HEADER DNA BINDING PROTEIN 20-MAR-15 4YVZ TITLE STRUCTURE OF THERMOTOGA MARITIMA DISA IN COMPLEX WITH 3'-DATP/MN2+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA INTEGRITY SCANNING PROTEIN DISA; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CYCLIC DI-AMP SYNTHASE,C-DI-AMP SYNTHASE,DIADENYLATE COMPND 5 CYCLASE; COMPND 6 EC: 2.7.7.85; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 GENE: DISA, TM_0200; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: ROSETTA KEYWDS C-DI-AMP SYNTHESIS, DAC DOMAIN, INHIBITOR, PRE-REACTION STATE, DNA KEYWDS 2 BINDING PROTEIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.MUELLER,T.DEIMLING,K.-P.HOPFNER,G.WITTE REVDAT 5 10-JAN-24 4YVZ 1 LINK REVDAT 4 06-SEP-17 4YVZ 1 REMARK REVDAT 3 05-AUG-15 4YVZ 1 JRNL REVDAT 2 10-JUN-15 4YVZ 1 JRNL REVDAT 1 03-JUN-15 4YVZ 0 JRNL AUTH M.MULLER,T.DEIMLING,K.P.HOPFNER,G.WITTE JRNL TITL STRUCTURAL ANALYSIS OF THE DIADENYLATE CYCLASE REACTION OF JRNL TITL 2 DNA-INTEGRITY SCANNING PROTEIN A (DISA) AND ITS INHIBITION JRNL TITL 3 BY 3'-DATP. JRNL REF BIOCHEM.J. V. 469 367 2015 JRNL REFN ESSN 1470-8728 JRNL PMID 26014055 JRNL DOI 10.1042/BJ20150373 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 168.79 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 65492 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 3255 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1169.1774 - 7.0962 1.00 2741 140 0.1245 0.1676 REMARK 3 2 7.0962 - 5.6324 1.00 2717 140 0.1787 0.2181 REMARK 3 3 5.6324 - 4.9203 1.00 2713 143 0.1537 0.2279 REMARK 3 4 4.9203 - 4.4704 1.00 2701 143 0.1253 0.1538 REMARK 3 5 4.4704 - 4.1500 1.00 2739 141 0.1209 0.1466 REMARK 3 6 4.1500 - 3.9053 1.00 2719 143 0.1320 0.1589 REMARK 3 7 3.9053 - 3.7097 1.00 2695 148 0.1399 0.2027 REMARK 3 8 3.7097 - 3.5482 1.00 2717 144 0.1499 0.2027 REMARK 3 9 3.5482 - 3.4116 1.00 2748 141 0.1572 0.2312 REMARK 3 10 3.4116 - 3.2939 1.00 2691 145 0.1745 0.2546 REMARK 3 11 3.2939 - 3.1909 1.00 2725 143 0.1831 0.2260 REMARK 3 12 3.1909 - 3.0996 1.00 2721 144 0.1911 0.2689 REMARK 3 13 3.0996 - 3.0180 1.00 2726 140 0.2054 0.3105 REMARK 3 14 3.0180 - 2.9444 1.00 2710 147 0.1928 0.2607 REMARK 3 15 2.9444 - 2.8775 1.00 2701 144 0.2037 0.2869 REMARK 3 16 2.8775 - 2.8162 1.00 2718 138 0.2059 0.3102 REMARK 3 17 2.8162 - 2.7599 1.00 2713 136 0.2210 0.3008 REMARK 3 18 2.7599 - 2.7078 1.00 2726 143 0.2219 0.3091 REMARK 3 19 2.7078 - 2.6594 1.00 2722 143 0.2305 0.2952 REMARK 3 20 2.6594 - 2.6143 1.00 2718 139 0.2285 0.2916 REMARK 3 21 2.6143 - 2.5722 1.00 2702 143 0.2420 0.2953 REMARK 3 22 2.5722 - 2.5326 1.00 2710 140 0.2468 0.3086 REMARK 3 23 2.5326 - 2.4953 0.91 2464 127 0.2880 0.3339 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) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.100 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.008 5739 REMARK 3 ANGLE : 1.103 7769 REMARK 3 CHIRALITY : 0.044 917 REMARK 3 PLANARITY : 0.004 978 REMARK 3 DIHEDRAL : 15.981 2199 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 13.1059 -36.6604 43.8695 REMARK 3 T TENSOR REMARK 3 T11: 0.4052 T22: 0.3924 REMARK 3 T33: 0.4765 T12: -0.0764 REMARK 3 T13: -0.0125 T23: 0.0089 REMARK 3 L TENSOR REMARK 3 L11: 0.1055 L22: 0.1074 REMARK 3 L33: 1.9188 L12: -0.0167 REMARK 3 L13: -0.0412 L23: -0.0761 REMARK 3 S TENSOR REMARK 3 S11: -0.0170 S12: -0.0226 S13: 0.0412 REMARK 3 S21: 0.0125 S22: -0.0377 S23: -0.0331 REMARK 3 S31: -0.2300 S32: 0.2335 S33: 0.0001 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 4YVZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000208181. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0-8.3 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P14 (MX2) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.23953 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65492 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.495 REMARK 200 RESOLUTION RANGE LOW (A) : 168.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.10800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.5 REMARK 200 DATA REDUNDANCY IN SHELL : 7.20 REMARK 200 R MERGE FOR SHELL (I) : 1.05200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3C1Z REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% (V/V) MPD, 200 MM AMMONIUMACETATE, REMARK 280 100 MM TRIS-HCL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 288K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 21 2 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 -Y+1/2,X+1/2,Z REMARK 290 4555 Y+1/2,-X+1/2,Z REMARK 290 5555 -X+1/2,Y+1/2,-Z REMARK 290 6555 X+1/2,-Y+1/2,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 53.74500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.74500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.74500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.74500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.74500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.74500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.74500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.74500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 37280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 111110 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -129.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -107.49000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 -53.74500 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 -53.74500 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 53.74500 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 -53.74500 REMARK 350 BIOMT3 4 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 VAL A 3 REMARK 465 LYS A 4 REMARK 465 SER A 5 REMARK 465 LEU A 6 REMARK 465 SER A 356 REMARK 465 GLU A 357 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 VAL B 3 REMARK 465 LYS B 4 REMARK 465 SER B 5 REMARK 465 LEU B 6 REMARK 465 SER B 356 REMARK 465 GLU B 357 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 N GLY B 37 O HOH B 501 2.15 REMARK 500 OE1 GLU B 162 O HOH B 502 2.18 REMARK 500 OH TYR A 142 OE1 GLU A 212 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 LYS A 138 -115.47 49.91 REMARK 500 GLU A 246 138.75 -33.76 REMARK 500 THR A 261 -77.74 -100.44 REMARK 500 LYS A 316 -60.81 68.56 REMARK 500 LYS A 331 0.57 -69.51 REMARK 500 LYS B 138 -114.42 55.27 REMARK 500 THR B 261 -83.53 -110.43 REMARK 500 LYS B 316 -48.22 71.96 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 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 75 OD2 REMARK 620 2 3AT A 403 O3G 164.2 REMARK 620 3 3AT A 403 O2B 82.8 90.1 REMARK 620 4 3AT A 403 O1A 76.6 88.4 80.0 REMARK 620 5 HOH A 519 O 94.5 89.6 168.3 88.3 REMARK 620 6 HOH B 557 O 91.2 103.1 92.0 166.1 99.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 402 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 229 O REMARK 620 2 ASP A 232 OD1 81.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 402 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 75 OD2 REMARK 620 2 3AT B 401 O1G 176.5 REMARK 620 3 3AT B 401 O1B 90.9 89.6 REMARK 620 4 3AT B 401 O2A 95.3 88.2 85.8 REMARK 620 5 HOH B 513 O 91.6 87.8 177.5 94.0 REMARK 620 6 HOH B 549 O 78.2 98.3 89.2 171.8 91.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 403 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 229 O REMARK 620 2 ASP B 232 OD1 66.0 REMARK 620 3 ASP B 232 OD2 113.0 48.0 REMARK 620 4 ASP B 233 OD1 120.0 98.6 67.3 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 3AT A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 3AT B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3C1Y RELATED DB: PDB REMARK 900 SAME PROTEIN WITH REACTION PRODUCT REMARK 900 RELATED ID: 3C1Z RELATED DB: PDB REMARK 900 SAME PROTEIN - LIGAND-FREE FORM REMARK 900 RELATED ID: 3C21 RELATED DB: PDB REMARK 900 SAME PROTEIN WITH REACTION PRODUCT REMARK 900 RELATED ID: 3C23 RELATED DB: PDB REMARK 900 SAME PROTEIN WITH NON-REACTIVE LIGAND DBREF 4YVZ A 1 357 UNP Q9WY43 DISA_THEMA 1 357 DBREF 4YVZ B 1 357 UNP Q9WY43 DISA_THEMA 1 357 SEQADV 4YVZ MET A -19 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ GLY A -18 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER A -17 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER A -16 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS A -15 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS A -14 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS A -13 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS A -12 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS A -11 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS A -10 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER A -9 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER A -8 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ GLY A -7 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ LEU A -6 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ VAL A -5 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ PRO A -4 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ ARG A -3 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ GLY A -2 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER A -1 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS A 0 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ MET B -19 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ GLY B -18 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER B -17 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER B -16 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS B -15 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS B -14 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS B -13 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS B -12 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS B -11 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS B -10 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER B -9 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER B -8 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ GLY B -7 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ LEU B -6 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ VAL B -5 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ PRO B -4 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ ARG B -3 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ GLY B -2 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ SER B -1 UNP Q9WY43 EXPRESSION TAG SEQADV 4YVZ HIS B 0 UNP Q9WY43 EXPRESSION TAG SEQRES 1 A 377 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 377 LEU VAL PRO ARG GLY SER HIS MET GLY VAL LYS SER LEU SEQRES 3 A 377 VAL PRO GLN GLU LEU ILE GLU LYS ILE LYS LEU ILE SER SEQRES 4 A 377 PRO GLY THR GLU LEU ARG LYS ALA LEU ASP ASP ILE ILE SEQRES 5 A 377 ASN ALA ASN PHE GLY ALA LEU ILE PHE LEU VAL ASP ASP SEQRES 6 A 377 PRO LYS LYS TYR GLU ASP VAL ILE GLN GLY GLY PHE TRP SEQRES 7 A 377 LEU ASP THR ASP PHE SER ALA GLU LYS LEU TYR GLU LEU SEQRES 8 A 377 SER LYS MET ASP GLY ALA ILE VAL LEU SER GLU ASP ILE SEQRES 9 A 377 THR LYS ILE TYR TYR ALA ASN VAL HIS LEU VAL PRO ASP SEQRES 10 A 377 PRO THR ILE PRO THR GLY GLU THR GLY THR ARG HIS ARG SEQRES 11 A 377 THR ALA GLU ARG LEU ALA LYS GLN THR GLY LYS VAL VAL SEQRES 12 A 377 ILE ALA VAL SER ARG ARG ARG ASN ILE ILE SER LEU TYR SEQRES 13 A 377 TYR LYS ASN TYR LYS TYR VAL VAL ASN GLN VAL ASP PHE SEQRES 14 A 377 LEU ILE SER LYS VAL THR GLN ALA ILE SER THR LEU GLU SEQRES 15 A 377 LYS TYR LYS ASP ASN PHE ASN LYS LEU LEU SER GLU LEU SEQRES 16 A 377 GLU VAL LEU GLU LEU GLU ASN ARG VAL THR LEU ALA ASP SEQRES 17 A 377 VAL VAL ARG THR LEU ALA LYS GLY PHE GLU LEU LEU ARG SEQRES 18 A 377 ILE VAL GLU GLU ILE ARG PRO TYR ILE VAL GLU LEU GLY SEQRES 19 A 377 GLU GLU GLY ARG LEU ALA ARG MET GLN LEU ARG GLU LEU SEQRES 20 A 377 THR GLU ASP VAL ASP ASP LEU LEU VAL LEU LEU ILE MET SEQRES 21 A 377 ASP TYR SER SER GLU GLU VAL GLU GLU GLU THR ALA GLN SEQRES 22 A 377 ASN ILE LEU GLN ASP PHE ILE THR ARG ARG GLU PRO SER SEQRES 23 A 377 PRO ILE SER ILE SER ARG VAL LEU GLY TYR ASP VAL GLN SEQRES 24 A 377 GLN ALA ALA GLN LEU ASP ASP VAL LEU VAL SER ALA ARG SEQRES 25 A 377 GLY TYR ARG LEU LEU LYS THR VAL ALA ARG ILE PRO LEU SEQRES 26 A 377 SER ILE GLY TYR ASN VAL VAL ARG MET PHE LYS THR LEU SEQRES 27 A 377 ASP GLN ILE SER LYS ALA SER VAL GLU ASP LEU LYS LYS SEQRES 28 A 377 VAL GLU GLY ILE GLY GLU LYS ARG ALA ARG ALA ILE SER SEQRES 29 A 377 GLU SER ILE SER SER LEU LYS HIS ARG LYS THR SER GLU SEQRES 1 B 377 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 377 LEU VAL PRO ARG GLY SER HIS MET GLY VAL LYS SER LEU SEQRES 3 B 377 VAL PRO GLN GLU LEU ILE GLU LYS ILE LYS LEU ILE SER SEQRES 4 B 377 PRO GLY THR GLU LEU ARG LYS ALA LEU ASP ASP ILE ILE SEQRES 5 B 377 ASN ALA ASN PHE GLY ALA LEU ILE PHE LEU VAL ASP ASP SEQRES 6 B 377 PRO LYS LYS TYR GLU ASP VAL ILE GLN GLY GLY PHE TRP SEQRES 7 B 377 LEU ASP THR ASP PHE SER ALA GLU LYS LEU TYR GLU LEU SEQRES 8 B 377 SER LYS MET ASP GLY ALA ILE VAL LEU SER GLU ASP ILE SEQRES 9 B 377 THR LYS ILE TYR TYR ALA ASN VAL HIS LEU VAL PRO ASP SEQRES 10 B 377 PRO THR ILE PRO THR GLY GLU THR GLY THR ARG HIS ARG SEQRES 11 B 377 THR ALA GLU ARG LEU ALA LYS GLN THR GLY LYS VAL VAL SEQRES 12 B 377 ILE ALA VAL SER ARG ARG ARG ASN ILE ILE SER LEU TYR SEQRES 13 B 377 TYR LYS ASN TYR LYS TYR VAL VAL ASN GLN VAL ASP PHE SEQRES 14 B 377 LEU ILE SER LYS VAL THR GLN ALA ILE SER THR LEU GLU SEQRES 15 B 377 LYS TYR LYS ASP ASN PHE ASN LYS LEU LEU SER GLU LEU SEQRES 16 B 377 GLU VAL LEU GLU LEU GLU ASN ARG VAL THR LEU ALA ASP SEQRES 17 B 377 VAL VAL ARG THR LEU ALA LYS GLY PHE GLU LEU LEU ARG SEQRES 18 B 377 ILE VAL GLU GLU ILE ARG PRO TYR ILE VAL GLU LEU GLY SEQRES 19 B 377 GLU GLU GLY ARG LEU ALA ARG MET GLN LEU ARG GLU LEU SEQRES 20 B 377 THR GLU ASP VAL ASP ASP LEU LEU VAL LEU LEU ILE MET SEQRES 21 B 377 ASP TYR SER SER GLU GLU VAL GLU GLU GLU THR ALA GLN SEQRES 22 B 377 ASN ILE LEU GLN ASP PHE ILE THR ARG ARG GLU PRO SER SEQRES 23 B 377 PRO ILE SER ILE SER ARG VAL LEU GLY TYR ASP VAL GLN SEQRES 24 B 377 GLN ALA ALA GLN LEU ASP ASP VAL LEU VAL SER ALA ARG SEQRES 25 B 377 GLY TYR ARG LEU LEU LYS THR VAL ALA ARG ILE PRO LEU SEQRES 26 B 377 SER ILE GLY TYR ASN VAL VAL ARG MET PHE LYS THR LEU SEQRES 27 B 377 ASP GLN ILE SER LYS ALA SER VAL GLU ASP LEU LYS LYS SEQRES 28 B 377 VAL GLU GLY ILE GLY GLU LYS ARG ALA ARG ALA ILE SER SEQRES 29 B 377 GLU SER ILE SER SER LEU LYS HIS ARG LYS THR SER GLU HET MN A 401 1 HET MN A 402 1 HET 3AT A 403 30 HET 3AT B 401 30 HET MN B 402 1 HET MN B 403 1 HETNAM MN MANGANESE (II) ION HETNAM 3AT 3'-DEOXYADENOSINE-5'-TRIPHOSPHATE HETSYN 3AT CORDYCEPIN TRIPHOSPHATE FORMUL 3 MN 4(MN 2+) FORMUL 5 3AT 2(C10 H16 N5 O12 P3) FORMUL 9 HOH *111(H2 O) HELIX 1 AA1 PRO A 8 LEU A 17 1 10 HELIX 2 AA2 THR A 22 ALA A 34 1 13 HELIX 3 AA3 ASP A 45 GLU A 50 5 6 HELIX 4 AA4 SER A 64 SER A 72 1 9 HELIX 5 AA5 GLY A 106 GLY A 120 1 15 HELIX 6 AA6 GLN A 146 GLU A 181 1 36 HELIX 7 AA7 LEU A 186 LEU A 213 1 28 HELIX 8 AA8 GLY A 214 GLU A 216 5 3 HELIX 9 AA9 GLY A 217 GLU A 229 1 13 HELIX 10 AB1 ASP A 230 SER A 243 1 14 HELIX 11 AB2 GLU A 248 THR A 261 1 14 HELIX 12 AB3 SER A 266 LEU A 274 1 9 HELIX 13 AB4 GLN A 280 ASP A 286 5 7 HELIX 14 AB5 GLY A 293 VAL A 300 1 8 HELIX 15 AB6 PRO A 304 LYS A 316 1 13 HELIX 16 AB7 THR A 317 ALA A 324 1 8 HELIX 17 AB8 SER A 325 LYS A 331 1 7 HELIX 18 AB9 GLY A 336 THR A 355 1 20 HELIX 19 AC1 PRO B 8 LEU B 17 1 10 HELIX 20 AC2 THR B 22 ASN B 35 1 14 HELIX 21 AC3 ASP B 45 GLU B 50 5 6 HELIX 22 AC4 SER B 64 SER B 72 1 9 HELIX 23 AC5 GLY B 106 GLY B 120 1 15 HELIX 24 AC6 GLN B 146 GLU B 181 1 36 HELIX 25 AC7 THR B 185 GLY B 214 1 30 HELIX 26 AC8 GLY B 217 GLU B 229 1 13 HELIX 27 AC9 ASP B 230 SER B 243 1 14 HELIX 28 AD1 GLU B 248 THR B 261 1 14 HELIX 29 AD2 SER B 266 LEU B 274 1 9 HELIX 30 AD3 GLN B 280 VAL B 287 5 8 HELIX 31 AD4 GLY B 293 VAL B 300 1 8 HELIX 32 AD5 PRO B 304 LYS B 316 1 13 HELIX 33 AD6 THR B 317 ALA B 324 1 8 HELIX 34 AD7 SER B 325 LYS B 331 1 7 HELIX 35 AD8 GLY B 336 THR B 355 1 20 SHEET 1 AA1 7 ILE A 53 ASP A 62 0 SHEET 2 AA1 7 LYS A 86 LEU A 94 -1 O ILE A 87 N THR A 61 SHEET 3 AA1 7 ALA A 77 LEU A 80 -1 N VAL A 79 O TYR A 88 SHEET 4 AA1 7 ALA A 38 LEU A 42 1 N PHE A 41 O LEU A 80 SHEET 5 AA1 7 VAL A 122 VAL A 126 -1 O ILE A 124 N ILE A 40 SHEET 6 AA1 7 ILE A 133 TYR A 137 -1 O SER A 134 N ALA A 125 SHEET 7 AA1 7 TYR A 140 VAL A 143 -1 O TYR A 142 N LEU A 135 SHEET 1 AA2 2 VAL A 184 THR A 185 0 SHEET 2 AA2 2 LEU A 288 VAL A 289 -1 O VAL A 289 N VAL A 184 SHEET 1 AA3 7 ILE B 53 ASP B 62 0 SHEET 2 AA3 7 LYS B 86 LEU B 94 -1 O ILE B 87 N THR B 61 SHEET 3 AA3 7 ALA B 77 SER B 81 -1 N VAL B 79 O TYR B 88 SHEET 4 AA3 7 ALA B 38 VAL B 43 1 N LEU B 39 O ILE B 78 SHEET 5 AA3 7 VAL B 122 VAL B 126 -1 O ILE B 124 N ILE B 40 SHEET 6 AA3 7 ILE B 133 TYR B 137 -1 O SER B 134 N ALA B 125 SHEET 7 AA3 7 TYR B 140 VAL B 144 -1 O TYR B 142 N LEU B 135 LINK OD2 ASP A 75 MN MN A 401 1555 1555 2.21 LINK O GLU A 229 MN MN A 402 1555 1555 2.29 LINK OD1 ASP A 232 MN MN A 402 1555 1555 2.46 LINK MN MN A 401 O3G 3AT A 403 1555 1555 2.12 LINK MN MN A 401 O2B 3AT A 403 1555 1555 2.32 LINK MN MN A 401 O1A 3AT A 403 1555 1555 2.32 LINK MN MN A 401 O HOH A 519 1555 1555 2.20 LINK MN MN A 401 O HOH B 557 1555 1555 2.29 LINK OD2 ASP B 75 MN MN B 402 1555 1555 2.31 LINK O GLU B 229 MN MN B 403 1555 1555 2.39 LINK OD1 ASP B 232 MN MN B 403 1555 1555 2.74 LINK OD2 ASP B 232 MN MN B 403 1555 1555 2.68 LINK OD1 ASP B 233 MN MN B 403 1555 1555 2.53 LINK O1G 3AT B 401 MN MN B 402 1555 1555 2.15 LINK O1B 3AT B 401 MN MN B 402 1555 1555 2.16 LINK O2A 3AT B 401 MN MN B 402 1555 1555 2.24 LINK MN MN B 402 O HOH B 513 1555 1555 2.24 LINK MN MN B 402 O HOH B 549 1555 1555 2.45 SITE 1 AC1 4 ASP A 75 3AT A 403 HOH A 519 HOH B 557 SITE 1 AC2 3 GLU A 229 ASP A 232 ASP A 233 SITE 1 AC3 18 ASP A 75 MN A 401 HOH A 519 HOH A 535 SITE 2 AC3 18 LEU B 39 ASP B 75 GLY B 76 VAL B 92 SITE 3 AC3 18 LEU B 94 GLY B 106 THR B 107 ARG B 108 SITE 4 AC3 18 HIS B 109 THR B 111 SER B 127 ARG B 128 SITE 5 AC3 18 ARG B 130 3AT B 401 SITE 1 AC4 19 LEU A 39 ASP A 75 GLY A 76 VAL A 92 SITE 2 AC4 19 HIS A 93 LEU A 94 GLY A 106 THR A 107 SITE 3 AC4 19 ARG A 108 HIS A 109 THR A 111 SER A 127 SITE 4 AC4 19 ARG A 128 ARG A 130 3AT A 403 ASP B 75 SITE 5 AC4 19 MN B 402 HOH B 513 HOH B 517 SITE 1 AC5 4 ASP B 75 3AT B 401 HOH B 513 HOH B 549 SITE 1 AC6 3 GLU B 229 ASP B 232 ASP B 233 CRYST1 107.490 107.490 168.790 90.00 90.00 90.00 P 4 21 2 16 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 0.009303 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009303 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005925 0.00000