HEADER TRANSFERASE 09-FEB-16 5I35 TITLE STRUCTURE OF THE HUMAN MITOCHONDRIAL KINASE COQ8A R611K WITH AMPPNP TITLE 2 (CEREBELLAR ATAXIA AND UBIQUINONE DEFICIENCY THROUGH LOSS OF TITLE 3 UNORTHODOX KINASE ACTIVITY) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATYPICAL KINASE ADCK3, MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CHAPERONE ACTIVITY OF BC1 COMPLEX-LIKE,CHAPERONE-ABC1-LIKE, COMPND 5 AARF DOMAIN-CONTAINING PROTEIN KINASE 3; COMPND 6 EC: 2.7.-.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ADCK3, CABC1, PP265; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B834; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PVP68K KEYWDS MITOCHONDRIAL PROTEIN, KINASE, UBIQUINONE BIOSYNTHESIS, UBIB CLADE KEYWDS 2 KINASE, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, KEYWDS 3 MITOCHONDRIAL PROTEIN PARTNERSHIP, MPP, TRANSFERASE, ADCK3, COENZYME KEYWDS 4 Q BIOSYNTHESIS, ADCK3_HUMAN EXPDTA X-RAY DIFFRACTION AUTHOR C.A.BINGMAN,J.A.STEFELY,D.J.PAGLIARINI,MITOCHONDRIAL PROTEIN AUTHOR 2 PARTNERSHIP (MPP) REVDAT 6 25-DEC-19 5I35 1 REMARK REVDAT 5 01-NOV-17 5I35 1 REMARK REVDAT 4 06-SEP-17 5I35 1 JRNL REMARK REVDAT 3 31-AUG-16 5I35 1 JRNL REVDAT 2 24-AUG-16 5I35 1 JRNL REVDAT 1 17-AUG-16 5I35 0 JRNL AUTH J.A.STEFELY,F.LICITRA,L.LAREDJ,A.G.REIDENBACH,Z.A.KEMMERER, JRNL AUTH 2 A.GRANGERAY,T.JAEG-EHRET,C.E.MINOGUE,A.ULBRICH,P.D.HUTCHINS, JRNL AUTH 3 E.M.WILKERSON,Z.RUAN,D.AYDIN,A.S.HEBERT,X.GUO, JRNL AUTH 4 E.C.FREIBERGER,L.REUTENAUER,A.JOCHEM,M.CHERGOVA,I.E.JOHNSON, JRNL AUTH 5 D.C.LOHMAN,M.J.RUSH,N.W.KWIECIEN,P.K.SINGH,A.I.SCHLAGOWSKI, JRNL AUTH 6 B.J.FLOYD,U.FORSMAN,P.J.SINDELAR,M.S.WESTPHALL,F.PIERREL, JRNL AUTH 7 J.ZOLL,M.DAL PERARO,N.KANNAN,C.A.BINGMAN,J.J.COON,P.ISOPE, JRNL AUTH 8 H.PUCCIO,D.J.PAGLIARINI JRNL TITL CEREBELLAR ATAXIA AND COENZYME Q DEFICIENCY THROUGH LOSS OF JRNL TITL 2 UNORTHODOX KINASE ACTIVITY. JRNL REF MOL.CELL V. 63 608 2016 JRNL REFN ISSN 1097-2765 JRNL PMID 27499294 JRNL DOI 10.1016/J.MOLCEL.2016.06.030 REMARK 2 REMARK 2 RESOLUTION. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 18275 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1556 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1324 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.3080 REMARK 3 BIN FREE R VALUE SET COUNT : 111 REMARK 3 BIN FREE R VALUE : 0.3950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3105 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 26 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 76.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.82000 REMARK 3 B22 (A**2) : 1.27000 REMARK 3 B33 (A**2) : -2.22000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.80000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.325 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.255 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.194 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.075 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3207 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3058 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4332 ; 2.152 ; 1.991 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7034 ; 1.155 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 383 ; 8.208 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 159 ;36.669 ;23.648 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 526 ;18.309 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;18.846 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 466 ; 0.119 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3586 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 761 ; 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): 1535 ; 4.601 ; 6.586 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1534 ; 4.598 ; 6.585 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1917 ; 6.628 ; 9.861 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1918 ; 6.628 ; 9.863 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1672 ; 5.345 ; 7.104 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1673 ; 5.344 ; 7.104 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2416 ; 7.770 ;10.451 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3474 ;10.059 ;52.335 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3473 ;10.058 ;52.329 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 : 1 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 261 A 644 REMARK 3 ORIGIN FOR THE GROUP (A): 50.9469 36.1305 18.7924 REMARK 3 T TENSOR REMARK 3 T11: 0.0535 T22: 0.0274 REMARK 3 T33: 0.0651 T12: -0.0046 REMARK 3 T13: 0.0347 T23: -0.0064 REMARK 3 L TENSOR REMARK 3 L11: 0.7755 L22: 0.3956 REMARK 3 L33: 0.2599 L12: -0.2354 REMARK 3 L13: 0.1214 L23: 0.2083 REMARK 3 S TENSOR REMARK 3 S11: 0.0787 S12: 0.0177 S13: -0.1058 REMARK 3 S21: -0.0306 S22: 0.0022 S23: 0.0192 REMARK 3 S31: -0.0408 S32: 0.0210 S33: -0.0809 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK 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 THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5I35 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000218179. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.96862 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19840 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.370 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.61 REMARK 200 R MERGE FOR SHELL (I) : 1.23200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.650 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: ONE PART OF ADCK3 R611K, 0.2 MM, REMARK 280 AMPPNP 2 MM, MGCL2, 4MM, MIXED WITH AN EQUAL VOLUME OF SODIUM REMARK 280 POLYACRYLATE 5100, 26%; MAGNESIUM CHLORIDE, 20 MM; HEPES, 100 MM, REMARK 280 PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 75.02500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.56000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 75.02500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 29.56000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 300 REMARK: MONOMER CONFIRMED BY GEL FILTRATION 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 255 REMARK 465 SER A 256 REMARK 465 GLU A 257 REMARK 465 ALA A 258 REMARK 465 ASN A 259 REMARK 465 ALA A 260 REMARK 465 ALA A 645 REMARK 465 GLN A 646 REMARK 465 GLN A 647 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 ILE A 283 CG1 CG2 CD1 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 OD1 ASP A 520 OH TYR A 640 2.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 406 CB CYS A 406 SG -0.098 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 348 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 400 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 410 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG A 419 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 435 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 464 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 534 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 643 NE - CZ - NH1 ANGL. DEV. = 3.2 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 SER A 282 63.04 66.39 REMARK 500 GLN A 284 40.05 -144.63 REMARK 500 ASP A 285 13.86 52.01 REMARK 500 PHE A 288 -68.55 -172.38 REMARK 500 ALA A 304 81.40 -60.43 REMARK 500 LYS A 310 -62.50 -26.23 REMARK 500 ASN A 383 69.19 11.51 REMARK 500 PRO A 386 36.63 -94.86 REMARK 500 GLU A 446 132.12 -37.95 REMARK 500 ASP A 507 89.54 91.99 REMARK 500 LEU A 595 -43.82 -157.69 REMARK 500 HIS A 597 77.57 -111.95 REMARK 500 ARG A 643 -19.44 -49.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 282 ILE A 283 147.50 REMARK 500 LEU A 385 PRO A 386 -61.96 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 ANP A 700 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: MPP-GO.128466 RELATED DB: TARGETTRACK DBREF 5I35 A 256 647 UNP Q8NI60 ADCK3_HUMAN 256 647 SEQADV 5I35 SER A 255 UNP Q8NI60 EXPRESSION TAG SEQADV 5I35 LYS A 611 UNP Q8NI60 ARG 611 ENGINEERED MUTATION SEQRES 1 A 393 SER SER GLU ALA ASN ALA GLU ARG ILE VAL ARG THR LEU SEQRES 2 A 393 CYS LYS VAL ARG GLY ALA ALA LEU LYS LEU GLY GLN MSE SEQRES 3 A 393 LEU SER ILE GLN ASP ASP ALA PHE ILE ASN PRO HIS LEU SEQRES 4 A 393 ALA LYS ILE PHE GLU ARG VAL ARG GLN SER ALA ASP PHE SEQRES 5 A 393 MSE PRO LEU LYS GLN MSE MSE LYS THR LEU ASN ASN ASP SEQRES 6 A 393 LEU GLY PRO ASN TRP ARG ASP LYS LEU GLU TYR PHE GLU SEQRES 7 A 393 GLU ARG PRO PHE ALA ALA ALA SER ILE GLY GLN VAL HIS SEQRES 8 A 393 LEU ALA ARG MSE LYS GLY GLY ARG GLU VAL ALA MSE LYS SEQRES 9 A 393 ILE GLN TYR PRO GLY VAL ALA GLN SER ILE ASN SER ASP SEQRES 10 A 393 VAL ASN ASN LEU MSE ALA VAL LEU ASN MSE SER ASN MSE SEQRES 11 A 393 LEU PRO GLU GLY LEU PHE PRO GLU HIS LEU ILE ASP VAL SEQRES 12 A 393 LEU ARG ARG GLU LEU ALA LEU GLU CYS ASP TYR GLN ARG SEQRES 13 A 393 GLU ALA ALA CYS ALA ARG LYS PHE ARG ASP LEU LEU LYS SEQRES 14 A 393 GLY HIS PRO PHE PHE TYR VAL PRO GLU ILE VAL ASP GLU SEQRES 15 A 393 LEU CYS SER PRO HIS VAL LEU THR THR GLU LEU VAL SER SEQRES 16 A 393 GLY PHE PRO LEU ASP GLN ALA GLU GLY LEU SER GLN GLU SEQRES 17 A 393 ILE ARG ASN GLU ILE CYS TYR ASN ILE LEU VAL LEU CYS SEQRES 18 A 393 LEU ARG GLU LEU PHE GLU PHE HIS PHE MSE GLN THR ASP SEQRES 19 A 393 PRO ASN TRP SER ASN PHE PHE TYR ASP PRO GLN GLN HIS SEQRES 20 A 393 LYS VAL ALA LEU LEU ASP PHE GLY ALA THR ARG GLU TYR SEQRES 21 A 393 ASP ARG SER PHE THR ASP LEU TYR ILE GLN ILE ILE ARG SEQRES 22 A 393 ALA ALA ALA ASP ARG ASP ARG GLU THR VAL ARG ALA LYS SEQRES 23 A 393 SER ILE GLU MSE LYS PHE LEU THR GLY TYR GLU VAL LYS SEQRES 24 A 393 VAL MSE GLU ASP ALA HIS LEU ASP ALA ILE LEU ILE LEU SEQRES 25 A 393 GLY GLU ALA PHE ALA SER ASP GLU PRO PHE ASP PHE GLY SEQRES 26 A 393 THR GLN SER THR THR GLU LYS ILE HIS ASN LEU ILE PRO SEQRES 27 A 393 VAL MSE LEU ARG HIS ARG LEU VAL PRO PRO PRO GLU GLU SEQRES 28 A 393 THR TYR SER LEU HIS LYS LYS MSE GLY GLY SER PHE LEU SEQRES 29 A 393 ILE CYS SER LYS LEU LYS ALA ARG PHE PRO CYS LYS ALA SEQRES 30 A 393 MSE PHE GLU GLU ALA TYR SER ASN TYR CYS LYS ARG GLN SEQRES 31 A 393 ALA GLN GLN MODRES 5I35 MSE A 280 MET MODIFIED RESIDUE MODRES 5I35 MSE A 307 MET MODIFIED RESIDUE MODRES 5I35 MSE A 312 MET MODIFIED RESIDUE MODRES 5I35 MSE A 313 MET MODIFIED RESIDUE MODRES 5I35 MSE A 349 MET MODIFIED RESIDUE MODRES 5I35 MSE A 357 MET MODIFIED RESIDUE MODRES 5I35 MSE A 376 MET MODIFIED RESIDUE MODRES 5I35 MSE A 381 MET MODIFIED RESIDUE MODRES 5I35 MSE A 384 MET MODIFIED RESIDUE MODRES 5I35 MSE A 485 MET MODIFIED RESIDUE MODRES 5I35 MSE A 544 MET MODIFIED RESIDUE MODRES 5I35 MSE A 555 MET MODIFIED RESIDUE MODRES 5I35 MSE A 594 MET MODIFIED RESIDUE MODRES 5I35 MSE A 613 MET MODIFIED RESIDUE MODRES 5I35 MSE A 632 MET MODIFIED RESIDUE HET MSE A 280 8 HET MSE A 307 8 HET MSE A 312 8 HET MSE A 313 8 HET MSE A 349 8 HET MSE A 357 8 HET MSE A 376 8 HET MSE A 381 8 HET MSE A 384 8 HET MSE A 485 8 HET MSE A 544 8 HET MSE A 555 8 HET MSE A 594 8 HET MSE A 613 8 HET MSE A 632 8 HET ANP A 700 31 HETNAM MSE SELENOMETHIONINE HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER FORMUL 1 MSE 15(C5 H11 N O2 SE) FORMUL 2 ANP C10 H17 N6 O12 P3 FORMUL 3 HOH *26(H2 O) HELIX 1 AA1 ILE A 263 LYS A 269 1 7 HELIX 2 AA2 VAL A 270 SER A 282 1 13 HELIX 3 AA3 ASN A 290 GLN A 302 1 13 HELIX 4 AA4 PRO A 308 GLY A 321 1 14 HELIX 5 AA5 ASN A 323 ASP A 326 5 4 HELIX 6 AA6 VAL A 364 GLN A 366 5 3 HELIX 7 AA7 SER A 367 SER A 382 1 16 HELIX 8 AA8 PRO A 391 ASP A 407 1 17 HELIX 9 AA9 ASP A 407 LEU A 422 1 16 HELIX 10 AB1 VAL A 434 CYS A 438 5 5 HELIX 11 AB2 ASP A 454 ALA A 456 5 3 HELIX 12 AB3 SER A 460 GLU A 481 1 22 HELIX 13 AB4 ASN A 490 SER A 492 5 3 HELIX 14 AB5 ASP A 507 GLY A 509 5 3 HELIX 15 AB6 ASP A 515 ASP A 531 1 17 HELIX 16 AB7 ASP A 533 MSE A 544 1 12 HELIX 17 AB8 VAL A 552 SER A 572 1 21 HELIX 18 AB9 PHE A 578 SER A 582 1 5 HELIX 19 AC1 THR A 583 HIS A 588 1 6 HELIX 20 AC2 ASN A 589 ILE A 591 5 3 HELIX 21 AC3 PRO A 603 LEU A 623 1 21 HELIX 22 AC4 CYS A 629 ARG A 643 1 15 SHEET 1 AA1 3 LEU A 328 PHE A 331 0 SHEET 2 AA1 3 GLY A 342 MSE A 349 -1 O ARG A 348 N TYR A 330 SHEET 3 AA1 3 ALA A 337 ALA A 339 -1 N ALA A 337 O VAL A 344 SHEET 1 AA2 4 LEU A 328 PHE A 331 0 SHEET 2 AA2 4 GLY A 342 MSE A 349 -1 O ARG A 348 N TYR A 330 SHEET 3 AA2 4 GLU A 354 GLN A 360 -1 O ILE A 359 N GLN A 343 SHEET 4 AA2 4 VAL A 442 GLU A 446 -1 O LEU A 443 N LYS A 358 SHEET 1 AA3 4 PHE A 428 TYR A 429 0 SHEET 2 AA3 4 LYS A 502 LEU A 505 1 O LEU A 505 N TYR A 429 SHEET 3 AA3 4 PHE A 494 ASP A 497 -1 N PHE A 495 O ALA A 504 SHEET 4 AA3 4 PHE A 451 PRO A 452 -1 N PHE A 451 O TYR A 496 SHEET 1 AA4 2 MSE A 485 GLN A 486 0 SHEET 2 AA4 2 THR A 511 ARG A 512 -1 O ARG A 512 N MSE A 485 SHEET 1 AA5 2 PHE A 576 ASP A 577 0 SHEET 2 AA5 2 ARG A 626 PHE A 627 -1 O PHE A 627 N PHE A 576 LINK C GLN A 279 N MSE A 280 1555 1555 1.33 LINK C MSE A 280 N LEU A 281 1555 1555 1.33 LINK C PHE A 306 N MSE A 307 1555 1555 1.33 LINK C MSE A 307 N PRO A 308 1555 1555 1.35 LINK C GLN A 311 N MSE A 312 1555 1555 1.33 LINK C MSE A 312 N MSE A 313 1555 1555 1.35 LINK C MSE A 313 N LYS A 314 1555 1555 1.34 LINK C ARG A 348 N MSE A 349 1555 1555 1.32 LINK C MSE A 349 N LYS A 350 1555 1555 1.33 LINK C ALA A 356 N MSE A 357 1555 1555 1.34 LINK C MSE A 357 N LYS A 358 1555 1555 1.34 LINK C LEU A 375 N MSE A 376 1555 1555 1.35 LINK C MSE A 376 N ALA A 377 1555 1555 1.33 LINK C ASN A 380 N MSE A 381 1555 1555 1.33 LINK C MSE A 381 N SER A 382 1555 1555 1.32 LINK C ASN A 383 N MSE A 384 1555 1555 1.34 LINK C MSE A 384 N LEU A 385 1555 1555 1.34 LINK C PHE A 484 N MSE A 485 1555 1555 1.34 LINK C MSE A 485 N GLN A 486 1555 1555 1.32 LINK C GLU A 543 N MSE A 544 1555 1555 1.33 LINK C MSE A 544 N LYS A 545 1555 1555 1.32 LINK C VAL A 554 N MSE A 555 1555 1555 1.32 LINK C MSE A 555 N GLU A 556 1555 1555 1.32 LINK C VAL A 593 N MSE A 594 1555 1555 1.35 LINK C MSE A 594 N LEU A 595 1555 1555 1.35 LINK C LYS A 612 N MSE A 613 1555 1555 1.34 LINK C MSE A 613 N GLY A 614 1555 1555 1.34 LINK C ALA A 631 N MSE A 632 1555 1555 1.34 LINK C MSE A 632 N PHE A 633 1555 1555 1.34 SITE 1 AC1 12 PHE A 336 ALA A 337 ALA A 339 SER A 340 SITE 2 AC1 12 VAL A 344 LYS A 358 THR A 445 GLU A 446 SITE 3 AC1 12 VAL A 448 ASN A 493 PHE A 495 ASP A 507 CRYST1 150.050 59.120 51.000 90.00 97.69 90.00 C 1 2 1 4 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 0.006664 0.000000 0.000900 0.00000 SCALE2 0.000000 0.016915 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019786 0.00000