HEADER HYDROLASE 14-JAN-20 6TXB TITLE CRYSTAL STRUCTURE OF MINDY1 MUTANT (P138A) IN COMPLEX WITH LYS48 TITLE 2 LINKED DI-UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE MINDY-1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DEUBIQUITINATING ENZYME MINDY-1,PROTEIN FAM63A; COMPND 5 EC: 3.4.19.12; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: POLYUBIQUITIN-C; COMPND 10 CHAIN: D, H, L; 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: MINDY1, FAM63A, KIAA1390; 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: UBC; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, CYSTEINE PROTEASE, ISOPEPTIDASE AND UBIQUITIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR S.A.ABDUL REHMAN,Y.KULATHU REVDAT 4 24-JAN-24 6TXB 1 REMARK REVDAT 3 03-NOV-21 6TXB 1 JRNL REVDAT 2 13-OCT-21 6TXB 1 JRNL REVDAT 1 27-JAN-21 6TXB 0 JRNL AUTH S.A.ABDUL REHMAN,L.A.ARMSTRONG,S.M.LANGE,Y.A.KRISTARIYANTO, JRNL AUTH 2 T.W.GRAWERT,A.KNEBEL,D.I.SVERGUN,Y.KULATHU JRNL TITL MECHANISM OF ACTIVATION AND REGULATION OF DEUBIQUITINASE JRNL TITL 2 ACTIVITY IN MINDY1 AND MINDY2. JRNL REF MOL.CELL V. 81 4176 2021 JRNL REFN ISSN 1097-2765 JRNL PMID 34529927 JRNL DOI 10.1016/J.MOLCEL.2021.08.024 REMARK 2 REMARK 2 RESOLUTION. 2.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 2.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 28863 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) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1508 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) : 2.18 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.24 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2080 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3040 REMARK 3 BIN FREE R VALUE SET COUNT : 98 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3571 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 57 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.84000 REMARK 3 B22 (A**2) : 0.84000 REMARK 3 B33 (A**2) : -1.67000 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): 0.240 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.195 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.172 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.494 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3673 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3435 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4970 ; 1.036 ; 1.898 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8019 ; 0.960 ; 2.937 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 450 ; 5.660 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 169 ;33.674 ;25.680 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 674 ;13.049 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;17.406 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 578 ; 0.060 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4002 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 665 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 108 A 370 REMARK 3 ORIGIN FOR THE GROUP (A): 32.0690 -0.9010 21.6240 REMARK 3 T TENSOR REMARK 3 T11: 0.1502 T22: 0.1717 REMARK 3 T33: 0.0296 T12: -0.0460 REMARK 3 T13: 0.0453 T23: -0.0078 REMARK 3 L TENSOR REMARK 3 L11: 1.8168 L22: 2.6632 REMARK 3 L33: 3.0124 L12: 1.0449 REMARK 3 L13: 0.4641 L23: 0.3592 REMARK 3 S TENSOR REMARK 3 S11: 0.0452 S12: -0.0961 S13: 0.1006 REMARK 3 S21: -0.0952 S22: -0.0411 S23: -0.1210 REMARK 3 S31: 0.1282 S32: -0.1180 S33: -0.0040 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 : D 1 D 76 REMARK 3 ORIGIN FOR THE GROUP (A): 25.9640 21.2590 39.6900 REMARK 3 T TENSOR REMARK 3 T11: 0.3627 T22: 0.3660 REMARK 3 T33: 0.3666 T12: 0.0397 REMARK 3 T13: -0.0450 T23: -0.1222 REMARK 3 L TENSOR REMARK 3 L11: 3.4271 L22: 7.0550 REMARK 3 L33: 4.4591 L12: -1.1534 REMARK 3 L13: -1.7300 L23: 3.7138 REMARK 3 S TENSOR REMARK 3 S11: -0.2190 S12: -0.1195 S13: 0.6067 REMARK 3 S21: -0.1421 S22: -0.0326 S23: 0.3767 REMARK 3 S31: -0.4765 S32: -0.3518 S33: 0.2516 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 : H 1 H 74 REMARK 3 ORIGIN FOR THE GROUP (A): 25.2050 16.0300 7.0430 REMARK 3 T TENSOR REMARK 3 T11: 0.4029 T22: 0.2988 REMARK 3 T33: 0.2312 T12: -0.0006 REMARK 3 T13: -0.0245 T23: 0.0746 REMARK 3 L TENSOR REMARK 3 L11: 5.7284 L22: 6.4003 REMARK 3 L33: 4.4421 L12: 0.2583 REMARK 3 L13: 1.3348 L23: 0.3932 REMARK 3 S TENSOR REMARK 3 S11: -0.1586 S12: 0.3429 S13: 0.4278 REMARK 3 S21: -0.5707 S22: 0.1942 S23: 0.7918 REMARK 3 S31: -0.4177 S32: -0.5398 S33: -0.0356 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 : L 20 L 73 REMARK 3 ORIGIN FOR THE GROUP (A): 41.3430 0.2880 43.6770 REMARK 3 T TENSOR REMARK 3 T11: 0.4917 T22: 0.6534 REMARK 3 T33: 0.3863 T12: 0.0127 REMARK 3 T13: -0.0065 T23: -0.1137 REMARK 3 L TENSOR REMARK 3 L11: 4.0308 L22: 8.3261 REMARK 3 L33: 3.6659 L12: 2.6507 REMARK 3 L13: 0.3686 L23: -0.4852 REMARK 3 S TENSOR REMARK 3 S11: 0.1059 S12: 0.2842 S13: -0.2938 REMARK 3 S21: 0.2374 S22: 0.1200 S23: -0.9785 REMARK 3 S31: 0.1873 S32: 0.3303 S33: -0.2259 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: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : RESIDUAL ONLY REMARK 4 REMARK 4 6TXB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292106215. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8-7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID30B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99187 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 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30435 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.180 REMARK 200 RESOLUTION RANGE LOW (A) : 41.840 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.98700 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: 5JKN, 1UBQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM MALONATE, 20% PEG 3350, REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+3/4 REMARK 290 8555 -Y,-X,-Z+1/4 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 101.42650 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 50.71325 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 152.13975 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 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 101.42650 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 152.13975 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 50.71325 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, D, H 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: L 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 96 REMARK 465 PRO A 97 REMARK 465 LEU A 98 REMARK 465 GLY A 99 REMARK 465 SER A 100 REMARK 465 PRO A 101 REMARK 465 GLU A 102 REMARK 465 PHE A 103 REMARK 465 PRO A 104 REMARK 465 GLY A 105 REMARK 465 ARG A 106 REMARK 465 LEU A 107 REMARK 465 GLY A 371 REMARK 465 LYS A 372 REMARK 465 GLY A 373 REMARK 465 PRO A 374 REMARK 465 GLY A 375 REMARK 465 ALA A 376 REMARK 465 GLU A 377 REMARK 465 GLY A 378 REMARK 465 GLY A 379 REMARK 465 SER A 380 REMARK 465 GLY A 381 REMARK 465 SER A 382 REMARK 465 PRO A 383 REMARK 465 GLU A 384 REMARK 465 GLY H 75 REMARK 465 GLY H 76 REMARK 465 MET L 1 REMARK 465 GLN L 2 REMARK 465 ILE L 3 REMARK 465 PHE L 4 REMARK 465 VAL L 5 REMARK 465 LYS L 6 REMARK 465 THR L 7 REMARK 465 LEU L 8 REMARK 465 THR L 9 REMARK 465 GLY L 10 REMARK 465 LYS L 11 REMARK 465 THR L 12 REMARK 465 ILE L 13 REMARK 465 THR L 14 REMARK 465 LEU L 15 REMARK 465 GLU L 16 REMARK 465 VAL L 17 REMARK 465 GLU L 18 REMARK 465 PRO L 19 REMARK 465 PHE L 45 REMARK 465 ALA L 46 REMARK 465 GLY L 47 REMARK 465 ASN L 60 REMARK 465 ILE L 61 REMARK 465 GLN L 62 REMARK 465 LYS L 63 REMARK 465 GLU L 64 REMARK 465 SER L 65 REMARK 465 THR L 66 REMARK 465 LEU L 67 REMARK 465 ARG L 74 REMARK 465 GLY L 75 REMARK 465 GLY L 76 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 GLU A 108 CG CD OE1 OE2 REMARK 470 GLU A 110 CG CD OE1 OE2 REMARK 470 ASP A 112 CG OD1 OD2 REMARK 470 LYS A 178 CE NZ REMARK 470 GLU A 181 CG CD OE1 REMARK 470 LYS A 182 CG CD CE NZ REMARK 470 SER A 183 OG REMARK 470 GLU A 184 CG CD OE1 OE2 REMARK 470 LEU A 370 CG CD1 CD2 REMARK 470 LYS D 11 CD CE NZ REMARK 470 GLU D 24 CG CD OE1 OE2 REMARK 470 GLU L 24 CG CD OE1 OE2 REMARK 470 ILE L 36 CG1 CG2 CD1 REMARK 470 ILE L 44 CG1 CG2 CD1 REMARK 470 LYS L 48 CE NZ REMARK 470 HIS L 68 CG ND1 CD2 CE1 NE2 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 C GLY D 76 NZ LYS H 48 1.33 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 LEU A 186 -130.89 58.31 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 NA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA D 101 DBREF 6TXB A 110 384 UNP Q8N5J2 MINY1_HUMAN 110 384 DBREF 6TXB D 1 76 UNP P0CG48 UBC_HUMAN 1 76 DBREF 6TXB H 1 76 UNP P0CG48 UBC_HUMAN 1 76 DBREF 6TXB L 1 76 UNP P0CG48 UBC_HUMAN 1 76 SEQADV 6TXB GLY A 96 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB PRO A 97 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB LEU A 98 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB GLY A 99 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB SER A 100 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB PRO A 101 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB GLU A 102 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB PHE A 103 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB PRO A 104 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB GLY A 105 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB ARG A 106 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB LEU A 107 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB GLU A 108 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB MET A 109 UNP Q8N5J2 EXPRESSION TAG SEQADV 6TXB ALA A 137 UNP Q8N5J2 CYS 137 ENGINEERED MUTATION SEQADV 6TXB ALA A 138 UNP Q8N5J2 PRO 138 ENGINEERED MUTATION SEQRES 1 A 289 GLY PRO LEU GLY SER PRO GLU PHE PRO GLY ARG LEU GLU SEQRES 2 A 289 MET GLU PRO ASP PHE TYR CYS VAL LYS TRP ILE PRO TRP SEQRES 3 A 289 LYS GLY GLU GLN THR PRO ILE ILE THR GLN SER THR ASN SEQRES 4 A 289 GLY PRO ALA ALA LEU LEU ALA ILE MET ASN ILE LEU PHE SEQRES 5 A 289 LEU GLN TRP LYS VAL LYS LEU PRO PRO GLN LYS GLU VAL SEQRES 6 A 289 ILE THR SER ASP GLU LEU MET ALA HIS LEU GLY ASN CYS SEQRES 7 A 289 LEU LEU SER ILE LYS PRO GLN GLU LYS SER GLU GLY LEU SEQRES 8 A 289 GLN LEU ASN PHE GLN GLN ASN VAL ASP ASP ALA MET THR SEQRES 9 A 289 VAL LEU PRO LYS LEU ALA THR GLY LEU ASP VAL ASN VAL SEQRES 10 A 289 ARG PHE THR GLY VAL SER ASP PHE GLU TYR THR PRO GLU SEQRES 11 A 289 CYS SER VAL PHE ASP LEU LEU GLY ILE PRO LEU TYR HIS SEQRES 12 A 289 GLY TRP LEU VAL ASP PRO GLN SER PRO GLU ALA VAL ARG SEQRES 13 A 289 ALA VAL GLY LYS LEU SER TYR ASN GLN LEU VAL GLU ARG SEQRES 14 A 289 ILE ILE THR CYS LYS HIS SER SER ASP THR ASN LEU VAL SEQRES 15 A 289 THR GLU GLY LEU ILE ALA GLU GLN PHE LEU GLU THR THR SEQRES 16 A 289 ALA ALA GLN LEU THR TYR HIS GLY LEU CYS GLU LEU THR SEQRES 17 A 289 ALA ALA ALA LYS GLU GLY GLU LEU SER VAL PHE PHE ARG SEQRES 18 A 289 ASN ASN HIS PHE SER THR MET THR LYS HIS LYS SER HIS SEQRES 19 A 289 LEU TYR LEU LEU VAL THR ASP GLN GLY PHE LEU GLN GLU SEQRES 20 A 289 GLU GLN VAL VAL TRP GLU SER LEU HIS ASN VAL ASP GLY SEQRES 21 A 289 ASP SER CYS PHE CYS ASP SER ASP PHE HIS LEU SER HIS SEQRES 22 A 289 SER LEU GLY LYS GLY PRO GLY ALA GLU GLY GLY SER GLY SEQRES 23 A 289 SER PRO GLU SEQRES 1 D 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 D 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 D 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 D 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 D 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 D 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY SEQRES 1 H 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 H 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 H 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 H 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 H 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 H 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY SEQRES 1 L 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 L 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 L 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 L 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 L 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 L 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY HET NA A 401 1 HET NA A 402 1 HET NA A 403 1 HET CL A 404 1 HET CL A 405 1 HET NA D 101 1 HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION FORMUL 5 NA 4(NA 1+) FORMUL 8 CL 2(CL 1-) FORMUL 11 HOH *57(H2 O) HELIX 1 AA1 PRO A 136 GLN A 149 1 14 HELIX 2 AA2 SER A 163 ILE A 177 1 15 HELIX 3 AA3 GLN A 187 LEU A 201 1 15 HELIX 4 AA4 PRO A 202 GLY A 207 1 6 HELIX 5 AA5 THR A 223 LEU A 232 1 10 HELIX 6 AA6 SER A 246 GLY A 254 1 9 HELIX 7 AA7 SER A 257 SER A 271 1 15 HELIX 8 AA8 ASP A 273 THR A 290 1 18 HELIX 9 AA9 THR A 295 ALA A 306 1 12 HELIX 10 AB1 ASP A 336 LEU A 340 5 5 HELIX 11 AB2 THR D 22 GLY D 35 1 14 HELIX 12 AB3 PRO D 37 ASP D 39 5 3 HELIX 13 AB4 LEU D 56 ASN D 60 5 5 HELIX 14 AB5 THR H 22 GLU H 34 1 13 HELIX 15 AB6 PRO H 37 ASP H 39 5 3 HELIX 16 AB7 LEU H 56 ASN H 60 5 5 HELIX 17 AB8 THR L 22 GLU L 34 1 13 HELIX 18 AB9 PRO L 37 ASP L 39 5 3 SHEET 1 AA1 3 GLU A 124 ILE A 129 0 SHEET 2 AA1 3 PHE A 113 TRP A 121 -1 N LYS A 117 O ILE A 128 SHEET 3 AA1 3 VAL A 160 THR A 162 -1 O ILE A 161 N TYR A 114 SHEET 1 AA2 2 LEU A 208 VAL A 210 0 SHEET 2 AA2 2 LEU D 73 GLY D 75 -1 O LEU D 73 N VAL A 210 SHEET 1 AA3 6 LEU A 236 TYR A 237 0 SHEET 2 AA3 6 LEU A 311 PHE A 315 1 O PHE A 315 N TYR A 237 SHEET 3 AA3 6 PHE A 320 HIS A 326 -1 O MET A 323 N SER A 312 SHEET 4 AA3 6 HIS A 329 LEU A 333 -1 O LEU A 333 N THR A 322 SHEET 5 AA3 6 TRP A 347 LEU A 350 -1 O GLU A 348 N LEU A 332 SHEET 6 AA3 6 PHE A 359 CYS A 360 -1 O CYS A 360 N TRP A 347 SHEET 1 AA4 5 THR D 12 GLU D 16 0 SHEET 2 AA4 5 GLN D 2 LYS D 6 -1 N VAL D 5 O ILE D 13 SHEET 3 AA4 5 THR D 66 LEU D 71 1 O LEU D 67 N PHE D 4 SHEET 4 AA4 5 GLN D 41 PHE D 45 -1 N ILE D 44 O HIS D 68 SHEET 5 AA4 5 LYS D 48 GLN D 49 -1 O LYS D 48 N PHE D 45 SHEET 1 AA5 5 THR H 12 GLU H 16 0 SHEET 2 AA5 5 GLN H 2 LYS H 6 -1 N VAL H 5 O ILE H 13 SHEET 3 AA5 5 THR H 66 LEU H 71 1 O LEU H 67 N PHE H 4 SHEET 4 AA5 5 GLN H 41 PHE H 45 -1 N ILE H 44 O HIS H 68 SHEET 5 AA5 5 LYS H 48 GLN H 49 -1 O LYS H 48 N PHE H 45 SHEET 1 AA6 2 GLN L 41 LEU L 43 0 SHEET 2 AA6 2 LEU L 69 LEU L 71 -1 O VAL L 70 N ARG L 42 SSBOND 1 CYS A 358 CYS A 358 1555 5655 2.35 LINK NA NA A 402 O HOH A 548 1555 1555 2.37 SITE 1 AC1 1 HIS A 351 SITE 1 AC2 2 TYR A 296 HOH A 548 SITE 1 AC3 3 GLN A 149 GLU A 310 LEU A 311 SITE 1 AC4 1 GLU A 159 SITE 1 AC5 1 GLU A 308 SITE 1 AC6 2 HIS A 270 LYS D 6 CRYST1 74.032 74.032 202.853 90.00 90.00 90.00 P 41 2 2 24 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 0.013508 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013508 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004930 0.00000