HEADER HYDROLASE/RNA 01-NOV-23 8WZC TITLE NYN DOMAIN OF HUMAN KHNYN COMPLEX WITH RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN KHNYN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: RNA (5'-R(P*UP*UP*UP*AP*U)-3'); COMPND 7 CHAIN: D; 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: KHNYN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606 KEYWDS KHNYN, ENDONUCLEASE, REGNASE, REGULATION, HOMEOSTASIS, RNA BINDING, KEYWDS 2 RNASE, HYDROLASE, HYDROLASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.HONG,J.CHOE REVDAT 1 11-SEP-24 8WZC 0 JRNL AUTH S.HONG,J.CHOE JRNL TITL CRYSTAL STRUCTURE OF NYN DOMAIN OF HUMAN KHNYN IN COMPLEX JRNL TITL 2 WITH SINGLE STRAND RNA. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 738 50545 2024 JRNL REFN ESSN 1090-2104 JRNL PMID 39167961 JRNL DOI 10.1016/J.BBRC.2024.150545 REMARK 2 REMARK 2 RESOLUTION. 1.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0419 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) : 1.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.73 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 18391 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.307 REMARK 3 FREE R VALUE TEST SET COUNT : 976 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) : 1.93 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1243 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.32 REMARK 3 BIN R VALUE (WORKING SET) : 0.2330 REMARK 3 BIN FREE R VALUE SET COUNT : 70 REMARK 3 BIN FREE R VALUE : 0.2690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1320 REMARK 3 NUCLEIC ACID ATOMS : 102 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 167 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.135 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.125 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.088 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.934 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1479 ; 0.009 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 1342 ; 0.002 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2013 ; 1.583 ; 1.661 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3093 ; 0.520 ; 1.586 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 162 ; 7.146 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 12 ;13.183 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 234 ;13.263 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 224 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1657 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 350 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 307 ; 0.211 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 52 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 729 ; 0.183 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 106 ; 0.178 ; 0.200 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): 651 ; 4.028 ; 3.445 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 651 ; 4.022 ; 3.445 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 812 ; 6.221 ; 6.148 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 813 ; 6.218 ; 6.157 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 828 ; 6.277 ; 4.669 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 829 ; 6.273 ; 4.676 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1201 ;10.042 ; 8.369 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1202 ;10.038 ; 8.376 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 : 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 474 A 703 REMARK 3 ORIGIN FOR THE GROUP (A): 72.5598 87.8120 53.8422 REMARK 3 T TENSOR REMARK 3 T11: 0.0119 T22: 0.0313 REMARK 3 T33: 0.0290 T12: 0.0095 REMARK 3 T13: 0.0154 T23: 0.0172 REMARK 3 L TENSOR REMARK 3 L11: 0.3651 L22: 0.1187 REMARK 3 L33: 0.0650 L12: -0.1102 REMARK 3 L13: 0.0593 L23: 0.0147 REMARK 3 S TENSOR REMARK 3 S11: 0.0404 S12: 0.0521 S13: 0.0326 REMARK 3 S21: 0.0039 S22: -0.0397 S23: 0.0033 REMARK 3 S31: 0.0106 S32: 0.0040 S33: -0.0007 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 3 D 7 REMARK 3 ORIGIN FOR THE GROUP (A): 75.2751 75.1514 49.6760 REMARK 3 T TENSOR REMARK 3 T11: 0.0252 T22: 0.0625 REMARK 3 T33: 0.0180 T12: 0.0138 REMARK 3 T13: 0.0044 T23: -0.0125 REMARK 3 L TENSOR REMARK 3 L11: 0.1438 L22: 1.3414 REMARK 3 L33: 0.1429 L12: -0.4392 REMARK 3 L13: -0.1430 L23: 0.4371 REMARK 3 S TENSOR REMARK 3 S11: 0.0051 S12: 0.0003 S13: -0.0179 REMARK 3 S21: -0.0504 S22: -0.0099 S23: 0.0549 REMARK 3 S31: -0.0150 S32: 0.0060 S33: 0.0048 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8WZC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-NOV-23. REMARK 100 THE DEPOSITION ID IS D_1300042188. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUN-23 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 : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97495 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18429 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 104.0 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 53.2875 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 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: SAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS-HCL, PEG4000, CALCIUM CHLORIDE, 1 REMARK 280 -PROPANOL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 Y+3/4,X+1/4,-Z+1/4 REMARK 290 14555 -Y+3/4,-X+3/4,-Z+3/4 REMARK 290 15555 Y+1/4,-X+1/4,Z+3/4 REMARK 290 16555 -Y+1/4,X+3/4,Z+1/4 REMARK 290 17555 X+3/4,Z+1/4,-Y+1/4 REMARK 290 18555 -X+1/4,Z+3/4,Y+1/4 REMARK 290 19555 -X+3/4,-Z+3/4,-Y+3/4 REMARK 290 20555 X+1/4,-Z+1/4,Y+3/4 REMARK 290 21555 Z+3/4,Y+1/4,-X+1/4 REMARK 290 22555 Z+1/4,-Y+1/4,X+3/4 REMARK 290 23555 -Z+1/4,Y+3/4,X+1/4 REMARK 290 24555 -Z+3/4,-Y+3/4,-X+3/4 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 55.59850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.59850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 55.59850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.59850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 55.59850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 55.59850 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 55.59850 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 55.59850 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 55.59850 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 55.59850 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 55.59850 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 55.59850 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 55.59850 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 55.59850 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 55.59850 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 55.59850 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 55.59850 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 55.59850 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 83.39775 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 27.79925 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 27.79925 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 83.39775 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 83.39775 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 83.39775 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 27.79925 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 27.79925 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 83.39775 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 27.79925 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 83.39775 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 27.79925 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 83.39775 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 27.79925 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 27.79925 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 27.79925 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 83.39775 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 27.79925 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 83.39775 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 83.39775 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 83.39775 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 27.79925 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 27.79925 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 83.39775 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 83.39775 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 27.79925 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 27.79925 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 27.79925 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 27.79925 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 83.39775 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 27.79925 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 83.39775 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 27.79925 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 83.39775 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 83.39775 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 83.39775 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: 1370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 898 LIES ON A SPECIAL POSITION. 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 U D 5 O3' - P - O5' ANGL. DEV. = -16.5 DEGREES REMARK 500 A D 6 O3' - P - O5' ANGL. DEV. = -14.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 601 0.21 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 959 DISTANCE = 6.19 ANGSTROMS REMARK 525 HOH A 960 DISTANCE = 6.75 ANGSTROMS 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 MG A 705 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 565 OD1 REMARK 620 2 ASP A 566 OD1 74.8 REMARK 620 3 HOH A 811 O 78.3 117.2 REMARK 620 4 HOH A 825 O 131.9 85.0 73.1 REMARK 620 5 HOH A 862 O 73.4 106.5 118.2 154.7 REMARK 620 6 U D 5 O3' 139.9 142.7 89.1 77.6 79.9 REMARK 620 7 A D 6 OP1 139.5 83.0 142.2 77.7 81.4 61.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 704 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 566 OD2 REMARK 620 2 ASP A 584 OD2 93.2 REMARK 620 3 HOH A 821 O 95.7 97.1 REMARK 620 4 U D 3 OP2 137.3 128.2 89.8 REMARK 620 5 A D 6 OP1 94.7 80.4 169.5 83.8 REMARK 620 6 HOH D 101 O 154.6 80.3 61.3 58.6 108.1 REMARK 620 N 1 2 3 4 5 DBREF 8WZC A 477 636 UNP O15037 KHNYN_HUMAN 436 595 DBREF 8WZC D 3 7 PDB 8WZC 8WZC 3 7 SEQADV 8WZC SER A 474 UNP O15037 EXPRESSION TAG SEQADV 8WZC ASN A 475 UNP O15037 EXPRESSION TAG SEQADV 8WZC ALA A 476 UNP O15037 EXPRESSION TAG SEQADV 8WZC ALA A 526 UNP O15037 ARG 485 CONFLICT SEQRES 1 A 163 SER ASN ALA ASP LEU ARG HIS ILE VAL ILE ASP GLY SER SEQRES 2 A 163 ASN VAL ALA MET VAL HIS GLY LEU GLN HIS TYR PHE SER SEQRES 3 A 163 SER ARG GLY ILE ALA ILE ALA VAL GLN TYR PHE TRP ASP SEQRES 4 A 163 ARG GLY HIS ARG ASP ILE THR VAL PHE VAL PRO GLN TRP SEQRES 5 A 163 ALA PHE SER LYS ASP ALA LYS VAL ARG GLU SER HIS PHE SEQRES 6 A 163 LEU GLN LYS LEU TYR SER LEU SER LEU LEU SER LEU THR SEQRES 7 A 163 PRO SER ARG VAL MET ASP GLY LYS ARG ILE SER SER TYR SEQRES 8 A 163 ASP ASP ARG PHE MET VAL LYS LEU ALA GLU GLU THR ASP SEQRES 9 A 163 GLY ILE ILE VAL SER ASN ASP GLN PHE ARG ASP LEU ALA SEQRES 10 A 163 GLU GLU SER GLU LYS TRP MET ALA ILE ILE ARG GLU ARG SEQRES 11 A 163 LEU LEU PRO PHE THR PHE VAL GLY ASN LEU PHE MET VAL SEQRES 12 A 163 PRO ASP ASP PRO LEU GLY ARG ASN GLY PRO THR LEU ASP SEQRES 13 A 163 GLU PHE LEU LYS LYS PRO ALA SEQRES 1 D 5 U U U A U HET GOL A 701 6 HET GOL A 702 6 HET GOL A 703 6 HET MG A 704 1 HET MG A 705 1 HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 3(C3 H8 O3) FORMUL 6 MG 2(MG 2+) FORMUL 8 HOH *167(H2 O) HELIX 1 AA1 GLY A 485 GLY A 493 1 9 HELIX 2 AA2 SER A 499 ARG A 513 1 15 HELIX 3 AA3 TRP A 525 SER A 528 5 4 HELIX 4 AA4 SER A 536 LEU A 545 1 10 HELIX 5 AA5 TYR A 564 ASP A 577 1 14 HELIX 6 AA6 PHE A 586 GLU A 591 1 6 HELIX 7 AA7 SER A 593 ARG A 603 1 11 HELIX 8 AA8 THR A 627 LEU A 632 1 6 SHEET 1 AA1 5 LEU A 548 THR A 551 0 SHEET 2 AA1 5 ILE A 518 PRO A 523 1 N VAL A 520 O SER A 549 SHEET 3 AA1 5 ILE A 481 ASP A 484 1 N ILE A 483 O THR A 519 SHEET 4 AA1 5 ILE A 579 VAL A 581 1 O ILE A 579 N VAL A 482 SHEET 5 AA1 5 LEU A 604 LEU A 605 1 O LEU A 605 N ILE A 580 SHEET 1 AA2 2 SER A 553 MET A 556 0 SHEET 2 AA2 2 LYS A 559 SER A 562 -1 O ILE A 561 N ARG A 554 SHEET 1 AA3 2 THR A 608 VAL A 610 0 SHEET 2 AA3 2 LEU A 613 MET A 615 -1 O MET A 615 N THR A 608 LINK OD1 ASP A 565 MG MG A 705 1555 1555 2.50 LINK OD2 ASP A 566 MG MG A 704 1555 1555 2.08 LINK OD1 ASP A 566 MG MG A 705 1555 1555 2.16 LINK OD2 ASP A 584 MG MG A 704 1555 1555 2.21 LINK MG MG A 704 O HOH A 821 1555 1555 2.13 LINK MG MG A 704 OP2 U D 3 1555 1555 2.22 LINK MG MG A 704 OP1 A D 6 1555 1555 2.19 LINK MG MG A 704 O HOH D 101 1555 1555 2.46 LINK MG MG A 705 O HOH A 811 1555 1555 2.41 LINK MG MG A 705 O HOH A 825 1555 1555 2.49 LINK MG MG A 705 O HOH A 862 1555 1555 2.19 LINK MG MG A 705 O3' U D 5 1555 1555 2.40 LINK MG MG A 705 OP1 A D 6 1555 1555 2.63 CRYST1 111.197 111.197 111.197 90.00 90.00 90.00 P 41 3 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 0.008993 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008993 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008993 0.00000