HEADER HYDROLASE/INHIBITOR 10-MAY-21 7MS5 TITLE STRUCTURE OF USP5 ZINC-FINGER UBIQUITIN BINDING DOMAIN CO-CRYSTALLIZED TITLE 2 WITH 4-(4-(4-(3,4-DIFLUORO-PHENYL)-PIPERIDIN-1-YLSULFONYL)-PHENYL)-4- TITLE 3 OXO-BUTANOIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 5; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 171-290; COMPND 5 SYNONYM: DEUBIQUITINATING ENZYME 5, ISOPEPTIDASE T, UBIQUITIN COMPND 6 THIOESTERASE 5, UBIQUITIN-SPECIFIC-PROCESSING PROTEASE 5; COMPND 7 EC: 3.4.19.12; COMPND 8 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 KEYWDS USP5, UBIQUITIN, USP, UBIQUITIN SPECIFIC PROTEASE, STRUCTURAL KEYWDS 2 GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, HYDROLASE, HYDROLASE- KEYWDS 3 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.K.MANN,C.A.ZEPEDA-VELAZQUEZ,H.G.ALVAREZ,A.DONG,T.KIYOTA,A.AMAN, AUTHOR 2 C.H.ARROWSMITH,R.AL-AWAR,R.J.HARDING,M.SCHAPIRA,STRUCTURAL GENOMICS AUTHOR 3 CONSORTIUM (SGC) REVDAT 4 18-OCT-23 7MS5 1 REMARK REVDAT 3 10-NOV-21 7MS5 1 JRNL REVDAT 2 27-OCT-21 7MS5 1 JRNL REVDAT 1 09-JUN-21 7MS5 0 JRNL AUTH M.K.MANN,C.A.ZEPEDA-VELAZQUEZ,H.GONZALEZ-ALVAREZ,A.DONG, JRNL AUTH 2 T.KIYOTA,A.M.AMAN,P.LOPPNAU,Y.LI,B.WILSON,C.H.ARROWSMITH, JRNL AUTH 3 R.AL-AWAR,R.J.HARDING,M.SCHAPIRA JRNL TITL STRUCTURE-ACTIVITY RELATIONSHIP OF USP5 INHIBITORS. JRNL REF J.MED.CHEM. V. 64 15017 2021 JRNL REFN ISSN 0022-2623 JRNL PMID 34648286 JRNL DOI 10.1021/ACS.JMEDCHEM.1C00889 REMARK 2 REMARK 2 RESOLUTION. 1.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 1.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.53 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 19179 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1018 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.98 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1253 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2640 REMARK 3 BIN FREE R VALUE SET COUNT : 68 REMARK 3 BIN FREE R VALUE : 0.3070 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1776 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 67 REMARK 3 SOLVENT ATOMS : 214 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.51000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.66000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.54000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.163 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.146 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.099 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.572 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.927 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1919 ; 0.010 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 1658 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2612 ; 1.405 ; 1.626 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3841 ; 1.348 ; 1.618 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 235 ; 8.009 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 97 ;33.846 ;22.371 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 285 ;12.177 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;19.818 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 236 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2329 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 408 ; 0.001 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7MS5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-MAY-21. REMARK 100 THE DEPOSITION ID IS D_1000256662. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-NOV-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN A200 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20206 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.980 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 (%) : 95.5 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.10100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.48400 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 6NFT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.84 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1 M SODIUM/POTASSIUM PHOSPHATE PH 6.9, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 30.84850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.24700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 30.84850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 42.24700 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 426 LIES ON A SPECIAL POSITION. 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 170 REMARK 465 MET A 286 REMARK 465 GLN A 287 REMARK 465 LYS A 288 REMARK 465 THR A 289 REMARK 465 ASP A 290 REMARK 465 GLY B 170 REMARK 465 GLY B 171 REMARK 465 GLU B 172 REMARK 465 ASP B 290 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 GLU A 172 CG CD OE1 OE2 REMARK 470 LYS A 184 CG CD CE NZ REMARK 470 ARG A 191 CD NE CZ NH1 NH2 REMARK 470 LYS A 201 CD CE NZ REMARK 470 ASP A 282 CG OD1 OD2 REMARK 470 LEU A 284 CG CD1 CD2 REMARK 470 LYS A 285 CG CD CE NZ REMARK 470 VAL B 173 N CA CB CG1 CG2 REMARK 470 LYS B 184 CG CD CE NZ REMARK 470 LYS B 201 CE NZ REMARK 470 GLU B 206 CD OE1 OE2 REMARK 470 LYS B 285 CE NZ REMARK 470 LYS B 288 CG CD CE NZ 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 B 475 O HOH B 488 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 436 O HOH B 492 3545 2.08 REMARK 500 REMARK 500 REMARK: NULL 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 221 NE - CZ - NH1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 221 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES 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 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 199 SG REMARK 620 2 CYS A 202 SG 110.5 REMARK 620 3 CYS A 219 SG 113.5 113.3 REMARK 620 4 HIS A 232 ND1 111.1 108.9 99.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 199 SG REMARK 620 2 CYS B 202 SG 109.6 REMARK 620 3 CYS B 219 SG 114.4 112.6 REMARK 620 4 HIS B 232 ND1 110.5 111.8 97.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 263 O REMARK 620 2 ASP B 265 OD2 65.8 REMARK 620 3 ASP B 265 OD1 84.7 40.4 REMARK 620 N 1 2 DBREF 7MS5 A 171 290 UNP P45974 UBP5_HUMAN 171 290 DBREF 7MS5 B 171 290 UNP P45974 UBP5_HUMAN 171 290 SEQADV 7MS5 GLY A 170 UNP P45974 EXPRESSION TAG SEQADV 7MS5 GLY B 170 UNP P45974 EXPRESSION TAG SEQRES 1 A 121 GLY GLY GLU VAL ARG GLN VAL SER LYS HIS ALA PHE SER SEQRES 2 A 121 LEU LYS GLN LEU ASP ASN PRO ALA ARG ILE PRO PRO CYS SEQRES 3 A 121 GLY TRP LYS CYS SER LYS CYS ASP MET ARG GLU ASN LEU SEQRES 4 A 121 TRP LEU ASN LEU THR ASP GLY SER ILE LEU CYS GLY ARG SEQRES 5 A 121 ARG TYR PHE ASP GLY SER GLY GLY ASN ASN HIS ALA VAL SEQRES 6 A 121 GLU HIS TYR ARG GLU THR GLY TYR PRO LEU ALA VAL LYS SEQRES 7 A 121 LEU GLY THR ILE THR PRO ASP GLY ALA ASP VAL TYR SER SEQRES 8 A 121 TYR ASP GLU ASP ASP MET VAL LEU ASP PRO SER LEU ALA SEQRES 9 A 121 GLU HIS LEU SER HIS PHE GLY ILE ASP MET LEU LYS MET SEQRES 10 A 121 GLN LYS THR ASP SEQRES 1 B 121 GLY GLY GLU VAL ARG GLN VAL SER LYS HIS ALA PHE SER SEQRES 2 B 121 LEU LYS GLN LEU ASP ASN PRO ALA ARG ILE PRO PRO CYS SEQRES 3 B 121 GLY TRP LYS CYS SER LYS CYS ASP MET ARG GLU ASN LEU SEQRES 4 B 121 TRP LEU ASN LEU THR ASP GLY SER ILE LEU CYS GLY ARG SEQRES 5 B 121 ARG TYR PHE ASP GLY SER GLY GLY ASN ASN HIS ALA VAL SEQRES 6 B 121 GLU HIS TYR ARG GLU THR GLY TYR PRO LEU ALA VAL LYS SEQRES 7 B 121 LEU GLY THR ILE THR PRO ASP GLY ALA ASP VAL TYR SER SEQRES 8 B 121 TYR ASP GLU ASP ASP MET VAL LEU ASP PRO SER LEU ALA SEQRES 9 B 121 GLU HIS LEU SER HIS PHE GLY ILE ASP MET LEU LYS MET SEQRES 10 B 121 GLN LYS THR ASP HET ZN A 301 1 HET ZOG A 302 30 HET ZN B 301 1 HET EDO B 302 4 HET ZOG B 303 30 HET CA B 304 1 HETNAM ZN ZINC ION HETNAM ZOG 4-{4-[4-(3,4-DIFLUOROPHENYL)PIPERIDINE-1- HETNAM 2 ZOG SULFONYL]PHENYL}-4-OXOBUTANOIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM CA CALCIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ZN 2(ZN 2+) FORMUL 4 ZOG 2(C21 H21 F2 N O5 S) FORMUL 6 EDO C2 H6 O2 FORMUL 8 CA CA 2+ FORMUL 9 HOH *214(H2 O) HELIX 1 AA1 ASN A 231 GLY A 241 1 11 HELIX 2 AA2 SER A 271 HIS A 278 1 8 HELIX 3 AA3 ASN B 231 GLY B 241 1 11 HELIX 4 AA4 SER B 271 HIS B 278 1 8 SHEET 1 AA1 5 ILE A 217 CYS A 219 0 SHEET 2 AA1 5 LEU A 208 ASN A 211 -1 N TRP A 209 O LEU A 218 SHEET 3 AA1 5 LEU A 244 LYS A 247 -1 O VAL A 246 N LEU A 210 SHEET 4 AA1 5 VAL A 258 SER A 260 -1 O TYR A 259 N ALA A 245 SHEET 5 AA1 5 ASP A 265 VAL A 267 -1 O VAL A 267 N VAL A 258 SHEET 1 AA2 5 ILE B 217 CYS B 219 0 SHEET 2 AA2 5 LEU B 208 ASN B 211 -1 N TRP B 209 O LEU B 218 SHEET 3 AA2 5 LEU B 244 LYS B 247 -1 O VAL B 246 N LEU B 210 SHEET 4 AA2 5 VAL B 258 SER B 260 -1 O TYR B 259 N ALA B 245 SHEET 5 AA2 5 ASP B 265 VAL B 267 -1 O VAL B 267 N VAL B 258 SSBOND 1 CYS A 195 CYS B 195 1555 1555 2.15 LINK SG CYS A 199 ZN ZN A 301 1555 1555 2.32 LINK SG CYS A 202 ZN ZN A 301 1555 1555 2.29 LINK SG CYS A 219 ZN ZN A 301 1555 1555 2.30 LINK ND1 HIS A 232 ZN ZN A 301 1555 1555 2.07 LINK SG CYS B 199 ZN ZN B 301 1555 1555 2.30 LINK SG CYS B 202 ZN ZN B 301 1555 1555 2.28 LINK SG CYS B 219 ZN ZN B 301 1555 1555 2.32 LINK ND1 HIS B 232 ZN ZN B 301 1555 1555 2.00 LINK O GLU B 263 CA CA B 304 1555 1555 2.76 LINK OD2 ASP B 265 CA CA B 304 1555 1555 3.07 LINK OD1 ASP B 265 CA CA B 304 1555 2454 3.14 CRYST1 61.697 84.494 59.642 90.00 98.27 90.00 C 1 2 1 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 0.016208 0.000000 0.002357 0.00000 SCALE2 0.000000 0.011835 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016943 0.00000