HEADER METAL BINDING PROTEIN 10-JUL-14 3WX2 TITLE MOUSE CEREBLON THALIDOMIDE BINDING DOMAIN, NATIVE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN CEREBLON; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CEREBLON(CRBN), UNP RESIDUES 322-427; COMPND 5 SYNONYM: PROTEIN PIL; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: CRBN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ZINC FINGER, E3 UBIQUITIN LIGASE, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.MORI,T.ITO,Y.HIRANO,Y.YAMAGUCHI,H.HANDA,T.HAKOSHIMA REVDAT 4 08-NOV-23 3WX2 1 REMARK SEQADV LINK REVDAT 3 17-SEP-14 3WX2 1 JRNL REVDAT 2 27-AUG-14 3WX2 1 JRNL REVDAT 1 06-AUG-14 3WX2 0 JRNL AUTH P.P.CHAMBERLAIN,A.LOPEZ-GIRONA,K.MILLER,G.CARMEL, JRNL AUTH 2 B.PAGARIGAN,B.CHIE-LEON,E.RYCHAK,L.G.CORRAL,Y.J.REN,M.WANG, JRNL AUTH 3 M.RILEY,S.L.DELKER,T.ITO,H.ANDO,T.MORI,Y.HIRANO,H.HANDA, JRNL AUTH 4 T.HAKOSHIMA,T.O.DANIEL,B.E.CATHERS JRNL TITL STRUCTURE OF THE HUMAN CEREBLON-DDB1-LENALIDOMIDE COMPLEX JRNL TITL 2 REVEALS BASIS FOR RESPONSIVENESS TO THALIDOMIDE ANALOGS JRNL REF NAT.STRUCT.MOL.BIOL. V. 21 803 2014 JRNL REFN ISSN 1545-9993 JRNL PMID 25108355 JRNL DOI 10.1038/NSMB.2874 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.46 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 17462 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 943 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1262 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.85 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE SET COUNT : 66 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1612 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 139 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.164 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.146 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.101 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 : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1675 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2279 ; 1.011 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 204 ; 6.265 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 58 ;44.000 ;23.621 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 276 ;17.836 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ;17.683 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 256 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1214 ; 0.016 ; 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): 825 ; 2.471 ; 3.648 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1026 ; 3.446 ; 5.438 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 850 ; 4.664 ; 3.969 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): 2476 ; 7.746 ;31.168 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 : BABINET MODEL WITH 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: NULL REMARK 4 REMARK 4 3WX2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000096900. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-JAN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18492 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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 REMARK 200 STARTING MODEL: 3WX1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE (PH 5.7), 0.2M REMARK 280 SODIUM SULPHATE, 12% PEG3350, 30% GLYCEROL, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 21 3 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 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y,-Z REMARK 290 16555 X,-Y,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z,-X,-Y+1/2 REMARK 290 19555 -Z,-X+1/2,Y REMARK 290 20555 -Z+1/2,X,-Y REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z,-X REMARK 290 23555 Y,-Z,-X+1/2 REMARK 290 24555 -Y,-Z+1/2,X 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 58.86300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.86300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 58.86300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.86300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 58.86300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 58.86300 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 58.86300 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 58.86300 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 58.86300 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 58.86300 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 58.86300 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 58.86300 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 58.86300 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 58.86300 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 58.86300 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 58.86300 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 58.86300 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 58.86300 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 58.86300 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 58.86300 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 58.86300 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 58.86300 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 58.86300 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 58.86300 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 58.86300 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 58.86300 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 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 S SO4 A 502 LIES ON A SPECIAL POSITION. REMARK 375 O3 SO4 A 502 LIES ON A SPECIAL POSITION. REMARK 375 S SO4 B 502 LIES ON A SPECIAL POSITION. REMARK 375 O4 SO4 B 502 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 607 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 650 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 THR A 428 REMARK 465 ILE A 429 REMARK 465 PRO A 430 REMARK 465 ALA B 351 REMARK 465 TYR B 352 REMARK 465 VAL B 353 REMARK 465 ASN B 354 REMARK 465 PRO B 355 REMARK 465 HIS B 356 REMARK 465 GLY B 357 REMARK 465 TYR B 358 REMARK 465 VAL B 359 REMARK 465 THR B 428 REMARK 465 ILE B 429 REMARK 465 PRO B 430 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 GLN A 330 -54.89 73.98 REMARK 500 GLN B 330 -40.70 74.48 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 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 326 SG REMARK 620 2 CYS A 329 SG 105.3 REMARK 620 3 CYS A 394 SG 115.1 103.9 REMARK 620 4 CYS A 397 SG 96.6 125.5 110.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 326 SG REMARK 620 2 CYS B 329 SG 107.9 REMARK 620 3 CYS B 394 SG 111.5 107.9 REMARK 620 4 CYS B 397 SG 96.4 124.0 108.5 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WX1 RELATED DB: PDB DBREF 3WX2 A 322 430 UNP Q8C7D2 CRBN_MOUSE 322 430 DBREF 3WX2 B 322 430 UNP Q8C7D2 CRBN_MOUSE 322 430 SEQADV 3WX2 GLY A -2 UNP Q8C7D2 EXPRESSION TAG SEQADV 3WX2 PRO A -1 UNP Q8C7D2 EXPRESSION TAG SEQADV 3WX2 GLY B -2 UNP Q8C7D2 EXPRESSION TAG SEQADV 3WX2 PRO B -1 UNP Q8C7D2 EXPRESSION TAG SEQRES 1 A 111 GLY PRO THR SER LEU CYS CYS LYS GLN CYS GLN GLU THR SEQRES 2 A 111 GLU ILE THR THR LYS ASN GLU ILE PHE SER LEU SER LEU SEQRES 3 A 111 CYS GLY PRO MET ALA ALA TYR VAL ASN PRO HIS GLY TYR SEQRES 4 A 111 VAL HIS GLU THR LEU THR VAL TYR LYS ALA SER ASN LEU SEQRES 5 A 111 ASN LEU ILE GLY ARG PRO SER THR VAL HIS SER TRP PHE SEQRES 6 A 111 PRO GLY TYR ALA TRP THR ILE ALA GLN CYS LYS ILE CYS SEQRES 7 A 111 ALA SER HIS ILE GLY TRP LYS PHE THR ALA THR LYS LYS SEQRES 8 A 111 ASP MET SER PRO GLN LYS PHE TRP GLY LEU THR ARG SER SEQRES 9 A 111 ALA LEU LEU PRO THR ILE PRO SEQRES 1 B 111 GLY PRO THR SER LEU CYS CYS LYS GLN CYS GLN GLU THR SEQRES 2 B 111 GLU ILE THR THR LYS ASN GLU ILE PHE SER LEU SER LEU SEQRES 3 B 111 CYS GLY PRO MET ALA ALA TYR VAL ASN PRO HIS GLY TYR SEQRES 4 B 111 VAL HIS GLU THR LEU THR VAL TYR LYS ALA SER ASN LEU SEQRES 5 B 111 ASN LEU ILE GLY ARG PRO SER THR VAL HIS SER TRP PHE SEQRES 6 B 111 PRO GLY TYR ALA TRP THR ILE ALA GLN CYS LYS ILE CYS SEQRES 7 B 111 ALA SER HIS ILE GLY TRP LYS PHE THR ALA THR LYS LYS SEQRES 8 B 111 ASP MET SER PRO GLN LYS PHE TRP GLY LEU THR ARG SER SEQRES 9 B 111 ALA LEU LEU PRO THR ILE PRO HET ZN A 501 1 HET SO4 A 502 5 HET SO4 A 503 5 HET ZN B 501 1 HET SO4 B 502 5 HET SO4 B 503 5 HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION FORMUL 3 ZN 2(ZN 2+) FORMUL 4 SO4 4(O4 S 2-) FORMUL 9 HOH *139(H2 O) HELIX 1 1 ASN A 338 ILE A 340 5 3 HELIX 2 2 GLY A 347 ALA A 351 5 5 HELIX 3 3 TYR A 358 HIS A 360 5 3 HELIX 4 4 ASN B 338 ILE B 340 5 3 SHEET 1 A 3 GLU A 333 THR A 336 0 SHEET 2 A 3 SER A 323 CYS A 326 -1 N LEU A 324 O ILE A 334 SHEET 3 A 3 LEU A 425 LEU A 426 -1 O LEU A 426 N CYS A 325 SHEET 1 B 5 THR A 362 VAL A 365 0 SHEET 2 B 5 LYS A 416 THR A 421 -1 O LEU A 420 N LEU A 363 SHEET 3 B 5 HIS A 400 ALA A 407 -1 N PHE A 405 O PHE A 417 SHEET 4 B 5 TYR A 387 CYS A 394 -1 N ALA A 388 O THR A 406 SHEET 5 B 5 LEU A 371 SER A 378 -1 N ASN A 372 O GLN A 393 SHEET 1 C 3 GLU B 333 THR B 336 0 SHEET 2 C 3 SER B 323 CYS B 326 -1 N LEU B 324 O ILE B 334 SHEET 3 C 3 LEU B 425 LEU B 426 -1 O LEU B 426 N CYS B 325 SHEET 1 D 5 THR B 362 VAL B 365 0 SHEET 2 D 5 LYS B 416 THR B 421 -1 O LEU B 420 N LEU B 363 SHEET 3 D 5 HIS B 400 ALA B 407 -1 N PHE B 405 O PHE B 417 SHEET 4 D 5 TYR B 387 CYS B 394 -1 N ALA B 388 O THR B 406 SHEET 5 D 5 LEU B 371 SER B 378 -1 N ASN B 372 O GLN B 393 LINK SG CYS A 326 ZN ZN A 501 1555 1555 2.33 LINK SG CYS A 329 ZN ZN A 501 1555 1555 2.32 LINK SG CYS A 394 ZN ZN A 501 1555 1555 2.35 LINK SG CYS A 397 ZN ZN A 501 1555 1555 2.34 LINK SG CYS B 326 ZN ZN B 501 1555 1555 2.34 LINK SG CYS B 329 ZN ZN B 501 1555 1555 2.35 LINK SG CYS B 394 ZN ZN B 501 1555 1555 2.36 LINK SG CYS B 397 ZN ZN B 501 1555 1555 2.34 CISPEP 1 SER A 413 PRO A 414 0 -9.42 CISPEP 2 LEU A 426 PRO A 427 0 -2.25 CISPEP 3 SER B 413 PRO B 414 0 -5.36 CISPEP 4 LEU B 426 PRO B 427 0 -8.38 SITE 1 AC1 4 CYS A 326 CYS A 329 CYS A 394 CYS A 397 SITE 1 AC2 2 LYS A 367 LYS A 416 SITE 1 AC3 8 LYS A 367 LYS A 404 PRO A 414 GLN A 415 SITE 2 AC3 8 LYS A 416 HOH A 604 HOH A 656 HOH A 661 SITE 1 AC4 4 CYS B 326 CYS B 329 CYS B 394 CYS B 397 SITE 1 AC5 2 LYS B 367 LYS B 416 SITE 1 AC6 8 LYS B 367 LYS B 404 PRO B 414 GLN B 415 SITE 2 AC6 8 LYS B 416 HOH B 609 HOH B 635 HOH B 644 CRYST1 117.726 117.726 117.726 90.00 90.00 90.00 I 21 3 48 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 0.008494 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008494 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008494 0.00000