HEADER CELL CYCLE 21-FEB-16 5IAA TITLE CRYSTAL STRUCTURE OF HUMAN UBA5 IN COMPLEX WITH UFM1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-LIKE MODIFIER-ACTIVATING ENZYME 5; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 57-346; COMPND 5 SYNONYM: UBIQUITIN-ACTIVATING ENZYME 5,THIFP1,UFM1-ACTIVATING ENZYME, COMPND 6 UBIQUITIN-ACTIVATING ENZYME E1 DOMAIN-CONTAINING PROTEIN 1; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: UBIQUITIN-FOLD MODIFIER 1; COMPND 10 CHAIN: C, D; COMPND 11 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: UBA5, UBE1DC1; 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: UFM1, C13ORF20, BM-002; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UBIQUITIN LIKE PROTEIN AND E1, CELL CYCLE EXPDTA X-RAY DIFFRACTION AUTHOR W.OWEIS,P.PADALA,R.WIENER REVDAT 3 10-JAN-24 5IAA 1 REMARK REVDAT 2 05-OCT-16 5IAA 1 JRNL REVDAT 1 28-SEP-16 5IAA 0 JRNL AUTH W.OWEIS,P.PADALA,F.HASSOUNA,E.COHEN-KFIR,D.R.GIBBS,E.A.TODD, JRNL AUTH 2 C.E.BERNDSEN,R.WIENER JRNL TITL TRANS-BINDING MECHANISM OF UBIQUITIN-LIKE PROTEIN ACTIVATION JRNL TITL 2 REVEALED BY A UBA5-UFM1 COMPLEX. JRNL REF CELL REP V. 16 3113 2016 JRNL REFN ESSN 2211-1247 JRNL PMID 27653677 JRNL DOI 10.1016/J.CELREP.2016.08.067 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 69.04 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 88360 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) : 0.187 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4641 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6486 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.99 REMARK 3 BIN R VALUE (WORKING SET) : 0.3530 REMARK 3 BIN FREE R VALUE SET COUNT : 323 REMARK 3 BIN FREE R VALUE : 0.3730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5070 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 146 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 29.33000 REMARK 3 B22 (A**2) : 29.33000 REMARK 3 B33 (A**2) : -58.66000 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): 0.021 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.020 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.060 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.987 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5180 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4986 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7023 ; 1.766 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11462 ; 1.393 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 650 ; 6.489 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 226 ;35.967 ;25.088 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 865 ;13.925 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;15.428 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 812 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5866 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1142 ; 0.005 ; 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): 2630 ; 1.599 ; 1.196 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2629 ; 1.599 ; 1.196 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3270 ; 2.407 ; 1.772 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3271 ; 2.407 ; 1.772 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2549 ; 2.513 ; 1.429 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2549 ; 2.513 ; 1.429 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3753 ; 3.366 ; 2.066 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5699 ; 6.737 ;10.273 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5663 ; 6.733 ;10.072 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 2 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 68 346 B 68 346 27418 0.10 0.05 REMARK 3 2 C 4 83 D 4 83 9046 0.09 0.05 REMARK 3 REMARK 3 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 2 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : H, K, L REMARK 3 TWIN FRACTION : 0.871 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : -H,-K,L REMARK 3 TWIN FRACTION : 0.129 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 68 A 346 REMARK 3 ORIGIN FOR THE GROUP (A): -75.7150 25.3240 -0.4960 REMARK 3 T TENSOR REMARK 3 T11: 0.1312 T22: 0.0403 REMARK 3 T33: 0.4924 T12: 0.0650 REMARK 3 T13: 0.0046 T23: 0.0041 REMARK 3 L TENSOR REMARK 3 L11: 0.5728 L22: 1.5300 REMARK 3 L33: 2.2526 L12: -0.0419 REMARK 3 L13: 0.0179 L23: -0.1347 REMARK 3 S TENSOR REMARK 3 S11: 0.0141 S12: -0.0372 S13: -0.0194 REMARK 3 S21: 0.0448 S22: -0.0268 S23: 0.0751 REMARK 3 S31: -0.0422 S32: -0.0981 S33: 0.0127 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 68 B 346 REMARK 3 ORIGIN FOR THE GROUP (A): -74.7730 -3.9310 -6.9230 REMARK 3 T TENSOR REMARK 3 T11: 0.2213 T22: 0.0295 REMARK 3 T33: 0.4936 T12: 0.0624 REMARK 3 T13: -0.0172 T23: 0.0026 REMARK 3 L TENSOR REMARK 3 L11: 0.9326 L22: 1.7191 REMARK 3 L33: 2.0109 L12: -0.0937 REMARK 3 L13: -0.2110 L23: -0.2203 REMARK 3 S TENSOR REMARK 3 S11: 0.0267 S12: -0.0367 S13: -0.0493 REMARK 3 S21: -0.0303 S22: -0.0682 S23: 0.1163 REMARK 3 S31: 0.1631 S32: -0.0482 S33: 0.0415 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 4 C 83 REMARK 3 ORIGIN FOR THE GROUP (A): -86.0930 29.3540 -24.2020 REMARK 3 T TENSOR REMARK 3 T11: 0.4328 T22: 0.1674 REMARK 3 T33: 0.5834 T12: 0.2069 REMARK 3 T13: -0.0194 T23: -0.0384 REMARK 3 L TENSOR REMARK 3 L11: 1.4196 L22: 1.2492 REMARK 3 L33: 3.5135 L12: -0.8119 REMARK 3 L13: 0.0402 L23: -1.6297 REMARK 3 S TENSOR REMARK 3 S11: 0.3370 S12: 0.1795 S13: 0.0429 REMARK 3 S21: -0.3132 S22: -0.1183 S23: 0.1512 REMARK 3 S31: 0.0535 S32: -0.1439 S33: -0.2187 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 4 D 83 REMARK 3 ORIGIN FOR THE GROUP (A): -53.2960 0.5860 -20.5820 REMARK 3 T TENSOR REMARK 3 T11: 0.1725 T22: 0.1534 REMARK 3 T33: 0.5301 T12: 0.0669 REMARK 3 T13: -0.0199 T23: -0.0012 REMARK 3 L TENSOR REMARK 3 L11: 1.7218 L22: 1.9171 REMARK 3 L33: 2.7900 L12: -0.2388 REMARK 3 L13: -1.4459 L23: 0.6456 REMARK 3 S TENSOR REMARK 3 S11: -0.0268 S12: -0.0296 S13: -0.0147 REMARK 3 S21: -0.0793 S22: 0.1938 S23: -0.2137 REMARK 3 S31: -0.0081 S32: 0.4320 S33: -0.1670 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.00 REMARK 3 ION PROBE RADIUS : 0.70 REMARK 3 SHRINKAGE RADIUS : 0.70 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5IAA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000218524. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.896 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 : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93040 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 76.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 18.50 REMARK 200 R MERGE (I) : 0.17400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: PHASER REMARK 200 STARTING MODEL: 1WXS AND 3H8V REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% TASCIMATE, PH 7.0 AND 16% PEG3350, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.11867 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 33.05933 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 33.05933 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 66.11867 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 MET A 57 REMARK 465 ALA A 58 REMARK 465 LEU A 59 REMARK 465 LYS A 60 REMARK 465 ARG A 61 REMARK 465 MET A 62 REMARK 465 GLY A 63 REMARK 465 ILE A 64 REMARK 465 VAL A 65 REMARK 465 SER A 66 REMARK 465 ASP A 67 REMARK 465 MET A 113 REMARK 465 ASN A 114 REMARK 465 ARG A 115 REMARK 465 LEU A 244 REMARK 465 LYS A 245 REMARK 465 ARG A 246 REMARK 465 GLU A 247 REMARK 465 GLY A 248 REMARK 465 VAL A 249 REMARK 465 PRO A 323 REMARK 465 LYS A 324 REMARK 465 GLN A 325 REMARK 465 GLU A 326 REMARK 465 VAL A 327 REMARK 465 ILE A 328 REMARK 465 GLN A 329 REMARK 465 GLU A 330 REMARK 465 GLU A 331 REMARK 465 GLU A 332 REMARK 465 MET B 57 REMARK 465 ALA B 58 REMARK 465 LEU B 59 REMARK 465 LYS B 60 REMARK 465 ARG B 61 REMARK 465 MET B 62 REMARK 465 GLY B 63 REMARK 465 ILE B 64 REMARK 465 VAL B 65 REMARK 465 SER B 66 REMARK 465 ASP B 67 REMARK 465 LYS B 107 REMARK 465 VAL B 108 REMARK 465 GLU B 109 REMARK 465 LEU B 110 REMARK 465 ALA B 111 REMARK 465 ASN B 112 REMARK 465 MET B 113 REMARK 465 ASN B 114 REMARK 465 ARG B 115 REMARK 465 LEU B 116 REMARK 465 PHE B 117 REMARK 465 PHE B 118 REMARK 465 GLN B 119 REMARK 465 PRO B 120 REMARK 465 HIS B 121 REMARK 465 GLN B 122 REMARK 465 ALA B 123 REMARK 465 THR B 243 REMARK 465 LEU B 244 REMARK 465 LYS B 245 REMARK 465 ARG B 246 REMARK 465 GLU B 247 REMARK 465 GLY B 248 REMARK 465 VAL B 249 REMARK 465 CYS B 250 REMARK 465 ALA B 251 REMARK 465 ALA B 252 REMARK 465 PRO B 323 REMARK 465 LYS B 324 REMARK 465 GLN B 325 REMARK 465 GLU B 326 REMARK 465 VAL B 327 REMARK 465 ILE B 328 REMARK 465 GLN B 329 REMARK 465 GLU B 330 REMARK 465 GLU B 331 REMARK 465 GLU B 332 REMARK 465 GLU B 333 REMARK 465 ILE B 334 REMARK 465 ILE B 335 REMARK 465 MET C 1 REMARK 465 SER C 2 REMARK 465 LYS C 3 REMARK 465 MET D 1 REMARK 465 SER D 2 REMARK 465 LYS D 3 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 O GLU C 25 OG1 THR C 62 2.06 REMARK 500 OD2 ASP A 290 OG SER B 280 2.10 REMARK 500 OG SER A 280 OD2 ASP B 290 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OD1 ASN B 137 OD1 ASN B 137 5555 1.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 309 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 309 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 GLU A 69 -1.81 -55.38 REMARK 500 ALA A 111 -88.79 -59.02 REMARK 500 PHE A 117 -60.55 64.94 REMARK 500 ALA A 211 13.95 56.64 REMARK 500 LYS A 242 30.98 -140.34 REMARK 500 GLU A 337 106.87 -54.54 REMARK 500 ASP A 338 159.55 60.44 REMARK 500 ASN A 339 57.40 -158.49 REMARK 500 GLU B 69 -1.77 -55.53 REMARK 500 ALA B 211 12.96 56.28 REMARK 500 ASN B 339 58.30 -157.03 REMARK 500 LEU C 16 56.28 37.02 REMARK 500 LEU D 16 56.32 36.19 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 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 226 SG REMARK 620 2 CYS A 229 SG 116.3 REMARK 620 3 CYS A 303 SG 105.3 116.9 REMARK 620 4 CYS A 308 SG 105.0 102.1 110.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 226 SG REMARK 620 2 CYS B 229 SG 113.5 REMARK 620 3 CYS B 303 SG 106.4 118.1 REMARK 620 4 CYS B 308 SG 102.3 102.2 113.4 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 401 DBREF 5IAA A 57 346 UNP Q9GZZ9 UBA5_HUMAN 57 346 DBREF 5IAA B 57 346 UNP Q9GZZ9 UBA5_HUMAN 57 346 DBREF 5IAA C 1 83 UNP P61960 UFM1_HUMAN 1 83 DBREF 5IAA D 1 83 UNP P61960 UFM1_HUMAN 1 83 SEQRES 1 A 290 MET ALA LEU LYS ARG MET GLY ILE VAL SER ASP TYR GLU SEQRES 2 A 290 LYS ILE ARG THR PHE ALA VAL ALA ILE VAL GLY VAL GLY SEQRES 3 A 290 GLY VAL GLY SER VAL THR ALA GLU MET LEU THR ARG CYS SEQRES 4 A 290 GLY ILE GLY LYS LEU LEU LEU PHE ASP TYR ASP LYS VAL SEQRES 5 A 290 GLU LEU ALA ASN MET ASN ARG LEU PHE PHE GLN PRO HIS SEQRES 6 A 290 GLN ALA GLY LEU SER LYS VAL GLN ALA ALA GLU HIS THR SEQRES 7 A 290 LEU ARG ASN ILE ASN PRO ASP VAL LEU PHE GLU VAL HIS SEQRES 8 A 290 ASN TYR ASN ILE THR THR VAL GLU ASN PHE GLN HIS PHE SEQRES 9 A 290 MET ASP ARG ILE SER ASN GLY GLY LEU GLU GLU GLY LYS SEQRES 10 A 290 PRO VAL ASP LEU VAL LEU SER CYS VAL ASP ASN PHE GLU SEQRES 11 A 290 ALA ARG MET THR ILE ASN THR ALA CYS ASN GLU LEU GLY SEQRES 12 A 290 GLN THR TRP MET GLU SER GLY VAL SER GLU ASN ALA VAL SEQRES 13 A 290 SER GLY HIS ILE GLN LEU ILE ILE PRO GLY GLU SER ALA SEQRES 14 A 290 CYS PHE ALA CYS ALA PRO PRO LEU VAL VAL ALA ALA ASN SEQRES 15 A 290 ILE ASP GLU LYS THR LEU LYS ARG GLU GLY VAL CYS ALA SEQRES 16 A 290 ALA SER LEU PRO THR THR MET GLY VAL VAL ALA GLY ILE SEQRES 17 A 290 LEU VAL GLN ASN VAL LEU LYS PHE LEU LEU ASN PHE GLY SEQRES 18 A 290 THR VAL SER PHE TYR LEU GLY TYR ASN ALA MET GLN ASP SEQRES 19 A 290 PHE PHE PRO THR MET SER MET LYS PRO ASN PRO GLN CYS SEQRES 20 A 290 ASP ASP ARG ASN CYS ARG LYS GLN GLN GLU GLU TYR LYS SEQRES 21 A 290 LYS LYS VAL ALA ALA LEU PRO LYS GLN GLU VAL ILE GLN SEQRES 22 A 290 GLU GLU GLU GLU ILE ILE HIS GLU ASP ASN GLU TRP GLY SEQRES 23 A 290 ILE GLU LEU VAL SEQRES 1 B 290 MET ALA LEU LYS ARG MET GLY ILE VAL SER ASP TYR GLU SEQRES 2 B 290 LYS ILE ARG THR PHE ALA VAL ALA ILE VAL GLY VAL GLY SEQRES 3 B 290 GLY VAL GLY SER VAL THR ALA GLU MET LEU THR ARG CYS SEQRES 4 B 290 GLY ILE GLY LYS LEU LEU LEU PHE ASP TYR ASP LYS VAL SEQRES 5 B 290 GLU LEU ALA ASN MET ASN ARG LEU PHE PHE GLN PRO HIS SEQRES 6 B 290 GLN ALA GLY LEU SER LYS VAL GLN ALA ALA GLU HIS THR SEQRES 7 B 290 LEU ARG ASN ILE ASN PRO ASP VAL LEU PHE GLU VAL HIS SEQRES 8 B 290 ASN TYR ASN ILE THR THR VAL GLU ASN PHE GLN HIS PHE SEQRES 9 B 290 MET ASP ARG ILE SER ASN GLY GLY LEU GLU GLU GLY LYS SEQRES 10 B 290 PRO VAL ASP LEU VAL LEU SER CYS VAL ASP ASN PHE GLU SEQRES 11 B 290 ALA ARG MET THR ILE ASN THR ALA CYS ASN GLU LEU GLY SEQRES 12 B 290 GLN THR TRP MET GLU SER GLY VAL SER GLU ASN ALA VAL SEQRES 13 B 290 SER GLY HIS ILE GLN LEU ILE ILE PRO GLY GLU SER ALA SEQRES 14 B 290 CYS PHE ALA CYS ALA PRO PRO LEU VAL VAL ALA ALA ASN SEQRES 15 B 290 ILE ASP GLU LYS THR LEU LYS ARG GLU GLY VAL CYS ALA SEQRES 16 B 290 ALA SER LEU PRO THR THR MET GLY VAL VAL ALA GLY ILE SEQRES 17 B 290 LEU VAL GLN ASN VAL LEU LYS PHE LEU LEU ASN PHE GLY SEQRES 18 B 290 THR VAL SER PHE TYR LEU GLY TYR ASN ALA MET GLN ASP SEQRES 19 B 290 PHE PHE PRO THR MET SER MET LYS PRO ASN PRO GLN CYS SEQRES 20 B 290 ASP ASP ARG ASN CYS ARG LYS GLN GLN GLU GLU TYR LYS SEQRES 21 B 290 LYS LYS VAL ALA ALA LEU PRO LYS GLN GLU VAL ILE GLN SEQRES 22 B 290 GLU GLU GLU GLU ILE ILE HIS GLU ASP ASN GLU TRP GLY SEQRES 23 B 290 ILE GLU LEU VAL SEQRES 1 C 83 MET SER LYS VAL SER PHE LYS ILE THR LEU THR SER ASP SEQRES 2 C 83 PRO ARG LEU PRO TYR LYS VAL LEU SER VAL PRO GLU SER SEQRES 3 C 83 THR PRO PHE THR ALA VAL LEU LYS PHE ALA ALA GLU GLU SEQRES 4 C 83 PHE LYS VAL PRO ALA ALA THR SER ALA ILE ILE THR ASN SEQRES 5 C 83 ASP GLY ILE GLY ILE ASN PRO ALA GLN THR ALA GLY ASN SEQRES 6 C 83 VAL PHE LEU LYS HIS GLY SER GLU LEU ARG ILE ILE PRO SEQRES 7 C 83 ARG ASP ARG VAL GLY SEQRES 1 D 83 MET SER LYS VAL SER PHE LYS ILE THR LEU THR SER ASP SEQRES 2 D 83 PRO ARG LEU PRO TYR LYS VAL LEU SER VAL PRO GLU SER SEQRES 3 D 83 THR PRO PHE THR ALA VAL LEU LYS PHE ALA ALA GLU GLU SEQRES 4 D 83 PHE LYS VAL PRO ALA ALA THR SER ALA ILE ILE THR ASN SEQRES 5 D 83 ASP GLY ILE GLY ILE ASN PRO ALA GLN THR ALA GLY ASN SEQRES 6 D 83 VAL PHE LEU LYS HIS GLY SER GLU LEU ARG ILE ILE PRO SEQRES 7 D 83 ARG ASP ARG VAL GLY HET ZN A 401 1 HET ZN B 401 1 HETNAM ZN ZINC ION FORMUL 5 ZN 2(ZN 2+) FORMUL 7 HOH *146(H2 O) HELIX 1 AA1 LYS A 70 THR A 73 5 4 HELIX 2 AA2 GLY A 82 GLY A 96 1 15 HELIX 3 AA3 GLN A 119 ALA A 123 5 5 HELIX 4 AA4 SER A 126 ASN A 139 1 14 HELIX 5 AA5 THR A 153 GLY A 167 1 15 HELIX 6 AA6 ASN A 184 GLY A 199 1 16 HELIX 7 AA7 PRO A 232 ALA A 237 1 6 HELIX 8 AA8 SER A 253 ASN A 275 1 23 HELIX 9 AA9 ASP A 305 ALA A 321 1 17 HELIX 10 AB1 LYS B 70 THR B 73 5 4 HELIX 11 AB2 GLY B 82 GLY B 96 1 15 HELIX 12 AB3 SER B 126 ASN B 139 1 14 HELIX 13 AB4 THR B 153 GLY B 167 1 15 HELIX 14 AB5 ASN B 184 GLY B 199 1 16 HELIX 15 AB6 CYS B 226 ALA B 230 5 5 HELIX 16 AB7 PRO B 232 ALA B 237 1 6 HELIX 17 AB8 LEU B 254 ASN B 275 1 22 HELIX 18 AB9 ASP B 305 ALA B 321 1 17 HELIX 19 AC1 PRO C 28 PHE C 40 1 13 HELIX 20 AC2 THR C 62 GLY C 71 1 10 HELIX 21 AC3 PRO D 28 PHE D 40 1 13 HELIX 22 AC4 THR D 62 GLY D 71 1 10 SHEET 1 AA1 8 LEU A 143 HIS A 147 0 SHEET 2 AA1 8 LYS A 99 PHE A 103 1 N LEU A 102 O HIS A 147 SHEET 3 AA1 8 ALA A 75 VAL A 79 1 N ILE A 78 O LEU A 101 SHEET 4 AA1 8 LEU A 177 SER A 180 1 O LEU A 179 N VAL A 79 SHEET 5 AA1 8 TRP A 202 VAL A 207 1 O MET A 203 N SER A 180 SHEET 6 AA1 8 SER A 213 ILE A 219 -1 O ILE A 219 N TRP A 202 SHEET 7 AA1 8 TYR A 282 ASN A 286 -1 O TYR A 285 N GLY A 214 SHEET 8 AA1 8 THR A 294 MET A 295 -1 O MET A 295 N TYR A 282 SHEET 1 AA2 6 GLU A 344 LEU A 345 0 SHEET 2 AA2 6 TYR D 18 SER D 22 -1 O SER D 22 N GLU A 344 SHEET 3 AA2 6 SER D 5 LEU D 10 -1 N ILE D 8 O LYS D 19 SHEET 4 AA2 6 GLU D 73 PRO D 78 1 O ILE D 76 N THR D 9 SHEET 5 AA2 6 SER D 47 THR D 51 -1 N ILE D 50 O ARG D 75 SHEET 6 AA2 6 GLY D 56 ILE D 57 -1 O ILE D 57 N ILE D 49 SHEET 1 AA3 8 LEU B 143 ASN B 148 0 SHEET 2 AA3 8 LYS B 99 ASP B 104 1 N LEU B 102 O HIS B 147 SHEET 3 AA3 8 ALA B 75 VAL B 79 1 N ILE B 78 O LEU B 101 SHEET 4 AA3 8 LEU B 177 SER B 180 1 O LEU B 179 N VAL B 79 SHEET 5 AA3 8 TRP B 202 VAL B 207 1 O MET B 203 N SER B 180 SHEET 6 AA3 8 SER B 213 ILE B 219 -1 O ILE B 219 N TRP B 202 SHEET 7 AA3 8 TYR B 282 ASN B 286 -1 O TYR B 285 N GLY B 214 SHEET 8 AA3 8 THR B 294 MET B 295 -1 O MET B 295 N TYR B 282 SHEET 1 AA4 6 GLU B 344 VAL B 346 0 SHEET 2 AA4 6 TYR C 18 SER C 22 -1 O VAL C 20 N VAL B 346 SHEET 3 AA4 6 SER C 5 LEU C 10 -1 N ILE C 8 O LYS C 19 SHEET 4 AA4 6 GLU C 73 PRO C 78 1 O ILE C 76 N THR C 9 SHEET 5 AA4 6 SER C 47 THR C 51 -1 N ILE C 50 O ARG C 75 SHEET 6 AA4 6 GLY C 56 ILE C 57 -1 O ILE C 57 N ILE C 49 LINK SG CYS A 226 ZN ZN A 401 1555 1555 2.29 LINK SG CYS A 229 ZN ZN A 401 1555 1555 2.38 LINK SG CYS A 303 ZN ZN A 401 1555 1555 2.40 LINK SG CYS A 308 ZN ZN A 401 1555 1555 2.26 LINK SG CYS B 226 ZN ZN B 401 1555 1555 2.34 LINK SG CYS B 229 ZN ZN B 401 1555 1555 2.40 LINK SG CYS B 303 ZN ZN B 401 1555 1555 2.37 LINK SG CYS B 308 ZN ZN B 401 1555 1555 2.29 SITE 1 AC1 4 CYS A 226 CYS A 229 CYS A 303 CYS A 308 SITE 1 AC2 4 CYS B 226 CYS B 229 CYS B 303 CYS B 308 CRYST1 138.081 138.081 99.178 90.00 90.00 120.00 P 32 2 1 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 0.007242 0.004181 0.000000 0.00000 SCALE2 0.000000 0.008362 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010083 0.00000