HEADER HYDROLASE 16-JUN-17 5XT3 TITLE THE CATALYTIC DOMAIN OF GDPP WITH C-DI-GMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHODIESTERASE ACTING ON CYCLIC DINUCLEOTIDES; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 32-657; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 GENE: CDND, BN1321_430104; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS PHOSPHODIESTERASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR F.WANG,L.GU REVDAT 2 22-NOV-23 5XT3 1 HETSYN LINK REVDAT 1 31-JAN-18 5XT3 0 JRNL AUTH F.WANG,Q.HE,K.SU,T.WEI,S.XU,L.GU JRNL TITL STRUCTURAL AND BIOCHEMICAL CHARACTERIZATION OF THE CATALYTIC JRNL TITL 2 DOMAINS OF GDPP REVEALS A UNIFIED HYDROLYSIS MECHANISM FOR JRNL TITL 3 THE DHH/DHHA1 PHOSPHODIESTERASE JRNL REF BIOCHEM. J. V. 475 191 2018 JRNL REFN ESSN 1470-8728 JRNL PMID 29203646 JRNL DOI 10.1042/BCJ20170739 REMARK 2 REMARK 2 RESOLUTION. 2.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.4_486 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) : 2.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 25615 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1305 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 43.5202 - 5.3872 0.99 2957 153 0.2123 0.2313 REMARK 3 2 5.3872 - 4.2772 1.00 2829 171 0.1848 0.2499 REMARK 3 3 4.2772 - 3.7369 1.00 2768 184 0.1799 0.2239 REMARK 3 4 3.7369 - 3.3954 0.99 2766 130 0.2177 0.2718 REMARK 3 5 3.3954 - 3.1521 0.98 2745 143 0.2204 0.3295 REMARK 3 6 3.1521 - 2.9663 0.96 2650 147 0.2216 0.2989 REMARK 3 7 2.9663 - 2.8177 0.94 2607 123 0.2266 0.3162 REMARK 3 8 2.8177 - 2.6951 0.92 2533 144 0.2439 0.3562 REMARK 3 9 2.6951 - 2.5914 0.89 2455 110 0.2466 0.3885 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 64.94 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.320 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.800 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) : -1.81710 REMARK 3 B22 (A**2) : -27.09840 REMARK 3 B33 (A**2) : 28.91550 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 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 : 0.007 5360 REMARK 3 ANGLE : 1.028 7286 REMARK 3 CHIRALITY : 0.067 871 REMARK 3 PLANARITY : 0.006 926 REMARK 3 DIHEDRAL : 15.275 1993 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5XT3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1300004109. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-FEB-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26562 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.4400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 43.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.20 REMARK 200 R MERGE FOR SHELL (I) : 0.43800 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: PHENIX REMARK 200 STARTING MODEL: 5XSI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% (W/V) PEG8000, 0.1 M IMIDAZOLE PH REMARK 280 7.5, 0.2 M CALCIUM ACETATE., VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K 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 27.18700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.07600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 58.52100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.07600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.18700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 58.52100 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 REMARK 350 TOTAL BURIED SURFACE AREA: 5110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 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 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 313 REMARK 465 SER A 314 REMARK 465 MET A 315 REMARK 465 ARG A 316 REMARK 465 THR A 317 REMARK 465 ARG A 318 REMARK 465 GLY A 446 REMARK 465 GLY B 350 REMARK 465 SER B 351 REMARK 465 MET B 352 REMARK 465 ARG B 353 REMARK 465 THR B 354 REMARK 465 ARG B 355 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 VAL B 356 N 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 HOH A 837 O HOH A 854 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 GLU A 334 57.11 -99.65 REMARK 500 ASN A 365 21.89 42.26 REMARK 500 GLU A 396 0.60 -61.00 REMARK 500 THR A 409 -154.65 -89.09 REMARK 500 TYR A 475 -22.04 -160.00 REMARK 500 PRO A 477 104.14 -30.46 REMARK 500 GLU A 479 -82.54 -50.85 REMARK 500 ARG A 545 6.41 -60.84 REMARK 500 LEU A 649 44.57 -107.61 REMARK 500 LYS B 374 167.90 175.81 REMARK 500 MET B 400 -8.12 -56.18 REMARK 500 ASN B 402 32.03 36.81 REMARK 500 THR B 446 -157.21 -124.16 REMARK 500 PHE B 486 138.71 -177.99 REMARK 500 ILE B 487 124.32 -38.97 REMARK 500 ASN B 489 70.60 36.96 REMARK 500 GLU B 496 85.23 -155.87 REMARK 500 GLU B 630 -124.17 -135.82 REMARK 500 SER B 643 -87.22 -83.67 REMARK 500 VAL B 644 151.06 -43.88 REMARK 500 ALA B 652 25.62 -78.02 REMARK 500 LEU B 653 22.70 -144.61 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 702 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 343 NE2 REMARK 620 2 ASP A 347 OD1 92.0 REMARK 620 3 HOH A 833 O 139.9 64.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 701 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 349 OD2 REMARK 620 2 ASP A 418 OD1 78.2 REMARK 620 3 HIS A 442 NE2 92.1 86.1 REMARK 620 4 ASP A 497 OD2 78.0 154.2 84.8 REMARK 620 5 HOH A 833 O 107.7 126.4 144.2 71.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 701 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 386 OD2 REMARK 620 2 ASP B 455 OD1 76.8 REMARK 620 3 HIS B 479 NE2 102.8 82.9 REMARK 620 4 ASP B 534 OD2 84.7 151.1 79.7 REMARK 620 5 HOH B 809 O 97.3 122.3 151.0 81.6 REMARK 620 6 HOH B 849 O 161.7 119.7 87.9 82.7 67.7 REMARK 620 N 1 2 3 4 5 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 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue C2E A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue C2E B 702 DBREF1 5XT3 A 316 651 UNP A0A0U1MUE2_STAAU DBREF2 5XT3 A A0A0U1MUE2 322 657 DBREF1 5XT3 B 353 688 UNP A0A0U1MUE2_STAAU DBREF2 5XT3 B A0A0U1MUE2 322 657 SEQADV 5XT3 GLY A 313 UNP A0A0U1MUE EXPRESSION TAG SEQADV 5XT3 SER A 314 UNP A0A0U1MUE EXPRESSION TAG SEQADV 5XT3 MET A 315 UNP A0A0U1MUE EXPRESSION TAG SEQADV 5XT3 GLY B 350 UNP A0A0U1MUE EXPRESSION TAG SEQADV 5XT3 SER B 351 UNP A0A0U1MUE EXPRESSION TAG SEQADV 5XT3 MET B 352 UNP A0A0U1MUE EXPRESSION TAG SEQRES 1 A 339 GLY SER MET ARG THR ARG VAL ARG ALA ARG VAL ILE SER SEQRES 2 A 339 HIS ALA LEU LYS ASP ILE LEU ALA GLU GLY ASP LYS VAL SEQRES 3 A 339 ILE ILE MET GLY HIS LYS ARG PRO ASP LEU ASP ALA ILE SEQRES 4 A 339 GLY ALA ALA ILE GLY VAL SER ARG PHE ALA MET MET ASN SEQRES 5 A 339 ASN LEU GLU ALA TYR ILE VAL LEU ASN GLU THR ASP ILE SEQRES 6 A 339 ASP PRO THR LEU ARG ARG VAL MET ASN GLU ILE ASP LYS SEQRES 7 A 339 LYS PRO GLU LEU ARG GLU ARG PHE ILE THR SER ASP ASP SEQRES 8 A 339 ALA TRP ASP MET MET THR SER LYS THR THR VAL VAL ILE SEQRES 9 A 339 VAL ASP THR HIS LYS PRO GLU LEU VAL LEU ASP GLU ASN SEQRES 10 A 339 VAL LEU ASN LYS ALA ASN ARG LYS VAL VAL ILE ASP HIS SEQRES 11 A 339 HIS ARG ARG GLY GLU SER PHE ILE SER ASN PRO LEU LEU SEQRES 12 A 339 ILE TYR MET GLU PRO TYR ALA SER SER THR ALA GLU LEU SEQRES 13 A 339 VAL THR GLU LEU LEU GLU TYR GLN PRO THR GLU GLN ARG SEQRES 14 A 339 LEU THR ARG LEU GLU SER THR VAL MET TYR ALA GLY ILE SEQRES 15 A 339 ILE VAL ASP THR ARG ASN PHE THR LEU ARG THR GLY SER SEQRES 16 A 339 ARG THR PHE ASP ALA ALA SER TYR LEU ARG ALA HIS GLY SEQRES 17 A 339 ALA ASP THR ILE LEU THR GLN HIS PHE LEU LYS ASP ASP SEQRES 18 A 339 VAL ASP THR TYR ILE ASN ARG SER GLU LEU ILE ARG THR SEQRES 19 A 339 VAL LYS VAL GLU ASP ASN GLY ILE ALA ILE ALA HIS GLY SEQRES 20 A 339 SER ASP ASP LYS ILE TYR HIS PRO VAL THR VAL ALA GLN SEQRES 21 A 339 ALA ALA ASP GLU LEU LEU SER LEU GLU GLY ILE GLU ALA SEQRES 22 A 339 SER TYR VAL VAL ALA ARG ARG GLU ASP ASN LEU ILE GLY SEQRES 23 A 339 ILE SER ALA ARG SER LEU GLY SER VAL ASN VAL GLN LEU SEQRES 24 A 339 THR MET GLU ALA LEU GLY GLY GLY GLY HIS LEU THR ASN SEQRES 25 A 339 ALA ALA THR GLN LEU LYS GLY VAL THR VAL GLU GLU ALA SEQRES 26 A 339 ILE ALA GLN LEU GLN GLN ALA ILE THR GLU GLN LEU SER SEQRES 27 A 339 ARG SEQRES 1 B 339 GLY SER MET ARG THR ARG VAL ARG ALA ARG VAL ILE SER SEQRES 2 B 339 HIS ALA LEU LYS ASP ILE LEU ALA GLU GLY ASP LYS VAL SEQRES 3 B 339 ILE ILE MET GLY HIS LYS ARG PRO ASP LEU ASP ALA ILE SEQRES 4 B 339 GLY ALA ALA ILE GLY VAL SER ARG PHE ALA MET MET ASN SEQRES 5 B 339 ASN LEU GLU ALA TYR ILE VAL LEU ASN GLU THR ASP ILE SEQRES 6 B 339 ASP PRO THR LEU ARG ARG VAL MET ASN GLU ILE ASP LYS SEQRES 7 B 339 LYS PRO GLU LEU ARG GLU ARG PHE ILE THR SER ASP ASP SEQRES 8 B 339 ALA TRP ASP MET MET THR SER LYS THR THR VAL VAL ILE SEQRES 9 B 339 VAL ASP THR HIS LYS PRO GLU LEU VAL LEU ASP GLU ASN SEQRES 10 B 339 VAL LEU ASN LYS ALA ASN ARG LYS VAL VAL ILE ASP HIS SEQRES 11 B 339 HIS ARG ARG GLY GLU SER PHE ILE SER ASN PRO LEU LEU SEQRES 12 B 339 ILE TYR MET GLU PRO TYR ALA SER SER THR ALA GLU LEU SEQRES 13 B 339 VAL THR GLU LEU LEU GLU TYR GLN PRO THR GLU GLN ARG SEQRES 14 B 339 LEU THR ARG LEU GLU SER THR VAL MET TYR ALA GLY ILE SEQRES 15 B 339 ILE VAL ASP THR ARG ASN PHE THR LEU ARG THR GLY SER SEQRES 16 B 339 ARG THR PHE ASP ALA ALA SER TYR LEU ARG ALA HIS GLY SEQRES 17 B 339 ALA ASP THR ILE LEU THR GLN HIS PHE LEU LYS ASP ASP SEQRES 18 B 339 VAL ASP THR TYR ILE ASN ARG SER GLU LEU ILE ARG THR SEQRES 19 B 339 VAL LYS VAL GLU ASP ASN GLY ILE ALA ILE ALA HIS GLY SEQRES 20 B 339 SER ASP ASP LYS ILE TYR HIS PRO VAL THR VAL ALA GLN SEQRES 21 B 339 ALA ALA ASP GLU LEU LEU SER LEU GLU GLY ILE GLU ALA SEQRES 22 B 339 SER TYR VAL VAL ALA ARG ARG GLU ASP ASN LEU ILE GLY SEQRES 23 B 339 ILE SER ALA ARG SER LEU GLY SER VAL ASN VAL GLN LEU SEQRES 24 B 339 THR MET GLU ALA LEU GLY GLY GLY GLY HIS LEU THR ASN SEQRES 25 B 339 ALA ALA THR GLN LEU LYS GLY VAL THR VAL GLU GLU ALA SEQRES 26 B 339 ILE ALA GLN LEU GLN GLN ALA ILE THR GLU GLN LEU SER SEQRES 27 B 339 ARG HET MN A 701 1 HET MN A 702 1 HET C2E A 703 46 HET MN B 701 1 HET C2E B 702 46 HETNAM MN MANGANESE (II) ION HETNAM C2E 9,9'-[(2R,3R,3AS,5S,7AR,9R,10R,10AS,12S,14AR)-3,5,10, HETNAM 2 C2E 12-TETRAHYDROXY-5,12-DIOXIDOOCTAHYDRO-2H,7H-DIFURO[3, HETNAM 3 C2E 2-D:3',2'-J][1,3,7,9,2, HETNAM 4 C2E 8]TETRAOXADIPHOSPHACYCLODODECINE-2,9-DIYL]BIS(2-AMINO- HETNAM 5 C2E 1,9-DIHYDRO-6H-PURIN-6-ONE) HETSYN C2E C-DI-GMP; CYCLIC DIGUANOSINE MONOPHOSPHATE FORMUL 3 MN 3(MN 2+) FORMUL 5 C2E 2(C20 H24 N10 O14 P2) FORMUL 8 HOH *132(H2 O) HELIX 1 AA1 VAL A 319 GLU A 334 1 16 HELIX 2 AA2 ASP A 347 MET A 363 1 17 HELIX 3 AA3 ASP A 378 LYS A 391 1 14 HELIX 4 AA4 LEU A 394 GLU A 396 5 3 HELIX 5 AA5 THR A 400 ASP A 406 1 7 HELIX 6 AA6 ASP A 427 ALA A 434 1 8 HELIX 7 AA7 SER A 464 GLU A 474 1 11 HELIX 8 AA8 THR A 483 ARG A 499 1 17 HELIX 9 AA9 GLY A 506 HIS A 519 1 14 HELIX 10 AB1 ASP A 522 LYS A 531 1 10 HELIX 11 AB2 ASP A 533 ARG A 545 1 13 HELIX 12 AB3 HIS A 566 LEU A 578 1 13 HELIX 13 AB4 ASN A 608 ALA A 615 1 8 HELIX 14 AB5 THR A 633 LEU A 649 1 17 HELIX 15 AB6 ARG B 357 GLU B 371 1 15 HELIX 16 AB7 ASP B 384 MET B 400 1 17 HELIX 17 AB8 ASN B 410 ILE B 414 5 5 HELIX 18 AB9 ASP B 415 ASP B 426 1 12 HELIX 19 AC1 LYS B 428 GLU B 433 1 6 HELIX 20 AC2 THR B 437 ASP B 443 1 7 HELIX 21 AC3 ASP B 464 ALA B 471 1 8 HELIX 22 AC4 SER B 501 GLU B 511 1 11 HELIX 23 AC5 THR B 520 THR B 535 1 16 HELIX 24 AC6 GLY B 543 HIS B 556 1 14 HELIX 25 AC7 ASP B 559 LYS B 568 1 10 HELIX 26 AC8 ASP B 570 ARG B 582 1 13 HELIX 27 AC9 HIS B 603 LEU B 615 1 13 HELIX 28 AD1 ASN B 645 ALA B 652 1 8 HELIX 29 AD2 THR B 670 SER B 687 1 18 SHEET 1 AA1 6 PHE A 398 ILE A 399 0 SHEET 2 AA1 6 ALA A 368 VAL A 371 1 N ILE A 370 O ILE A 399 SHEET 3 AA1 6 VAL A 338 MET A 341 1 N ILE A 340 O VAL A 371 SHEET 4 AA1 6 THR A 413 VAL A 417 1 O VAL A 415 N ILE A 339 SHEET 5 AA1 6 ARG A 436 ASP A 441 1 O VAL A 438 N ILE A 416 SHEET 6 AA1 6 PRO A 453 MET A 458 1 O LEU A 454 N LYS A 437 SHEET 1 AA2 6 LYS A 548 VAL A 549 0 SHEET 2 AA2 6 ILE A 554 HIS A 558 -1 O ILE A 556 N LYS A 548 SHEET 3 AA2 6 ALA A 585 GLU A 593 1 O TYR A 587 N ALA A 557 SHEET 4 AA2 6 LEU A 596 SER A 603 -1 O ARG A 602 N SER A 586 SHEET 5 AA2 6 ASN A 624 LYS A 630 -1 O LEU A 629 N ILE A 597 SHEET 6 AA2 6 GLY A 619 HIS A 621 -1 N HIS A 621 O ASN A 624 SHEET 1 AA3 6 PHE B 435 ILE B 436 0 SHEET 2 AA3 6 ALA B 405 VAL B 408 1 N ILE B 407 O ILE B 436 SHEET 3 AA3 6 VAL B 375 MET B 378 1 N ILE B 377 O TYR B 406 SHEET 4 AA3 6 THR B 450 VAL B 454 1 O VAL B 452 N MET B 378 SHEET 5 AA3 6 ARG B 473 ASP B 478 1 O ARG B 473 N VAL B 451 SHEET 6 AA3 6 LEU B 492 MET B 495 1 O TYR B 494 N VAL B 476 SHEET 1 AA4 6 LYS B 585 VAL B 586 0 SHEET 2 AA4 6 ILE B 591 HIS B 595 -1 O ILE B 593 N LYS B 585 SHEET 3 AA4 6 ALA B 622 ARG B 628 1 O ALA B 622 N ALA B 592 SHEET 4 AA4 6 LEU B 633 SER B 640 -1 O ARG B 639 N SER B 623 SHEET 5 AA4 6 ASN B 661 LYS B 667 -1 O THR B 664 N ILE B 636 SHEET 6 AA4 6 GLY B 656 GLY B 657 -1 N GLY B 656 O ALA B 663 LINK NE2 HIS A 343 MN MN A 702 1555 1555 2.64 LINK OD1 ASP A 347 MN MN A 702 1555 1555 2.78 LINK OD2 ASP A 349 MN MN A 701 1555 1555 2.21 LINK OD1 ASP A 418 MN MN A 701 1555 1555 2.51 LINK NE2 HIS A 442 MN MN A 701 1555 1555 2.77 LINK OD2 ASP A 497 MN MN A 701 1555 1555 2.43 LINK MN MN A 701 O HOH A 833 1555 1555 2.37 LINK MN MN A 702 O HOH A 833 1555 1555 2.69 LINK OD2 ASP B 386 MN MN B 701 1555 1555 2.26 LINK OD1 ASP B 455 MN MN B 701 1555 1555 2.36 LINK NE2 HIS B 479 MN MN B 701 1555 1555 2.46 LINK OD2 ASP B 534 MN MN B 701 1555 1555 2.50 LINK MN MN B 701 O HOH B 809 1555 1555 2.44 LINK MN MN B 701 O HOH B 849 1555 1555 2.66 SITE 1 AC1 7 ASP A 349 ASP A 418 HIS A 442 ASP A 497 SITE 2 AC1 7 MN A 702 HOH A 833 HOH A 866 SITE 1 AC2 5 HIS A 343 ASP A 347 ASP A 418 MN A 701 SITE 2 AC2 5 HOH A 833 SITE 1 AC3 12 PRO A 567 ALA A 571 ASP A 575 SER A 600 SITE 2 AC3 12 ARG A 602 GLY A 618 GLY A 619 ASN A 624 SITE 3 AC3 12 ALA A 625 ALA A 626 GLN A 628 HOH A 819 SITE 1 AC4 6 ASP B 386 ASP B 455 HIS B 479 ASP B 534 SITE 2 AC4 6 HOH B 809 HOH B 849 SITE 1 AC5 11 PRO B 604 VAL B 605 SER B 637 ARG B 639 SITE 2 AC5 11 GLY B 655 GLY B 656 GLY B 657 ASN B 661 SITE 3 AC5 11 ALA B 662 ALA B 663 GLN B 665 CRYST1 54.374 117.042 130.152 90.00 90.00 90.00 P 21 21 21 8 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 0.018391 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008544 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007683 0.00000