HEADER HYDROLASE/SIGNALING PROTEIN 30-NOV-09 3KVF TITLE CRYSTAL STRUCTURE OF THE I93M MUTANT OF UBIQUITIN CARBOXY TERMINAL TITLE 2 HYDROLASE L1 BOUND TO UBIQUITIN VINYLMETHYLESTER COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE ISOZYME L1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UCH-L1, UBIQUITIN THIOESTERASE L1, NEURON CYTOPLASMIC COMPND 5 PROTEIN 9.5, PGP 9.5, PGP9.5; COMPND 6 EC: 3.4.19.12, 6.-.-.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: UBIQUITIN; COMPND 11 CHAIN: B; 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: PGP9.5, UCHL1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: RPS27A, UBA52, UBA80, UBB, UBC, UBCEP1, UBCEP2, UBIQ_HUMAN; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: ROSETTA; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PTYB1 KEYWDS ENZYME-SUICIDE SUBSTRATE COMPLEX, CYTOPLASM, DISEASE MUTATION, KEYWDS 2 GLYCOPROTEIN, HYDROLASE, LIGASE, OXIDATION, POLYMORPHISM, PROTEASE, KEYWDS 3 THIOL PROTEASE, UBL CONJUGATION PATHWAY, ISOPEPTIDE BOND, NUCLEUS, KEYWDS 4 PHOSPHOPROTEIN, UBL CONJUGATION, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 5 COMPLEX, ACETYLATION, HYDROLASE-SIGNALING PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.W.DAVIES,T.K.MAITI,C.DAS REVDAT 4 15-NOV-23 3KVF 1 LINK ATOM REVDAT 3 06-SEP-23 3KVF 1 REMARK REVDAT 2 13-OCT-21 3KVF 1 REMARK SEQADV LINK REVDAT 1 16-JUN-10 3KVF 0 JRNL AUTH D.A.BOUDREAUX,T.K.MAITI,C.W.DAVIES,C.DAS JRNL TITL UBIQUITIN VINYL METHYL ESTER BINDING ORIENTS THE MISALIGNED JRNL TITL 2 ACTIVE SITE OF THE UBIQUITIN HYDROLASE UCHL1 INTO PRODUCTIVE JRNL TITL 3 CONFORMATION. JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 9117 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 20439756 JRNL DOI 10.1073/PNAS.0910870107 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 6666 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) : 0.244 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.284 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 330 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 489 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.61 REMARK 3 BIN R VALUE (WORKING SET) : 0.3550 REMARK 3 BIN FREE R VALUE SET COUNT : 27 REMARK 3 BIN FREE R VALUE : 0.4000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2338 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 3 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 109.9 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.91000 REMARK 3 B22 (A**2) : -1.91000 REMARK 3 B33 (A**2) : 2.86000 REMARK 3 B12 (A**2) : -0.95000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.485 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.476 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 57.287 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2384 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3204 ; 0.888 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 296 ; 4.594 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 114 ;38.310 ;25.439 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 446 ;15.289 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;14.994 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 357 ; 0.056 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1786 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1073 ; 0.172 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1624 ; 0.290 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 86 ; 0.115 ; 0.200 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): 52 ; 0.211 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.114 ; 0.200 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): 1529 ; 0.137 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2381 ; 0.239 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 936 ; 0.419 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 823 ; 0.592 ; 4.500 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 REMARK 4 REMARK 4 3KVF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-DEC-09. REMARK 100 THE DEPOSITION ID IS D_1000056496. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.033 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6996 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 70.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 10.50 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : 0.08900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 8.40 REMARK 200 R MERGE FOR SHELL (I) : 0.85600 REMARK 200 R SYM FOR SHELL (I) : 0.85600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3IFW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BICINE, 2.4M AMMONIUM SULFATE, PH REMARK 280 9.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 43.54450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 25.14043 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 64.49200 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 43.54450 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 25.14043 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 64.49200 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 43.54450 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 25.14043 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 64.49200 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 43.54450 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 25.14043 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 64.49200 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 43.54450 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 25.14043 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 64.49200 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 43.54450 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 25.14043 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 64.49200 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 50.28086 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 128.98400 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 50.28086 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 128.98400 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 50.28086 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 128.98400 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 50.28086 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 128.98400 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 50.28086 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 128.98400 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 50.28086 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 128.98400 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2630 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 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 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 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 CA GLY B 75 N GVE B 76 2.19 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 LYS A 71 -125.50 48.19 REMARK 500 GLU A 149 10.72 -67.06 REMARK 500 ARG A 153 -165.19 -74.12 REMARK 500 ASP A 156 -116.70 66.49 REMARK 500 VAL A 158 76.09 -58.24 REMARK 500 GLU A 208 76.79 -101.26 REMARK 500 GLN A 209 -79.48 -43.11 REMARK 500 GLN B 62 -163.89 -106.37 REMARK 500 GLU B 64 -4.76 66.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GVE B 76 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ETL RELATED DB: PDB REMARK 900 MUTANT OF THE WILD TYPE UCHL1 BOUND TO UBIQUITIN VINYLMETHYLESTER REMARK 900 RELATED ID: 3KW5 RELATED DB: PDB DBREF 3KVF A 1 223 UNP P09936 UCHL1_HUMAN 1 223 DBREF 3KVF B 1 75 UNP P62988 UBIQ_HUMAN 1 75 SEQADV 3KVF GLY A -4 UNP P09936 EXPRESSION TAG SEQADV 3KVF PRO A -3 UNP P09936 EXPRESSION TAG SEQADV 3KVF LEU A -2 UNP P09936 EXPRESSION TAG SEQADV 3KVF GLY A -1 UNP P09936 EXPRESSION TAG SEQADV 3KVF SER A 0 UNP P09936 EXPRESSION TAG SEQADV 3KVF MET A 93 UNP P09936 ILE 93 ENGINEERED MUTATION SEQRES 1 A 228 GLY PRO LEU GLY SER MET GLN LEU LYS PRO MET GLU ILE SEQRES 2 A 228 ASN PRO GLU MET LEU ASN LYS VAL LEU SER ARG LEU GLY SEQRES 3 A 228 VAL ALA GLY GLN TRP ARG PHE VAL ASP VAL LEU GLY LEU SEQRES 4 A 228 GLU GLU GLU SER LEU GLY SER VAL PRO ALA PRO ALA CYS SEQRES 5 A 228 ALA LEU LEU LEU LEU PHE PRO LEU THR ALA GLN HIS GLU SEQRES 6 A 228 ASN PHE ARG LYS LYS GLN ILE GLU GLU LEU LYS GLY GLN SEQRES 7 A 228 GLU VAL SER PRO LYS VAL TYR PHE MET LYS GLN THR ILE SEQRES 8 A 228 GLY ASN SER CYS GLY THR MET GLY LEU ILE HIS ALA VAL SEQRES 9 A 228 ALA ASN ASN GLN ASP LYS LEU GLY PHE GLU ASP GLY SER SEQRES 10 A 228 VAL LEU LYS GLN PHE LEU SER GLU THR GLU LYS MET SER SEQRES 11 A 228 PRO GLU ASP ARG ALA LYS CYS PHE GLU LYS ASN GLU ALA SEQRES 12 A 228 ILE GLN ALA ALA HIS ASP ALA VAL ALA GLN GLU GLY GLN SEQRES 13 A 228 CYS ARG VAL ASP ASP LYS VAL ASN PHE HIS PHE ILE LEU SEQRES 14 A 228 PHE ASN ASN VAL ASP GLY HIS LEU TYR GLU LEU ASP GLY SEQRES 15 A 228 ARG MET PRO PHE PRO VAL ASN HIS GLY ALA SER SER GLU SEQRES 16 A 228 ASP THR LEU LEU LYS ASP ALA ALA LYS VAL CYS ARG GLU SEQRES 17 A 228 PHE THR GLU ARG GLU GLN GLY GLU VAL ARG PHE SER ALA SEQRES 18 A 228 VAL ALA LEU CYS LYS ALA ALA SEQRES 1 B 75 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 B 75 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 B 75 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 B 75 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 B 75 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 B 75 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY HET GVE B 76 8 HETNAM GVE METHYL 4-AMINOBUTANOATE FORMUL 3 GVE C5 H11 N O2 FORMUL 4 HOH *3(H2 O) HELIX 1 1 ASN A 9 LEU A 20 1 12 HELIX 2 2 GLU A 35 GLY A 40 1 6 HELIX 3 3 THR A 56 LYS A 71 1 16 HELIX 4 4 SER A 89 ASN A 101 1 13 HELIX 5 5 SER A 112 THR A 121 1 10 HELIX 6 6 SER A 125 GLU A 134 1 10 HELIX 7 7 ASN A 136 GLU A 149 1 14 HELIX 8 8 THR A 192 GLU A 208 1 17 HELIX 9 9 THR B 22 GLY B 35 1 14 HELIX 10 10 PRO B 37 ASP B 39 5 3 HELIX 11 11 LEU B 56 ASN B 60 5 5 SHEET 1 A 2 MET A 6 GLU A 7 0 SHEET 2 A 2 ARG B 74 GLY B 75 -1 O GLY B 75 N MET A 6 SHEET 1 B 2 VAL A 22 ALA A 23 0 SHEET 2 B 2 GLY A 107 PHE A 108 -1 O GLY A 107 N ALA A 23 SHEET 1 C 6 TRP A 26 ASP A 30 0 SHEET 2 C 6 SER A 215 LYS A 221 -1 O CYS A 220 N ARG A 27 SHEET 3 C 6 ALA A 46 PRO A 54 -1 N ALA A 48 O LEU A 219 SHEET 4 C 6 PHE A 160 VAL A 168 -1 O PHE A 165 N LEU A 49 SHEET 5 C 6 HIS A 171 LEU A 175 -1 O TYR A 173 N ASN A 166 SHEET 6 C 6 VAL A 183 ALA A 187 -1 O HIS A 185 N LEU A 172 SHEET 1 D 5 THR B 12 GLU B 16 0 SHEET 2 D 5 GLN B 2 THR B 7 -1 N VAL B 5 O ILE B 13 SHEET 3 D 5 THR B 66 LEU B 71 1 O LEU B 69 N LYS B 6 SHEET 4 D 5 GLN B 41 PHE B 45 -1 N ARG B 42 O VAL B 70 SHEET 5 D 5 LYS B 48 GLN B 49 -1 O LYS B 48 N PHE B 45 LINK SG CYS A 90 CB GVE B 76 1555 1555 1.82 LINK C GLY B 75 N GVE B 76 1555 1555 1.26 CISPEP 1 ALA A 44 PRO A 45 0 -5.43 SITE 1 AC1 6 GLN A 84 ASN A 88 CYS A 90 PHE A 160 SITE 2 AC1 6 HIS A 161 GLY B 75 CRYST1 87.089 87.089 193.476 90.00 90.00 120.00 H 3 2 18 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 0.011483 0.006629 0.000000 0.00000 SCALE2 0.000000 0.013259 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005169 0.00000