASE 8; COMPND 6 EC: 3.4.19.12; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: TRANSCRIPTION AND MRNA EXPORT FACTOR SUS1; COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: SAGA-ASSOCIATED FACTOR 11; COMPND 15 CHAIN: C; COMPND 16 SYNONYM: 11 KDA SAGA-ASSOCIATED FACTOR; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 4; COMPND 19 MOLECULE: POLYUBIQUITIN-C; COMPND 20 CHAIN: D; COMPND 21 ENGINEERED: YES; COMPND 22 MOL_ID: 5; COMPND 23 MOLECULE: SAGA-ASSOCIATED FACTOR 73; COMPND 24 CHAIN: E; COMPND 25 SYNONYM: 73 KDA SAGA-ASSOCIATED FACTOR,SAGA HISTONE ACETYLTRANSFERASE COMPND 26 COMPLEX 73 KDA SUBUNIT; COMPND 27 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: UBP8, YMR223W, YM9959.05; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 11 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 12 ORGANISM_TAXID: 559292; SOURCE 13 STRAIN: ATCC 204508 / S288C; SOURCE 14 GENE: SUS1, YBR111W-A; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 19 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 20 ORGANISM_TAXID: 559292; SOURCE 21 STRAIN: ATCC 204508 / S288C; SOURCE 22 GENE: SGF11, YPL047W; SOURCE 23 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 24 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 25 MOL_ID: 4; SOURCE 26 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 27 ORGANISM_COMMON: HUMAN; SOURCE 28 ORGANISM_TAXID: 9606; SOURCE 29 GENE: UBC; SOURCE 30 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 31 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 32 MOL_ID: 5; SOURCE 33 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 34 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 35 ORGANISM_TAXID: 559292; SOURCE 36 STRAIN: ATCC 204508 / S288C; SOURCE 37 GENE: SGF73, YGL066W; SOURCE 38 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 39 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HISTONE DEUBIQUITINATION, UBIQUITIN, TRANSCRIPTION, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.E.MORROW,M.T.MORGAN,C.WOLBERGER REVDAT 5 04-OCT-23 6AQR 1 REMARK REVDAT 4 01-JAN-20 6AQR 1 REMARK REVDAT 3 17-OCT-18 6AQR 1 JRNL REVDAT 2 12-SEP-18 6AQR 1 JRNL REVDAT 1 04-JUL-18 6AQR 0 JRNL AUTH M.E.MORROW,M.T.MORGAN,M.CLERICI,K.GROWKOVA,M.YAN,D.KOMANDER, JRNL AUTH 2 T.K.SIXMA,M.SIMICEK,C.WOLBERGER JRNL TITL ACTIVE SITE ALANINE MUTATIONS CONVERT DEUBIQUITINASES INTO JRNL TITL 2 HIGH-AFFINITY UBIQUITIN-BINDING PROTEINS. JRNL REF EMBO REP. V. 19 2018 JRNL REFN ESSN 1469-3178 JRNL PMID 30150323 JRNL DOI 10.15252/EMBR.201745680 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 76.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 51099 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) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2627 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6256 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 264 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.25000 REMARK 3 B22 (A**2) : 0.42000 REMARK 3 B33 (A**2) : -0.67000 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): 0.222 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.191 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.144 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.604 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6AQR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1000229661. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-MAY-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.17 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53790 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 46.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL 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) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.57200 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 2.6.0 REMARK 200 STARTING MODEL: 3MHS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.0 17% PEG3350 0.1 M REMARK 280 AMMONIUM SULFATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 39.37750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.42300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.58850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.42300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.37750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.58850 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 20720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -141.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 -4 REMARK 465 ALA A -3 REMARK 465 ALA A -2 REMARK 465 ALA A -1 REMARK 465 ALA A 0 REMARK 465 MET A 1 REMARK 465 THR A 200 REMARK 465 LYS A 201 REMARK 465 GLN A 202 REMARK 465 ALA A 203 REMARK 465 SER A 204 REMARK 465 SER A 205 REMARK 465 SER A 206 REMARK 465 SER A 207 REMARK 465 THR A 208 REMARK 465 LYS A 261 REMARK 465 GLU A 262 REMARK 465 VAL A 263 REMARK 465 SER A 264 REMARK 465 ARG A 265 REMARK 465 ALA A 266 REMARK 465 ASN A 267 REMARK 465 ASN A 268 REMARK 465 LYS A 269 REMARK 465 LYS A 395 REMARK 465 GLU A 396 REMARK 465 LYS A 397 REMARK 465 ASP A 398 REMARK 465 LYS A 399 REMARK 465 HIS A 400 REMARK 465 SER A 401 REMARK 465 GLU A 402 REMARK 465 ASN A 403 REMARK 465 GLY A 404 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 MET B 3 REMARK 465 ASP B 4 REMARK 465 GLN B 96 REMARK 465 MET C 1 REMARK 465 THR C 2 REMARK 465 GLU C 3 REMARK 465 GLU C 4 REMARK 465 THR C 5 REMARK 465 ILE C 6 REMARK 465 GLU C 66 REMARK 465 ARG C 95 REMARK 465 GLY C 96 REMARK 465 ALA C 97 REMARK 465 ARG C 98 REMARK 465 ARG C 99 REMARK 465 MET E 1 REMARK 465 ARG E 2 REMARK 465 SER E 3 REMARK 465 SER E 22 REMARK 465 GLN E 23 REMARK 465 GLY E 24 REMARK 465 SER E 25 REMARK 465 ASN E 96 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 ARG A 132 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 LEU B 34 CB - CG - CD2 ANGL. DEV. = -10.2 DEGREES REMARK 500 ARG C 78 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG C 78 NE - CZ - NH2 ANGL. DEV. = 3.8 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 ASN A 91 -3.27 -145.75 REMARK 500 ARG A 177 -12.80 76.06 REMARK 500 THR A 210 53.63 -141.50 REMARK 500 GLN A 293 15.45 59.40 REMARK 500 ASN A 295 57.42 -110.74 REMARK 500 LEU A 369 38.73 -78.85 REMARK 500 ASP A 444 -120.35 48.41 REMARK 500 SER B 55 145.66 -172.48 REMARK 500 SER C 68 -20.42 80.07 REMARK 500 LEU D 71 -164.01 -110.53 REMARK 500 LEU E 94 23.94 -73.68 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 A 503 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 4 SG REMARK 620 2 HIS A 6 ND1 103.8 REMARK 620 3 CYS A 96 SG 111.8 108.1 REMARK 620 4 CYS A 99 SG 111.8 104.7 115.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 46 SG REMARK 620 2 CYS A 49 SG 114.1 REMARK 620 3 CYS A 68 SG 112.2 115.8 REMARK 620 4 HIS A 73 ND1 105.8 104.0 103.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 60 SG REMARK 620 2 CYS A 63 SG 118.8 REMARK 620 3 HIS A 77 NE2 115.5 100.9 REMARK 620 4 HIS A 83 ND1 103.4 112.9 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 504 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 170 NE2 REMARK 620 2 CYS A 174 SG 95.1 REMARK 620 3 CYS A 182 SG 106.4 114.5 REMARK 620 4 CYS A 185 SG 113.6 108.1 117.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 505 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 250 ND1 REMARK 620 2 CYS A 271 SG 104.3 REMARK 620 3 CYS A 273 SG 119.4 112.3 REMARK 620 4 HIS A 276 ND1 97.4 114.0 108.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 506 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 289 SG REMARK 620 2 CYS A 292 SG 123.7 REMARK 620 3 CYS A 336 SG 109.7 100.4 REMARK 620 4 CYS A 339 SG 97.5 118.3 106.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 73 SG REMARK 620 2 CYS C 76 SG 104.7 REMARK 620 3 HIS C 88 NE2 113.4 106.8 REMARK 620 4 CYS C 92 SG 115.2 112.7 103.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN E 101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS E 78 SG REMARK 620 2 CYS E 81 SG 105.2 REMARK 620 3 HIS E 93 NE2 115.0 109.2 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 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN E 101 DBREF 6AQR A 1 471 UNP P50102 UBP8_YEAST 1 471 DBREF 6AQR B 1 96 UNP Q6WNK7 SUS1_YEAST 1 96 DBREF 6AQR C 1 99 UNP Q03067 SGF11_YEAST 1 99 DBREF 6AQR D 1 76 UNP P0CG48 UBC_HUMAN 1 76 DBREF 6AQR E 1 96 UNP P53165 SGF73_YEAST 1 96 SEQADV 6AQR GLY A -4 UNP P50102 EXPRESSION TAG SEQADV 6AQR ALA A -3 UNP P50102 EXPRESSION TAG SEQADV 6AQR ALA A -2 UNP P50102 EXPRESSION TAG SEQADV 6AQR ALA A -1 UNP P50102 EXPRESSION TAG SEQADV 6AQR ALA A 0 UNP P50102 EXPRESSION TAG SEQADV 6AQR ALA A 146 UNP P50102 CYS 146 ENGINEERED MUTATION SEQRES 1 A 476 GLY ALA ALA ALA ALA MET SER ILE CYS PRO HIS ILE GLN SEQRES 2 A 476 GLN VAL PHE GLN ASN GLU LYS SER LYS ASP GLY VAL LEU SEQRES 3 A 476 LYS THR CYS ASN ALA ALA ARG TYR ILE LEU ASN HIS SER SEQRES 4 A 476 VAL PRO LYS GLU LYS PHE LEU ASN THR MET LYS CYS GLY SEQRES 5 A 476 THR CYS HIS GLU ILE ASN SER GLY ALA THR PHE MET CYS SEQRES 6 A 476 LEU GLN CYS GLY PHE CYS GLY CYS TRP ASN HIS SER HIS SEQRES 7 A 476 PHE LEU SER HIS SER LYS GLN ILE GLY HIS ILE PHE GLY SEQRES 8 A 476 ILE ASN SER ASN ASN GLY LEU LEU PHE CYS PHE LYS CYS SEQRES 9 A 476 GLU ASP TYR ILE GLY ASN ILE ASP LEU ILE ASN ASP ALA SEQRES 10 A 476 ILE LEU ALA LYS TYR TRP ASP ASP VAL CYS THR LYS THR SEQRES 11 A 476 MET VAL PRO SER MET GLU ARG ARG ASP GLY LEU SER GLY SEQRES 12 A 476 LEU ILE ASN MET GLY SER THR ALA PHE MET SER SER ILE SEQRES 13 A 476 LEU GLN CYS LEU ILE HIS ASN PRO TYR PHE ILE ARG HIS SEQRES 14 A 476 SER MET SER GLN ILE HIS SER ASN ASN CYS LYS VAL ARG SEQRES 15 A 476 SER PRO ASP LYS CYS PHE SER CYS ALA LEU ASP LYS ILE SEQRES 16 A 476 VAL HIS GLU LEU TYR GLY ALA LEU ASN THR LYS GLN ALA SEQRES 17 A 476 SER SER SER SER THR SER THR ASN ARG GLN THR GLY PHE SEQRES 18 A 476 ILE TYR LEU LEU THR CYS ALA TRP LYS ILE ASN GLN ASN SEQRES 19 A 476 LEU ALA GLY TYR SER GLN GLN ASP ALA HIS GLU PHE TRP SEQRES 20 A 476 GLN PHE ILE ILE ASN GLN ILE HIS GLN SER TYR VAL LEU SEQRES 21 A 476 ASP LEU PRO ASN ALA LYS GLU VAL SER ARG ALA ASN ASN SEQRES 22 A 476 LYS GLN CYS GLU CYS ILE VAL HIS THR VAL PHE GLU GLY SEQRES 23 A 476 SER LEU GLU SER SER ILE VAL CYS PRO GLY CYS GLN ASN SEQRES 24 A 476 ASN SER LYS THR THR ILE ASP PRO PHE LEU ASP LEU SER SEQRES 25 A 476 LEU ASP ILE LYS ASP LYS LYS LYS LEU TYR GLU CYS LEU SEQRES 26 A 476 ASP SER PHE HIS LYS LYS GLU GLN LEU LYS ASP PHE ASN SEQRES 27 A 476 TYR HIS CYS GLY GLU CYS ASN SER THR GLN ASP ALA ILE SEQRES 28 A 476 LYS GLN LEU GLY ILE HIS LYS LEU PRO SER VAL LEU VAL SEQRES 29 A 476 LEU GLN LEU LYS ARG PHE GLU HIS LEU LEU ASN GLY SER SEQRES 30 A 476 ASN ARG LYS LEU ASP ASP PHE ILE GLU PHE PRO THR TYR SEQRES 31 A 476 LEU ASN MET LYS ASN TYR CYS SER THR LYS GLU LYS ASP SEQRES 32 A 476 LYS HIS SER GLU ASN GLY LYS VAL PRO ASP ILE ILE TYR SEQRES 33 A 476 GLU LEU ILE GLY ILE VAL SER HIS LYS GLY THR VAL ASN SEQRES 34 A 476 GLU GLY HIS TYR ILE ALA PHE CYS LYS ILE SER GLY GLY SEQRES 35 A 476 GLN TRP PHE LYS PHE ASN ASP SER MET VAL SER SER ILE SEQRES 36 A 476 SER GLN GLU GLU VAL LEU LYS GLU GLN ALA TYR LEU LEU SEQRES 37 A 476 PHE TYR THR ILE ARG GLN VAL ASN SEQRES 1 B 96 MET THR MET ASP THR ALA GLN LEU LYS SER GLN ILE GLN SEQRES 2 B 96 GLN TYR LEU VAL GLU SER GLY ASN TYR GLU LEU ILE SER SEQRES 3 B 96 ASN GLU LEU LYS ALA ARG LEU LEU GLN GLU GLY TRP VAL SEQRES 4 B 96 ASP LYS VAL LYS ASP LEU THR LYS SER GLU MET ASN ILE SEQRES 5 B 96 ASN GLU SER THR ASN PHE THR GLN ILE LEU SER THR VAL SEQRES 6 B 96 GLU PRO LYS ALA LEU GLU MET VAL SER ASP SER THR ARG SEQRES 7 B 96 GLU THR VAL LEU LYS GLN ILE ARG GLU PHE LEU GLU GLU SEQRES 8 B 96 ILE VAL ASP THR GLN SEQRES 1 C 99 MET THR GLU GLU THR ILE THR ILE ASP SER ILE SER ASN SEQRES 2 C 99 GLY ILE LEU ASN ASN LEU LEU THR THR LEU ILE GLN ASP SEQRES 3 C 99 ILE VAL ALA ARG GLU THR THR GLN GLN GLN LEU LEU LYS SEQRES 4 C 99 THR ARG TYR PRO ASP LEU ARG SER TYR TYR PHE ASP PRO SEQRES 5 C 99 ASN GLY SER LEU ASP ILE ASN GLY LEU GLN LYS GLN GLN SEQRES 6 C 99 GLU SER SER GLN TYR ILE HIS CYS GLU ASN CYS GLY ARG SEQRES 7 C 99 ASP VAL SER ALA ASN ARG LEU ALA ALA HIS LEU GLN ARG SEQRES 8 C 99 CYS LEU SER ARG GLY ALA ARG ARG SEQRES 1 D 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 D 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 D 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 D 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 D 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 D 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY SEQRES 1 E 96 MET ARG SER GLY ASP ALA GLU ILE LYS GLY ILE LYS PRO SEQRES 2 E 96 LYS VAL ILE GLU GLU TYR SER LEU SER GLN GLY SER GLY SEQRES 3 E 96 PRO SER ASN ASP SER TRP LYS SER LEU MET SER SER ALA SEQRES 4 E 96 LYS ASP THR PRO LEU GLN TYR ASP HIS MET ASN ARG GLU SEQRES 5 E 96 SER LEU LYS LYS TYR PHE ASN PRO ASN ALA GLN LEU ILE SEQRES 6 E 96 GLU ASP PRO LEU ASP LYS PRO ILE GLN TYR ARG VAL CYS SEQRES 7 E 96 GLU LYS CYS GLY LYS PRO LEU ALA LEU THR ALA ILE VAL SEQRES 8 E 96 ASP HIS LEU GLU ASN HET ZN A 501 1 HET ZN A 502 1 HET ZN A 503 1 HET ZN A 504 1 HET ZN A 505 1 HET ZN A 506 1 HET ZN C 101 1 HET ZN E 101 1 HETNAM ZN ZINC ION FORMUL 6 ZN 8(ZN 2+) FORMUL 14 HOH *264(H2 O) HELIX 1 AA1 CYS A 4 PHE A 11 1 8 HELIX 2 AA2 ASN A 13 HIS A 33 1 21 HELIX 3 AA3 VAL A 35 MET A 44 1 10 HELIX 4 AA4 SER A 72 GLY A 82 1 11 HELIX 5 AA5 ILE A 106 ASP A 111 1 6 HELIX 6 AA6 ALA A 112 LYS A 116 5 5 HELIX 7 AA7 TYR A 117 LYS A 124 1 8 HELIX 8 AA8 SER A 129 ARG A 133 5 5 HELIX 9 AA9 THR A 145 HIS A 157 1 13 HELIX 10 AB1 ASN A 158 SER A 167 1 10 HELIX 11 AB2 GLN A 168 CYS A 174 1 7 HELIX 12 AB3 CYS A 182 GLY A 196 1 15 HELIX 13 AB4 GLN A 213 ASN A 227 1 15 HELIX 14 AB5 GLN A 228 ALA A 231 5 4 HELIX 15 AB6 ALA A 238 LEU A 257 1 20 HELIX 16 AB7 LYS A 315 LYS A 325 1 11 HELIX 17 AB8 LYS A 389 CYS A 392 5 4 HELIX 18 AB9 SER A 435 GLY A 437 5 3 HELIX 19 AC1 SER A 451 LEU A 456 1 6 HELIX 20 AC2 ALA B 6 SER B 19 1 14 HELIX 21 AC3 GLY B 20 GLU B 36 1 17 HELIX 22 AC4 GLY B 37 GLU B 54 1 18 HELIX 23 AC5 ASN B 57 MET B 72 1 16 HELIX 24 AC6 SER B 74 GLU B 91 1 18 HELIX 25 AC7 ILE C 8 TYR C 42 1 35 HELIX 26 AC8 ARG C 84 LEU C 93 1 10 HELIX 27 AC9 THR D 22 GLY D 35 1 14 HELIX 28 AD1 PRO D 37 GLN D 41 5 5 HELIX 29 AD2 THR D 55 ASN D 60 5 6 HELIX 30 AD3 LYS E 12 SER E 20 1 9 HELIX 31 AD4 SER E 31 SER E 34 5 4 HELIX 32 AD5 LEU E 35 ASP E 41 1 7 HELIX 33 AD6 ASN E 50 PHE E 58 1 9 HELIX 34 AD7 ALA E 89 LEU E 94 1 6 SHEET 1 AA1 5 CYS A 66 CYS A 68 0 SHEET 2 AA1 5 THR A 57 CYS A 60 -1 N PHE A 58 O GLY A 67 SHEET 3 AA1 5 PHE A 85 ASN A 88 -1 O ILE A 87 N MET A 59 SHEET 4 AA1 5 LEU A 94 CYS A 96 -1 O PHE A 95 N GLY A 86 SHEET 5 AA1 5 ASP A 101 TYR A 102 -1 O ASP A 101 N CYS A 96 SHEET 1 AA2 3 THR A 125 MET A 126 0 SHEET 2 AA2 3 TYR E 75 CYS E 78 -1 O VAL E 77 N MET A 126 SHEET 3 AA2 3 PRO E 84 ALA E 86 -1 O LEU E 85 N ARG E 76 SHEET 1 AA3 2 GLN A 236 ASP A 237 0 SHEET 2 AA3 2 ARG D 74 GLY D 75 -1 O GLY D 75 N GLN A 236 SHEET 1 AA4 4 THR A 298 PHE A 303 0 SHEET 2 AA4 4 GLY A 281 VAL A 288 -1 N SER A 285 O THR A 299 SHEET 3 AA4 4 ILE A 346 LYS A 353 -1 O GLY A 350 N GLU A 284 SHEET 4 AA4 4 GLU A 327 GLN A 328 -1 N GLU A 327 O LYS A 347 SHEET 1 AA5 5 LEU A 306 ASP A 309 0 SHEET 2 AA5 5 VAL A 357 LYS A 363 1 O LYS A 363 N LEU A 308 SHEET 3 AA5 5 ALA A 460 VAL A 470 -1 O TYR A 461 N LEU A 362 SHEET 4 AA5 5 ILE A 409 GLY A 421 -1 N ILE A 414 O PHE A 464 SHEET 5 AA5 5 TYR A 385 ASN A 387 -1 N LEU A 386 O TYR A 411 SHEET 1 AA6 7 LEU A 306 ASP A 309 0 SHEET 2 AA6 7 VAL A 357 LYS A 363 1 O LYS A 363 N LEU A 308 SHEET 3 AA6 7 ALA A 460 VAL A 470 -1 O TYR A 461 N LEU A 362 SHEET 4 AA6 7 ILE A 409 GLY A 421 -1 N ILE A 414 O PHE A 464 SHEET 5 AA6 7 GLY A 426 LYS A 433 -1 O ILE A 429 N SER A 418 SHEET 6 AA6 7 TRP A 439 ASN A 443 -1 O PHE A 442 N ALA A 430 SHEET 7 AA6 7 MET A 446 ILE A 450 -1 O SER A 448 N LYS A 441 SHEET 1 AA7 2 PHE A 365 HIS A 367 0 SHEET 2 AA7 2 ASN A 373 LYS A 375 -1 O ARG A 374 N GLU A 366 SHEET 1 AA8 2 VAL B 93 ASP B 94 0 SHEET 2 AA8 2 GLY E 10 ILE E 11 -1 O GLY E 10 N ASP B 94 SHEET 1 AA9 2 TYR C 70 HIS C 72 0 SHEET 2 AA9 2 ASP C 79 SER C 81 -1 O VAL C 80 N ILE C 71 SHEET 1 AB1 5 THR D 12 GLU D 16 0 SHEET 2 AB1 5 GLN D 2 LYS D 6 -1 N ILE D 3 O LEU D 15 SHEET 3 AB1 5 THR D 66 VAL D 70 1 O LEU D 67 N LYS D 6 SHEET 4 AB1 5 ARG D 42 PHE D 45 -1 N ILE D 44 O HIS D 68 SHEET 5 AB1 5 LYS D 48 GLN D 49 -1 O LYS D 48 N PHE D 45 LINK SG CYS A 4 ZN ZN A 503 1555 1555 2.30 LINK ND1 HIS A 6 ZN ZN A 503 1555 1555 2.12 LINK SG CYS A 46 ZN ZN A 501 1555 1555 2.30 LINK SG CYS A 49 ZN ZN A 501 1555 1555 2.25 LINK SG CYS A 60 ZN ZN A 502 1555 1555 2.35 LINK SG CYS A 63 ZN ZN A 502 1555 1555 2.26 LINK SG CYS A 68 ZN ZN A 501 1555 1555 2.31 LINK ND1 HIS A 73 ZN ZN A 501 1555 1555 2.02 LINK NE2 HIS A 77 ZN ZN A 502 1555 1555 1.91 LINK ND1 HIS A 83 ZN ZN A 502 1555 1555 1.94 LINK SG CYS A 96 ZN ZN A 503 1555 1555 2.28 LINK SG CYS A 99 ZN ZN A 503 1555 1555 2.22 LINK NE2 HIS A 170 ZN ZN A 504 1555 1555 2.03 LINK SG CYS A 174 ZN ZN A 504 1555 1555 2.35 LINK SG CYS A 182 ZN ZN A 504 1555 1555 2.31 LINK SG CYS A 185 ZN ZN A 504 1555 1555 2.26 LINK ND1 HIS A 250 ZN ZN A 505 1555 1555 2.12 LINK SG CYS A 271 ZN ZN A 505 1555 1555 2.33 LINK SG CYS A 273 ZN ZN A 505 1555 1555 2.29 LINK ND1 HIS A 276 ZN ZN A 505 1555 1555 2.00 LINK SG CYS A 289 ZN ZN A 506 1555 1555 2.28 LINK SG CYS A 292 ZN ZN A 506 1555 1555 2.28 LINK SG CYS A 336 ZN ZN A 506 1555 1555 2.25 LINK SG CYS A 339 ZN ZN A 506 1555 1555 2.32 LINK SG CYS C 73 ZN ZN C 101 1555 1555 2.26 LINK SG CYS C 76 ZN ZN C 101 1555 1555 2.32 LINK NE2 HIS C 88 ZN ZN C 101 1555 1555 1.88 LINK SG CYS C 92 ZN ZN C 101 1555 1555 2.37 LINK SG CYS E 78 ZN ZN E 101 1555 1555 2.26 LINK SG CYS E 81 ZN ZN E 101 1555 1555 2.26 LINK NE2 HIS E 93 ZN ZN E 101 1555 1555 1.92 CISPEP 1 SER A 296 LYS A 297 0 -11.22 SITE 1 AC1 4 CYS A 46 CYS A 49 CYS A 68 HIS A 73 SITE 1 AC2 4 CYS A 60 CYS A 63 HIS A 77 HIS A 83 SITE 1 AC3 4 CYS A 4 HIS A 6 CYS A 96 CYS A 99 SITE 1 AC4 4 HIS A 170 CYS A 174 CYS A 182 CYS A 185 SITE 1 AC5 4 HIS A 250 CYS A 271 CYS A 273 HIS A 276 SITE 1 AC6 4 CYS A 289 CYS A 292 CYS A 336 CYS A 339 SITE 1 AC7 4 CYS C 73 CYS C 76 HIS C 88 CYS C 92 SITE 1 AC8 3 CYS E 78 CYS E 81 HIS E 93 CRYST1 78.755 103.177 112.846 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 0.012698 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009692 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008862 0.00000