HEADER TRANSFERASE 11-OCT-18 6HVL TITLE CDAA COMPLEX WITH C-DI-AMP AND AMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIADENYLATE CYCLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DAC,CYCLIC-DI-AMP SYNTHASE,C-DI-AMP SYNTHASE,DIADENYLATE COMPND 5 CYCLASE CDAA; COMPND 6 EC: 2.7.7.85; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA MONOCYTOGENES SEROVAR 1/2A (STRAIN SOURCE 3 ATCC BAA-679 / EGD-E); SOURCE 4 ORGANISM_TAXID: 169963; SOURCE 5 STRAIN: ATCC BAA-679 / EGD-E; SOURCE 6 GENE: DACA, CDAA, LMO2120; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS DI-ADENYLATE CYCLASE, SECOND MESSENGER, COMPLEX, C-DI-AMP, AMP, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.L.HEIDEMANN,P.NEUMANN,R.FICNER REVDAT 4 24-JAN-24 6HVL 1 COMPND HETNAM LINK REVDAT 3 20-NOV-19 6HVL 1 LINK REVDAT 2 17-JUL-19 6HVL 1 JRNL REVDAT 1 05-JUN-19 6HVL 0 JRNL AUTH J.L.HEIDEMANN,P.NEUMANN,A.DICKMANNS,R.FICNER JRNL TITL CRYSTAL STRUCTURES OF THE C-DI-AMP-SYNTHESIZING ENZYME CDAA. JRNL REF J.BIOL.CHEM. V. 294 10463 2019 JRNL REFN ESSN 1083-351X JRNL PMID 31118276 JRNL DOI 10.1074/JBC.RA119.009246 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.27 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.1 REMARK 3 NUMBER OF REFLECTIONS : 9430 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.250 REMARK 3 FREE R VALUE TEST SET COUNT : 495 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 42.2755 - 4.4440 0.90 2221 138 0.1672 0.2185 REMARK 3 2 4.4440 - 3.5279 0.92 2211 106 0.1736 0.2120 REMARK 3 3 3.5279 - 3.0821 0.95 2266 125 0.2186 0.2458 REMARK 3 4 3.0821 - 2.8003 0.95 2237 126 0.2524 0.3273 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.70 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.510 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 57.26 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.94 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 6HVL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-OCT-18. REMARK 100 THE DEPOSITION ID IS D_1200012134. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-17 REMARK 200 TEMPERATURE (KELVIN) : 180 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 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) : 0.976200 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9435 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 42.271 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.1 REMARK 200 DATA REDUNDANCY : 5.649 REMARK 200 R MERGE (I) : 0.10900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.3900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.68 REMARK 200 R MERGE FOR SHELL (I) : 0.80500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.930 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: 4RV7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M CA(CH3OO)2, 0.1 M NA-HEPES PH REMARK 280 7.5, 10 % W/V PEG8000,, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 60.95000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 35.18950 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 47.05333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 60.95000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 35.18950 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 47.05333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 60.95000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 35.18950 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 47.05333 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 60.95000 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 35.18950 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 47.05333 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 60.95000 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 35.18950 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 47.05333 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 60.95000 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 35.18950 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 47.05333 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 70.37900 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 94.10667 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 70.37900 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 94.10667 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 70.37900 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 94.10667 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 70.37900 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 94.10667 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 70.37900 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 94.10667 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 70.37900 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 94.10667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14500 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.0 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 -0.500000 0.866025 0.000000 60.95000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 -35.18950 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 94.10667 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 -4 REMARK 465 PRO A -3 REMARK 465 VAL A 156 REMARK 465 THR A 157 REMARK 465 ALA A 158 REMARK 465 LYS A 159 REMARK 465 LYS A 160 REMARK 465 PRO A 161 REMARK 465 SER A 162 REMARK 465 ILE A 163 REMARK 465 PHE A 164 REMARK 465 SER A 165 REMARK 465 LYS A 166 REMARK 465 TRP A 167 REMARK 465 LYS A 168 REMARK 465 GLY A 169 REMARK 465 GLY A 170 REMARK 465 LYS A 171 REMARK 465 SER A 172 REMARK 465 GLU A 173 REMARK 465 GLY B -4 REMARK 465 PRO B -3 REMARK 465 LEU B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 TYR B 1 REMARK 465 VAL B 156 REMARK 465 THR B 157 REMARK 465 ALA B 158 REMARK 465 LYS B 159 REMARK 465 LYS B 160 REMARK 465 PRO B 161 REMARK 465 SER B 162 REMARK 465 ILE B 163 REMARK 465 PHE B 164 REMARK 465 SER B 165 REMARK 465 LYS B 166 REMARK 465 TRP B 167 REMARK 465 LYS B 168 REMARK 465 GLY B 169 REMARK 465 GLY B 170 REMARK 465 LYS B 171 REMARK 465 SER B 172 REMARK 465 GLU B 173 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 LEU A -2 CD1 CD2 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 P 2BA A 201 O3' 2BA A 201 16545 1.64 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 ARG A 36 -115.81 -122.47 REMARK 500 ASP A 115 38.78 -91.94 REMARK 500 ARG B 36 -116.57 -126.24 REMARK 500 ASP B 115 41.23 -94.64 REMARK 500 REMARK 500 REMARK: NULL 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 2BA A 201 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 CO A 202 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 71 OD1 REMARK 620 2 ASP A 71 OD2 54.2 REMARK 620 3 GLU A 124 OE1 87.4 134.9 REMARK 620 4 2BA A 201 O2P 78.2 119.2 17.3 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 2BA A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AMP B 201 DBREF 6HVL A 1 173 UNP Q8Y5E4 DACA_LISMO 101 273 DBREF 6HVL B 1 173 UNP Q8Y5E4 DACA_LISMO 101 273 SEQADV 6HVL GLY A -4 UNP Q8Y5E4 EXPRESSION TAG SEQADV 6HVL PRO A -3 UNP Q8Y5E4 EXPRESSION TAG SEQADV 6HVL LEU A -2 UNP Q8Y5E4 EXPRESSION TAG SEQADV 6HVL GLY A -1 UNP Q8Y5E4 EXPRESSION TAG SEQADV 6HVL SER A 0 UNP Q8Y5E4 EXPRESSION TAG SEQADV 6HVL GLY B -4 UNP Q8Y5E4 EXPRESSION TAG SEQADV 6HVL PRO B -3 UNP Q8Y5E4 EXPRESSION TAG SEQADV 6HVL LEU B -2 UNP Q8Y5E4 EXPRESSION TAG SEQADV 6HVL GLY B -1 UNP Q8Y5E4 EXPRESSION TAG SEQADV 6HVL SER B 0 UNP Q8Y5E4 EXPRESSION TAG SEQRES 1 A 178 GLY PRO LEU GLY SER TYR GLY SER ARG ILE GLU ARG GLU SEQRES 2 A 178 GLN HIS HIS LEU ILE GLU SER ILE GLU LYS SER THR GLN SEQRES 3 A 178 TYR MET ALA LYS ARG ARG ILE GLY ALA LEU ILE SER VAL SEQRES 4 A 178 ALA ARG ASP THR GLY MET ASP ASP TYR ILE GLU THR GLY SEQRES 5 A 178 ILE PRO LEU ASN ALA LYS ILE SER SER GLN LEU LEU ILE SEQRES 6 A 178 ASN ILE PHE ILE PRO ASN THR PRO LEU HIS ASP GLY ALA SEQRES 7 A 178 VAL ILE ILE LYS GLY ASN GLU ILE ALA SER ALA ALA SER SEQRES 8 A 178 TYR LEU PRO LEU SER ASP SER PRO PHE LEU SER LYS GLU SEQRES 9 A 178 LEU GLY THR ARG HIS ARG ALA ALA LEU GLY ILE SER GLU SEQRES 10 A 178 VAL THR ASP SER ILE THR ILE VAL VAL SER GLU GLU THR SEQRES 11 A 178 GLY GLY ILE SER LEU THR LYS GLY GLY GLU LEU PHE ARG SEQRES 12 A 178 ASP VAL SER GLU GLU GLU LEU HIS LYS ILE LEU LEU LYS SEQRES 13 A 178 GLU LEU VAL THR VAL THR ALA LYS LYS PRO SER ILE PHE SEQRES 14 A 178 SER LYS TRP LYS GLY GLY LYS SER GLU SEQRES 1 B 178 GLY PRO LEU GLY SER TYR GLY SER ARG ILE GLU ARG GLU SEQRES 2 B 178 GLN HIS HIS LEU ILE GLU SER ILE GLU LYS SER THR GLN SEQRES 3 B 178 TYR MET ALA LYS ARG ARG ILE GLY ALA LEU ILE SER VAL SEQRES 4 B 178 ALA ARG ASP THR GLY MET ASP ASP TYR ILE GLU THR GLY SEQRES 5 B 178 ILE PRO LEU ASN ALA LYS ILE SER SER GLN LEU LEU ILE SEQRES 6 B 178 ASN ILE PHE ILE PRO ASN THR PRO LEU HIS ASP GLY ALA SEQRES 7 B 178 VAL ILE ILE LYS GLY ASN GLU ILE ALA SER ALA ALA SER SEQRES 8 B 178 TYR LEU PRO LEU SER ASP SER PRO PHE LEU SER LYS GLU SEQRES 9 B 178 LEU GLY THR ARG HIS ARG ALA ALA LEU GLY ILE SER GLU SEQRES 10 B 178 VAL THR ASP SER ILE THR ILE VAL VAL SER GLU GLU THR SEQRES 11 B 178 GLY GLY ILE SER LEU THR LYS GLY GLY GLU LEU PHE ARG SEQRES 12 B 178 ASP VAL SER GLU GLU GLU LEU HIS LYS ILE LEU LEU LYS SEQRES 13 B 178 GLU LEU VAL THR VAL THR ALA LYS LYS PRO SER ILE PHE SEQRES 14 B 178 SER LYS TRP LYS GLY GLY LYS SER GLU HET 2BA A 201 22 HET CO A 202 1 HET PO4 A 203 5 HET AMP B 201 23 HETNAM 2BA (2R,3R,3AS,5R,7AR,9R,10R,10AS,12R,14AR)-2,9-BIS(6- HETNAM 2 2BA AMINO-9H-PURIN-9-YL)OCTAHYDRO-2H,7H-DIFURO[3,2-D:3', HETNAM 3 2BA 2'-J][1,3,7,9,2,8 ]TETRAOXADIPHOSPHACYCLODODECINE-3,5, HETNAM 4 2BA 10,12-TETROL 5,12-DIOXIDE HETNAM CO COBALT (II) ION HETNAM PO4 PHOSPHATE ION HETNAM AMP ADENOSINE MONOPHOSPHATE HETSYN 2BA BIS-(3',5')-CYCLIC-DIMERIC-ADENOSINE-MONOPHOSPHATE FORMUL 3 2BA C20 H24 N10 O12 P2 FORMUL 4 CO CO 2+ FORMUL 5 PO4 O4 P 3- FORMUL 6 AMP C10 H14 N5 O7 P FORMUL 7 HOH *6(H2 O) HELIX 1 AA1 SER A 3 ARG A 26 1 24 HELIX 2 AA2 MET A 40 GLU A 45 1 6 HELIX 3 AA3 SER A 55 PHE A 63 1 9 HELIX 4 AA4 GLY A 101 THR A 114 1 14 HELIX 5 AA5 SER A 141 VAL A 154 1 14 HELIX 6 AA6 SER B 3 ARG B 26 1 24 HELIX 7 AA7 MET B 40 GLU B 45 1 6 HELIX 8 AA8 SER B 55 PHE B 63 1 9 HELIX 9 AA9 GLY B 101 THR B 114 1 14 HELIX 10 AB1 SER B 141 VAL B 154 1 14 SHEET 1 AA1 7 ILE A 48 LYS A 53 0 SHEET 2 AA1 7 GLU A 80 SER A 86 -1 O ALA A 84 N ILE A 48 SHEET 3 AA1 7 ALA A 73 LYS A 77 -1 N ALA A 73 O SER A 86 SHEET 4 AA1 7 ALA A 30 VAL A 34 1 N SER A 33 O VAL A 74 SHEET 5 AA1 7 ILE A 117 VAL A 121 -1 O ILE A 117 N VAL A 34 SHEET 6 AA1 7 ILE A 128 LYS A 132 -1 O SER A 129 N VAL A 120 SHEET 7 AA1 7 GLU A 135 PHE A 137 -1 O PHE A 137 N LEU A 130 SHEET 1 AA2 7 ILE B 48 LYS B 53 0 SHEET 2 AA2 7 GLU B 80 SER B 86 -1 O ALA B 84 N ILE B 48 SHEET 3 AA2 7 ALA B 73 LYS B 77 -1 N ALA B 73 O SER B 86 SHEET 4 AA2 7 ALA B 30 VAL B 34 1 N SER B 33 O VAL B 74 SHEET 5 AA2 7 ILE B 117 VAL B 121 -1 O ILE B 117 N VAL B 34 SHEET 6 AA2 7 ILE B 128 LYS B 132 -1 O SER B 129 N VAL B 120 SHEET 7 AA2 7 GLU B 135 VAL B 140 -1 O PHE B 137 N LEU B 130 LINK OD1 ASP A 71 CO CO A 202 1555 16545 2.60 LINK OD2 ASP A 71 CO CO A 202 1555 16545 2.12 LINK OE1 GLU A 124 CO CO A 202 1555 1555 2.08 LINK O2P 2BA A 201 CO CO A 202 1555 1555 2.43 SITE 1 AC1 14 LEU A 31 ASP A 71 GLY A 72 SER A 86 SITE 2 AC1 14 TYR A 87 LEU A 88 LEU A 90 GLY A 101 SITE 3 AC1 14 THR A 102 ARG A 103 ALA A 106 GLU A 123 SITE 4 AC1 14 GLU A 124 CO A 202 SITE 1 AC2 4 HIS A 70 ASP A 71 GLU A 124 2BA A 201 SITE 1 AC3 6 ASP A 71 ALA A 85 TYR A 87 LEU A 100 SITE 2 AC3 6 THR A 102 ARG A 105 SITE 1 AC4 10 LEU B 31 HIS B 70 ASP B 71 GLY B 72 SITE 2 AC4 10 SER B 86 TYR B 87 LEU B 88 LEU B 90 SITE 3 AC4 10 THR B 102 ARG B 103 CRYST1 121.900 121.900 141.160 90.00 90.00 120.00 H 3 2 36 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 0.008203 0.004736 0.000000 0.00000 SCALE2 0.000000 0.009473 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007084 0.00000