HEADER HYDROLASE 21-FEB-06 2G45 TITLE CO-CRYSTAL STRUCTURE OF ZNF UBP DOMAIN FROM THE DEUBIQUITINATING TITLE 2 ENZYME ISOPEPTIDASE T (ISOT) IN COMPLEX WITH UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 5; COMPND 3 CHAIN: A, D; COMPND 4 FRAGMENT: THE ZNF UBP DOMAIN OF ISOT (RESIDUES 163-291); COMPND 5 SYNONYM: UBIQUITIN THIOLESTERASE 5, UBIQUITIN-SPECIFIC PROCESSING COMPND 6 PROTEASE 5, DEUBIQUITINATING ENZYME 5, ISOPEPTIDASE T; COMPND 7 EC: 3.1.2.15; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: UBIQUITIN; COMPND 11 CHAIN: B, E; COMPND 12 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: USP5, ISOT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PRSET B (INVITROGEN); SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UBIQUITIN, ZINC FINGER, DEUBIQUITINATING ENZYME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR F.E.REYES-TURCU,J.R.HORTON,J.E.MULLALLY,A.HEROUX,X.CHENG, AUTHOR 2 K.D.WILKINSON REVDAT 3 30-AUG-23 2G45 1 REMARK LINK REVDAT 2 24-FEB-09 2G45 1 VERSN REVDAT 1 04-APR-06 2G45 0 JRNL AUTH F.E.REYES-TURCU,J.R.HORTON,J.E.MULLALLY,A.HEROUX,X.CHENG, JRNL AUTH 2 K.D.WILKINSON JRNL TITL THE UBIQUITIN BINDING DOMAIN ZNF UBP RECOGNIZES THE JRNL TITL 2 C-TERMINAL DIGLYCINE MOTIF OF UNANCHORED UBIQUITIN. JRNL REF CELL(CAMBRIDGE,MASS.) V. 124 1197 2006 JRNL REFN ISSN 0092-8674 JRNL PMID 16564012 JRNL DOI 10.1016/J.CELL.2006.02.038 REMARK 2 REMARK 2 RESOLUTION. 1.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 135342.390 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 39760 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 SET) : 0.229 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3990 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.99 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.06 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3473 REMARK 3 BIN R VALUE (WORKING SET) : 0.3050 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 380 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.018 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2996 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 203 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.52000 REMARK 3 B22 (A**2) : 5.52000 REMARK 3 B33 (A**2) : -11.05000 REMARK 3 B12 (A**2) : 1.93000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.28 REMARK 3 ESD FROM SIGMAA (A) : 0.25 REMARK 3 LOW RESOLUTION CUTOFF (A) : 35.0 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.33 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.31 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.740 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : OVERALL ANISOTROPIC B VALUE REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.260 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.020 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.880 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.890 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.33 REMARK 3 BSOL : 42.75 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : ION.PARAM REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.PARAM REMARK 3 TOPOLOGY FILE 4 : DNA-RNA_REP.PARAM REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 3 : WATER_REP.PARAM REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2G45 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1000036664. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUL-05; NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0; NULL REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; NULL REMARK 200 RADIATION SOURCE : APS; NULL REMARK 200 BEAMLINE : 22-ID; NULL REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0, 1.28317, 1.27163, 1.28855, REMARK 200 1.28237; NULL REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; NULL REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH; NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40453 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.990 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.40 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.36700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: PDB ENTRY 2G43 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% POLYETHYLENE GLYCOL 8000, 80 MM REMARK 280 SODIUM CACODYLATE PH 6.5, 160 MM MAGENESIUM OR CALCIUM ACETATE, REMARK 280 20% ETHYLENE GLYCOL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 300K, PH 6.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 75.11500 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 150.23000 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 75.11500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 150.23000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -40.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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 LYS A 163 REMARK 465 GLN A 164 REMARK 465 GLU A 165 REMARK 465 VAL A 166 REMARK 465 GLN A 167 REMARK 465 ALA A 168 REMARK 465 TRP A 169 REMARK 465 ASP A 170 REMARK 465 GLY A 171 REMARK 465 GLU A 172 REMARK 465 ASP A 290 REMARK 465 LYS A 291 REMARK 465 LYS D 163 REMARK 465 GLN D 164 REMARK 465 GLU D 165 REMARK 465 VAL D 166 REMARK 465 GLN D 167 REMARK 465 ALA D 168 REMARK 465 TRP D 169 REMARK 465 ASP D 170 REMARK 465 GLY D 171 REMARK 465 GLU D 172 REMARK 465 ASP D 290 REMARK 465 LYS D 291 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 184 CG CD CE NZ REMARK 470 ASN A 188 CG OD1 ND2 REMARK 470 ARG A 191 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 285 CG CD CE NZ REMARK 470 GLN A 287 CG CD OE1 NE2 REMARK 470 LYS B 48 CG CD CE NZ REMARK 470 LYS D 184 CG CD CE NZ REMARK 470 ASN D 188 CG OD1 ND2 REMARK 470 ARG D 191 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 285 CG CD CE NZ REMARK 470 GLN D 287 CG CD OE1 NE2 REMARK 470 LYS E 48 CG CD CE NZ 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 PRO A 243 C - N - CA ANGL. DEV. = 9.4 DEGREES REMARK 500 PRO D 243 C - N - CA ANGL. DEV. = 9.2 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 188 74.34 -106.98 REMARK 500 ARG A 191 114.87 -37.48 REMARK 500 ALA A 256 160.11 178.28 REMARK 500 PRO D 193 122.38 -39.26 REMARK 500 ALA D 256 171.44 179.70 REMARK 500 LEU D 284 36.28 -83.36 REMARK 500 LYS D 285 19.60 -164.64 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 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 199 SG REMARK 620 2 CYS A 202 SG 111.4 REMARK 620 3 CYS A 219 SG 114.1 110.8 REMARK 620 4 HIS A 232 ND1 105.7 115.6 98.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 199 SG REMARK 620 2 CYS D 202 SG 111.6 REMARK 620 3 CYS D 219 SG 114.1 107.7 REMARK 620 4 HIS D 232 ND1 107.1 116.7 99.3 REMARK 620 N 1 2 3 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2G43 RELATED DB: PDB REMARK 900 STRUCTURE OF ISOT ZNF DOMAIN DBREF 2G45 A 163 291 UNP P45974 UBP5_HUMAN 163 291 DBREF 2G45 B 1 76 UNP P62988 UBIQ_HUMAN 1 76 DBREF 2G45 D 163 291 UNP P45974 UBP5_HUMAN 163 291 DBREF 2G45 E 1 76 UNP P62988 UBIQ_HUMAN 1 76 SEQRES 1 A 129 LYS GLN GLU VAL GLN ALA TRP ASP GLY GLU VAL ARG GLN SEQRES 2 A 129 VAL SER LYS HIS ALA PHE SER LEU LYS GLN LEU ASP ASN SEQRES 3 A 129 PRO ALA ARG ILE PRO PRO CYS GLY TRP LYS CYS SER LYS SEQRES 4 A 129 CYS ASP MET ARG GLU ASN LEU TRP LEU ASN LEU THR ASP SEQRES 5 A 129 GLY SER ILE LEU CYS GLY ARG ARG TYR PHE ASP GLY SER SEQRES 6 A 129 GLY GLY ASN ASN HIS ALA VAL GLU HIS TYR ARG GLU THR SEQRES 7 A 129 GLY TYR PRO LEU ALA VAL LYS LEU GLY THR ILE THR PRO SEQRES 8 A 129 ASP GLY ALA ASP VAL TYR SER TYR ASP GLU ASP ASP MET SEQRES 9 A 129 VAL LEU ASP PRO SER LEU ALA GLU HIS LEU SER HIS PHE SEQRES 10 A 129 GLY ILE ASP MET LEU LYS MET GLN LYS THR ASP LYS 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 D 129 LYS GLN GLU VAL GLN ALA TRP ASP GLY GLU VAL ARG GLN SEQRES 2 D 129 VAL SER LYS HIS ALA PHE SER LEU LYS GLN LEU ASP ASN SEQRES 3 D 129 PRO ALA ARG ILE PRO PRO CYS GLY TRP LYS CYS SER LYS SEQRES 4 D 129 CYS ASP MET ARG GLU ASN LEU TRP LEU ASN LEU THR ASP SEQRES 5 D 129 GLY SER ILE LEU CYS GLY ARG ARG TYR PHE ASP GLY SER SEQRES 6 D 129 GLY GLY ASN ASN HIS ALA VAL GLU HIS TYR ARG GLU THR SEQRES 7 D 129 GLY TYR PRO LEU ALA VAL LYS LEU GLY THR ILE THR PRO SEQRES 8 D 129 ASP GLY ALA ASP VAL TYR SER TYR ASP GLU ASP ASP MET SEQRES 9 D 129 VAL LEU ASP PRO SER LEU ALA GLU HIS LEU SER HIS PHE SEQRES 10 D 129 GLY ILE ASP MET LEU LYS MET GLN LYS THR ASP LYS SEQRES 1 E 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 E 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 E 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 E 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 E 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 E 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY HET ZN A 401 1 HET CL A 403 1 HET ZN D 402 1 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION FORMUL 5 ZN 2(ZN 2+) FORMUL 6 CL CL 1- FORMUL 8 HOH *203(H2 O) HELIX 1 1 ASN A 231 GLY A 241 1 11 HELIX 2 2 SER A 271 HIS A 278 1 8 HELIX 3 3 THR B 22 GLY B 35 1 14 HELIX 4 4 PRO B 37 ASP B 39 5 3 HELIX 5 5 LEU B 56 ASN B 60 5 5 HELIX 6 6 ASN D 231 GLY D 241 1 11 HELIX 7 7 SER D 271 HIS D 278 1 8 HELIX 8 8 ASP D 282 MET D 286 5 5 HELIX 9 9 THR E 22 GLY E 35 1 14 HELIX 10 10 PRO E 37 ASP E 39 5 3 HELIX 11 11 THR E 55 ASN E 60 5 6 SHEET 1 A 6 GLN A 175 VAL A 176 0 SHEET 2 A 6 ASP D 265 LEU D 268 1 O LEU D 268 N GLN A 175 SHEET 3 A 6 VAL D 258 SER D 260 -1 N VAL D 258 O VAL D 267 SHEET 4 A 6 LEU D 244 LYS D 247 -1 N ALA D 245 O TYR D 259 SHEET 5 A 6 LEU D 208 ASN D 211 -1 N LEU D 210 O VAL D 246 SHEET 6 A 6 ILE D 217 CYS D 219 -1 O LEU D 218 N TRP D 209 SHEET 1 B 6 ILE A 217 CYS A 219 0 SHEET 2 B 6 LEU A 208 ASN A 211 -1 N TRP A 209 O LEU A 218 SHEET 3 B 6 LEU A 244 LYS A 247 -1 O VAL A 246 N LEU A 210 SHEET 4 B 6 VAL A 258 SER A 260 -1 O TYR A 259 N ALA A 245 SHEET 5 B 6 ASP A 265 LEU A 268 -1 O VAL A 267 N VAL A 258 SHEET 6 B 6 GLN D 175 VAL D 176 1 O GLN D 175 N LEU A 268 SHEET 1 C 5 THR B 12 GLU B 16 0 SHEET 2 C 5 GLN B 2 LYS B 6 -1 N ILE B 3 O LEU B 15 SHEET 3 C 5 THR B 66 LEU B 71 1 O LEU B 67 N PHE B 4 SHEET 4 C 5 GLN B 41 PHE B 45 -1 N ARG B 42 O VAL B 70 SHEET 5 C 5 LYS B 48 GLN B 49 -1 O LYS B 48 N PHE B 45 SHEET 1 D 5 THR E 12 GLU E 16 0 SHEET 2 D 5 GLN E 2 LYS E 6 -1 N ILE E 3 O LEU E 15 SHEET 3 D 5 THR E 66 LEU E 71 1 O LEU E 67 N PHE E 4 SHEET 4 D 5 GLN E 41 PHE E 45 -1 N ARG E 42 O VAL E 70 SHEET 5 D 5 LYS E 48 GLN E 49 -1 O LYS E 48 N PHE E 45 SSBOND 1 CYS A 195 CYS D 195 1555 1555 2.03 LINK SG CYS A 199 ZN ZN A 401 1555 1555 2.37 LINK SG CYS A 202 ZN ZN A 401 1555 1555 2.34 LINK SG CYS A 219 ZN ZN A 401 1555 1555 2.34 LINK ND1 HIS A 232 ZN ZN A 401 1555 1555 2.00 LINK SG CYS D 199 ZN ZN D 402 1555 1555 2.36 LINK SG CYS D 202 ZN ZN D 402 1555 1555 2.40 LINK SG CYS D 219 ZN ZN D 402 1555 1555 2.38 LINK ND1 HIS D 232 ZN ZN D 402 1555 1555 2.01 SITE 1 AC1 4 CYS A 199 CYS A 202 CYS A 219 HIS A 232 SITE 1 AC2 4 CYS D 199 CYS D 202 CYS D 219 HIS D 232 SITE 1 AC3 3 ARG A 205 HOH A 454 ARG D 205 CRYST1 68.074 68.074 225.345 90.00 90.00 120.00 P 64 12 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 0.014690 0.008481 0.000000 0.00000 SCALE2 0.000000 0.016962 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004438 0.00000