HEADER LIGASE 23-JUN-14 4QPL TITLE CRYSTAL STRUCTURE OF RNF146(RING-WWE)/UBCH5A/ISO-ADPR COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE RNF146; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: UNP RESIDUES 32-185; COMPND 5 SYNONYM: IDUNA, RING FINGER PROTEIN 146; COMPND 6 EC: 6.3.2.-; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2 D1; COMPND 10 CHAIN: B, D; COMPND 11 SYNONYM: STIMULATOR OF FE TRANSPORT, SFT, UBC4/5 HOMOLOG, UBCH5, COMPND 12 UBIQUITIN CARRIER PROTEIN D1, UBIQUITIN-CONJUGATING ENZYME E2(17)KB COMPND 13 1, UBIQUITIN-CONJUGATING ENZYME E2-17 KDA 1, UBIQUITIN-PROTEIN LIGASE COMPND 14 D1; COMPND 15 EC: 6.3.2.19; COMPND 16 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: RNF146; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: UBE2D1, SFT, UBC5A, UBCH5, UBCH5A; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN POLY(ADP-RIBOSY)LATION, UBIQUITINATION, E2/E3 UBIQUITIN KEYWDS 2 LIGASE, WNT SIGNALING, RNF146, UBCH5A, ISO-ADPR, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.WANG,P.A.DAROSA,R.E.KLEVIT,W.XU REVDAT 5 28-FEB-24 4QPL 1 REMARK SEQADV LINK REVDAT 4 22-NOV-17 4QPL 1 REMARK REVDAT 3 21-JAN-15 4QPL 1 JRNL REVDAT 2 05-NOV-14 4QPL 1 JRNL REVDAT 1 15-OCT-14 4QPL 0 JRNL AUTH P.A.DAROSA,Z.WANG,X.JIANG,J.N.PRUNEDA,F.CONG,R.E.KLEVIT,W.XU JRNL TITL ALLOSTERIC ACTIVATION OF THE RNF146 UBIQUITIN LIGASE BY A JRNL TITL 2 POLY(ADP-RIBOSYL)ATION SIGNAL. JRNL REF NATURE V. 517 223 2015 JRNL REFN ISSN 0028-0836 JRNL PMID 25327252 JRNL DOI 10.1038/NATURE13826 REMARK 2 REMARK 2 RESOLUTION. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 55779 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2994 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4886 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 371 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.27000 REMARK 3 B22 (A**2) : 6.07000 REMARK 3 B33 (A**2) : -3.81000 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): 0.145 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.135 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.656 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5116 ; 0.009 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4794 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6944 ; 1.400 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11066 ; 0.790 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 604 ; 6.200 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 230 ;33.877 ;23.304 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 858 ;14.196 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;15.159 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 734 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5634 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1170 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2428 ; 2.012 ; 3.427 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2427 ; 2.012 ; 3.427 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3028 ; 2.940 ; 5.748 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 : 4 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 30 A 182 REMARK 3 ORIGIN FOR THE GROUP (A): 50.6899 18.1555 33.1286 REMARK 3 T TENSOR REMARK 3 T11: 0.2238 T22: 0.1462 REMARK 3 T33: 0.2826 T12: -0.0126 REMARK 3 T13: -0.0001 T23: 0.0030 REMARK 3 L TENSOR REMARK 3 L11: 2.0234 L22: 0.7871 REMARK 3 L33: 6.4481 L12: -0.2993 REMARK 3 L13: 1.5666 L23: -1.5195 REMARK 3 S TENSOR REMARK 3 S11: -0.0762 S12: -0.0367 S13: 0.0814 REMARK 3 S21: 0.0421 S22: -0.0228 S23: -0.0785 REMARK 3 S31: -0.1194 S32: 0.3217 S33: 0.0990 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 : B -1 B 147 REMARK 3 ORIGIN FOR THE GROUP (A): 20.1171 15.1450 14.2281 REMARK 3 T TENSOR REMARK 3 T11: 0.2196 T22: 0.0254 REMARK 3 T33: 0.2179 T12: -0.0169 REMARK 3 T13: 0.0313 T23: -0.0123 REMARK 3 L TENSOR REMARK 3 L11: 5.4974 L22: 0.8567 REMARK 3 L33: 3.1919 L12: 0.1396 REMARK 3 L13: 1.3741 L23: 0.2990 REMARK 3 S TENSOR REMARK 3 S11: -0.0816 S12: 0.2941 S13: 0.0053 REMARK 3 S21: -0.0409 S22: 0.0337 S23: 0.0535 REMARK 3 S31: -0.0780 S32: -0.0625 S33: 0.0479 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 : C 30 C 182 REMARK 3 ORIGIN FOR THE GROUP (A): -30.4402 16.2010 14.0249 REMARK 3 T TENSOR REMARK 3 T11: 0.2260 T22: 0.0105 REMARK 3 T33: 0.2448 T12: 0.0114 REMARK 3 T13: 0.0098 T23: 0.0165 REMARK 3 L TENSOR REMARK 3 L11: 2.0692 L22: 1.3325 REMARK 3 L33: 4.6966 L12: 0.1484 REMARK 3 L13: 1.2254 L23: 1.4667 REMARK 3 S TENSOR REMARK 3 S11: -0.0283 S12: -0.1127 S13: 0.0445 REMARK 3 S21: -0.0498 S22: 0.0125 S23: 0.0154 REMARK 3 S31: -0.1128 S32: -0.1242 S33: 0.0158 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D -5 D 147 REMARK 3 ORIGIN FOR THE GROUP (A): -0.0988 13.8440 32.6713 REMARK 3 T TENSOR REMARK 3 T11: 0.2239 T22: 0.0505 REMARK 3 T33: 0.2382 T12: 0.0100 REMARK 3 T13: 0.0336 T23: 0.0173 REMARK 3 L TENSOR REMARK 3 L11: 5.3275 L22: 0.7171 REMARK 3 L33: 3.3805 L12: -0.2405 REMARK 3 L13: 1.5145 L23: -0.4182 REMARK 3 S TENSOR REMARK 3 S11: -0.0229 S12: -0.4411 S13: -0.0563 REMARK 3 S21: 0.0388 S22: 0.0082 S23: -0.0149 REMARK 3 S31: -0.0691 S32: 0.0687 S33: 0.0147 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 4QPL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000086352. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2830 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55779 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 200 DATA REDUNDANCY : 7.800 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) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 71.4 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: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.8 M SODIUM CITRATE, 80 MM TRIS HCL REMARK 280 PH7.0, 160 MM NACL, 4 MMDTT, 20 MM TRIMETHYLAMIN HCL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 66.83250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.84400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 66.83250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.84400 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 1450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 29 REMARK 465 ASP A 183 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 GLY C 29 REMARK 465 ASP C 183 REMARK 465 HIS D -6 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 52 10.43 83.05 REMARK 500 ARG A 98 17.96 -142.65 REMARK 500 ARG A 161 89.93 -67.05 REMARK 500 ASP B 42 -12.94 72.09 REMARK 500 ARG B 90 -129.95 -121.49 REMARK 500 LYS C 52 3.90 80.35 REMARK 500 GLU C 102 -65.49 -109.94 REMARK 500 ASP D 42 -14.48 70.35 REMARK 500 ARG D 90 -124.24 -125.09 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 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 36 SG REMARK 620 2 CYS A 39 SG 109.7 REMARK 620 3 CYS A 56 SG 107.1 106.5 REMARK 620 4 CYS A 59 SG 114.2 106.6 112.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 203 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 51 SG REMARK 620 2 HIS A 53 ND1 103.1 REMARK 620 3 CYS A 70 SG 110.0 108.5 REMARK 620 4 CYS A 73 SG 106.7 113.7 114.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 36 SG REMARK 620 2 CYS C 39 SG 109.0 REMARK 620 3 CYS C 56 SG 107.0 106.2 REMARK 620 4 CYS C 59 SG 114.0 109.7 110.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 203 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 51 SG REMARK 620 2 HIS C 53 ND1 107.4 REMARK 620 3 CYS C 70 SG 107.3 109.5 REMARK 620 4 CYS C 73 SG 107.0 112.8 112.5 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 V3L A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE V3L C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 203 DBREF 4QPL A 30 183 UNP Q9CZW6 RN146_MOUSE 32 185 DBREF 4QPL B 1 147 UNP P51668 UB2D1_HUMAN 1 147 DBREF 4QPL C 30 183 UNP Q9CZW6 RN146_MOUSE 32 185 DBREF 4QPL D 1 147 UNP P51668 UB2D1_HUMAN 1 147 SEQADV 4QPL GLY A 29 UNP Q9CZW6 EXPRESSION TAG SEQADV 4QPL HIS B -6 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS B -5 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS B -4 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS B -3 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS B -2 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS B -1 UNP P51668 EXPRESSION TAG SEQADV 4QPL ALA B 0 UNP P51668 EXPRESSION TAG SEQADV 4QPL GLY C 29 UNP Q9CZW6 EXPRESSION TAG SEQADV 4QPL HIS D -6 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS D -5 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS D -4 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS D -3 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS D -2 UNP P51668 EXPRESSION TAG SEQADV 4QPL HIS D -1 UNP P51668 EXPRESSION TAG SEQADV 4QPL ALA D 0 UNP P51668 EXPRESSION TAG SEQRES 1 A 155 GLY SER LEU THR VAL PRO GLU CYS ALA ILE CYS LEU GLN SEQRES 2 A 155 THR CYS VAL HIS PRO VAL SER LEU PRO CYS LYS HIS VAL SEQRES 3 A 155 PHE CYS TYR LEU CYS VAL LYS GLY ALA SER TRP LEU GLY SEQRES 4 A 155 LYS ARG CYS ALA LEU CYS ARG GLN GLU ILE PRO GLU ASP SEQRES 5 A 155 PHE LEU ASP LYS PRO THR LEU LEU SER PRO GLU GLU LEU SEQRES 6 A 155 LYS ALA ALA SER ARG GLY ASN GLY GLU TYR ALA TRP TYR SEQRES 7 A 155 TYR GLU GLY ARG ASN GLY TRP TRP GLN TYR ASP GLU ARG SEQRES 8 A 155 THR SER ARG GLU LEU GLU ASP ALA PHE SER LYS GLY LYS SEQRES 9 A 155 LYS ASN THR GLU MET LEU ILE ALA GLY PHE LEU TYR VAL SEQRES 10 A 155 ALA ASP LEU GLU ASN MET VAL GLN TYR ARG ARG ASN GLU SEQRES 11 A 155 HIS GLY ARG ARG ARG LYS ILE LYS ARG ASP ILE ILE ASP SEQRES 12 A 155 ILE PRO LYS LYS GLY VAL ALA GLY LEU ARG LEU ASP SEQRES 1 B 154 HIS HIS HIS HIS HIS HIS ALA MET ALA LEU LYS ARG ILE SEQRES 2 B 154 GLN LYS GLU LEU SER ASP LEU GLN ARG ASP PRO PRO ALA SEQRES 3 B 154 HIS CYS SER ALA GLY PRO VAL GLY ASP ASP LEU PHE HIS SEQRES 4 B 154 TRP GLN ALA THR ILE MET GLY PRO PRO ASP SER ALA TYR SEQRES 5 B 154 GLN GLY GLY VAL PHE PHE LEU THR VAL HIS PHE PRO THR SEQRES 6 B 154 ASP TYR PRO PHE LYS PRO PRO LYS ILE ALA PHE THR THR SEQRES 7 B 154 LYS ILE TYR HIS PRO ASN ILE ASN SER ASN GLY SER ILE SEQRES 8 B 154 CYS LEU ASP ILE LEU ARG SER GLN TRP SER PRO ALA LEU SEQRES 9 B 154 THR VAL SER LYS VAL LEU LEU SER ILE CYS SER LEU LEU SEQRES 10 B 154 CYS ASP PRO ASN PRO ASP ASP PRO LEU VAL PRO ASP ILE SEQRES 11 B 154 ALA GLN ILE TYR LYS SER ASP LYS GLU LYS TYR ASN ARG SEQRES 12 B 154 HIS ALA ARG GLU TRP THR GLN LYS TYR ALA MET SEQRES 1 C 155 GLY SER LEU THR VAL PRO GLU CYS ALA ILE CYS LEU GLN SEQRES 2 C 155 THR CYS VAL HIS PRO VAL SER LEU PRO CYS LYS HIS VAL SEQRES 3 C 155 PHE CYS TYR LEU CYS VAL LYS GLY ALA SER TRP LEU GLY SEQRES 4 C 155 LYS ARG CYS ALA LEU CYS ARG GLN GLU ILE PRO GLU ASP SEQRES 5 C 155 PHE LEU ASP LYS PRO THR LEU LEU SER PRO GLU GLU LEU SEQRES 6 C 155 LYS ALA ALA SER ARG GLY ASN GLY GLU TYR ALA TRP TYR SEQRES 7 C 155 TYR GLU GLY ARG ASN GLY TRP TRP GLN TYR ASP GLU ARG SEQRES 8 C 155 THR SER ARG GLU LEU GLU ASP ALA PHE SER LYS GLY LYS SEQRES 9 C 155 LYS ASN THR GLU MET LEU ILE ALA GLY PHE LEU TYR VAL SEQRES 10 C 155 ALA ASP LEU GLU ASN MET VAL GLN TYR ARG ARG ASN GLU SEQRES 11 C 155 HIS GLY ARG ARG ARG LYS ILE LYS ARG ASP ILE ILE ASP SEQRES 12 C 155 ILE PRO LYS LYS GLY VAL ALA GLY LEU ARG LEU ASP SEQRES 1 D 154 HIS HIS HIS HIS HIS HIS ALA MET ALA LEU LYS ARG ILE SEQRES 2 D 154 GLN LYS GLU LEU SER ASP LEU GLN ARG ASP PRO PRO ALA SEQRES 3 D 154 HIS CYS SER ALA GLY PRO VAL GLY ASP ASP LEU PHE HIS SEQRES 4 D 154 TRP GLN ALA THR ILE MET GLY PRO PRO ASP SER ALA TYR SEQRES 5 D 154 GLN GLY GLY VAL PHE PHE LEU THR VAL HIS PHE PRO THR SEQRES 6 D 154 ASP TYR PRO PHE LYS PRO PRO LYS ILE ALA PHE THR THR SEQRES 7 D 154 LYS ILE TYR HIS PRO ASN ILE ASN SER ASN GLY SER ILE SEQRES 8 D 154 CYS LEU ASP ILE LEU ARG SER GLN TRP SER PRO ALA LEU SEQRES 9 D 154 THR VAL SER LYS VAL LEU LEU SER ILE CYS SER LEU LEU SEQRES 10 D 154 CYS ASP PRO ASN PRO ASP ASP PRO LEU VAL PRO ASP ILE SEQRES 11 D 154 ALA GLN ILE TYR LYS SER ASP LYS GLU LYS TYR ASN ARG SEQRES 12 D 154 HIS ALA ARG GLU TRP THR GLN LYS TYR ALA MET HET V3L A 201 36 HET ZN A 202 1 HET ZN A 203 1 HET V3L C 201 36 HET ZN C 202 1 HET ZN C 203 1 HETNAM V3L 2'-O-(5-O-PHOSPHONO-ALPHA-D-RIBOFURANOSYL)ADENOSINE 5'- HETNAM 2 V3L (DIHYDROGEN PHOSPHATE) HETNAM ZN ZINC ION FORMUL 5 V3L 2(C15 H23 N5 O14 P2) FORMUL 6 ZN 4(ZN 2+) FORMUL 11 HOH *371(H2 O) HELIX 1 1 TYR A 57 TRP A 65 1 9 HELIX 2 2 SER A 89 SER A 97 1 9 HELIX 3 3 ASP A 117 LYS A 130 1 14 HELIX 4 4 ALA B 0 ASP B 16 1 17 HELIX 5 5 LEU B 86 ARG B 90 5 5 HELIX 6 6 THR B 98 ASP B 112 1 15 HELIX 7 7 VAL B 120 ASP B 130 1 11 HELIX 8 8 ASP B 130 MET B 147 1 18 HELIX 9 9 TYR C 57 TRP C 65 1 9 HELIX 10 10 SER C 89 GLY C 99 1 11 HELIX 11 11 ASP C 117 LYS C 130 1 14 HELIX 12 12 HIS D -1 ASP D 16 1 18 HELIX 13 13 LEU D 86 ARG D 90 5 5 HELIX 14 14 THR D 98 ASP D 112 1 15 HELIX 15 15 VAL D 120 ASP D 130 1 11 HELIX 16 16 ASP D 130 MET D 147 1 18 SHEET 1 A 2 PRO A 46 SER A 48 0 SHEET 2 A 2 VAL A 54 CYS A 56 -1 O PHE A 55 N VAL A 47 SHEET 1 B 8 ASN A 134 ILE A 139 0 SHEET 2 B 8 PHE A 142 ASP A 147 -1 O ALA A 146 N THR A 135 SHEET 3 B 8 VAL A 152 ARG A 155 -1 O VAL A 152 N ASP A 147 SHEET 4 B 8 ARG A 162 ILE A 169 -1 O ARG A 163 N GLN A 153 SHEET 5 B 8 TYR A 103 GLY A 109 -1 N TYR A 106 O LYS A 166 SHEET 6 B 8 GLY A 112 GLN A 115 -1 O TRP A 114 N TYR A 107 SHEET 7 B 8 GLY A 176 VAL A 177 1 O GLY A 176 N GLN A 115 SHEET 8 B 8 LEU A 180 ARG A 181 -1 O LEU A 180 N VAL A 177 SHEET 1 C 4 CYS B 21 VAL B 26 0 SHEET 2 C 4 ASP B 29 MET B 38 -1 O GLN B 34 N GLY B 24 SHEET 3 C 4 VAL B 49 HIS B 55 -1 O PHE B 50 N ILE B 37 SHEET 4 C 4 LYS B 66 PHE B 69 -1 O LYS B 66 N HIS B 55 SHEET 1 D 2 PRO C 46 SER C 48 0 SHEET 2 D 2 VAL C 54 CYS C 56 -1 O PHE C 55 N VAL C 47 SHEET 1 E 8 ASN C 134 ILE C 139 0 SHEET 2 E 8 PHE C 142 ASP C 147 -1 O TYR C 144 N MET C 137 SHEET 3 E 8 VAL C 152 ARG C 155 -1 O VAL C 152 N ASP C 147 SHEET 4 E 8 ARG C 163 ILE C 169 -1 O ARG C 163 N GLN C 153 SHEET 5 E 8 TYR C 103 GLY C 109 -1 N ALA C 104 O ASP C 168 SHEET 6 E 8 GLY C 112 GLN C 115 -1 O TRP C 114 N TYR C 107 SHEET 7 E 8 GLY C 176 VAL C 177 1 O GLY C 176 N GLN C 115 SHEET 8 E 8 LEU C 180 ARG C 181 -1 O LEU C 180 N VAL C 177 SHEET 1 F 4 CYS D 21 VAL D 26 0 SHEET 2 F 4 ASP D 29 MET D 38 -1 O HIS D 32 N VAL D 26 SHEET 3 F 4 VAL D 49 HIS D 55 -1 O PHE D 50 N ILE D 37 SHEET 4 F 4 LYS D 66 PHE D 69 -1 O LYS D 66 N HIS D 55 LINK SG CYS A 36 ZN ZN A 202 1555 1555 2.32 LINK SG CYS A 39 ZN ZN A 202 1555 1555 2.30 LINK SG CYS A 51 ZN ZN A 203 1555 1555 2.29 LINK ND1 HIS A 53 ZN ZN A 203 1555 1555 2.09 LINK SG CYS A 56 ZN ZN A 202 1555 1555 2.35 LINK SG CYS A 59 ZN ZN A 202 1555 1555 2.32 LINK SG CYS A 70 ZN ZN A 203 1555 1555 2.32 LINK SG CYS A 73 ZN ZN A 203 1555 1555 2.33 LINK SG CYS C 36 ZN ZN C 202 1555 1555 2.30 LINK SG CYS C 39 ZN ZN C 202 1555 1555 2.31 LINK SG CYS C 51 ZN ZN C 203 1555 1555 2.30 LINK ND1 HIS C 53 ZN ZN C 203 1555 1555 2.05 LINK SG CYS C 56 ZN ZN C 202 1555 1555 2.34 LINK SG CYS C 59 ZN ZN C 202 1555 1555 2.36 LINK SG CYS C 70 ZN ZN C 203 1555 1555 2.35 LINK SG CYS C 73 ZN ZN C 203 1555 1555 2.31 CISPEP 1 TYR B 60 PRO B 61 0 10.19 CISPEP 2 TYR D 60 PRO D 61 0 4.00 SITE 1 AC1 18 LYS A 61 TYR A 107 GLY A 109 ARG A 110 SITE 2 AC1 18 TRP A 114 TYR A 116 ILE A 139 TYR A 144 SITE 3 AC1 18 GLN A 153 ARG A 161 ARG A 163 LYS A 175 SITE 4 AC1 18 GLY A 179 HOH A 302 HOH A 305 HOH A 306 SITE 5 AC1 18 HOH A 318 HOH A 330 SITE 1 AC2 4 CYS A 36 CYS A 39 CYS A 56 CYS A 59 SITE 1 AC3 4 CYS A 51 HIS A 53 CYS A 70 CYS A 73 SITE 1 AC4 19 LYS C 61 TYR C 107 GLY C 109 ARG C 110 SITE 2 AC4 19 TRP C 114 TYR C 116 ILE C 139 TYR C 144 SITE 3 AC4 19 GLN C 153 ARG C 161 ARG C 163 LYS C 175 SITE 4 AC4 19 GLY C 179 HOH C 301 HOH C 303 HOH C 304 SITE 5 AC4 19 HOH C 319 HOH C 320 HOH C 345 SITE 1 AC5 4 CYS C 36 CYS C 39 CYS C 56 CYS C 59 SITE 1 AC6 4 CYS C 51 HIS C 53 CYS C 70 CYS C 73 CRYST1 133.665 61.688 94.346 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.007481 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016211 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010599 0.00000