HEADER TRANSFERASE 23-OCT-03 1R8B TITLE CRYSTAL STRUCTURES OF AN ARCHAEAL CLASS I CCA-ADDING ENZYME AND ITS TITLE 2 NUCLEOTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA NUCLEOTIDYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TRNA ADENYLYLTRANSFERASE, TRNA CCA-PYROPHOSPHORYLASE, CCA- COMPND 5 ADDING ENZYME; COMPND 6 EC: 2.7.7.25; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARCHAEOGLOBUS FULGIDUS; SOURCE 3 ORGANISM_TAXID: 2234; SOURCE 4 GENE: CCA, AF2156; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CCA ADDING ENZYME, INCOMING NUCLEOTIDE, NUCLEOTIDYLTRANSFERASE, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.XIONG,F.LI,J.WANG,A.M.WEINER,T.A.STEITZ REVDAT 4 14-FEB-24 1R8B 1 REMARK LINK REVDAT 3 13-JUL-11 1R8B 1 VERSN REVDAT 2 24-FEB-09 1R8B 1 VERSN REVDAT 1 16-DEC-03 1R8B 0 JRNL AUTH Y.XIONG,F.LI,J.WANG,A.M.WEINER,T.A.STEITZ JRNL TITL CRYSTAL STRUCTURES OF AN ARCHAEAL CLASS I CCA-ADDING ENZYME JRNL TITL 2 AND ITS NUCLEOTIDE COMPLEXES JRNL REF MOL.CELL V. 12 1165 2003 JRNL REFN ISSN 1097-2765 JRNL PMID 14636575 JRNL DOI 10.1016/S1097-2765(03)00440-4 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.63 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 33402 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) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1812 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.14 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5987 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2280 REMARK 3 BIN FREE R VALUE SET COUNT : 327 REMARK 3 BIN FREE R VALUE : 0.2730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3630 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 68 REMARK 3 SOLVENT ATOMS : 329 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.10000 REMARK 3 B22 (A**2) : 1.46000 REMARK 3 B33 (A**2) : -1.48000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.29000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.178 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.162 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.123 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.531 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3779 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 3447 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5092 ; 1.447 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8003 ; 0.806 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 436 ; 6.150 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 526 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4114 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 840 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 772 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3893 ; 0.237 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2355 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 224 ; 0.193 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.255 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 27 ; 0.136 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 121 ; 0.312 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 26 ; 0.149 ; 0.200 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): 2176 ; 1.473 ; 2.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3513 ; 2.560 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1603 ; 3.726 ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1579 ; 5.840 ; 8.000 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 : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 17 A 124 REMARK 3 RESIDUE RANGE : A 501 A 501 REMARK 3 ORIGIN FOR THE GROUP (A): 14.9518 12.9740 45.7118 REMARK 3 T TENSOR REMARK 3 T11: 0.3574 T22: 0.2392 REMARK 3 T33: 0.1881 T12: 0.1633 REMARK 3 T13: 0.0172 T23: 0.0993 REMARK 3 L TENSOR REMARK 3 L11: 2.3061 L22: 3.0772 REMARK 3 L33: 21.6905 L12: -0.5079 REMARK 3 L13: -0.6038 L23: -1.4441 REMARK 3 S TENSOR REMARK 3 S11: -0.4342 S12: -0.3079 S13: 0.0483 REMARK 3 S21: 0.5910 S22: -0.0685 S23: -0.3235 REMARK 3 S31: -0.8514 S32: 0.4498 S33: 0.5027 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 125 A 258 REMARK 3 RESIDUE RANGE : A 1 A 16 REMARK 3 ORIGIN FOR THE GROUP (A): 11.0902 13.4734 21.0571 REMARK 3 T TENSOR REMARK 3 T11: 0.1149 T22: 0.3029 REMARK 3 T33: 0.2050 T12: 0.1344 REMARK 3 T13: 0.0122 T23: 0.0615 REMARK 3 L TENSOR REMARK 3 L11: 1.6428 L22: 2.6365 REMARK 3 L33: 3.1704 L12: -0.8177 REMARK 3 L13: 0.0646 L23: 0.0236 REMARK 3 S TENSOR REMARK 3 S11: -0.1206 S12: -0.2019 S13: -0.1407 REMARK 3 S21: 0.2152 S22: 0.1127 S23: 0.2146 REMARK 3 S31: -0.0622 S32: -0.6702 S33: 0.0079 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 : A 338 A 382 REMARK 3 ORIGIN FOR THE GROUP (A): 62.5111 0.9128 -0.2355 REMARK 3 T TENSOR REMARK 3 T11: 0.2314 T22: 0.2473 REMARK 3 T33: 0.2555 T12: -0.0147 REMARK 3 T13: -0.0367 T23: -0.0122 REMARK 3 L TENSOR REMARK 3 L11: 2.0045 L22: 3.2234 REMARK 3 L33: 1.5491 L12: 2.3775 REMARK 3 L13: -1.5903 L23: -1.5233 REMARK 3 S TENSOR REMARK 3 S11: 0.0401 S12: -0.3338 S13: 0.0241 REMARK 3 S21: 0.2542 S22: -0.0682 S23: -0.1523 REMARK 3 S31: -0.1505 S32: 0.4824 S33: 0.0280 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 259 A 337 REMARK 3 RESIDUE RANGE : A 383 A 437 REMARK 3 RESIDUE RANGE : A 502 A 502 REMARK 3 ORIGIN FOR THE GROUP (A): 35.8327 -7.6322 17.5211 REMARK 3 T TENSOR REMARK 3 T11: 0.2599 T22: 0.1348 REMARK 3 T33: 0.2215 T12: 0.1034 REMARK 3 T13: 0.0223 T23: 0.0282 REMARK 3 L TENSOR REMARK 3 L11: 2.1535 L22: 0.9759 REMARK 3 L33: 2.9512 L12: -0.4876 REMARK 3 L13: -0.0729 L23: 0.1005 REMARK 3 S TENSOR REMARK 3 S11: -0.2910 S12: -0.3566 S13: -0.1205 REMARK 3 S21: 0.1408 S22: 0.2044 S23: 0.0228 REMARK 3 S31: 0.3198 S32: -0.0930 S33: 0.0866 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 : 1.40 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 1R8B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-OCT-03. REMARK 100 THE DEPOSITION ID IS D_1000020561. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X26C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35218 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 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 <I/SIGMA(I)> 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CALCIUM CHLORIDE, ETHANOL, TRIS, REMARK 280 MAGNESIUM CHLORIDE, SODIUM CHLORIDE, PH 6.4, VAPOR DIFFUSION, REMARK 280 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 43.20100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.68550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 43.20100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.68550 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 9130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 43490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -127.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 86.40200 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 771 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 883 LIES ON A SPECIAL POSITION. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ARG A 268 O HOH A 765 2.01 REMARK 500 O HOH A 606 O HOH A 747 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 657 O HOH A 683 3545 2.19 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 MET A 314 SD MET A 314 CE -0.509 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 373 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 373 NE - CZ - NH2 ANGL. DEV. = -5.9 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 LYS A 2 131.44 79.68 REMARK 500 PRO A 67 151.33 -49.15 REMARK 500 SER A 71 -179.52 -62.24 REMARK 500 ALA A 95 -91.08 -81.21 REMARK 500 GLU A 119 146.65 75.44 REMARK 500 PRO A 120 -117.21 -73.14 REMARK 500 ASN A 122 87.75 -162.75 REMARK 500 ASP A 221 101.57 -166.13 REMARK 500 ALA A 248 80.95 -155.47 REMARK 500 SER A 323 -156.34 -93.94 REMARK 500 TYR A 411 127.09 -176.79 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 MG A 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 59 OE2 REMARK 620 2 HIS A 101 ND1 114.8 REMARK 620 3 ASP A 110 OD1 134.6 68.1 REMARK 620 4 ASP A 110 OD2 106.6 116.4 48.5 REMARK 620 5 HOH A 719 O 83.9 103.1 141.3 128.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 604 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 59 OE1 REMARK 620 2 ASP A 61 OD1 136.0 REMARK 620 3 ATP A 501 O1A 135.8 87.9 REMARK 620 4 HOH A 750 O 118.2 68.6 66.3 REMARK 620 5 HOH A 778 O 86.7 126.0 55.8 60.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 600 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 61 OD2 REMARK 620 2 ATP A 501 O2B 83.3 REMARK 620 3 ATP A 501 O1A 90.8 83.3 REMARK 620 4 ATP A 501 O3G 174.2 93.2 93.4 REMARK 620 5 MG A 604 MG 83.0 153.4 74.3 102.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 605 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 205 O REMARK 620 2 SER A 391 OG 98.3 REMARK 620 3 SER A 391 O 87.8 76.7 REMARK 620 4 THR A 395 OG1 97.5 155.2 84.9 REMARK 620 5 HOH A 766 O 111.7 96.7 160.3 95.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 601 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 396 ND1 REMARK 620 2 HIS A 398 NE2 120.4 REMARK 620 3 ATP A 502 O1B 111.0 97.8 REMARK 620 4 ATP A 502 O3G 97.7 131.2 95.2 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 691 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1R89 RELATED DB: PDB REMARK 900 SAME PROTEIN COMPLEXED WITH CTP REMARK 900 RELATED ID: 1R8A RELATED DB: PDB REMARK 900 SAME PROTEIN, UNCOMPLEXED REMARK 900 RELATED ID: 1R8C RELATED DB: PDB REMARK 900 SAME PROTEIN, COMPLEXED WITH UTP DBREF 1R8B A 1 437 UNP O28126 CCA_ARCFU 1 437 SEQRES 1 A 437 MET LYS VAL GLU GLU ILE LEU GLU LYS ALA LEU GLU LEU SEQRES 2 A 437 VAL ILE PRO ASP GLU GLU GLU VAL ARG LYS GLY ARG GLU SEQRES 3 A 437 ALA GLU GLU GLU LEU ARG ARG ARG LEU ASP GLU LEU GLY SEQRES 4 A 437 VAL GLU TYR VAL PHE VAL GLY SER TYR ALA ARG ASN THR SEQRES 5 A 437 TRP LEU LYS GLY SER LEU GLU ILE ASP VAL PHE LEU LEU SEQRES 6 A 437 PHE PRO GLU GLU PHE SER LYS GLU GLU LEU ARG GLU ARG SEQRES 7 A 437 GLY LEU GLU ILE GLY LYS ALA VAL LEU ASP SER TYR GLU SEQRES 8 A 437 ILE ARG TYR ALA GLU HIS PRO TYR VAL HIS GLY VAL VAL SEQRES 9 A 437 LYS GLY VAL GLU VAL ASP VAL VAL PRO CYS TYR LYS LEU SEQRES 10 A 437 LYS GLU PRO LYS ASN ILE LYS SER ALA VAL ASP ARG THR SEQRES 11 A 437 PRO PHE HIS HIS LYS TRP LEU GLU GLY ARG ILE LYS GLY SEQRES 12 A 437 LYS GLU ASN GLU VAL ARG LEU LEU LYS GLY PHE LEU LYS SEQRES 13 A 437 ALA ASN GLY ILE TYR GLY ALA GLU TYR LYS VAL ARG GLY SEQRES 14 A 437 PHE SER GLY TYR LEU CYS GLU LEU LEU ILE VAL PHE TYR SEQRES 15 A 437 GLY SER PHE LEU GLU THR VAL LYS ASN ALA ARG ARG TRP SEQRES 16 A 437 THR ARG ARG THR VAL ILE ASP VAL ALA LYS GLY GLU VAL SEQRES 17 A 437 ARG LYS GLY GLU GLU PHE PHE VAL VAL ASP PRO VAL ASP SEQRES 18 A 437 GLU LYS ARG ASN VAL ALA ALA ASN LEU SER LEU ASP ASN SEQRES 19 A 437 LEU ALA ARG PHE VAL HIS LEU CYS ARG GLU PHE MET GLU SEQRES 20 A 437 ALA PRO SER LEU GLY PHE PHE LYS PRO LYS HIS PRO LEU SEQRES 21 A 437 GLU ILE GLU PRO GLU ARG LEU ARG LYS ILE VAL GLU GLU SEQRES 22 A 437 ARG GLY THR ALA VAL PHE ALA VAL LYS PHE ARG LYS PRO SEQRES 23 A 437 ASP ILE VAL ASP ASP ASN LEU TYR PRO GLN LEU GLU ARG SEQRES 24 A 437 ALA SER ARG LYS ILE PHE GLU PHE LEU GLU ARG GLU ASN SEQRES 25 A 437 PHE MET PRO LEU ARG SER ALA PHE LYS ALA SER GLU GLU SEQRES 26 A 437 PHE CYS TYR LEU LEU PHE GLU CYS GLN ILE LYS GLU ILE SEQRES 27 A 437 SER ARG VAL PHE ARG ARG MET GLY PRO GLN PHE GLU ASP SEQRES 28 A 437 GLU ARG ASN VAL LYS LYS PHE LEU SER ARG ASN ARG ALA SEQRES 29 A 437 PHE ARG PRO PHE ILE GLU ASN GLY ARG TRP TRP ALA PHE SEQRES 30 A 437 GLU MET ARG LYS PHE THR THR PRO GLU GLU GLY VAL ARG SEQRES 31 A 437 SER TYR ALA SER THR HIS TRP HIS THR LEU GLY LYS ASN SEQRES 32 A 437 VAL GLY GLU SER ILE ARG GLU TYR PHE GLU ILE ILE SER SEQRES 33 A 437 GLY GLU LYS LEU PHE LYS GLU PRO VAL THR ALA GLU LEU SEQRES 34 A 437 CYS GLU MET MET GLY VAL LYS ASP HET MN A 600 1 HET MN A 601 1 HET MG A 602 1 HET MG A 604 1 HET NA A 605 1 HET CL A 691 1 HET ATP A 501 31 HET ATP A 502 31 HETNAM MN MANGANESE (II) ION HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE FORMUL 2 MN 2(MN 2+) FORMUL 4 MG 2(MG 2+) FORMUL 6 NA NA 1+ FORMUL 7 CL CL 1- FORMUL 8 ATP 2(C10 H16 N5 O13 P3) FORMUL 10 HOH *329(H2 O) HELIX 1 1 LYS A 2 ILE A 15 1 14 HELIX 2 2 ASP A 17 GLY A 39 1 23 HELIX 3 3 GLY A 46 ARG A 50 1 5 HELIX 4 4 SER A 71 LEU A 87 1 17 HELIX 5 5 ARG A 129 GLU A 138 1 10 HELIX 6 6 LYS A 144 ASN A 158 1 15 HELIX 7 7 SER A 171 GLY A 183 1 13 HELIX 8 8 SER A 184 ARG A 193 1 10 HELIX 9 9 ALA A 204 GLY A 206 5 3 HELIX 10 10 SER A 231 ALA A 248 1 18 HELIX 11 11 SER A 250 LYS A 255 5 6 HELIX 12 12 GLU A 263 GLY A 275 1 13 HELIX 13 13 VAL A 289 GLU A 311 1 23 HELIX 14 14 ASP A 351 ARG A 361 1 11 HELIX 15 15 THR A 384 HIS A 396 1 13 HELIX 16 16 TRP A 397 LEU A 400 5 4 HELIX 17 17 GLY A 401 TYR A 411 1 11 HELIX 18 18 GLY A 417 PHE A 421 1 5 HELIX 19 19 VAL A 425 MET A 433 1 9 SHEET 1 A 5 TYR A 42 VAL A 45 0 SHEET 2 A 5 GLU A 59 PHE A 66 -1 O ASP A 61 N VAL A 45 SHEET 3 A 5 VAL A 107 TYR A 115 1 O ASP A 110 N VAL A 62 SHEET 4 A 5 PRO A 98 VAL A 104 -1 N VAL A 100 O VAL A 111 SHEET 5 A 5 SER A 89 TYR A 94 -1 N GLU A 91 O HIS A 101 SHEET 1 B 4 GLU A 207 LYS A 210 0 SHEET 2 B 4 THR A 199 ASP A 202 -1 N ASP A 202 O GLU A 207 SHEET 3 B 4 PHE A 215 ASP A 218 1 O VAL A 217 N ILE A 201 SHEET 4 B 4 ASP A 221 ASN A 225 -1 O ARG A 224 N ASP A 218 SHEET 1 C 4 PRO A 315 ALA A 322 0 SHEET 2 C 4 PHE A 326 CYS A 333 -1 O TYR A 328 N LYS A 321 SHEET 3 C 4 ALA A 277 ARG A 284 -1 N PHE A 283 O CYS A 327 SHEET 4 C 4 GLU A 413 SER A 416 -1 O GLU A 413 N LYS A 282 SHEET 1 D 3 VAL A 341 GLN A 348 0 SHEET 2 D 3 ARG A 373 MET A 379 -1 O ALA A 376 N ARG A 344 SHEET 3 D 3 PHE A 368 GLU A 370 -1 N PHE A 368 O TRP A 375 LINK OE2 GLU A 59 MG MG A 602 1555 1555 2.17 LINK OE1 GLU A 59 MG MG A 604 1555 1555 2.66 LINK OD2 ASP A 61 MN MN A 600 1555 1555 2.48 LINK OD1 ASP A 61 MG MG A 604 1555 1555 2.63 LINK ND1 HIS A 101 MG MG A 602 1555 1555 2.58 LINK OD1 ASP A 110 MG MG A 602 1555 1555 2.71 LINK OD2 ASP A 110 MG MG A 602 1555 1555 2.62 LINK O LYS A 205 NA NA A 605 3545 1555 2.50 LINK OG SER A 391 NA NA A 605 1555 1555 2.58 LINK O SER A 391 NA NA A 605 1555 1555 2.78 LINK OG1 THR A 395 NA NA A 605 1555 1555 2.32 LINK ND1 HIS A 396 MN MN A 601 1555 1555 2.21 LINK NE2 HIS A 398 MN MN A 601 1555 1555 2.14 LINK O2B ATP A 501 MN MN A 600 1555 1555 2.23 LINK O1A ATP A 501 MN MN A 600 1555 1555 2.27 LINK O3G ATP A 501 MN MN A 600 1555 1555 2.20 LINK O1A ATP A 501 MG MG A 604 1555 1555 2.93 LINK O1B ATP A 502 MN MN A 601 1555 1555 1.97 LINK O3G ATP A 502 MN MN A 601 1555 1555 2.26 LINK MN MN A 600 MG MG A 604 1555 1555 2.57 LINK MG MG A 602 O HOH A 719 1555 1555 2.60 LINK MG MG A 604 O HOH A 750 1555 1555 2.74 LINK MG MG A 604 O HOH A 778 1555 1555 2.51 LINK NA NA A 605 O HOH A 766 1555 1555 2.06 SITE 1 AC1 3 ASP A 61 ATP A 501 MG A 604 SITE 1 AC2 3 HIS A 396 HIS A 398 ATP A 502 SITE 1 AC3 4 GLU A 59 HIS A 101 ASP A 110 HOH A 719 SITE 1 AC4 7 GLU A 59 ASP A 61 ASP A 110 ATP A 501 SITE 2 AC4 7 MN A 600 HOH A 750 HOH A 778 SITE 1 AC5 4 LYS A 205 SER A 391 THR A 395 HOH A 766 SITE 1 AC6 2 ARG A 224 HOH A 862 SITE 1 AC7 19 GLY A 46 SER A 47 ASP A 61 PHE A 63 SITE 2 AC7 19 ALA A 95 GLU A 96 THR A 130 HIS A 133 SITE 3 AC7 19 LYS A 152 TYR A 161 MN A 600 MG A 604 SITE 4 AC7 19 HOH A 633 HOH A 673 HOH A 702 HOH A 774 SITE 5 AC7 19 HOH A 778 HOH A 806 HOH A 862 SITE 1 AC8 12 LYS A 84 TYR A 90 LYS A 303 ARG A 310 SITE 2 AC8 12 TYR A 392 HIS A 396 HIS A 398 THR A 399 SITE 3 AC8 12 MN A 601 HOH A 636 HOH A 707 HOH A 871 CRYST1 86.402 79.371 78.135 90.00 97.33 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 0.011574 0.000000 0.001489 0.00000 SCALE2 0.000000 0.012599 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012904 0.00000