HEADER LIPID TRANSPORT 12-JAN-26 9TVN TITLE STRUCTURE OF THE TETRAPOD ANCESTOR COQ8A IN COMPLEX WITH AMP-PNP AND TITLE 2 2MN(II) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATYPICAL KINASE COQ8A, MITOCHONDRIAL - RECONSTRUCTED COMPND 3 TETRAPOD ANCESTOR; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ATPASE, COENZYMEQ BIOSYNTHESIS, ATYPICAL KINASE, LIPID BINDING KEYWDS 2 PROTEIN, LIPID TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR A.GOTTINGER,A.MATTEVI REVDAT 1 24-JUN-26 9TVN 0 JRNL AUTH A.GOTTINGER,A.MATTEVI JRNL TITL COQ8 CHAPERONES COENZYME Q LIPID INTERMEDIATES THROUGH JRNL TITL 2 ATP-DRIVEN STRUCTURAL GATING JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0425 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.22 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 23900 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.701 REMARK 3 FREE R VALUE TEST SET COUNT : 1121 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1651 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE SET COUNT : 77 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3151 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 198 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.64300 REMARK 3 B22 (A**2) : 0.78700 REMARK 3 B33 (A**2) : -0.14300 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): 0.241 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.210 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.167 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.583 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.910 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3257 ; 0.008 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 3116 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4392 ; 1.812 ; 1.854 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7188 ; 0.579 ; 1.771 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 390 ; 6.233 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 22 ;11.507 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 595 ;14.991 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 478 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3776 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 751 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 728 ; 0.233 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 54 ; 0.225 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1611 ; 0.186 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 173 ; 0.183 ; 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): 1563 ; 2.384 ; 2.805 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1563 ; 2.379 ; 2.805 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1952 ; 3.368 ; 5.031 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1953 ; 3.367 ; 5.033 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1694 ; 3.799 ; 3.286 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1694 ; 3.799 ; 3.286 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2440 ; 5.833 ; 5.829 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2441 ; 5.832 ; 5.828 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 : NULL 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 9TVN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JAN-26. REMARK 100 THE DEPOSITION ID IS D_1292153530. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAR-25 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.96546 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS4 XE 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 154277 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 46.220 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.15200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : 1.16600 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 MG/ML PROTEIN AND 0.12 M REMARK 280 MONOSACCHARIDES MIX (0.2 M D-GLUCOSE, 0.2 M D-MANNOSE, 0.2 M D- REMARK 280 GALACTOSE, 0.2 M L-FUCOSE, 0.2 M D-XYLOSE, 0.2 M N-ACETYL-D- REMARK 280 GLUCOSAMINE), 0.1 M BUFFER SYSTEM 1 PH 6.5 (0.5 M IMIDAZOLE, 0.5 REMARK 280 M MES MONOHYDRATE ACID), 50% (V/V) PRECIPITANT MIX 2 (40% (V/V) REMARK 280 ETHYLENE GLYCOL, 20% (W/V) PEG 8000), VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 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 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 28.22800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.75200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.12900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.75200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.22800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.12900 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 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 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 GLY A 1 REMARK 465 GLN A 2 REMARK 465 THR A 3 REMARK 465 ARG A 4 REMARK 465 ALA A 5 REMARK 465 PHE A 6 REMARK 465 HIS A 7 REMARK 465 GLN A 8 REMARK 465 ASP A 9 REMARK 465 HIS A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 VAL A 13 REMARK 465 GLY A 14 REMARK 465 GLY A 15 REMARK 465 LEU A 16 REMARK 465 THR A 17 REMARK 465 ALA A 18 REMARK 465 GLU A 19 REMARK 465 ASP A 20 REMARK 465 ILE A 21 REMARK 465 GLU A 22 REMARK 465 LYS A 23 REMARK 465 ALA A 24 REMARK 465 ARG A 25 REMARK 465 GLU A 26 REMARK 465 ALA A 27 REMARK 465 LYS A 28 REMARK 465 ALA A 29 REMARK 465 ASN A 30 REMARK 465 PRO A 31 REMARK 465 GLU A 32 REMARK 465 ASN A 33 REMARK 465 LYS A 34 REMARK 465 PRO A 35 REMARK 465 HIS A 36 REMARK 465 LYS A 37 REMARK 465 GLN A 38 REMARK 465 MET A 39 REMARK 465 LEU A 40 REMARK 465 SER A 41 REMARK 465 GLU A 42 REMARK 465 ARG A 43 REMARK 465 ALA A 44 REMARK 465 ARG A 45 REMARK 465 GLU A 46 REMARK 465 ARG A 47 REMARK 465 LYS A 48 REMARK 465 VAL A 49 REMARK 465 PRO A 50 REMARK 465 VAL A 51 REMARK 465 THR A 52 REMARK 465 ARG A 53 REMARK 465 ILE A 54 REMARK 465 GLY A 55 REMARK 465 ARG A 56 REMARK 465 LEU A 57 REMARK 465 ALA A 58 REMARK 465 ASN A 59 REMARK 465 PHE A 60 REMARK 465 GLY A 61 REMARK 465 GLY A 62 REMARK 465 LEU A 63 REMARK 465 ALA A 64 REMARK 465 VAL A 65 REMARK 465 GLY A 66 REMARK 465 LEU A 67 REMARK 465 GLY A 68 REMARK 465 ILE A 69 REMARK 465 GLY A 70 REMARK 465 ALA A 71 REMARK 465 LEU A 72 REMARK 465 ALA A 73 REMARK 465 GLU A 74 REMARK 465 VAL A 75 REMARK 465 ALA A 76 REMARK 465 LYS A 77 REMARK 465 LYS A 78 REMARK 465 SER A 79 REMARK 465 LEU A 80 REMARK 465 ARG A 81 REMARK 465 PRO A 82 REMARK 465 GLU A 83 REMARK 465 GLU A 84 REMARK 465 ARG A 85 REMARK 465 ASN A 86 REMARK 465 GLY A 87 REMARK 465 LYS A 88 REMARK 465 LYS A 89 REMARK 465 ALA A 90 REMARK 465 VAL A 91 REMARK 465 LEU A 92 REMARK 465 ASP A 93 REMARK 465 SER A 94 REMARK 465 SER A 95 REMARK 465 PRO A 96 REMARK 465 PHE A 97 REMARK 465 LEU A 98 REMARK 465 SER A 99 REMARK 465 GLU A 100 REMARK 465 ALA A 101 REMARK 465 GLN A 493 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 OD2 ASP A 331 O HOH A 601 2.17 REMARK 500 OE2 GLU A 141 NH2 ARG A 144 2.18 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 379 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 441 NE - CZ - NH1 ANGL. DEV. = -3.4 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 LEU A 228 63.65 -115.32 REMARK 500 ASP A 350 88.08 74.58 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 142 0.09 SIDE CHAIN REMARK 500 ARG A 253 0.08 SIDE CHAIN REMARK 500 ARG A 441 0.18 SIDE CHAIN 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 MN A 504 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 248 OE2 REMARK 620 2 ASP A 350 OD1 83.7 REMARK 620 3 ANP A 503 O3G 97.4 68.4 REMARK 620 4 ANP A 503 O2B 171.4 89.4 84.7 REMARK 620 5 HOH A 681 O 82.6 115.8 175.8 95.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 505 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 336 OD1 REMARK 620 2 ASP A 350 OD2 81.0 REMARK 620 3 ANP A 503 N3B 174.3 93.3 REMARK 620 4 ANP A 503 O2A 100.2 113.1 81.8 REMARK 620 5 HOH A 719 O 88.1 161.2 97.4 83.8 REMARK 620 N 1 2 3 4 DBREF 9TVN A 1 493 PDB 9TVN 9TVN 1 493 SEQRES 1 A 493 GLY GLN THR ARG ALA PHE HIS GLN ASP HIS SER SER VAL SEQRES 2 A 493 GLY GLY LEU THR ALA GLU ASP ILE GLU LYS ALA ARG GLU SEQRES 3 A 493 ALA LYS ALA ASN PRO GLU ASN LYS PRO HIS LYS GLN MET SEQRES 4 A 493 LEU SER GLU ARG ALA ARG GLU ARG LYS VAL PRO VAL THR SEQRES 5 A 493 ARG ILE GLY ARG LEU ALA ASN PHE GLY GLY LEU ALA VAL SEQRES 6 A 493 GLY LEU GLY ILE GLY ALA LEU ALA GLU VAL ALA LYS LYS SEQRES 7 A 493 SER LEU ARG PRO GLU GLU ARG ASN GLY LYS LYS ALA VAL SEQRES 8 A 493 LEU ASP SER SER PRO PHE LEU SER GLU ALA ASN ALA GLU SEQRES 9 A 493 ARG ILE VAL ARG THR LEU CYS LYS VAL ARG GLY ALA ALA SEQRES 10 A 493 LEU LYS LEU GLY GLN MET LEU SER ILE GLN ASP ASP ALA SEQRES 11 A 493 PHE ILE ASN PRO GLN LEU GLN LYS ILE PHE GLU ARG VAL SEQRES 12 A 493 ARG GLN SER ALA ASP PHE MET PRO ILE LYS GLN MET MET SEQRES 13 A 493 LYS THR LEU ASN ASN ASP LEU GLY PRO ASN TRP ARG ASP SEQRES 14 A 493 LYS LEU GLU PHE PHE GLU GLU ARG PRO PHE ALA ALA ALA SEQRES 15 A 493 SER ILE GLY GLN VAL HIS LEU ALA ARG LEU LYS ASP GLY SEQRES 16 A 493 ARG GLU VAL ALA MET LYS ILE GLN TYR PRO GLY VAL ALA SEQRES 17 A 493 GLN SER ILE ASN SER ASP VAL ASN ASN LEU MET THR VAL SEQRES 18 A 493 LEU SER MET SER ASN ALA LEU PRO GLU GLY LEU PHE PRO SEQRES 19 A 493 GLU HIS LEU ILE GLU VAL LEU SER ARG GLU LEU ALA LEU SEQRES 20 A 493 GLU CYS ASP TYR LYS ARG GLU ALA ALA CYS ALA LYS LYS SEQRES 21 A 493 PHE LYS GLU LEU LEU LYS ASP HIS PRO PHE PHE TYR VAL SEQRES 22 A 493 PRO ALA VAL VAL ASP GLU LEU CYS SER GLN HIS VAL LEU SEQRES 23 A 493 THR THR GLU LEU VAL SER GLY PHE PRO LEU ASP GLN ALA SEQRES 24 A 493 GLU GLY LEU SER GLN GLU ILE ARG ASN GLU ILE CYS HIS SEQRES 25 A 493 ASN ILE LEU VAL LEU CYS LEU ARG GLU LEU PHE GLU PHE SEQRES 26 A 493 ARG PHE MET GLN THR ASP PRO ASN TRP SER ASN PHE PHE SEQRES 27 A 493 TYR ASP PRO GLN LEU HIS LYS VAL ALA LEU LEU ASP PHE SEQRES 28 A 493 GLY ALA THR ARG GLY PHE ASP GLU ASP PHE THR ASP ILE SEQRES 29 A 493 TYR ILE GLU VAL ILE LYS ALA ALA ALA ASP GLN ASP ARG SEQRES 30 A 493 GLU ARG VAL LEU LYS LYS SER ILE GLU MET LYS PHE LEU SEQRES 31 A 493 THR GLY TYR GLU SER LYS ALA MET GLU ASN ALA HIS LEU SEQRES 32 A 493 ASP ALA VAL LEU ILE LEU GLY GLU ALA PHE ALA SER GLU SEQRES 33 A 493 GLU PRO PHE ASP PHE GLY SER GLN SER THR THR GLU ARG SEQRES 34 A 493 ILE HIS GLY LEU ILE PRO VAL MET LEU LYS HIS ARG LEU SEQRES 35 A 493 VAL PRO PRO PRO GLU GLU THR TYR SER LEU HIS ARG LYS SEQRES 36 A 493 MET GLY GLY SER PHE LEU ILE CYS SER LYS LEU LYS ALA SEQRES 37 A 493 LYS ILE PRO CYS LYS ASN MET PHE GLN GLU ALA TYR SER SEQRES 38 A 493 LYS TYR TRP SER ARG ARG ALA LYS LYS GLN GLU GLN HET EDO A 501 4 HET EDO A 502 4 HET ANP A 503 31 HET MN A 504 1 HET MN A 505 1 HETNAM EDO 1,2-ETHANEDIOL HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM MN MANGANESE (II) ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO 2(C2 H6 O2) FORMUL 4 ANP C10 H17 N6 O12 P3 FORMUL 5 MN 2(MN 2+) FORMUL 7 HOH *198(H2 O) HELIX 1 AA1 ASN A 102 CYS A 111 1 10 HELIX 2 AA2 VAL A 113 SER A 125 1 13 HELIX 3 AA3 ILE A 126 ASP A 129 5 4 HELIX 4 AA4 ASN A 133 SER A 146 1 14 HELIX 5 AA5 PRO A 151 GLY A 164 1 14 HELIX 6 AA6 ASN A 166 ASP A 169 5 4 HELIX 7 AA7 GLY A 206 GLN A 209 5 4 HELIX 8 AA8 SER A 210 SER A 225 1 16 HELIX 9 AA9 GLU A 235 ASP A 250 1 16 HELIX 10 AB1 ASP A 250 LEU A 265 1 16 HELIX 11 AB2 VAL A 277 CYS A 281 5 5 HELIX 12 AB3 ASP A 297 ALA A 299 5 3 HELIX 13 AB4 SER A 303 GLU A 324 1 22 HELIX 14 AB5 ASN A 333 SER A 335 5 3 HELIX 15 AB6 ASP A 358 ASP A 374 1 17 HELIX 16 AB7 ASP A 376 MET A 387 1 12 HELIX 17 AB8 SER A 395 ALA A 414 1 20 HELIX 18 AB9 SER A 423 GLY A 432 1 10 HELIX 19 AC1 LEU A 433 LEU A 438 5 6 HELIX 20 AC2 PRO A 446 LEU A 466 1 21 HELIX 21 AC3 CYS A 472 ALA A 488 1 17 SHEET 1 AA1 3 LEU A 171 PHE A 174 0 SHEET 2 AA1 3 GLY A 185 LEU A 192 -1 O ARG A 191 N GLU A 172 SHEET 3 AA1 3 ALA A 180 ALA A 181 -1 N ALA A 180 O VAL A 187 SHEET 1 AA2 4 LEU A 171 PHE A 174 0 SHEET 2 AA2 4 GLY A 185 LEU A 192 -1 O ARG A 191 N GLU A 172 SHEET 3 AA2 4 GLU A 197 GLN A 203 -1 O MET A 200 N HIS A 188 SHEET 4 AA2 4 VAL A 285 GLU A 289 -1 O THR A 288 N ALA A 199 SHEET 1 AA3 4 PHE A 271 TYR A 272 0 SHEET 2 AA3 4 LYS A 345 LEU A 348 1 O LEU A 348 N TYR A 272 SHEET 3 AA3 4 PHE A 337 ASP A 340 -1 N PHE A 338 O ALA A 347 SHEET 4 AA3 4 PHE A 294 PRO A 295 -1 N PHE A 294 O TYR A 339 SHEET 1 AA4 2 PHE A 327 GLN A 329 0 SHEET 2 AA4 2 THR A 354 GLY A 356 -1 O ARG A 355 N MET A 328 SHEET 1 AA5 2 PHE A 419 ASP A 420 0 SHEET 2 AA5 2 LYS A 469 ILE A 470 -1 O ILE A 470 N PHE A 419 LINK OE2 GLU A 248 MN MN A 504 1555 1555 1.98 LINK OD1 ASN A 336 MN MN A 505 1555 1555 2.36 LINK OD1 ASP A 350 MN MN A 504 1555 1555 2.65 LINK OD2 ASP A 350 MN MN A 505 1555 1555 2.74 LINK O3G ANP A 503 MN MN A 504 1555 1555 1.94 LINK O2B ANP A 503 MN MN A 504 1555 1555 2.15 LINK N3B ANP A 503 MN MN A 505 1555 1555 2.45 LINK O2A ANP A 503 MN MN A 505 1555 1555 2.28 LINK MN MN A 504 O HOH A 681 1555 1555 2.29 LINK MN MN A 505 O HOH A 719 1555 1555 2.46 CRYST1 56.456 80.258 87.504 90.00 90.00 90.00 P 21 21 21 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 0.017713 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012460 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011428 0.00000 CONECT 1165 3192 CONECT 1885 3193 CONECT 2006 3192 CONECT 2007 3193 CONECT 3153 3154 3155 CONECT 3154 3153 CONECT 3155 3153 3156 CONECT 3156 3155 CONECT 3157 3158 3159 CONECT 3158 3157 CONECT 3159 3157 3160 CONECT 3160 3159 CONECT 3161 3162 3163 3164 3168 CONECT 3162 3161 CONECT 3163 3161 CONECT 3164 3161 3192 CONECT 3165 3166 3167 3168 3172 CONECT 3166 3165 CONECT 3167 3165 3192 CONECT 3168 3161 3165 3193 CONECT 3169 3170 3171 3172 3173 CONECT 3170 3169 CONECT 3171 3169 3193 CONECT 3172 3165 3169 CONECT 3173 3169 3174 CONECT 3174 3173 3175 CONECT 3175 3174 3176 3177 CONECT 3176 3175 3181 CONECT 3177 3175 3178 3179 CONECT 3178 3177 CONECT 3179 3177 3180 3181 CONECT 3180 3179 CONECT 3181 3176 3179 3182 CONECT 3182 3181 3183 3191 CONECT 3183 3182 3184 CONECT 3184 3183 3185 CONECT 3185 3184 3186 3191 CONECT 3186 3185 3187 3188 CONECT 3187 3186 CONECT 3188 3186 3189 CONECT 3189 3188 3190 CONECT 3190 3189 3191 CONECT 3191 3182 3185 3190 CONECT 3192 1165 2006 3164 3167 CONECT 3192 3274 CONECT 3193 1885 2007 3168 3171 CONECT 3193 3312 CONECT 3274 3192 CONECT 3312 3193 MASTER 440 0 5 21 15 0 0 6 3390 1 49 38 END