HEADER LIGASE/SIGNALING PROTEIN 27-SEP-12 4BBN TITLE NEDD4 HECT-UB:UB COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE NEDD4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HECT DOMAIN, RESIDUES 892-1318; COMPND 5 SYNONYM: CELL PROLIFERATION-INDUCING GENE 53 PROTEIN, NEURAL COMPND 6 PRECURSOR CELL EXPRESSED DEVELOPMENTALLY DOWN-REGULATED PROTEIN 4, COMPND 7 NEDD-4; COMPND 8 EC: 6.3.2.-; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES; COMPND 11 MOL_ID: 2; COMPND 12 MOLECULE: POLYUBIQUITIN-B; COMPND 13 CHAIN: C; COMPND 14 FRAGMENT: RESIDUES 1-76; COMPND 15 SYNONYM: UBIQUITIN; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 3; COMPND 18 MOLECULE: POLYUBIQUITIN-B; COMPND 19 CHAIN: F; COMPND 20 FRAGMENT: RESIDUES 229-304; COMPND 21 SYNONYM: UBIQUITIN; COMPND 22 ENGINEERED: YES; COMPND 23 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PGEX-6P-1; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 13 ORGANISM_COMMON: CATTLE; SOURCE 14 ORGANISM_TAXID: 9913; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 18 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_VECTOR: PGEX-6P-1; SOURCE 21 MOL_ID: 3; SOURCE 22 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 23 ORGANISM_COMMON: CATTLE; SOURCE 24 ORGANISM_TAXID: 9913; SOURCE 25 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 26 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 27 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 28 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 29 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 30 EXPRESSION_SYSTEM_VECTOR: PGEX-6P-1 KEYWDS LIGASE-SIGNALING PROTEIN COMPLEX, LIGASE, UBIQUITINATION EXPDTA X-RAY DIFFRACTION AUTHOR E.MASPERO,E.VALENTINI,S.MARI,V.CECATIELLO,S.POLO,S.PASQUALATO REVDAT 5 20-DEC-23 4BBN 1 REMARK REVDAT 4 25-SEP-13 4BBN 1 JRNL REVDAT 3 15-MAY-13 4BBN 1 JRNL REVDAT 2 08-MAY-13 4BBN 1 JRNL REVDAT 1 01-MAY-13 4BBN 0 JRNL AUTH E.MASPERO,E.VALENTINI,S.MARI,V.CECATIELLO,P.SOFFIENTINI, JRNL AUTH 2 S.PASQUALATO,S.POLO JRNL TITL STRUCTURE OF A UBIQUITIN-LOADED HECT LIGASE REVEALS THE JRNL TITL 2 MOLECULAR BASIS FOR CATALYTIC PRIMING JRNL REF NAT.STRUCT.MOL.BIOL. V. 20 696 2013 JRNL REFN ISSN 1545-9993 JRNL PMID 23644597 JRNL DOI 10.1038/NSMB.2566 REMARK 2 REMARK 2 RESOLUTION. 2.51 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 98.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 23875 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1247 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) : 2.51 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1678 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.2790 REMARK 3 BIN FREE R VALUE SET COUNT : 100 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4382 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 110 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.09 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.25000 REMARK 3 B22 (A**2) : 0.25000 REMARK 3 B33 (A**2) : -0.37000 REMARK 3 B12 (A**2) : 0.12000 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): 0.392 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.248 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.178 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.610 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4482 ; 0.008 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6038 ; 1.142 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 527 ; 7.284 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 231 ;38.096 ;24.156 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 834 ;18.252 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;18.850 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 637 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3407 ; 0.013 ; 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): 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 518 A 895 REMARK 3 ORIGIN FOR THE GROUP (A): 31.6436 -22.3935 33.1783 REMARK 3 T TENSOR REMARK 3 T11: 0.1258 T22: 0.0438 REMARK 3 T33: 0.0988 T12: 0.0308 REMARK 3 T13: 0.0250 T23: 0.0146 REMARK 3 L TENSOR REMARK 3 L11: 0.1721 L22: 0.2211 REMARK 3 L33: 0.2347 L12: -0.0677 REMARK 3 L13: -0.1164 L23: 0.2158 REMARK 3 S TENSOR REMARK 3 S11: 0.0555 S12: -0.0268 S13: 0.0199 REMARK 3 S21: -0.0705 S22: -0.0428 S23: -0.0342 REMARK 3 S31: -0.0613 S32: -0.0283 S33: -0.0127 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 76 REMARK 3 ORIGIN FOR THE GROUP (A): 16.2373 1.9915 32.6309 REMARK 3 T TENSOR REMARK 3 T11: 0.2196 T22: 0.1085 REMARK 3 T33: 0.1371 T12: 0.1270 REMARK 3 T13: -0.1038 T23: -0.0719 REMARK 3 L TENSOR REMARK 3 L11: 0.8963 L22: 3.7392 REMARK 3 L33: 0.9495 L12: -1.1203 REMARK 3 L13: 0.6193 L23: 0.3292 REMARK 3 S TENSOR REMARK 3 S11: 0.3023 S12: 0.0803 S13: -0.1603 REMARK 3 S21: -0.5910 S22: -0.4218 S23: 0.6583 REMARK 3 S31: 0.0984 S32: -0.0961 S33: 0.1195 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 1 F 76 REMARK 3 ORIGIN FOR THE GROUP (A): 38.8007 -43.6587 3.4732 REMARK 3 T TENSOR REMARK 3 T11: 0.0639 T22: 0.1762 REMARK 3 T33: 0.0370 T12: -0.0123 REMARK 3 T13: -0.0117 T23: -0.0375 REMARK 3 L TENSOR REMARK 3 L11: 3.8359 L22: 0.4556 REMARK 3 L33: 2.7024 L12: 0.6648 REMARK 3 L13: 0.4742 L23: 1.0297 REMARK 3 S TENSOR REMARK 3 S11: 0.1608 S12: 0.5756 S13: -0.0497 REMARK 3 S21: 0.0752 S22: 0.1154 S23: -0.1053 REMARK 3 S31: 0.1341 S32: 0.1270 S33: -0.2762 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 4BBN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1290054189. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9393 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25322 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.510 REMARK 200 RESOLUTION RANGE LOW (A) : 98.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.88000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 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 2XBB REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.5 SODIUM MALONATE, PH 6.0 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 98.27000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 56.73621 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 32.92333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 98.27000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 56.73621 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 32.92333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 98.27000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 56.73621 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 32.92333 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 98.27000 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 56.73621 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 32.92333 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 98.27000 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 56.73621 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 32.92333 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 98.27000 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 56.73621 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 32.92333 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 113.47242 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 65.84667 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 113.47242 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 65.84667 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 113.47242 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 65.84667 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 113.47242 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 65.84667 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 113.47242 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 65.84667 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 113.47242 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 65.84667 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, F 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 515 REMARK 465 PRO A 516 REMARK 465 LEU A 517 REMARK 465 ASP A 896 REMARK 465 GLY A 897 REMARK 465 VAL A 898 REMARK 465 ASP A 899 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 N MET C 1 O VAL C 17 2.02 REMARK 500 OD1 ASN A 868 O HOH A 2073 2.10 REMARK 500 OE1 GLN C 49 O HOH C 2004 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 630 CG HIS A 630 CD2 0.056 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 PRO A 692 C - N - CD ANGL. DEV. = 12.8 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 ARG A 520 -63.14 71.00 REMARK 500 ASP A 538 40.19 -92.73 REMARK 500 TYR A 616 13.57 -145.14 REMARK 500 LEU A 695 30.26 -99.61 REMARK 500 THR A 724 -168.58 -124.68 REMARK 500 ASP A 781 140.21 -36.21 REMARK 500 ARG C 54 -160.26 -124.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XBB RELATED DB: PDB REMARK 900 NEDD4 HECT:UB COMPLEX REMARK 900 RELATED ID: 2XBF RELATED DB: PDB REMARK 900 NEDD4 HECT STRUCTURE REMARK 900 RELATED ID: 4BE8 RELATED DB: PDB REMARK 900 NEDD4 HECT A889F STRUCTURE DBREF 4BBN A 515 899 UNP P46934 NEDD4_HUMAN 892 1318 DBREF 4BBN C 1 76 UNP P0CG53 UBB_BOVIN 1 76 DBREF 4BBN F 1 76 UNP P0CG53 UBB_BOVIN 229 304 SEQADV 4BBN GLY A 515 UNP P46934 EXPRESSION TAG SEQADV 4BBN PRO A 516 UNP P46934 EXPRESSION TAG SEQADV 4BBN LEU A 517 UNP P46934 EXPRESSION TAG SEQADV 4BBN GLY A 518 UNP P46934 EXPRESSION TAG SEQADV 4BBN ILE A 626 UNP P46934 LEU 1045 ENGINEERED MUTATION SEQADV 4BBN A UNP P46934 CYS 1046 DELETION SEQADV 4BBN PRO A 628 UNP P46934 GLU 1048 ENGINEERED MUTATION SEQADV 4BBN SER A 777 UNP P46934 CYS 1197 ENGINEERED MUTATION SEQADV 4BBN CYS F 76 UNP P46934 GLY 304 ENGINEERED MUTATION SEQRES 1 A 385 GLY PRO LEU GLY SER ARG ASP TYR LYS ARG LYS TYR GLU SEQRES 2 A 385 PHE PHE ARG ARG LYS LEU LYS LYS GLN ASN ASP ILE PRO SEQRES 3 A 385 ASN LYS PHE GLU MET LYS LEU ARG ARG ALA THR VAL LEU SEQRES 4 A 385 GLU ASP SER TYR ARG ARG ILE MET GLY VAL LYS ARG ALA SEQRES 5 A 385 ASP PHE LEU LYS ALA ARG LEU TRP ILE GLU PHE ASP GLY SEQRES 6 A 385 GLU LYS GLY LEU ASP TYR GLY GLY VAL ALA ARG GLU TRP SEQRES 7 A 385 PHE PHE LEU ILE SER LYS GLU MET PHE ASN PRO TYR TYR SEQRES 8 A 385 GLY LEU PHE GLU TYR SER ALA THR ASP ASN TYR THR LEU SEQRES 9 A 385 GLN ILE ASN PRO ASN SER GLY ILE ASN PRO ASP HIS LEU SEQRES 10 A 385 SER TYR PHE LYS PHE ILE GLY ARG VAL ALA GLY MET ALA SEQRES 11 A 385 VAL TYR HIS GLY LYS LEU LEU ASP GLY PHE PHE ILE ARG SEQRES 12 A 385 PRO PHE TYR LYS MET MET LEU HIS LYS PRO ILE THR LEU SEQRES 13 A 385 HIS ASP MET GLU SER VAL ASP SER GLU TYR TYR ASN SER SEQRES 14 A 385 LEU ARG TRP ILE LEU GLU ASN ASP PRO THR GLU LEU ASP SEQRES 15 A 385 LEU ARG PHE ILE ILE ASP GLU GLU LEU PHE GLY GLN THR SEQRES 16 A 385 HIS GLN HIS GLU LEU LYS ASN GLY GLY SER GLU ILE VAL SEQRES 17 A 385 VAL THR ASN LYS ASN LYS LYS GLU TYR ILE TYR LEU VAL SEQRES 18 A 385 ILE GLN TRP ARG PHE VAL ASN ARG ILE GLN LYS GLN MET SEQRES 19 A 385 ALA ALA PHE LYS GLU GLY PHE PHE GLU LEU ILE PRO GLN SEQRES 20 A 385 ASP LEU ILE LYS ILE PHE ASP GLU ASN GLU LEU GLU LEU SEQRES 21 A 385 LEU MET SER GLY LEU GLY ASP VAL ASP VAL ASN ASP TRP SEQRES 22 A 385 ARG GLU HIS THR LYS TYR LYS ASN GLY TYR SER ALA ASN SEQRES 23 A 385 HIS GLN VAL ILE GLN TRP PHE TRP LYS ALA VAL LEU MET SEQRES 24 A 385 MET ASP SER GLU LYS ARG ILE ARG LEU LEU GLN PHE VAL SEQRES 25 A 385 THR GLY THR SER ARG VAL PRO MET ASN GLY PHE ALA GLU SEQRES 26 A 385 LEU TYR GLY SER ASN GLY PRO GLN SER PHE THR VAL GLU SEQRES 27 A 385 GLN TRP GLY THR PRO GLU LYS LEU PRO ARG ALA HIS THR SEQRES 28 A 385 CYS PHE ASN ARG LEU ASP LEU PRO PRO TYR GLU SER PHE SEQRES 29 A 385 GLU GLU LEU TRP ASP LYS LEU GLN MET ALA ILE GLU ASN SEQRES 30 A 385 THR GLN GLY PHE ASP GLY VAL ASP SEQRES 1 C 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 C 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 C 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 C 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 C 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 C 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY SEQRES 1 F 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 F 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 F 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 F 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 F 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 F 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY CYS FORMUL 4 HOH *110(H2 O) HELIX 1 1 ARG A 520 LEU A 533 1 14 HELIX 2 2 ARG A 548 ALA A 550 5 3 HELIX 3 3 THR A 551 VAL A 563 1 13 HELIX 4 4 ARG A 565 ALA A 571 5 7 HELIX 5 5 ASP A 584 PHE A 601 1 18 HELIX 6 6 ASN A 602 GLY A 606 5 5 HELIX 7 7 ASN A 623 ASN A 627 5 5 HELIX 8 8 ASP A 629 HIS A 647 1 19 HELIX 9 9 ILE A 656 LEU A 664 1 9 HELIX 10 10 THR A 669 ASP A 677 1 9 HELIX 11 11 ASP A 677 ASN A 690 1 14 HELIX 12 12 PRO A 692 ASP A 696 5 5 HELIX 13 13 ASN A 727 VAL A 741 1 15 HELIX 14 14 ILE A 744 GLU A 757 1 14 HELIX 15 15 PRO A 760 LYS A 765 1 6 HELIX 16 16 ASP A 768 GLY A 778 1 11 HELIX 17 17 ASP A 783 HIS A 790 1 8 HELIX 18 18 HIS A 801 MET A 814 1 14 HELIX 19 19 ASP A 815 GLY A 828 1 14 HELIX 20 20 ASN A 835 GLU A 839 5 5 HELIX 21 21 SER A 877 ASN A 891 1 15 HELIX 22 22 THR C 22 GLU C 34 1 13 HELIX 23 23 PRO C 37 ASP C 39 5 3 HELIX 24 24 THR F 22 GLY F 35 1 14 HELIX 25 25 PRO F 37 ASP F 39 5 3 SHEET 1 AA 2 LYS A 542 LEU A 547 0 SHEET 2 AA 2 ARG A 572 PHE A 577 1 O ARG A 572 N PHE A 543 SHEET 1 AB 2 PHE A 608 TYR A 610 0 SHEET 2 AB 2 LEU A 618 ILE A 620 -1 O GLN A 619 N GLU A 609 SHEET 1 AC 2 ILE A 700 LEU A 705 0 SHEET 2 AC 2 GLN A 708 GLU A 713 -1 O GLN A 708 N LEU A 705 SHEET 1 AD 5 THR A 791 LYS A 794 0 SHEET 2 AD 5 PHE A 849 GLN A 853 1 O PHE A 849 N LYS A 792 SHEET 3 AD 5 ARG A 869 LEU A 872 1 O LEU A 870 N GLU A 852 SHEET 4 AD 5 ARG A 862 HIS A 864 -1 O ARG A 862 N ASP A 871 SHEET 5 AD 5 ARG F 74 GLY F 75 1 N GLY F 75 O ALA A 863 SHEET 1 AE 2 TYR A 841 GLY A 842 0 SHEET 2 AE 2 GLY A 845 PRO A 846 -1 O GLY A 845 N GLY A 842 SHEET 1 CA 5 THR C 12 GLU C 16 0 SHEET 2 CA 5 GLN C 2 LYS C 6 -1 O ILE C 3 N LEU C 15 SHEET 3 CA 5 THR C 66 LEU C 71 1 O LEU C 67 N LYS C 6 SHEET 4 CA 5 GLN C 41 PHE C 45 -1 O ARG C 42 N VAL C 70 SHEET 5 CA 5 LYS C 48 GLN C 49 -1 O LYS C 48 N PHE C 45 SHEET 1 FA 5 THR F 12 GLU F 16 0 SHEET 2 FA 5 GLN F 2 THR F 7 -1 O ILE F 3 N LEU F 15 SHEET 3 FA 5 THR F 66 LEU F 71 1 O LEU F 67 N LYS F 6 SHEET 4 FA 5 GLN F 41 PHE F 45 -1 O ARG F 42 N VAL F 70 SHEET 5 FA 5 LYS F 48 GLN F 49 -1 O LYS F 48 N PHE F 45 SSBOND 1 CYS A 866 CYS F 76 1555 1555 2.03 CRYST1 196.540 196.540 98.770 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 0.005088 0.002938 0.000000 0.00000 SCALE2 0.000000 0.005875 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010125 0.00000