HEADER HYDROLASE 10-JAN-18 6FGE TITLE CRYSTAL STRUCTURE OF HUMAN ZUFSP/ZUP1 IN COMPLEX WITH UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZINC FINGER WITH UFM1-SPECIFIC PEPTIDASE DOMAIN PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: POLYUBIQUITIN-B; COMPND 7 CHAIN: C; COMPND 8 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: ZUFSP, C6ORF113; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: UBB; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS HYDROLASE, CYSTEINE PROTEASE, ISOPEPTIDASE AND UBIQUITIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR D.KWASNA,S.A.ABDUL REHMAN,Y.KULATHU REVDAT 3 18-APR-18 6FGE 1 JRNL REVDAT 2 11-APR-18 6FGE 1 TITLE COMPND HETNAM REVDAT 1 04-APR-18 6FGE 0 JRNL AUTH D.KWASNA,S.A.ABDUL REHMAN,J.NATARAJAN,S.MATTHEWS,R.MADDEN, JRNL AUTH 2 V.DE CESARE,S.WEIDLICH,S.VIRDEE,I.AHEL,I.GIBBS-SEYMOUR, JRNL AUTH 3 Y.KULATHU JRNL TITL DISCOVERY AND CHARACTERIZATION OF ZUFSP/ZUP1, A DISTINCT JRNL TITL 2 DEUBIQUITINASE CLASS IMPORTANT FOR GENOME STABILITY. JRNL REF MOL. CELL V. 70 150 2018 JRNL REFN ISSN 1097-4164 JRNL PMID 29576527 JRNL DOI 10.1016/J.MOLCEL.2018.02.023 REMARK 2 REMARK 2 RESOLUTION. 1.74 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.74 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 73.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 42293 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 2308 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) : 1.74 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3051 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2050 REMARK 3 BIN FREE R VALUE SET COUNT : 164 REMARK 3 BIN FREE R VALUE : 0.2250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3312 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 196 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.10000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : 0.33000 REMARK 3 B12 (A**2) : -0.05000 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): 0.112 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.109 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.069 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.210 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3513 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3313 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4695 ; 1.810 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7717 ; 1.066 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 428 ; 6.588 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 168 ;35.477 ;24.167 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 671 ;13.342 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;16.491 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 504 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3861 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 694 ; 0.002 ; 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): 1688 ; 2.538 ; 1.881 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1689 ; 2.538 ; 1.883 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2112 ; 3.588 ; 2.811 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2113 ; 3.588 ; 2.810 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1824 ; 4.275 ; 2.395 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1824 ; 4.266 ; 2.395 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2580 ; 6.061 ; 3.366 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4009 ; 8.067 ;23.972 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4009 ; 8.063 ;23.970 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 : 2 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 236 A 578 REMARK 3 ORIGIN FOR THE GROUP (A): -4.4850 24.6740 1.5860 REMARK 3 T TENSOR REMARK 3 T11: 0.0346 T22: 0.0330 REMARK 3 T33: 0.0383 T12: 0.0029 REMARK 3 T13: -0.0269 T23: -0.0091 REMARK 3 L TENSOR REMARK 3 L11: 1.5334 L22: 1.0676 REMARK 3 L33: 1.5299 L12: 0.4521 REMARK 3 L13: 0.3750 L23: 0.2752 REMARK 3 S TENSOR REMARK 3 S11: 0.0668 S12: -0.0020 S13: -0.1553 REMARK 3 S21: 0.0287 S22: -0.0242 S23: -0.0661 REMARK 3 S31: 0.1307 S32: 0.0630 S33: -0.0426 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 75 REMARK 3 ORIGIN FOR THE GROUP (A): -31.2280 18.3760 1.2430 REMARK 3 T TENSOR REMARK 3 T11: 0.0575 T22: 0.0993 REMARK 3 T33: 0.0794 T12: -0.0506 REMARK 3 T13: 0.0171 T23: -0.0394 REMARK 3 L TENSOR REMARK 3 L11: 4.5643 L22: 1.4677 REMARK 3 L33: 1.9643 L12: -0.9234 REMARK 3 L13: 0.5505 L23: -0.2047 REMARK 3 S TENSOR REMARK 3 S11: 0.0436 S12: 0.1090 S13: -0.4490 REMARK 3 S21: 0.0131 S22: -0.0279 S23: 0.2412 REMARK 3 S31: 0.1926 S32: -0.3661 S33: -0.0156 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.00 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 6FGE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1200008261. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91587 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : COMPOUND REFRACTIVE LENSES REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44699 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.740 REMARK 200 RESOLUTION RANGE LOW (A) : 100.930 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 29.00 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.74 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.78 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 30.60 REMARK 200 R MERGE FOR SHELL (I) : 0.99000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4% V/V TACSIMATE PH 5.0 AND 12% W/V REMARK 280 POLYETHYLENE GLYCOL 3,350., VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 134.57800 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 67.28900 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 100.93350 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 33.64450 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 168.22250 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 134.57800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 67.28900 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 33.64450 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 100.93350 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 168.22250 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 SER A 231 REMARK 465 GLY A 232 REMARK 465 ASP A 233 REMARK 465 LEU A 234 REMARK 465 GLN A 235 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LEU A 236 CG CD1 CD2 REMARK 470 HIS A 238 CG ND1 CD2 CE1 NE2 REMARK 470 GLN A 239 CG CD OE1 NE2 REMARK 470 LEU A 240 CG CD1 CD2 REMARK 470 GLN A 241 CG CD OE1 NE2 REMARK 470 ARG A 265 NE CZ NH1 NH2 REMARK 470 ARG A 281 CD NE CZ NH1 NH2 REMARK 470 ARG A 289 NE CZ NH1 NH2 REMARK 470 LYS A 383 CE NZ REMARK 470 GLU A 469 CG CD OE1 OE2 REMARK 470 GLN A 526 CG CD OE1 NE2 REMARK 470 ASP A 527 CG OD1 OD2 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 TRP A 358 -6.18 -146.17 REMARK 500 GLU A 471 -125.41 60.48 REMARK 500 ARG C 72 -174.52 65.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MLI A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 608 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 609 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 610 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 611 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 612 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 613 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NH4 A 614 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NH4 A 615 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT C 102 DBREF 6FGE A 231 578 UNP Q96AP4 ZUFSP_HUMAN 231 578 DBREF 6FGE C 1 76 UNP P0CG47 UBB_HUMAN 1 76 SEQADV 6FGE AYE C 76 UNP P0CG47 GLY 76 ENGINEERED MUTATION SEQRES 1 A 348 SER GLY ASP LEU GLN LEU ALA HIS GLN LEU GLN GLN GLU SEQRES 2 A 348 GLU ASP ARG LYS ARG ARG SER GLU GLU SER ARG GLN GLU SEQRES 3 A 348 ILE GLU GLU PHE GLN LYS LEU GLN ARG GLN TYR GLY LEU SEQRES 4 A 348 ASP ASN SER GLY GLY TYR LYS GLN GLN GLN LEU ARG ASN SEQRES 5 A 348 MET GLU ILE GLU VAL ASN ARG GLY ARG MET PRO PRO SER SEQRES 6 A 348 GLU PHE HIS ARG ARG LYS ALA ASP MET MET GLU SER LEU SEQRES 7 A 348 ALA LEU GLY PHE ASP ASP GLY LYS THR LYS THR SER GLY SEQRES 8 A 348 ILE ILE GLU ALA LEU HIS ARG TYR TYR GLN ASN ALA ALA SEQRES 9 A 348 THR ASP VAL ARG ARG VAL TRP LEU SER SER VAL VAL ASP SEQRES 10 A 348 HIS PHE HIS SER SER LEU GLY ASP LYS GLY TRP GLY CYS SEQRES 11 A 348 GLY TYR ARG ASN PHE GLN MET LEU LEU SER SER LEU LEU SEQRES 12 A 348 GLN ASN ASP ALA TYR ASN ASP CYS LEU LYS GLY MET LEU SEQRES 13 A 348 ILE PRO CYS ILE PRO LYS ILE GLN SER MET ILE GLU ASP SEQRES 14 A 348 ALA TRP LYS GLU GLY PHE ASP PRO GLN GLY ALA SER GLN SEQRES 15 A 348 LEU ASN ASN ARG LEU GLN GLY THR LYS ALA TRP ILE GLY SEQRES 16 A 348 ALA CYS GLU VAL TYR ILE LEU LEU THR SER LEU ARG VAL SEQRES 17 A 348 LYS CYS HIS ILE VAL ASP PHE HIS LYS SER THR GLY PRO SEQRES 18 A 348 LEU GLY THR HIS PRO ARG LEU PHE GLU TRP ILE LEU ASN SEQRES 19 A 348 TYR TYR SER SER GLU GLY GLU GLY SER PRO LYS VAL VAL SEQRES 20 A 348 CYS THR SER LYS PRO PRO ILE TYR LEU GLN HIS GLN GLY SEQRES 21 A 348 HIS SER ARG THR VAL ILE GLY ILE GLU GLU LYS LYS ASN SEQRES 22 A 348 ARG THR LEU CYS LEU LEU ILE LEU ASP PRO GLY CYS PRO SEQRES 23 A 348 SER ARG GLU MET GLN LYS LEU LEU LYS GLN ASP ILE GLU SEQRES 24 A 348 ALA SER SER LEU LYS GLN LEU ARG LYS SER MET GLY ASN SEQRES 25 A 348 LEU LYS HIS LYS GLN TYR GLN ILE LEU ALA VAL GLU GLY SEQRES 26 A 348 ALA LEU SER LEU GLU GLU LYS LEU ALA ARG ARG GLN ALA SEQRES 27 A 348 SER GLN VAL PHE THR ALA GLU LYS ILE PRO 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 AYE HET AYE C 76 4 HET MLI A 601 7 HET EDO A 602 4 HET EDO A 603 4 HET EDO A 604 4 HET GOL A 605 6 HET GOL A 606 6 HET FMT A 607 3 HET FMT A 608 3 HET FMT A 609 3 HET FMT A 610 3 HET FMT A 611 3 HET FMT A 612 3 HET PEG A 613 7 HET NH4 A 614 1 HET NH4 A 615 1 HET ACT C 101 4 HET FMT C 102 3 HETNAM AYE PROP-2-EN-1-AMINE HETNAM MLI MALONATE ION HETNAM EDO ETHANE-1,2-DIOL HETNAM GOL GLYCEROL HETNAM FMT FORMIC ACID HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM NH4 AMMONIUM ION HETNAM ACT ACETATE ION HETSYN AYE ALLYLAMINE HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 AYE C3 H7 N FORMUL 3 MLI C3 H2 O4 2- FORMUL 4 EDO 3(C2 H6 O2) FORMUL 7 GOL 2(C3 H8 O3) FORMUL 9 FMT 7(C H2 O2) FORMUL 15 PEG C4 H10 O3 FORMUL 16 NH4 2(H4 N 1+) FORMUL 18 ACT C2 H3 O2 1- FORMUL 20 HOH *196(H2 O) HELIX 1 AA1 LEU A 236 TYR A 267 1 32 HELIX 2 AA2 GLY A 274 ARG A 289 1 16 HELIX 3 AA3 PRO A 293 GLY A 311 1 19 HELIX 4 AA4 GLY A 321 ALA A 333 1 13 HELIX 5 AA5 GLY A 359 ASN A 375 1 17 HELIX 6 AA6 ASP A 376 ASN A 379 5 4 HELIX 7 AA7 CYS A 389 GLY A 404 1 16 HELIX 8 AA8 ASP A 406 LEU A 413 1 8 HELIX 9 AA9 ALA A 426 LEU A 436 1 11 HELIX 10 AB1 GLY A 450 THR A 454 5 5 HELIX 11 AB2 HIS A 455 SER A 467 1 13 HELIX 12 AB3 PRO A 516 LEU A 523 1 8 HELIX 13 AB4 GLU A 529 LEU A 536 1 8 HELIX 14 AB5 SER A 539 LEU A 543 5 5 HELIX 15 AB6 SER A 558 SER A 569 1 12 HELIX 16 AB7 THR C 22 GLY C 35 1 14 HELIX 17 AB8 PRO C 37 ASP C 39 5 3 HELIX 18 AB9 LEU C 56 ASN C 60 5 5 SHEET 1 AA1 2 LYS A 318 THR A 319 0 SHEET 2 AA1 2 HIS A 348 PHE A 349 -1 O HIS A 348 N THR A 319 SHEET 1 AA2 5 VAL A 476 CYS A 478 0 SHEET 2 AA2 5 VAL A 337 LEU A 342 1 N VAL A 340 O VAL A 477 SHEET 3 AA2 5 HIS A 491 LYS A 501 -1 O GLU A 500 N ARG A 339 SHEET 4 AA2 5 LEU A 506 LEU A 511 -1 O LEU A 511 N THR A 494 SHEET 5 AA2 5 ARG A 537 LYS A 538 -1 O LYS A 538 N LEU A 508 SHEET 1 AA3 7 VAL A 476 CYS A 478 0 SHEET 2 AA3 7 VAL A 337 LEU A 342 1 N VAL A 340 O VAL A 477 SHEET 3 AA3 7 HIS A 491 LYS A 501 -1 O GLU A 500 N ARG A 339 SHEET 4 AA3 7 ILE A 484 HIS A 488 -1 N ILE A 484 O VAL A 495 SHEET 5 AA3 7 TYR A 548 ALA A 556 -1 O GLN A 549 N GLN A 487 SHEET 6 AA3 7 VAL A 438 PHE A 445 -1 N LYS A 439 O GLU A 554 SHEET 7 AA3 7 GLU A 575 ILE A 577 1 O GLU A 575 N ASP A 444 SHEET 1 AA4 2 ILE A 424 GLY A 425 0 SHEET 2 AA4 2 ARG C 74 GLY C 75 -1 O GLY C 75 N ILE A 424 SHEET 1 AA5 5 THR C 12 GLU C 16 0 SHEET 2 AA5 5 GLN C 2 THR C 7 -1 N VAL C 5 O ILE C 13 SHEET 3 AA5 5 THR C 66 LEU C 71 1 O LEU C 67 N PHE C 4 SHEET 4 AA5 5 GLN C 41 PHE C 45 -1 N ILE C 44 O HIS C 68 SHEET 5 AA5 5 LYS C 48 GLN C 49 -1 O LYS C 48 N PHE C 45 LINK SG CYS A 360 C2 AYE C 76 1555 1555 1.73 LINK C GLY C 75 N1 AYE C 76 1555 1555 1.45 CISPEP 1 ILE A 577 PRO A 578 0 -6.81 SITE 1 AC1 9 GLN A 489 HIS A 545 LYS A 546 EDO A 603 SITE 2 AC1 9 HOH A 716 HOH A 732 HOH A 760 ARG C 42 SITE 3 AC1 9 GLN C 49 SITE 1 AC2 6 TYR A 430 HIS A 441 ILE A 442 THR A 573 SITE 2 AC2 6 HOH A 723 HOH A 751 SITE 1 AC3 6 LEU A 310 PHE A 312 LYS A 544 HIS A 545 SITE 2 AC3 6 LYS A 546 MLI A 601 SITE 1 AC4 9 PHE A 445 HIS A 446 LYS A 447 THR A 449 SITE 2 AC4 9 HIS A 455 ARG A 457 LEU A 458 ILE A 577 SITE 3 AC4 9 PRO A 578 SITE 1 AC5 7 TYR A 275 MET A 304 SER A 307 LEU A 308 SITE 2 AC5 7 ASP A 313 ASP A 314 HOH A 774 SITE 1 AC6 5 GLY A 384 LEU A 386 SER A 448 HOH A 713 SITE 2 AC6 5 HOH A 745 SITE 1 AC7 2 TRP A 423 GLY A 490 SITE 1 AC8 2 PRO A 451 MET A 540 SITE 1 AC9 3 LYS A 356 GLY A 357 NH4 A 614 SITE 1 AD1 5 HIS A 446 LYS A 546 GLN A 547 HOH A 732 SITE 2 AD1 5 ASP C 39 SITE 1 AD2 5 ASP A 399 LYS A 402 GLU A 403 LYS C 48 SITE 2 AD2 5 ASP C 58 SITE 1 AD3 3 GLY A 311 MET A 385 LEU A 386 SITE 1 AD4 4 LYS A 534 ARG A 537 SER A 539 ASN A 542 SITE 1 AD5 3 SER A 351 CYS A 360 FMT A 609 SITE 1 AD6 1 SER A 351 SITE 1 AD7 5 LEU A 413 HOH A 803 LEU C 71 ARG C 74 SITE 2 AD7 5 HOH C 206 SITE 1 AD8 4 CYS A 427 ARG C 72 HOH C 224 HOH C 229 CRYST1 84.484 84.484 201.867 90.00 90.00 120.00 P 65 2 2 12 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 0.011837 0.006834 0.000000 0.00000 SCALE2 0.000000 0.013668 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004954 0.00000