PDB Short entry for 3V6E HEADER HYDROLASE/SIGNALING PROTEIN 19-DEC-11 3V6E TITLE CRYSTAL STRUCTURE OF USP2 AND A MUTANT FORM OF UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 41 KDA UBIQUITIN-SPECIFIC PROTEASE, DEUBIQUITINATING ENZYME COMPND 5 2, UBIQUITIN THIOLESTERASE 2, UBIQUITIN-SPECIFIC-PROCESSING PROTEASE COMPND 6 2; COMPND 7 EC: 3.4.19.12; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: UBIQUITIN; COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES; COMPND 13 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UBP41, USP02.258.605, USP2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28LIC; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: UBC; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET53 KEYWDS STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, UBIQUITIN, KEYWDS 2 PROTEASE, HYDROLASE-SIGNALING PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.NECULAI,A.ERNST,S.SIDHU,C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA, AUTHOR 2 J.WEIGELT,S.DHE-PAGANON,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 5 13-SEP-23 3V6E 1 REMARK SEQADV LINK REVDAT 4 08-NOV-17 3V6E 1 REMARK REVDAT 3 14-AUG-13 3V6E 1 COMPND REVDAT 2 27-FEB-13 3V6E 1 JRNL REVDAT 1 19-DEC-12 3V6E 0 JRNL AUTH A.ERNST,G.AVVAKUMOV,J.TONG,Y.FAN,Y.ZHAO,P.ALBERTS,A.PERSAUD, JRNL AUTH 2 J.R.WALKER,A.M.NECULAI,D.NECULAI,A.VOROBYOV,P.GARG,L.BEATTY, JRNL AUTH 3 P.K.CHAN,Y.C.JUANG,M.C.LANDRY,C.YEH,E.ZEQIRAJ,K.KARAMBOULAS, JRNL AUTH 4 A.ALLALI-HASSANI,M.VEDADI,M.TYERS,J.MOFFAT,F.SICHERI, JRNL AUTH 5 L.PELLETIER,D.DUROCHER,B.RAUGHT,D.ROTIN,J.YANG,M.F.MORAN, JRNL AUTH 6 S.DHE-PAGANON,S.S.SIDHU JRNL TITL A STRATEGY FOR MODULATION OF ENZYMES IN THE UBIQUITIN JRNL TITL 2 SYSTEM. JRNL REF SCIENCE V. 339 590 2013 JRNL REFN ISSN 0036-8075 JRNL PMID 23287719 JRNL DOI 10.1126/SCIENCE.1230161 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 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 25647 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) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1283 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1769 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1920 REMARK 3 BIN FREE R VALUE SET COUNT : 93 REMARK 3 BIN FREE R VALUE : 0.2300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3276 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 197 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.02000 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): 0.226 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.194 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.119 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.375 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.900 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3536 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4801 ; 1.248 ; 1.956 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 447 ; 5.755 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 180 ;30.162 ;23.222 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 634 ;13.601 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;18.257 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 522 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2729 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2128 ; 0.706 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3463 ; 1.318 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1408 ; 1.809 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1325 ; 2.915 ; 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 : 1.40 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 3V6E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000069652. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-NOV-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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 : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29660 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 85.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.040 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.15890 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.04 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.98 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.55880 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.010 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: PDB ENTRY 2HD5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 21% PEG3350, 0.2 M CALCIUM REMARK 280 CHLORIDE,0.1 BIS-TRIS PH 7.0, GLYCEROL, VAPOR DIFFUSION, HANGING REMARK 280 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 29.04850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.68550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.06200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.68550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.04850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.06200 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 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 MET A 239 REMARK 465 GLY A 240 REMARK 465 SER A 241 REMARK 465 SER A 242 REMARK 465 HIS A 243 REMARK 465 HIS A 244 REMARK 465 HIS A 245 REMARK 465 HIS A 246 REMARK 465 HIS A 247 REMARK 465 HIS A 248 REMARK 465 SER A 249 REMARK 465 SER A 250 REMARK 465 GLY A 251 REMARK 465 LEU A 252 REMARK 465 VAL A 253 REMARK 465 PRO A 254 REMARK 465 ARG A 255 REMARK 465 GLY A 256 REMARK 465 SER A 257 REMARK 465 MET A 258 REMARK 465 ASN A 259 REMARK 465 SER A 260 REMARK 465 LYS A 261 REMARK 465 SER A 262 REMARK 465 SER A 382 REMARK 465 ASN A 383 REMARK 465 ARG A 448 REMARK 465 GLY A 449 REMARK 465 TYR A 450 REMARK 465 PRO A 451 REMARK 465 ARG A 509 REMARK 465 ILE A 510 REMARK 465 ARG A 511 REMARK 465 SER A 600 REMARK 465 PRO A 601 REMARK 465 PRO A 602 REMARK 465 SER A 603 REMARK 465 ARG A 604 REMARK 465 MET A 605 REMARK 465 MET B -16 REMARK 465 ALA B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 SER B -8 REMARK 465 SER B -7 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 LEU A 378 CG CD1 CD2 REMARK 470 LYS A 381 CG CD CE NZ REMARK 470 LYS A 447 CG CD CE NZ REMARK 470 GLU A 452 CG CD OE1 OE2 REMARK 470 ASN A 535 CG OD1 ND2 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 309 -168.81 -117.89 REMARK 500 ALA A 313 42.61 -99.36 REMARK 500 ASN A 331 -4.03 78.35 REMARK 500 PRO A 336 32.88 -94.28 REMARK 500 ASP A 427 -67.21 -90.69 REMARK 500 HIS A 538 49.32 -105.31 REMARK 500 ASP A 575 -117.91 52.97 REMARK 500 LEU B 71 -139.68 -104.83 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 700 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 425 SG REMARK 620 2 CYS A 428 SG 108.8 REMARK 620 3 CYS A 476 SG 107.5 104.8 REMARK 620 4 CYS A 479 SG 111.4 110.1 114.1 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 700 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1 DBREF 3V6E A 258 605 UNP O75604 UBP2_HUMAN 258 605 DBREF 3V6E B -2 74 UNP P0CG48 UBC_HUMAN 74 150 SEQADV 3V6E MET A 239 UNP O75604 EXPRESSION TAG SEQADV 3V6E GLY A 240 UNP O75604 EXPRESSION TAG SEQADV 3V6E SER A 241 UNP O75604 EXPRESSION TAG SEQADV 3V6E SER A 242 UNP O75604 EXPRESSION TAG SEQADV 3V6E HIS A 243 UNP O75604 EXPRESSION TAG SEQADV 3V6E HIS A 244 UNP O75604 EXPRESSION TAG SEQADV 3V6E HIS A 245 UNP O75604 EXPRESSION TAG SEQADV 3V6E HIS A 246 UNP O75604 EXPRESSION TAG SEQADV 3V6E HIS A 247 UNP O75604 EXPRESSION TAG SEQADV 3V6E HIS A 248 UNP O75604 EXPRESSION TAG SEQADV 3V6E SER A 249 UNP O75604 EXPRESSION TAG SEQADV 3V6E SER A 250 UNP O75604 EXPRESSION TAG SEQADV 3V6E GLY A 251 UNP O75604 EXPRESSION TAG SEQADV 3V6E LEU A 252 UNP O75604 EXPRESSION TAG SEQADV 3V6E VAL A 253 UNP O75604 EXPRESSION TAG SEQADV 3V6E PRO A 254 UNP O75604 EXPRESSION TAG SEQADV 3V6E ARG A 255 UNP O75604 EXPRESSION TAG SEQADV 3V6E GLY A 256 UNP O75604 EXPRESSION TAG SEQADV 3V6E SER A 257 UNP O75604 EXPRESSION TAG SEQADV 3V6E MET B -16 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E ALA B -15 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E HIS B -14 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E HIS B -13 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E HIS B -12 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E HIS B -11 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E HIS B -10 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E HIS B -9 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E SER B -8 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E SER B -7 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E GLY B -6 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E LEU B -5 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E VAL B -4 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E PRO B -3 UNP P0CG48 EXPRESSION TAG SEQADV 3V6E SER B 0 UNP P0CG48 GLY 76 ENGINEERED MUTATION SEQADV 3V6E ASN B 6 UNP P0CG48 LYS 82 ENGINEERED MUTATION SEQADV 3V6E SER B 9 UNP P0CG48 THR 85 ENGINEERED MUTATION SEQADV 3V6E HIS B 12 UNP P0CG48 THR 88 ENGINEERED MUTATION SEQRES 1 A 367 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 367 LEU VAL PRO ARG GLY SER MET ASN SER LYS SER ALA GLN SEQRES 3 A 367 GLY LEU ALA GLY LEU ARG ASN LEU GLY ASN THR CYS PHE SEQRES 4 A 367 MET ASN SER ILE LEU GLN CYS LEU SER ASN THR ARG GLU SEQRES 5 A 367 LEU ARG ASP TYR CYS LEU GLN ARG LEU TYR MET ARG ASP SEQRES 6 A 367 LEU HIS HIS GLY SER ASN ALA HIS THR ALA LEU VAL GLU SEQRES 7 A 367 GLU PHE ALA LYS LEU ILE GLN THR ILE TRP THR SER SER SEQRES 8 A 367 PRO ASN ASP VAL VAL SER PRO SER GLU PHE LYS THR GLN SEQRES 9 A 367 ILE GLN ARG TYR ALA PRO ARG PHE VAL GLY TYR ASN GLN SEQRES 10 A 367 GLN ASP ALA GLN GLU PHE LEU ARG PHE LEU LEU ASP GLY SEQRES 11 A 367 LEU HIS ASN GLU VAL ASN ARG VAL THR LEU ARG PRO LYS SEQRES 12 A 367 SER ASN PRO GLU ASN LEU ASP HIS LEU PRO ASP ASP GLU SEQRES 13 A 367 LYS GLY ARG GLN MET TRP ARG LYS TYR LEU GLU ARG GLU SEQRES 14 A 367 ASP SER ARG ILE GLY ASP LEU PHE VAL GLY GLN LEU LYS SEQRES 15 A 367 SER SER LEU THR CYS THR ASP CYS GLY TYR CYS SER THR SEQRES 16 A 367 VAL PHE ASP PRO PHE TRP ASP LEU SER LEU PRO ILE ALA SEQRES 17 A 367 LYS ARG GLY TYR PRO GLU VAL THR LEU MET ASP CYS MET SEQRES 18 A 367 ARG LEU PHE THR LYS GLU ASP VAL LEU ASP GLY ASP GLU SEQRES 19 A 367 LYS PRO THR CYS CYS ARG CYS ARG GLY ARG LYS ARG CYS SEQRES 20 A 367 ILE LYS LYS PHE SER ILE GLN ARG PHE PRO LYS ILE LEU SEQRES 21 A 367 VAL LEU HIS LEU LYS ARG PHE SER GLU SER ARG ILE ARG SEQRES 22 A 367 THR SER LYS LEU THR THR PHE VAL ASN PHE PRO LEU ARG SEQRES 23 A 367 ASP LEU ASP LEU ARG GLU PHE ALA SER GLU ASN THR ASN SEQRES 24 A 367 HIS ALA VAL TYR ASN LEU TYR ALA VAL SER ASN HIS SER SEQRES 25 A 367 GLY THR THR MET GLY GLY HIS TYR THR ALA TYR CYS ARG SEQRES 26 A 367 SER PRO GLY THR GLY GLU TRP HIS THR PHE ASN ASP SER SEQRES 27 A 367 SER VAL THR PRO MET SER SER SER GLN VAL ARG THR SER SEQRES 28 A 367 ASP ALA TYR LEU LEU PHE TYR GLU LEU ALA SER PRO PRO SEQRES 29 A 367 SER ARG MET SEQRES 1 B 91 MET ALA HIS HIS HIS HIS HIS HIS SER SER GLY LEU VAL SEQRES 2 B 91 PRO ARG GLY SER MET GLN ILE PHE VAL ASN THR LEU SER SEQRES 3 B 91 GLY LYS HIS ILE THR LEU GLU VAL GLU PRO SER ASP THR SEQRES 4 B 91 ILE GLU ASN VAL LYS ALA LYS ILE GLN ASP LYS GLU GLY SEQRES 5 B 91 ILE PRO PRO ASP GLN GLN ARG LEU ILE PHE ALA GLY LYS SEQRES 6 B 91 GLN LEU GLU ASP GLY ARG THR LEU SER ASP TYR ASN ILE SEQRES 7 B 91 GLN LYS GLU SER THR LEU HIS LEU VAL LEU ARG LEU ARG HET ZN A 700 1 HET CL A 701 1 HET CL A 702 1 HET GOL A 1 6 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ZN ZN 2+ FORMUL 4 CL 2(CL 1-) FORMUL 6 GOL C3 H8 O3 FORMUL 7 HOH *197(H2 O) HELIX 1 1 THR A 275 ASN A 287 1 13 HELIX 2 2 THR A 288 GLN A 297 1 10 HELIX 3 3 LEU A 299 LEU A 304 1 6 HELIX 4 4 ALA A 313 TRP A 326 1 14 HELIX 5 5 PRO A 336 ALA A 347 1 12 HELIX 6 6 PRO A 348 VAL A 351 5 4 HELIX 7 7 ASP A 357 ASN A 374 1 18 HELIX 8 8 PRO A 391 GLU A 405 1 15 HELIX 9 9 SER A 409 VAL A 416 1 8 HELIX 10 10 THR A 454 LYS A 464 1 11 HELIX 11 11 ASP A 469 LYS A 473 5 5 HELIX 12 12 ARG A 529 ALA A 532 5 4 HELIX 13 13 SER A 582 VAL A 586 5 5 HELIX 14 14 THR B 22 GLY B 35 1 14 HELIX 15 15 PRO B 37 GLN B 41 5 5 HELIX 16 16 LEU B 56 ASN B 60 5 5 SHEET 1 A 2 GLY A 268 LEU A 269 0 SHEET 2 A 2 VAL A 333 VAL A 334 1 O VAL A 334 N GLY A 268 SHEET 1 B 4 CYS A 431 PHE A 438 0 SHEET 2 B 4 GLY A 417 CYS A 425 -1 N LEU A 419 O ASP A 436 SHEET 3 B 4 CYS A 485 ARG A 493 -1 O LYS A 488 N SER A 422 SHEET 4 B 4 ASP A 466 LEU A 468 -1 N ASP A 466 O LYS A 487 SHEET 1 C 5 LEU A 441 LEU A 443 0 SHEET 2 C 5 ILE A 497 LEU A 502 1 O HIS A 501 N LEU A 441 SHEET 3 C 5 ALA A 591 LEU A 598 -1 O TYR A 596 N LEU A 498 SHEET 4 C 5 VAL A 540 SER A 550 -1 N ASN A 542 O GLU A 597 SHEET 5 C 5 LEU A 526 ASP A 527 -1 N LEU A 526 O TYR A 541 SHEET 1 D 7 LEU A 441 LEU A 443 0 SHEET 2 D 7 ILE A 497 LEU A 502 1 O HIS A 501 N LEU A 441 SHEET 3 D 7 ALA A 591 LEU A 598 -1 O TYR A 596 N LEU A 498 SHEET 4 D 7 VAL A 540 SER A 550 -1 N ASN A 542 O GLU A 597 SHEET 5 D 7 HIS A 557 ARG A 563 -1 O ARG A 563 N TYR A 544 SHEET 6 D 7 TRP A 570 ASN A 574 -1 O PHE A 573 N ALA A 560 SHEET 7 D 7 SER A 577 MET A 581 -1 O SER A 577 N ASN A 574 SHEET 1 E 2 THR A 475 CYS A 476 0 SHEET 2 E 2 GLY A 481 ARG A 482 -1 O GLY A 481 N CYS A 476 SHEET 1 F 2 PHE A 505 SER A 506 0 SHEET 2 F 2 SER A 513 LYS A 514 -1 O SER A 513 N SER A 506 SHEET 1 G 5 HIS B 12 VAL B 17 0 SHEET 2 G 5 MET B 1 ASN B 6 -1 N MET B 1 O VAL B 17 SHEET 3 G 5 THR B 66 VAL B 70 1 O LEU B 67 N ASN B 6 SHEET 4 G 5 ARG B 42 PHE B 45 -1 N ILE B 44 O HIS B 68 SHEET 5 G 5 LYS B 48 GLN B 49 -1 O LYS B 48 N PHE B 45 LINK SG CYS A 425 ZN ZN A 700 1555 1555 2.34 LINK SG CYS A 428 ZN ZN A 700 1555 1555 2.32 LINK SG CYS A 476 ZN ZN A 700 1555 1555 2.34 LINK SG CYS A 479 ZN ZN A 700 1555 1555 2.35 SITE 1 AC1 4 CYS A 425 CYS A 428 CYS A 476 CYS A 479 SITE 1 AC2 5 HOH A 83 LEU A 455 MET A 456 ASN A 520 SITE 2 AC2 5 PRO A 522 SITE 1 AC3 3 ARG A 349 ASP B 52 HOH B 75 SITE 1 AC4 7 HOH A 21 ARG A 363 ASP A 367 HIS A 370 SITE 2 AC4 7 TRP A 439 GLY B 47 LYS B 48 CRYST1 58.097 84.124 87.371 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 0.017213 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011887 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011445 0.00000