HEADER LIGASE 10-MAY-23 8P0F TITLE CRYSTAL STRUCTURE OF THE VCB COMPLEX WITH COMPOUND 1. COMPND MOL_ID: 1; COMPND 2 MOLECULE: VON HIPPEL-LINDAU DISEASE TUMOR SUPPRESSOR; COMPND 3 CHAIN: A, D; COMPND 4 SYNONYM: PROTEIN G7,PVHL; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ELONGIN-C; COMPND 8 CHAIN: B, E; COMPND 9 SYNONYM: ELOC,ELONGIN 15 KDA SUBUNIT,RNA POLYMERASE II TRANSCRIPTION COMPND 10 FACTOR SIII SUBUNIT C,SIII P15,TRANSCRIPTION ELONGATION FACTOR B COMPND 11 POLYPEPTIDE 1; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: ELONGIN-B; COMPND 15 CHAIN: C, F; COMPND 16 SYNONYM: ELOB,ELONGIN 18 KDA SUBUNIT,RNA POLYMERASE II TRANSCRIPTION COMPND 17 FACTOR SIII SUBUNIT B,SIII P18,TRANSCRIPTION ELONGATION FACTOR B COMPND 18 POLYPEPTIDE 2; COMPND 19 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: VHL; 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: ELOC, TCEB1; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 GENE: ELOB, TCEB2; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INHIBITOR, LIGAND, PROTAC, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR G.BADER,J.BOETTCHER,B.WOLKERSTORFER REVDAT 2 20-DEC-23 8P0F 1 JRNL REVDAT 1 31-MAY-23 8P0F 0 JRNL AUTH T.SCOTT,C.SMETHURST,Y.WESTERMAIER,M.MAYER,P.GREB,R.KOUSEK, JRNL AUTH 2 T.BIBERGER,G.BADER,Z.JANDOVA,P.SCHMALHORST,J.FUCHS, JRNL AUTH 3 A.MAGARKAR,C.HOENKE,T.GERSTBERGER,S.COMBS,R.PAPE,S.PHUL, JRNL AUTH 4 S.KOTHIWALE,A.BERGNER,R.MORETTI JRNL TITL DRUGIT: CROWD-SOURCING MOLECULAR DESIGN OF NON-PEPTIDIC VHL JRNL TITL 2 BINDERS JRNL REF CHEMRXIV 2023 JRNL REFN ISSN 2573-2293 JRNL DOI 10.26434/CHEMRXIV-2023-LCZZD REMARK 2 REMARK 2 RESOLUTION. 1.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.8 (8-JUN-2022) REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 58.1 REMARK 3 NUMBER OF REFLECTIONS : 33550 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) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1680 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 51 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.98 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.16 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 5.07 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 671 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2908 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 638 REMARK 3 BIN R VALUE (WORKING SET) : 0.2886 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.92 REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5427 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 61 REMARK 3 SOLVENT ATOMS : 329 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 8.33050 REMARK 3 B22 (A**2) : -2.98810 REMARK 3 B33 (A**2) : -5.34240 REMARK 3 B12 (A**2) : 2.18320 REMARK 3 B13 (A**2) : 2.10800 REMARK 3 B23 (A**2) : 0.95990 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.330 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.401 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.248 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.926 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 11112 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 20135 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 3283 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 1717 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 5625 ; 10.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 730 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 9089 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 0.95 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.99 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 15.80 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|62 - A|207 } REMARK 3 ORIGIN FOR THE GROUP (A): 12.5931 -23.7796 37.9772 REMARK 3 T TENSOR REMARK 3 T11: 0.1513 T22: -0.0724 REMARK 3 T33: -0.1535 T12: 0.1601 REMARK 3 T13: 0.0905 T23: 0.0097 REMARK 3 L TENSOR REMARK 3 L11: 6.4362 L22: 0.3869 REMARK 3 L33: 0.8477 L12: -0.9186 REMARK 3 L13: -1.4794 L23: 0.3942 REMARK 3 S TENSOR REMARK 3 S11: -0.5446 S12: -0.4399 S13: -0.0269 REMARK 3 S21: 0.0473 S22: 0.2723 S23: -0.0696 REMARK 3 S31: -0.0061 S32: 0.0211 S33: 0.2722 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|16 - B|111 } REMARK 3 ORIGIN FOR THE GROUP (A): 32.8596 -14.0764 22.1464 REMARK 3 T TENSOR REMARK 3 T11: 0.1758 T22: -0.1223 REMARK 3 T33: -0.1624 T12: -0.0694 REMARK 3 T13: -0.0140 T23: 0.0371 REMARK 3 L TENSOR REMARK 3 L11: 5.0172 L22: 1.7445 REMARK 3 L33: 2.6055 L12: 0.7093 REMARK 3 L13: 0.3543 L23: 0.0731 REMARK 3 S TENSOR REMARK 3 S11: -0.6935 S12: 0.4035 S13: 0.3440 REMARK 3 S21: -0.0878 S22: 0.3729 S23: 0.0818 REMARK 3 S31: -0.2048 S32: 0.1937 S33: 0.3206 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { C|1 - C|104 } REMARK 3 ORIGIN FOR THE GROUP (A): 28.0519 -8.4593 5.8610 REMARK 3 T TENSOR REMARK 3 T11: 0.1120 T22: 0.0755 REMARK 3 T33: -0.2259 T12: -0.3018 REMARK 3 T13: -0.1801 T23: 0.2120 REMARK 3 L TENSOR REMARK 3 L11: 3.5432 L22: 2.7087 REMARK 3 L33: 3.0402 L12: -1.0585 REMARK 3 L13: 0.1484 L23: -2.2009 REMARK 3 S TENSOR REMARK 3 S11: -0.5656 S12: 1.1835 S13: 0.4744 REMARK 3 S21: -0.2566 S22: 0.2924 S23: 0.2584 REMARK 3 S31: -0.0235 S32: -0.0660 S33: 0.2731 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { D|62 - D|207 } REMARK 3 ORIGIN FOR THE GROUP (A): 20.6317 -9.2606 -33.4831 REMARK 3 T TENSOR REMARK 3 T11: 0.0459 T22: -0.1083 REMARK 3 T33: -0.1099 T12: 0.0743 REMARK 3 T13: 0.0341 T23: -0.0233 REMARK 3 L TENSOR REMARK 3 L11: 1.0748 L22: 7.2715 REMARK 3 L33: 1.7910 L12: 0.4596 REMARK 3 L13: 0.5731 L23: -1.8650 REMARK 3 S TENSOR REMARK 3 S11: 0.0866 S12: 0.0911 S13: 0.0241 REMARK 3 S21: -0.3964 S22: 0.0169 S23: 0.1237 REMARK 3 S31: -0.0652 S32: 0.1186 S33: -0.1034 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: { E|16 - E|111 } REMARK 3 ORIGIN FOR THE GROUP (A): 12.3566 -29.2205 -15.8644 REMARK 3 T TENSOR REMARK 3 T11: 0.0837 T22: -0.1265 REMARK 3 T33: -0.1245 T12: -0.0026 REMARK 3 T13: -0.0753 T23: 0.0274 REMARK 3 L TENSOR REMARK 3 L11: 2.6863 L22: 4.6515 REMARK 3 L33: 3.8601 L12: 1.2994 REMARK 3 L13: -0.0733 L23: 1.4851 REMARK 3 S TENSOR REMARK 3 S11: 0.3244 S12: -0.0514 S13: -0.0812 REMARK 3 S21: 0.3265 S22: -0.2891 S23: 0.0818 REMARK 3 S31: 0.3164 S32: -0.3253 S33: -0.0353 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: { F|1 - F|104 } REMARK 3 ORIGIN FOR THE GROUP (A): 11.4507 -24.7251 1.4573 REMARK 3 T TENSOR REMARK 3 T11: 0.2072 T22: -0.0645 REMARK 3 T33: -0.2550 T12: -0.2310 REMARK 3 T13: -0.0706 T23: 0.0494 REMARK 3 L TENSOR REMARK 3 L11: 2.3071 L22: 1.9562 REMARK 3 L33: 5.0371 L12: -1.3354 REMARK 3 L13: -2.2500 L23: 2.2686 REMARK 3 S TENSOR REMARK 3 S11: 0.3650 S12: -0.1750 S13: 0.0112 REMARK 3 S21: 0.7694 S22: -0.3949 S23: -0.1418 REMARK 3 S31: 0.4425 S32: -0.1423 S33: 0.0299 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: { A|301 - A|301 D|301 - D|301 } REMARK 3 ORIGIN FOR THE GROUP (A): 10.8964 -10.3704 2.0558 REMARK 3 T TENSOR REMARK 3 T11: -0.1998 T22: -0.1151 REMARK 3 T33: -0.1256 T12: 0.0432 REMARK 3 T13: 0.0205 T23: 0.1079 REMARK 3 L TENSOR REMARK 3 L11: 0.3501 L22: 0.7990 REMARK 3 L33: 0.1274 L12: 0.0973 REMARK 3 L13: -0.5212 L23: 0.3603 REMARK 3 S TENSOR REMARK 3 S11: -0.1053 S12: -0.0347 S13: 0.0165 REMARK 3 S21: -0.0061 S22: 0.1024 S23: 0.0477 REMARK 3 S31: -0.0358 S32: -0.0220 S33: 0.0029 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS WERE FULLY REFINED REMARK 3 WITH ZERO OCCUPANCY AT NUCLEAR POSITION. REMARK 4 REMARK 4 8P0F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-MAY-23. REMARK 100 THE DEPOSITION ID IS D_1292130352. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUN-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS, STARANISO REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33557 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.980 REMARK 200 RESOLUTION RANGE LOW (A) : 95.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.3 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 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: BUSTER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 % PEG, PH 8.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, 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 52 REMARK 465 SER A 53 REMARK 465 MET A 54 REMARK 465 GLU A 55 REMARK 465 ALA A 56 REMARK 465 GLY A 57 REMARK 465 ARG A 58 REMARK 465 PRO A 59 REMARK 465 ARG A 60 REMARK 465 PRO A 61 REMARK 465 HIS A 208 REMARK 465 GLN A 209 REMARK 465 ARG A 210 REMARK 465 MET A 211 REMARK 465 GLY A 212 REMARK 465 ASP A 213 REMARK 465 GLY B 50 REMARK 465 GLN B 51 REMARK 465 PHE B 52 REMARK 465 ALA B 53 REMARK 465 GLU B 54 REMARK 465 ASN B 55 REMARK 465 GLU B 56 REMARK 465 THR B 57 REMARK 465 CYS B 112 REMARK 465 GLY D 52 REMARK 465 SER D 53 REMARK 465 MET D 54 REMARK 465 GLU D 55 REMARK 465 ALA D 56 REMARK 465 GLY D 57 REMARK 465 ARG D 58 REMARK 465 PRO D 59 REMARK 465 ARG D 60 REMARK 465 PRO D 61 REMARK 465 HIS D 208 REMARK 465 GLN D 209 REMARK 465 ARG D 210 REMARK 465 MET D 211 REMARK 465 GLY D 212 REMARK 465 ASP D 213 REMARK 465 PRO E 49 REMARK 465 GLY E 50 REMARK 465 GLN E 51 REMARK 465 PHE E 52 REMARK 465 ALA E 53 REMARK 465 GLU E 54 REMARK 465 ASN E 55 REMARK 465 GLU E 56 REMARK 465 THR E 57 REMARK 465 CYS E 112 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 HG2 GLN A 96 O HOH A 401 1.54 REMARK 500 O LYS B 80 HG1 THR B 84 1.56 REMARK 500 O LYS E 80 HG1 THR E 84 1.56 REMARK 500 HZ3 LYS E 80 O HOH E 203 1.59 REMARK 500 HG1 THR C 63 O GLU F 59 1.60 REMARK 500 HD1 HIS E 68 OG SER F 94 1.60 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 79 44.12 -96.78 REMARK 500 LEU B 37 2.02 -68.64 REMARK 500 HIS C 10 -106.70 51.40 REMARK 500 ASP C 47 -82.17 69.15 REMARK 500 ASP C 82 74.23 58.16 REMARK 500 ASP C 83 14.76 58.04 REMARK 500 ARG D 79 39.87 -97.76 REMARK 500 LEU E 37 1.92 -68.33 REMARK 500 HIS F 10 -106.79 51.18 REMARK 500 ASP F 47 -88.06 73.03 REMARK 500 ASP F 48 23.22 -140.76 REMARK 500 ASP F 82 74.10 58.16 REMARK 500 ASP F 83 14.80 58.09 REMARK 500 REMARK 500 REMARK: NULL DBREF 8P0F A 54 213 UNP P40337 VHL_HUMAN 54 213 DBREF 8P0F B 17 112 UNP Q15369 ELOC_HUMAN 17 112 DBREF 8P0F C 1 104 UNP Q15370 ELOB_HUMAN 1 104 DBREF 8P0F D 54 213 UNP P40337 VHL_HUMAN 54 213 DBREF 8P0F E 17 112 UNP Q15369 ELOC_HUMAN 17 112 DBREF 8P0F F 1 104 UNP Q15370 ELOB_HUMAN 1 104 SEQADV 8P0F GLY A 52 UNP P40337 EXPRESSION TAG SEQADV 8P0F SER A 53 UNP P40337 EXPRESSION TAG SEQADV 8P0F MET B 16 UNP Q15369 INITIATING METHIONINE SEQADV 8P0F GLY D 52 UNP P40337 EXPRESSION TAG SEQADV 8P0F SER D 53 UNP P40337 EXPRESSION TAG SEQADV 8P0F MET E 16 UNP Q15369 INITIATING METHIONINE SEQRES 1 A 162 GLY SER MET GLU ALA GLY ARG PRO ARG PRO VAL LEU ARG SEQRES 2 A 162 SER VAL ASN SER ARG GLU PRO SER GLN VAL ILE PHE CYS SEQRES 3 A 162 ASN ARG SER PRO ARG VAL VAL LEU PRO VAL TRP LEU ASN SEQRES 4 A 162 PHE ASP GLY GLU PRO GLN PRO TYR PRO THR LEU PRO PRO SEQRES 5 A 162 GLY THR GLY ARG ARG ILE HIS SER TYR ARG GLY HIS LEU SEQRES 6 A 162 TRP LEU PHE ARG ASP ALA GLY THR HIS ASP GLY LEU LEU SEQRES 7 A 162 VAL ASN GLN THR GLU LEU PHE VAL PRO SER LEU ASN VAL SEQRES 8 A 162 ASP GLY GLN PRO ILE PHE ALA ASN ILE THR LEU PRO VAL SEQRES 9 A 162 TYR THR LEU LYS GLU ARG CYS LEU GLN VAL VAL ARG SER SEQRES 10 A 162 LEU VAL LYS PRO GLU ASN TYR ARG ARG LEU ASP ILE VAL SEQRES 11 A 162 ARG SER LEU TYR GLU ASP LEU GLU ASP HIS PRO ASN VAL SEQRES 12 A 162 GLN LYS ASP LEU GLU ARG LEU THR GLN GLU ARG ILE ALA SEQRES 13 A 162 HIS GLN ARG MET GLY ASP SEQRES 1 B 97 MET MET TYR VAL LYS LEU ILE SER SER ASP GLY HIS GLU SEQRES 2 B 97 PHE ILE VAL LYS ARG GLU HIS ALA LEU THR SER GLY THR SEQRES 3 B 97 ILE LYS ALA MET LEU SER GLY PRO GLY GLN PHE ALA GLU SEQRES 4 B 97 ASN GLU THR ASN GLU VAL ASN PHE ARG GLU ILE PRO SER SEQRES 5 B 97 HIS VAL LEU SER LYS VAL CYS MET TYR PHE THR TYR LYS SEQRES 6 B 97 VAL ARG TYR THR ASN SER SER THR GLU ILE PRO GLU PHE SEQRES 7 B 97 PRO ILE ALA PRO GLU ILE ALA LEU GLU LEU LEU MET ALA SEQRES 8 B 97 ALA ASN PHE LEU ASP CYS SEQRES 1 C 104 MET ASP VAL PHE LEU MET ILE ARG ARG HIS LYS THR THR SEQRES 2 C 104 ILE PHE THR ASP ALA LYS GLU SER SER THR VAL PHE GLU SEQRES 3 C 104 LEU LYS ARG ILE VAL GLU GLY ILE LEU LYS ARG PRO PRO SEQRES 4 C 104 ASP GLU GLN ARG LEU TYR LYS ASP ASP GLN LEU LEU ASP SEQRES 5 C 104 ASP GLY LYS THR LEU GLY GLU CYS GLY PHE THR SER GLN SEQRES 6 C 104 THR ALA ARG PRO GLN ALA PRO ALA THR VAL GLY LEU ALA SEQRES 7 C 104 PHE ARG ALA ASP ASP THR PHE GLU ALA LEU CYS ILE GLU SEQRES 8 C 104 PRO PHE SER SER PRO PRO GLU LEU PRO ASP VAL MET LYS SEQRES 1 D 162 GLY SER MET GLU ALA GLY ARG PRO ARG PRO VAL LEU ARG SEQRES 2 D 162 SER VAL ASN SER ARG GLU PRO SER GLN VAL ILE PHE CYS SEQRES 3 D 162 ASN ARG SER PRO ARG VAL VAL LEU PRO VAL TRP LEU ASN SEQRES 4 D 162 PHE ASP GLY GLU PRO GLN PRO TYR PRO THR LEU PRO PRO SEQRES 5 D 162 GLY THR GLY ARG ARG ILE HIS SER TYR ARG GLY HIS LEU SEQRES 6 D 162 TRP LEU PHE ARG ASP ALA GLY THR HIS ASP GLY LEU LEU SEQRES 7 D 162 VAL ASN GLN THR GLU LEU PHE VAL PRO SER LEU ASN VAL SEQRES 8 D 162 ASP GLY GLN PRO ILE PHE ALA ASN ILE THR LEU PRO VAL SEQRES 9 D 162 TYR THR LEU LYS GLU ARG CYS LEU GLN VAL VAL ARG SER SEQRES 10 D 162 LEU VAL LYS PRO GLU ASN TYR ARG ARG LEU ASP ILE VAL SEQRES 11 D 162 ARG SER LEU TYR GLU ASP LEU GLU ASP HIS PRO ASN VAL SEQRES 12 D 162 GLN LYS ASP LEU GLU ARG LEU THR GLN GLU ARG ILE ALA SEQRES 13 D 162 HIS GLN ARG MET GLY ASP SEQRES 1 E 97 MET MET TYR VAL LYS LEU ILE SER SER ASP GLY HIS GLU SEQRES 2 E 97 PHE ILE VAL LYS ARG GLU HIS ALA LEU THR SER GLY THR SEQRES 3 E 97 ILE LYS ALA MET LEU SER GLY PRO GLY GLN PHE ALA GLU SEQRES 4 E 97 ASN GLU THR ASN GLU VAL ASN PHE ARG GLU ILE PRO SER SEQRES 5 E 97 HIS VAL LEU SER LYS VAL CYS MET TYR PHE THR TYR LYS SEQRES 6 E 97 VAL ARG TYR THR ASN SER SER THR GLU ILE PRO GLU PHE SEQRES 7 E 97 PRO ILE ALA PRO GLU ILE ALA LEU GLU LEU LEU MET ALA SEQRES 8 E 97 ALA ASN PHE LEU ASP CYS SEQRES 1 F 104 MET ASP VAL PHE LEU MET ILE ARG ARG HIS LYS THR THR SEQRES 2 F 104 ILE PHE THR ASP ALA LYS GLU SER SER THR VAL PHE GLU SEQRES 3 F 104 LEU LYS ARG ILE VAL GLU GLY ILE LEU LYS ARG PRO PRO SEQRES 4 F 104 ASP GLU GLN ARG LEU TYR LYS ASP ASP GLN LEU LEU ASP SEQRES 5 F 104 ASP GLY LYS THR LEU GLY GLU CYS GLY PHE THR SER GLN SEQRES 6 F 104 THR ALA ARG PRO GLN ALA PRO ALA THR VAL GLY LEU ALA SEQRES 7 F 104 PHE ARG ALA ASP ASP THR PHE GLU ALA LEU CYS ILE GLU SEQRES 8 F 104 PRO PHE SER SER PRO PRO GLU LEU PRO ASP VAL MET LYS HET WBN A 301 52 HET CL A 302 1 HET WBN D 301 52 HETNAM WBN (3~{R},5~{R})-~{N}-[[4-(4-METHYL-1,3-THIAZOL-5-YL) HETNAM 2 WBN PHENYL]METHYL]-5-OXIDANYL-2-OXIDANYLIDENE-1-PYRIDIN-2- HETNAM 3 WBN YL-PIPERIDINE-3-CARBOXAMIDE HETNAM CL CHLORIDE ION FORMUL 7 WBN 2(C22 H22 N4 O3 S) FORMUL 8 CL CL 1- FORMUL 10 HOH *329(H2 O) HELIX 1 AA1 ASN A 141 GLN A 145 5 5 HELIX 2 AA2 THR A 157 VAL A 170 1 14 HELIX 3 AA3 LYS A 171 LEU A 178 5 8 HELIX 4 AA4 VAL A 181 ASP A 190 1 10 HELIX 5 AA5 ASN A 193 ALA A 207 1 15 HELIX 6 AA6 ARG B 33 LEU B 37 1 5 HELIX 7 AA7 SER B 39 GLY B 48 1 10 HELIX 8 AA8 PRO B 66 THR B 84 1 19 HELIX 9 AA9 ILE B 99 ASP B 111 1 13 HELIX 10 AB1 THR C 23 LYS C 36 1 14 HELIX 11 AB2 PRO C 38 ASP C 40 5 3 HELIX 12 AB3 THR C 56 GLY C 61 1 6 HELIX 13 AB4 ASN D 141 GLN D 145 5 5 HELIX 14 AB5 THR D 157 VAL D 170 1 14 HELIX 15 AB6 LYS D 171 LEU D 178 5 8 HELIX 16 AB7 VAL D 181 ASP D 190 1 10 HELIX 17 AB8 ASN D 193 ALA D 207 1 15 HELIX 18 AB9 ARG E 33 LEU E 37 1 5 HELIX 19 AC1 SER E 39 GLY E 48 1 10 HELIX 20 AC2 PRO E 66 THR E 84 1 19 HELIX 21 AC3 ILE E 99 ASP E 111 1 13 HELIX 22 AC4 THR F 23 LYS F 36 1 14 HELIX 23 AC5 PRO F 38 ASP F 40 5 3 HELIX 24 AC6 LEU F 57 GLY F 61 5 5 SHEET 1 AA1 7 PRO A 95 PRO A 97 0 SHEET 2 AA1 7 VAL A 84 LEU A 89 -1 N TRP A 88 O GLN A 96 SHEET 3 AA1 7 LEU A 116 ASP A 121 -1 O ARG A 120 N LEU A 85 SHEET 4 AA1 7 GLY A 127 VAL A 130 -1 O LEU A 128 N PHE A 119 SHEET 5 AA1 7 ILE A 147 THR A 152 -1 O THR A 152 N LEU A 129 SHEET 6 AA1 7 PRO A 71 ASN A 78 1 N ILE A 75 O ALA A 149 SHEET 7 AA1 7 GLY A 106 TYR A 112 -1 O ILE A 109 N VAL A 74 SHEET 1 AA2 8 GLU B 59 ASN B 61 0 SHEET 2 AA2 8 TYR B 18 ILE B 22 1 N ILE B 22 O VAL B 60 SHEET 3 AA2 8 GLU B 28 LYS B 32 -1 O VAL B 31 N VAL B 19 SHEET 4 AA2 8 THR C 12 LYS C 19 1 O THR C 13 N ILE B 30 SHEET 5 AA2 8 ASP C 2 ARG C 9 -1 N LEU C 5 O THR C 16 SHEET 6 AA2 8 ALA C 73 PHE C 79 1 O VAL C 75 N MET C 6 SHEET 7 AA2 8 GLN C 42 LYS C 46 -1 N TYR C 45 O GLY C 76 SHEET 8 AA2 8 GLN C 49 LEU C 50 -1 O GLN C 49 N LYS C 46 SHEET 1 AA3 7 PRO D 95 PRO D 97 0 SHEET 2 AA3 7 VAL D 84 LEU D 89 -1 N TRP D 88 O GLN D 96 SHEET 3 AA3 7 LEU D 116 ASP D 121 -1 O ARG D 120 N LEU D 85 SHEET 4 AA3 7 GLY D 127 VAL D 130 -1 O LEU D 128 N PHE D 119 SHEET 5 AA3 7 ILE D 147 THR D 152 -1 O THR D 152 N LEU D 129 SHEET 6 AA3 7 PRO D 71 ASN D 78 1 N CYS D 77 O ALA D 149 SHEET 7 AA3 7 GLY D 106 TYR D 112 -1 O ILE D 109 N VAL D 74 SHEET 1 AA4 8 GLU E 59 ASN E 61 0 SHEET 2 AA4 8 TYR E 18 ILE E 22 1 N ILE E 22 O VAL E 60 SHEET 3 AA4 8 GLU E 28 LYS E 32 -1 O VAL E 31 N VAL E 19 SHEET 4 AA4 8 THR F 12 LYS F 19 1 O THR F 13 N ILE E 30 SHEET 5 AA4 8 ASP F 2 ARG F 9 -1 N VAL F 3 O ALA F 18 SHEET 6 AA4 8 ALA F 73 PHE F 79 1 O VAL F 75 N MET F 6 SHEET 7 AA4 8 GLN F 42 LYS F 46 -1 N TYR F 45 O GLY F 76 SHEET 8 AA4 8 GLN F 49 LEU F 50 -1 O GLN F 49 N LYS F 46 CRYST1 47.387 47.720 98.756 81.70 76.66 82.80 P 1 2 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 0.021103 -0.002666 -0.004719 0.00000 SCALE2 0.000000 0.021122 -0.002544 0.00000 SCALE3 0.000000 0.000000 0.010482 0.00000