HEADER TRANSFERASE 26-MAY-18 6DJW TITLE CRYSTAL STRUCTURE OF PPARKIN (REP AND RING2 DELETED)-PUB-UBCH7 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: RBR-TYPE E3 UBIQUITIN TRANSFERASE,RBR-TYPE E3 UBIQUITIN COMPND 3 TRANSFERASE; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: UNP RESIDUES 29-116,161-412; COMPND 6 SYNONYM: PARKIN; COMPND 7 EC: 2.3.2.31; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: UBIQUITIN; COMPND 11 CHAIN: B; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2 L3; COMPND 14 CHAIN: C; COMPND 15 SYNONYM: E2 UBIQUITIN-CONJUGATING ENZYME L3, L-UBC, UBCH7, UBIQUITIN COMPND 16 CARRIER PROTEIN L3, UBIQUITIN-CONJUGATING ENZYME E2-F1, UBIQUITIN- COMPND 17 PROTEIN LIGASE L3; COMPND 18 EC: 2.3.2.23; COMPND 19 ENGINEERED: YES; COMPND 20 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTROCERA DORSALIS; SOURCE 3 ORGANISM_COMMON: ORIENTAL FRUIT FLY; SOURCE 4 ORGANISM_TAXID: 27457; SOURCE 5 GENE: PRKN2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-6P1; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 12 ORGANISM_COMMON: BOVINE; SOURCE 13 ORGANISM_TAXID: 9913; SOURCE 14 MOL_ID: 3; SOURCE 15 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 16 ORGANISM_COMMON: HUMAN; SOURCE 17 ORGANISM_TAXID: 9606; SOURCE 18 GENE: UBE2L3, UBCE7, UBCH7; SOURCE 19 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 20 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 21 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 22 EXPRESSION_SYSTEM_PLASMID: PGEX-6P1 KEYWDS UBIQUITIN, E3 LIGASE, E2 CONJUGATING ENZYME, PHOSPHORYLATION, KEYWDS 2 MITOPHAGY, PARKINSON DISEASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR V.SAUVE,G.SUNG,J.F.TREMPE,K.GEHRING REVDAT 5 11-OCT-23 6DJW 1 REMARK REVDAT 4 08-JAN-20 6DJW 1 REMARK REVDAT 3 25-JUL-18 6DJW 1 JRNL REVDAT 2 18-JUL-18 6DJW 1 JRNL REVDAT 1 04-JUL-18 6DJW 0 JRNL AUTH V.SAUVE,G.SUNG,N.SOYA,G.KOZLOV,N.BLAIMSCHEIN,L.S.MIOTTO, JRNL AUTH 2 J.F.TREMPE,G.L.LUKACS,K.GEHRING JRNL TITL MECHANISM OF PARKIN ACTIVATION BY PHOSPHORYLATION. JRNL REF NAT. STRUCT. MOL. BIOL. V. 25 623 2018 JRNL REFN ESSN 1545-9985 JRNL PMID 29967542 JRNL DOI 10.1038/S41594-018-0088-7 REMARK 2 REMARK 2 RESOLUTION. 3.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.28 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.920 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 9146 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.265 REMARK 3 R VALUE (WORKING SET) : 0.263 REMARK 3 FREE R VALUE : 0.297 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 873 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 48.2867 - 6.9011 0.99 2705 147 0.1984 0.2401 REMARK 3 2 6.9011 - 5.4801 1.00 2718 147 0.3098 0.3458 REMARK 3 3 5.4801 - 4.7881 1.00 2722 145 0.2888 0.3302 REMARK 3 4 4.7881 - 4.3506 1.00 2703 143 0.3208 0.3453 REMARK 3 5 4.3506 - 4.0389 1.00 2738 147 0.3624 0.3287 REMARK 3 6 4.0389 - 3.8009 1.00 2733 144 0.3799 0.3945 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.760 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 37.890 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 186.8 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 214.9 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.005 4458 REMARK 3 ANGLE : 0.793 6026 REMARK 3 CHIRALITY : 0.030 650 REMARK 3 PLANARITY : 0.004 782 REMARK 3 DIHEDRAL : 10.798 1703 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 25 THROUGH 102 ) REMARK 3 ORIGIN FOR THE GROUP (A): -38.7323 23.5894 5.5679 REMARK 3 T TENSOR REMARK 3 T11: 2.9075 T22: 1.5074 REMARK 3 T33: 1.5681 T12: 0.2099 REMARK 3 T13: -0.0684 T23: 0.2944 REMARK 3 L TENSOR REMARK 3 L11: 2.0572 L22: 6.2430 REMARK 3 L33: 4.2163 L12: 0.9243 REMARK 3 L13: -2.0120 L23: 3.5977 REMARK 3 S TENSOR REMARK 3 S11: 0.4827 S12: 0.6748 S13: 0.4595 REMARK 3 S21: -1.2039 S22: -0.5962 S23: 0.6530 REMARK 3 S31: -1.8771 S32: -0.8562 S33: 0.1073 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND ((RESID 172 THROUGH 363 ) OR (RESID REMARK 3 1001 THROUGH 1004)) REMARK 3 ORIGIN FOR THE GROUP (A): -41.0151 -6.6291 7.2450 REMARK 3 T TENSOR REMARK 3 T11: 2.1064 T22: 2.0743 REMARK 3 T33: 1.7848 T12: 0.2194 REMARK 3 T13: 0.0689 T23: -0.1805 REMARK 3 L TENSOR REMARK 3 L11: 2.0602 L22: 10.9094 REMARK 3 L33: 1.9241 L12: 3.3598 REMARK 3 L13: -0.3003 L23: -0.6840 REMARK 3 S TENSOR REMARK 3 S11: -0.0790 S12: 0.0508 S13: 0.2152 REMARK 3 S21: -1.8044 S22: 0.0986 S23: -0.5335 REMARK 3 S31: -0.1616 S32: 0.6822 S33: 0.0659 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND ((RESID 364 THROUGH 410 ) OR (RESID REMARK 3 1005 THROUGH 1006)) REMARK 3 ORIGIN FOR THE GROUP (A): -28.3115 -33.9730 31.0426 REMARK 3 T TENSOR REMARK 3 T11: 2.6203 T22: 2.0916 REMARK 3 T33: 2.1742 T12: 0.5613 REMARK 3 T13: -0.4815 T23: 0.2489 REMARK 3 L TENSOR REMARK 3 L11: 3.9947 L22: 7.3836 REMARK 3 L33: 8.8171 L12: 1.9148 REMARK 3 L13: 3.4456 L23: -1.3880 REMARK 3 S TENSOR REMARK 3 S11: -0.3031 S12: 0.4614 S13: -0.7377 REMARK 3 S21: 0.8766 S22: 0.6605 S23: -1.0989 REMARK 3 S31: -0.3442 S32: 1.2075 S33: 0.1742 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 74 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.9344 -11.3333 22.3112 REMARK 3 T TENSOR REMARK 3 T11: 1.1582 T22: 1.7489 REMARK 3 T33: 1.9181 T12: 0.0461 REMARK 3 T13: -0.0029 T23: 0.0391 REMARK 3 L TENSOR REMARK 3 L11: -0.2282 L22: 6.8871 REMARK 3 L33: 7.4087 L12: 0.6091 REMARK 3 L13: -0.8662 L23: -1.8447 REMARK 3 S TENSOR REMARK 3 S11: -0.0714 S12: -0.2229 S13: 0.2087 REMARK 3 S21: 0.8909 S22: 0.1795 S23: -0.2263 REMARK 3 S31: -0.3639 S32: 1.0810 S33: -0.4717 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 0 THROUGH 152 ) REMARK 3 ORIGIN FOR THE GROUP (A): -69.7251 -39.2457 4.5613 REMARK 3 T TENSOR REMARK 3 T11: 1.4976 T22: 1.9302 REMARK 3 T33: 1.4537 T12: 0.0793 REMARK 3 T13: -0.0842 T23: -0.1357 REMARK 3 L TENSOR REMARK 3 L11: 2.9440 L22: 8.7900 REMARK 3 L33: 4.6286 L12: 0.9318 REMARK 3 L13: -0.8992 L23: 4.2135 REMARK 3 S TENSOR REMARK 3 S11: -0.3920 S12: 0.4396 S13: 0.0991 REMARK 3 S21: -0.3255 S22: -0.2907 S23: 0.7335 REMARK 3 S31: -0.0158 S32: -0.7728 S33: 0.5334 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6DJW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-MAY-18. REMARK 100 THE DEPOSITION ID IS D_1000234769. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JAN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0332 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.31 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9162 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.800 REMARK 200 RESOLUTION RANGE LOW (A) : 48.280 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 4.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 1.09300 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 2.8.0 REMARK 200 STARTING MODEL: PDB ENTRY 6DJX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL, PH 8.0, 15% W/V REMARK 280 PEG2000 MME, 0.1 M POTASSSIUM CHLORIDE, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 28.73100 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 57.46200 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 57.46200 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 28.73100 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 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 20 REMARK 465 GLY A 21 REMARK 465 GLU A 22 REMARK 465 ASN A 23 REMARK 465 LEU A 24 REMARK 465 PRO A 147 REMARK 465 GLN A 148 REMARK 465 PRO A 149 REMARK 465 GLN A 150 REMARK 465 ARG A 151 REMARK 465 GLN A 152 REMARK 465 ARG A 153 REMARK 465 LEU A 154 REMARK 465 GLN A 155 REMARK 465 SER A 156 REMARK 465 THR A 157 REMARK 465 VAL A 158 REMARK 465 MET A 159 REMARK 465 GLU A 160 REMARK 465 ILE A 161 REMARK 465 THR A 162 REMARK 465 GLU A 163 REMARK 465 GLU A 164 REMARK 465 ASP A 165 REMARK 465 ARG A 166 REMARK 465 GLN A 167 REMARK 465 ARG A 168 REMARK 465 THR A 169 REMARK 465 LYS A 170 REMARK 465 ALA A 171 REMARK 465 GLU A 411 REMARK 465 GLY A 412 REMARK 465 GLY C -4 REMARK 465 PRO C -3 REMARK 465 LEU C -2 REMARK 465 GLY C -1 REMARK 465 VAL C 153 REMARK 465 ASP C 154 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 PRO A 48 -7.84 -57.88 REMARK 500 PHE A 74 116.83 -160.04 REMARK 500 ALA A 75 16.11 59.39 REMARK 500 SER A 101 -56.19 -129.19 REMARK 500 ALA A 199 70.25 59.09 REMARK 500 ASP A 205 70.43 58.03 REMARK 500 GLU A 207 -77.51 -68.54 REMARK 500 ARG A 217 -58.73 -148.39 REMARK 500 THR A 321 -167.13 -105.18 REMARK 500 ILE A 333 105.51 -58.47 REMARK 500 SER A 343 -168.90 -72.43 REMARK 500 ARG A 344 -72.09 -46.76 REMARK 500 TYR A 403 108.89 -57.91 REMARK 500 LYS B 11 95.79 -62.35 REMARK 500 GLU B 34 -50.85 -120.22 REMARK 500 SER C 91 129.59 -33.84 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 A1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 177 SG REMARK 620 2 CYS A 180 SG 114.7 REMARK 620 3 CYS A 246 SG 118.3 109.0 REMARK 620 4 HIS A 249 NE2 103.6 109.8 100.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 192 SG REMARK 620 2 CYS A 195 SG 108.6 REMARK 620 3 CYS A 222 SG 125.4 116.3 REMARK 620 4 CYS A 229 SG 92.9 104.4 103.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1003 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 273 SG REMARK 620 2 CYS A 276 SG 104.7 REMARK 620 3 CYS A 295 SG 105.4 103.9 REMARK 620 4 CYS A 298 SG 119.4 117.7 104.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1004 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 288 SG REMARK 620 2 HIS A 292 ND1 99.5 REMARK 620 3 CYS A 324 SG 108.6 99.3 REMARK 620 4 CYS A 328 SG 119.4 102.7 122.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1006 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 367 SG REMARK 620 2 CYS A 372 SG 100.2 REMARK 620 3 CYS A 387 SG 118.6 118.9 REMARK 620 4 CYS A 391 SG 85.0 120.8 108.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1005 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 396 SG REMARK 620 2 CYS A 399 SG 120.3 REMARK 620 3 HIS A 404 NE2 114.9 91.9 REMARK 620 4 CYS A 408 SG 118.2 109.2 96.9 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 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 1006 DBREF1 6DJW A 29 160 UNP A0A034W4L8_BACDO DBREF2 6DJW A A0A034W4L8 29 116 DBREF1 6DJW A 161 412 UNP A0A034W4L8_BACDO DBREF2 6DJW A A0A034W4L8 161 412 DBREF 6DJW B 1 74 UNP P62992 RS27A_BOVIN 1 74 DBREF 6DJW C 1 154 UNP P68036 UB2L3_HUMAN 1 154 SEQADV 6DJW GLY A 20 UNP A0A034W4L EXPRESSION TAG SEQADV 6DJW GLY A 21 UNP A0A034W4L EXPRESSION TAG SEQADV 6DJW GLU A 22 UNP A0A034W4L EXPRESSION TAG SEQADV 6DJW ASN A 23 UNP A0A034W4L EXPRESSION TAG SEQADV 6DJW LEU A 24 UNP A0A034W4L EXPRESSION TAG SEQADV 6DJW TYR A 25 UNP A0A034W4L EXPRESSION TAG SEQADV 6DJW LEU A 26 UNP A0A034W4L EXPRESSION TAG SEQADV 6DJW GLY A 27 UNP A0A034W4L EXPRESSION TAG SEQADV 6DJW GLY A 28 UNP A0A034W4L EXPRESSION TAG SEQADV 6DJW GLY C -4 UNP P68036 EXPRESSION TAG SEQADV 6DJW PRO C -3 UNP P68036 EXPRESSION TAG SEQADV 6DJW LEU C -2 UNP P68036 EXPRESSION TAG SEQADV 6DJW GLY C -1 UNP P68036 EXPRESSION TAG SEQADV 6DJW SER C 0 UNP P68036 EXPRESSION TAG SEQADV 6DJW LYS C 86 UNP P68036 CYS 86 ENGINEERED MUTATION SEQRES 1 A 349 GLY GLY GLU ASN LEU TYR LEU GLY GLY SER LEU SER ILE SEQRES 2 A 349 TYR ILE LYS THR ASN THR GLY ARG THR LEU SER VAL ASN SEQRES 3 A 349 LEU GLU PRO GLN TRP ASP ILE LYS ASN VAL LYS GLU ILE SEQRES 4 A 349 VAL ALA PRO GLN LEU GLY LEU GLN PRO GLU GLU VAL LYS SEQRES 5 A 349 ILE ILE PHE ALA GLY LYS GLU LEU SER ASP ALA THR THR SEQRES 6 A 349 ILE GLN GLU CYS ASP LEU GLY GLN GLN SEP ILE LEU HIS SEQRES 7 A 349 ALA ILE ARG SER ARG PRO GLN PRO GLN ARG GLN ARG LEU SEQRES 8 A 349 GLN SER THR VAL MET GLU ILE THR GLU GLU ASP ARG GLN SEQRES 9 A 349 ARG THR LYS ALA HIS PHE PHE VAL HIS CYS ALA GLN CYS SEQRES 10 A 349 ASN LYS LEU CYS LYS GLY LYS LEU ARG VAL ARG CYS SER SEQRES 11 A 349 LEU CYS LYS GLY GLY ALA PHE THR VAL HIS ARG ASP PRO SEQRES 12 A 349 GLU CYS TRP ASP ASP VAL LEU LYS PRO ARG ARG ILE THR SEQRES 13 A 349 GLY HIS CYS GLU SER GLN GLU ILE ALA CYS PHE ASP ASN SEQRES 14 A 349 GLU THR GLY ASP PRO PRO PHE THR GLU PHE TYR PHE LYS SEQRES 15 A 349 CYS GLY GLU HIS VAL SER GLY GLY GLU LYS ASP PHE ALA SEQRES 16 A 349 ALA PRO LEU ASN LEU ILE LYS ILE ASN ILE LYS ASP VAL SEQRES 17 A 349 PRO CYS LEU ALA CYS THR GLU VAL SER GLU THR VAL LEU SEQRES 18 A 349 VAL PHE PRO CYS GLU SER LYS HIS VAL THR CYS LEU GLU SEQRES 19 A 349 CYS PHE GLU GLN TYR CYS ARG SER ARG LEU SER GLU ARG SEQRES 20 A 349 GLN PHE MET PRO HIS PRO ASP ILE GLY TYR THR LEU PRO SEQRES 21 A 349 CYS PRO ALA GLY CYS GLU ASN SER PHE ILE GLU GLU ILE SEQRES 22 A 349 HIS HIS PHE LYS LEU LEU SER ARG GLU GLU TYR ALA ARG SEQRES 23 A 349 TYR GLN ARG PHE ALA THR GLU GLU TYR VAL LEU GLN ALA SEQRES 24 A 349 GLY GLY VAL LEU CYS PRO GLN PRO GLY CYS GLY MET GLY SEQRES 25 A 349 LEU LEU VAL GLU PRO GLU CYS LYS LYS VAL THR CYS GLN SEQRES 26 A 349 ASN GLY CYS GLY TYR VAL PHE CYS ARG ASN CYS LEU GLN SEQRES 27 A 349 GLY TYR HIS LEU GLY ASP CYS LEU PRO GLU GLY SEQRES 1 B 74 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 B 74 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 B 74 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 B 74 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 B 74 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SEP SEQRES 6 B 74 THR LEU HIS LEU VAL LEU ARG LEU ARG SEQRES 1 C 159 GLY PRO LEU GLY SER MET ALA ALA SER ARG ARG LEU MET SEQRES 2 C 159 LYS GLU LEU GLU GLU ILE ARG LYS CYS GLY MET LYS ASN SEQRES 3 C 159 PHE ARG ASN ILE GLN VAL ASP GLU ALA ASN LEU LEU THR SEQRES 4 C 159 TRP GLN GLY LEU ILE VAL PRO ASP ASN PRO PRO TYR ASP SEQRES 5 C 159 LYS GLY ALA PHE ARG ILE GLU ILE ASN PHE PRO ALA GLU SEQRES 6 C 159 TYR PRO PHE LYS PRO PRO LYS ILE THR PHE LYS THR LYS SEQRES 7 C 159 ILE TYR HIS PRO ASN ILE ASP GLU LYS GLY GLN VAL LYS SEQRES 8 C 159 LEU PRO VAL ILE SER ALA GLU ASN TRP LYS PRO ALA THR SEQRES 9 C 159 LYS THR ASP GLN VAL ILE GLN SER LEU ILE ALA LEU VAL SEQRES 10 C 159 ASN ASP PRO GLN PRO GLU HIS PRO LEU ARG ALA ASP LEU SEQRES 11 C 159 ALA GLU GLU TYR SER LYS ASP ARG LYS LYS PHE CYS LYS SEQRES 12 C 159 ASN ALA GLU GLU PHE THR LYS LYS TYR GLY GLU LYS ARG SEQRES 13 C 159 PRO VAL ASP MODRES 6DJW SEP A 94 SER MODIFIED RESIDUE MODRES 6DJW SEP B 65 SER MODIFIED RESIDUE HET SEP A 94 10 HET SEP B 65 10 HET ZN A1001 1 HET ZN A1002 1 HET ZN A1003 1 HET ZN A1004 1 HET ZN A1005 1 HET ZN A1006 1 HETNAM SEP PHOSPHOSERINE HETNAM ZN ZINC ION HETSYN SEP PHOSPHONOSERINE FORMUL 1 SEP 2(C3 H8 N O6 P) FORMUL 4 ZN 6(ZN 2+) HELIX 1 AA1 ASP A 51 GLY A 64 1 14 HELIX 2 AA2 ILE A 85 ASP A 89 5 5 HELIX 3 AA3 GLU A 223 ALA A 228 1 6 HELIX 4 AA4 LEU A 296 ARG A 306 1 11 HELIX 5 AA5 GLU A 335 LEU A 342 5 8 HELIX 6 AA6 SER A 343 GLY A 363 1 21 HELIX 7 AA7 THR B 22 GLY B 35 1 14 HELIX 8 AA8 LEU B 56 ASN B 60 5 5 HELIX 9 AA9 ALA C 3 CYS C 17 1 15 HELIX 10 AB1 ASN C 43 ASP C 47 5 5 HELIX 11 AB2 GLU C 60 LYS C 64 5 5 HELIX 12 AB3 SER C 91 TRP C 95 5 5 HELIX 13 AB4 LYS C 100 ASP C 114 1 15 HELIX 14 AB5 ARG C 122 ASP C 132 1 11 HELIX 15 AB6 ARG C 133 TYR C 147 1 15 SHEET 1 AA1 5 THR A 41 LEU A 46 0 SHEET 2 AA1 5 LEU A 30 LYS A 35 -1 N ILE A 34 O LEU A 42 SHEET 3 AA1 5 SEP A 94 ARG A 100 1 O SEP A 94 N TYR A 33 SHEET 4 AA1 5 VAL A 70 PHE A 74 -1 N ILE A 73 O HIS A 97 SHEET 5 AA1 5 LYS A 77 GLU A 78 -1 O LYS A 77 N PHE A 74 SHEET 1 AA2 2 VAL A 175 HIS A 176 0 SHEET 2 AA2 2 ALA A 259 PRO A 260 -1 O ALA A 259 N HIS A 176 SHEET 1 AA3 2 GLY A 186 ARG A 191 0 SHEET 2 AA3 2 GLU A 241 CYS A 246 -1 O TYR A 243 N ARG A 189 SHEET 1 AA4 3 ILE A 264 ILE A 266 0 SHEET 2 AA4 3 THR A 282 VAL A 285 -1 O VAL A 283 N LYS A 265 SHEET 3 AA4 3 VAL A 293 CYS A 295 -1 O THR A 294 N LEU A 284 SHEET 1 AA5 2 MET A 313 HIS A 315 0 SHEET 2 AA5 2 GLY A 319 THR A 321 -1 O GLY A 319 N HIS A 315 SHEET 1 AA6 5 VAL A 365 LEU A 366 0 SHEET 2 AA6 5 GLY A 375 LEU A 377 -1 O LEU A 376 N VAL A 365 SHEET 3 AA6 5 THR B 66 ARG B 72 1 O LEU B 71 N LEU A 377 SHEET 4 AA6 5 GLN B 2 LYS B 6 1 N PHE B 4 O LEU B 67 SHEET 5 AA6 5 THR B 12 GLU B 16 -1 O LEU B 15 N ILE B 3 SHEET 1 AA7 5 VAL A 365 LEU A 366 0 SHEET 2 AA7 5 GLY A 375 LEU A 377 -1 O LEU A 376 N VAL A 365 SHEET 3 AA7 5 THR B 66 ARG B 72 1 O LEU B 71 N LEU A 377 SHEET 4 AA7 5 GLN B 41 PHE B 45 -1 N ARG B 42 O VAL B 70 SHEET 5 AA7 5 LYS B 48 GLN B 49 -1 O LYS B 48 N PHE B 45 SHEET 1 AA8 4 PHE C 22 GLN C 26 0 SHEET 2 AA8 4 THR C 34 ILE C 39 -1 O GLN C 36 N GLN C 26 SHEET 3 AA8 4 GLY C 49 ASN C 56 -1 O ILE C 55 N TRP C 35 SHEET 4 AA8 4 LYS C 67 PHE C 70 -1 O THR C 69 N GLU C 54 SHEET 1 AA9 4 PHE C 22 GLN C 26 0 SHEET 2 AA9 4 THR C 34 ILE C 39 -1 O GLN C 36 N GLN C 26 SHEET 3 AA9 4 GLY C 49 ASN C 56 -1 O ILE C 55 N TRP C 35 SHEET 4 AA9 4 GLU C 149 LYS C 150 -1 O GLU C 149 N ALA C 50 LINK C GLN A 93 N SEP A 94 1555 1555 1.33 LINK C SEP A 94 N ILE A 95 1555 1555 1.33 LINK C GLU B 64 N SEP B 65 1555 1555 1.33 LINK C SEP B 65 N THR B 66 1555 1555 1.33 LINK SG CYS A 177 ZN ZN A1002 1555 1555 2.30 LINK SG CYS A 180 ZN ZN A1002 1555 1555 2.37 LINK SG CYS A 192 ZN ZN A1001 1555 1555 2.42 LINK SG CYS A 195 ZN ZN A1001 1555 1555 2.29 LINK SG CYS A 222 ZN ZN A1001 1555 1555 2.31 LINK SG CYS A 229 ZN ZN A1001 1555 1555 2.31 LINK SG CYS A 246 ZN ZN A1002 1555 1555 2.29 LINK NE2 HIS A 249 ZN ZN A1002 1555 1555 2.03 LINK SG CYS A 273 ZN ZN A1003 1555 1555 2.27 LINK SG CYS A 276 ZN ZN A1003 1555 1555 2.25 LINK SG CYS A 288 ZN ZN A1004 1555 1555 2.31 LINK ND1 HIS A 292 ZN ZN A1004 1555 1555 2.03 LINK SG CYS A 295 ZN ZN A1003 1555 1555 2.31 LINK SG CYS A 298 ZN ZN A1003 1555 1555 2.21 LINK SG CYS A 324 ZN ZN A1004 1555 1555 2.30 LINK SG CYS A 328 ZN ZN A1004 1555 1555 2.35 LINK SG CYS A 367 ZN ZN A1006 1555 1555 2.25 LINK SG CYS A 372 ZN ZN A1006 1555 1555 2.26 LINK SG CYS A 387 ZN ZN A1006 1555 1555 2.31 LINK SG CYS A 391 ZN ZN A1006 1555 1555 2.27 LINK SG CYS A 396 ZN ZN A1005 1555 1555 2.40 LINK SG CYS A 399 ZN ZN A1005 1555 1555 2.27 LINK NE2 HIS A 404 ZN ZN A1005 1555 1555 2.02 LINK SG CYS A 408 ZN ZN A1005 1555 1555 2.38 SITE 1 AC1 4 CYS A 192 CYS A 195 CYS A 222 CYS A 229 SITE 1 AC2 4 CYS A 177 CYS A 180 CYS A 246 HIS A 249 SITE 1 AC3 4 CYS A 273 CYS A 276 CYS A 295 CYS A 298 SITE 1 AC4 4 CYS A 288 HIS A 292 CYS A 324 CYS A 328 SITE 1 AC5 4 CYS A 396 CYS A 399 HIS A 404 CYS A 408 SITE 1 AC6 4 CYS A 367 CYS A 372 CYS A 387 CYS A 391 CRYST1 134.606 134.606 86.193 90.00 90.00 120.00 P 31 2 1 6 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 0.007429 0.004289 0.000000 0.00000 SCALE2 0.000000 0.008578 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011602 0.00000