HEADER TRANSFERASE 03-MAR-22 7X4P TITLE CD-NTASE EFCDNE IN COMPLEX WITH INTERMEDIATE PPPUPU COMPND MOL_ID: 1; COMPND 2 MOLECULE: EFCDNE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: NCBI REFERENCE SEQUENCE: WP_010707292.1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROCOCCUS FAECALIS; SOURCE 3 ORGANISM_TAXID: 1351; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS CD-NTASE, CGAS, CYCLIC DINUCLEOTIDE, INTERMEDIATE COMPLEX, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.CHEN,T.P.KO,C.S.YANG,Y.C.WANG,M.H.HOU REVDAT 4 29-MAY-24 7X4P 1 REMARK HET LINK ATOM REVDAT 3 29-NOV-23 7X4P 1 REMARK REVDAT 2 13-SEP-23 7X4P 1 JRNL REVDAT 1 08-MAR-23 7X4P 0 JRNL AUTH C.S.YANG,T.P.KO,C.J.CHEN,M.H.HOU,Y.C.WANG,Y.CHEN JRNL TITL CRYSTAL STRUCTURE AND FUNCTIONAL IMPLICATIONS OF CYCLIC JRNL TITL 2 DI-PYRIMIDINE-SYNTHESIZING CGAS/DNCV-LIKE JRNL TITL 3 NUCLEOTIDYLTRANSFERASES. JRNL REF NAT COMMUN V. 14 5078 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 37604815 JRNL DOI 10.1038/S41467-023-40787-9 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.96 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.410 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 38076 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1908 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 1.6200 - 1.6000 0.47 1640 86 0.1616 0.1964 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.146 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.866 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.19 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 2658 REMARK 3 ANGLE : 1.059 3612 REMARK 3 CHIRALITY : 0.063 389 REMARK 3 PLANARITY : 0.007 457 REMARK 3 DIHEDRAL : 12.661 964 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 22 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.4008 -2.2843 15.8770 REMARK 3 T TENSOR REMARK 3 T11: 0.0633 T22: 0.1206 REMARK 3 T33: 0.1539 T12: 0.0118 REMARK 3 T13: 0.0271 T23: 0.0309 REMARK 3 L TENSOR REMARK 3 L11: 0.3045 L22: 0.5199 REMARK 3 L33: 0.1647 L12: -0.1415 REMARK 3 L13: 0.0397 L23: -0.2815 REMARK 3 S TENSOR REMARK 3 S11: -0.0218 S12: -0.1957 S13: -0.2243 REMARK 3 S21: 0.0498 S22: 0.2731 S23: 0.4271 REMARK 3 S31: 0.0284 S32: -0.2033 S33: 0.2139 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 23 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.5899 11.9294 30.7932 REMARK 3 T TENSOR REMARK 3 T11: 0.0916 T22: 0.1176 REMARK 3 T33: 0.0745 T12: -0.0047 REMARK 3 T13: 0.0068 T23: -0.0201 REMARK 3 L TENSOR REMARK 3 L11: -0.1428 L22: 0.1488 REMARK 3 L33: 0.4919 L12: 0.1482 REMARK 3 L13: 0.2897 L23: 0.0841 REMARK 3 S TENSOR REMARK 3 S11: -0.0591 S12: -0.0633 S13: 0.0228 REMARK 3 S21: 0.0098 S22: 0.0244 S23: 0.1077 REMARK 3 S31: -0.0216 S32: 0.0462 S33: 0.0553 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80 THROUGH 113 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.3151 16.6265 30.9516 REMARK 3 T TENSOR REMARK 3 T11: 0.1124 T22: 0.2009 REMARK 3 T33: 0.1063 T12: -0.0746 REMARK 3 T13: -0.0276 T23: -0.0370 REMARK 3 L TENSOR REMARK 3 L11: 0.4362 L22: 0.3704 REMARK 3 L33: 0.8057 L12: 0.0218 REMARK 3 L13: -0.6379 L23: 0.1282 REMARK 3 S TENSOR REMARK 3 S11: -0.0973 S12: -0.2414 S13: -0.0894 REMARK 3 S21: 0.1299 S22: 0.0536 S23: -0.1637 REMARK 3 S31: -0.0659 S32: 0.6678 S33: 0.0078 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 114 THROUGH 175 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.9947 10.6820 26.4540 REMARK 3 T TENSOR REMARK 3 T11: 0.0724 T22: 0.1089 REMARK 3 T33: 0.0523 T12: 0.0061 REMARK 3 T13: -0.0088 T23: -0.0014 REMARK 3 L TENSOR REMARK 3 L11: 0.3482 L22: 0.9284 REMARK 3 L33: 1.3211 L12: 0.0869 REMARK 3 L13: -0.4606 L23: 0.3907 REMARK 3 S TENSOR REMARK 3 S11: 0.1110 S12: -0.1670 S13: 0.0337 REMARK 3 S21: 0.0345 S22: -0.1116 S23: 0.0962 REMARK 3 S31: 0.0904 S32: 0.4697 S33: 0.1786 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 176 THROUGH 192 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.3951 14.2124 11.6766 REMARK 3 T TENSOR REMARK 3 T11: 0.0985 T22: 0.0547 REMARK 3 T33: 0.1026 T12: 0.0090 REMARK 3 T13: -0.0303 T23: -0.0130 REMARK 3 L TENSOR REMARK 3 L11: 0.0889 L22: 0.0045 REMARK 3 L33: 0.2572 L12: 0.0292 REMARK 3 L13: 0.0400 L23: -0.0175 REMARK 3 S TENSOR REMARK 3 S11: -0.0728 S12: -0.0490 S13: 0.0145 REMARK 3 S21: -0.0742 S22: 0.0721 S23: 0.1357 REMARK 3 S31: -0.3467 S32: 0.0295 S33: 0.0286 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 193 THROUGH 274 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7755 0.3211 5.7211 REMARK 3 T TENSOR REMARK 3 T11: 0.0512 T22: 0.0320 REMARK 3 T33: 0.0593 T12: -0.0005 REMARK 3 T13: -0.0006 T23: -0.0007 REMARK 3 L TENSOR REMARK 3 L11: 0.4182 L22: 0.2445 REMARK 3 L33: 0.3756 L12: 0.2702 REMARK 3 L13: -0.2788 L23: 0.0584 REMARK 3 S TENSOR REMARK 3 S11: -0.0317 S12: -0.0090 S13: -0.0328 REMARK 3 S21: -0.0011 S22: -0.0156 S23: -0.0431 REMARK 3 S31: 0.0223 S32: -0.0139 S33: -0.0003 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 275 THROUGH 402 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.7297 -8.0697 5.5994 REMARK 3 T TENSOR REMARK 3 T11: 0.0489 T22: 0.0622 REMARK 3 T33: 0.0760 T12: -0.0011 REMARK 3 T13: 0.0028 T23: -0.0021 REMARK 3 L TENSOR REMARK 3 L11: 0.1556 L22: 0.3551 REMARK 3 L33: 0.3341 L12: -0.1317 REMARK 3 L13: -0.0632 L23: -0.2584 REMARK 3 S TENSOR REMARK 3 S11: 0.0888 S12: -0.1194 S13: -0.0555 REMARK 3 S21: 0.0963 S22: -0.0666 S23: -0.1035 REMARK 3 S31: 0.0321 S32: -0.0462 S33: -0.0432 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7X4P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-MAR-22. REMARK 100 THE DEPOSITION ID IS D_1300028045. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-NOV-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : TPS 05A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38096 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.03500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 33.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.06800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 18.90 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 7X4C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM TARTRATE, PEG 3350, MGCL2, UTP, REMARK 280 PH 7.3, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 28.38850 REMARK 290 SMTRY3 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 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 MET A 1 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 O3' UTP A 401 P U5P A 402 1.83 REMARK 500 O HOH A 838 O HOH A 880 1.90 REMARK 500 O HOH A 694 O HOH A 769 1.96 REMARK 500 O HOH A 525 O HOH A 694 1.97 REMARK 500 O HOH A 601 O HOH A 918 1.99 REMARK 500 O HOH A 522 O HOH A 599 1.99 REMARK 500 O HOH A 509 O HOH A 808 2.01 REMARK 500 O HOH A 819 O HOH A 837 2.01 REMARK 500 OH TYR A 239 O HOH A 501 2.03 REMARK 500 O HOH A 743 O HOH A 923 2.04 REMARK 500 O HOH A 540 O HOH A 938 2.07 REMARK 500 O HOH A 969 O HOH A 1002 2.08 REMARK 500 O HOH A 896 O HOH A 922 2.08 REMARK 500 O HOH A 813 O HOH A 938 2.08 REMARK 500 O HOH A 538 O HOH A 562 2.09 REMARK 500 O HOH A 746 O HOH A 946 2.09 REMARK 500 O HOH A 586 O HOH A 869 2.11 REMARK 500 O HOH A 738 O HOH A 953 2.12 REMARK 500 O HOH A 516 O HOH A 922 2.12 REMARK 500 O HOH A 715 O HOH A 954 2.12 REMARK 500 O HOH A 781 O HOH A 945 2.13 REMARK 500 O HOH A 738 O HOH A 840 2.13 REMARK 500 O HOH A 815 O HOH A 987 2.13 REMARK 500 O HOH A 527 O HOH A 777 2.14 REMARK 500 O HOH A 626 O HOH A 868 2.15 REMARK 500 O HOH A 616 O HOH A 819 2.15 REMARK 500 O HOH A 515 O HOH A 884 2.16 REMARK 500 O HOH A 839 O HOH A 888 2.17 REMARK 500 ND2 ASN A 57 O HOH A 502 2.17 REMARK 500 O HOH A 541 O HOH A 551 2.18 REMARK 500 O HOH A 576 O HOH A 834 2.19 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 THR A 19 10.46 -69.15 REMARK 500 GLU A 21 -35.75 67.78 REMARK 500 GLN A 51 -167.11 -126.25 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 A1006 DISTANCE = 6.07 ANGSTROMS REMARK 525 HOH A1007 DISTANCE = 6.41 ANGSTROMS REMARK 525 HOH A1008 DISTANCE = 7.12 ANGSTROMS REMARK 525 HOH A1009 DISTANCE = 7.47 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 U5P A 402 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 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 67 OD2 REMARK 620 2 UTP A 401 O2A 92.2 REMARK 620 3 UTP A 401 O1B 94.5 88.3 REMARK 620 4 UTP A 401 O3G 175.0 92.6 87.3 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7X4C RELATED DB: PDB REMARK 900 SAME ENZYME APO FORM REMARK 900 RELATED ID: 7X4G RELATED DB: PDB REMARK 900 SAME CLASS OF ENZYME REMARK 900 RELATED ID: 7X4A RELATED DB: PDB REMARK 900 SAME CLASS OF ENZYME REMARK 900 RELATED ID: 7X4F RELATED DB: PDB REMARK 900 SAME CLASS OF ENZYME DBREF 7X4P A 1 307 PDB 7X4P 7X4P 1 307 SEQRES 1 A 307 MET SER LYS PHE SER GLU SER THR LEU SER GLY TRP THR SEQRES 2 A 307 LYS PRO ALA SER VAL THR GLU GLU ASP ARG ILE GLU ASN SEQRES 3 A 307 THR ILE SER MET ILE LYS SER ALA ILE LYS ASN ASP ASN SEQRES 4 A 307 ASN PHE ASP ASN LEU VAL TYR GLU VAL PHE VAL GLN GLY SEQRES 5 A 307 SER TYR GLY ASN ASN THR ASN VAL ARG THR ASN SER ASP SEQRES 6 A 307 ILE ASP VAL ASN ILE MET LEU THR SER THR PHE TYR SER SEQRES 7 A 307 LYS TYR PRO GLU GLY LYS THR ASN SER ASP TYR GLY PHE SEQRES 8 A 307 THR ASP GLY THR ILE THR TYR ASN GLU TYR LYS ASN LEU SEQRES 9 A 307 ILE LEU THR ALA LEU THR ASN LYS PHE GLY THR GLY ASN SEQRES 10 A 307 VAL THR VAL GLY ASN LYS SER ILE LYS ILE THR SER ASN SEQRES 11 A 307 SER TYR ARG VAL GLU ALA ASP CYS ILE PRO SER LEU LEU SEQRES 12 A 307 TYR ARG ASN TYR GLU TYR GLU ASN SER SER SER PRO ASN SEQRES 13 A 307 ASN TYR ILE GLU GLY ILE LYS TYR PHE ALA SER ASP ASN SEQRES 14 A 307 THR SER VAL VAL ASN TYR PRO LYS VAL HIS ILE ASN ASN SEQRES 15 A 307 GLY ILE GLU LYS ASN ASN GLN THR HIS LYS ASN TYR LYS SEQRES 16 A 307 ARG LEU VAL ARG VAL ILE LYS ARG LEU ARG ASN LYS MET SEQRES 17 A 307 THR ALA GLU ASN HIS PHE THR ASN GLU ASN ILE THR SER SEQRES 18 A 307 PHE LEU ILE GLU CYS LEU ILE TRP ASN VAL PRO ASN ASN SEQRES 19 A 307 TYR ILE ASN ASP TYR ASP THR TRP ASP GLU THR ILE LYS SEQRES 20 A 307 GLN THR LEU ILE PHE ILE LYS SER SER ILE ASN ASP ASN SEQRES 21 A 307 SER TYR LYS ASN TRP THR GLU VAL SER GLY MET PHE TYR SEQRES 22 A 307 LEU PHE HIS ASN ASN ARG LYS TRP THR SER ASP ASP VAL SEQRES 23 A 307 SER SER PHE VAL ASN SER LEU TRP SER PHE MET GLU TYR SEQRES 24 A 307 LEU GLU HIS HIS HIS HIS HIS HIS HET UTP A 401 29 HET U5P A 402 20 HET MG A 403 1 HETNAM UTP URIDINE 5'-TRIPHOSPHATE HETNAM U5P URIDINE-5'-MONOPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 2 UTP C9 H15 N2 O15 P3 FORMUL 3 U5P C9 H13 N2 O9 P FORMUL 4 MG MG 2+ FORMUL 5 HOH *509(H2 O) HELIX 1 AA1 SER A 5 TRP A 12 1 8 HELIX 2 AA2 ASP A 22 ASN A 37 1 16 HELIX 3 AA3 ASP A 38 ASP A 42 5 5 HELIX 4 AA4 GLY A 52 ASN A 56 1 5 HELIX 5 AA5 THR A 85 GLY A 90 5 6 HELIX 6 AA6 THR A 97 GLY A 114 1 18 HELIX 7 AA7 TYR A 175 THR A 190 1 16 HELIX 8 AA8 LYS A 192 GLU A 211 1 20 HELIX 9 AA9 THR A 220 ASN A 230 1 11 HELIX 10 AB1 ASN A 233 ASP A 238 1 6 HELIX 11 AB2 THR A 241 ASP A 259 1 19 HELIX 12 AB3 ASN A 260 TRP A 265 5 6 HELIX 13 AB4 THR A 282 GLU A 298 1 17 HELIX 14 AB5 HIS A 302 HIS A 306 5 5 SHEET 1 AA1 5 TYR A 46 GLN A 51 0 SHEET 2 AA1 5 ILE A 66 LYS A 79 -1 O ASN A 69 N PHE A 49 SHEET 3 AA1 5 VAL A 134 ASN A 146 1 O ASP A 137 N VAL A 68 SHEET 4 AA1 5 ILE A 125 SER A 129 -1 N ILE A 125 O CYS A 138 SHEET 5 AA1 5 VAL A 118 VAL A 120 -1 N THR A 119 O LYS A 126 SHEET 1 AA2 5 TYR A 46 GLN A 51 0 SHEET 2 AA2 5 ILE A 66 LYS A 79 -1 O ASN A 69 N PHE A 49 SHEET 3 AA2 5 VAL A 134 ASN A 146 1 O ASP A 137 N VAL A 68 SHEET 4 AA2 5 ILE A 159 PHE A 165 -1 O GLY A 161 N TYR A 144 SHEET 5 AA2 5 SER A 171 ASN A 174 -1 O ASN A 174 N ILE A 162 LINK OD2 ASP A 67 MG MG A 403 1555 1555 2.06 LINK O2A UTP A 401 MG MG A 403 1555 1555 2.09 LINK O1B UTP A 401 MG MG A 403 1555 1555 2.01 LINK O3G UTP A 401 MG MG A 403 1555 1555 1.94 CRYST1 41.332 56.777 64.780 90.00 97.24 90.00 P 1 21 1 2 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 0.024194 0.000000 0.003074 0.00000 SCALE2 0.000000 0.017613 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015561 0.00000