HEADER LYASE 25-SEP-15 5DZ2 TITLE GEOSMIN SYNTHASE FROM STREPTOMYCES COELICOLOR N-TERMINAL DOMAIN TITLE 2 COMPLEXED WITH THREE MG2+ IONS AND ALENDRONIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: GERMACRADIENOL/GEOSMIN SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN (UNP RESIDUES 1-338); COMPND 5 SYNONYM: SCGS; COMPND 6 EC: 4.2.3.22, 4.2.3.75, 4.1.99.16; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES COELICOLOR (STRAIN ATCC BAA-471 / SOURCE 3 A3(2) / M145); SOURCE 4 ORGANISM_TAXID: 100226; SOURCE 5 STRAIN: ATCC BAA-471 / A3(2) / M145; SOURCE 6 GENE: CYC2, SCO6073, SC9B1.20; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22BMV KEYWDS TERPENE, CYCLASE, GEOSMIN, GERMACRADIENOL, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR G.G.HARRIS,P.M.LOMBARDI,T.A.PEMBERTON,T.MATSUI,T.M.WEISS,K.E.COLE, AUTHOR 2 M.KOKSAL,F.V.MURPHY,L.S.VEDULA,W.K.W.CHOU,D.E.CANE,D.W.CHRISTIANSON REVDAT 5 27-SEP-23 5DZ2 1 LINK REVDAT 4 25-DEC-19 5DZ2 1 REMARK REVDAT 3 13-SEP-17 5DZ2 1 JRNL REMARK REVDAT 2 23-DEC-15 5DZ2 1 JRNL REVDAT 1 09-DEC-15 5DZ2 0 JRNL AUTH G.G.HARRIS,P.M.LOMBARDI,T.A.PEMBERTON,T.MATSUI,T.M.WEISS, JRNL AUTH 2 K.E.COLE,M.KOKSAL,F.V.MURPHY,L.S.VEDULA,W.K.CHOU,D.E.CANE, JRNL AUTH 3 D.W.CHRISTIANSON JRNL TITL STRUCTURAL STUDIES OF GEOSMIN SYNTHASE, A BIFUNCTIONAL JRNL TITL 2 SESQUITERPENE SYNTHASE WITH ALPHA ALPHA DOMAIN ARCHITECTURE JRNL TITL 3 THAT CATALYZES A UNIQUE CYCLIZATION-FRAGMENTATION REACTION JRNL TITL 4 SEQUENCE. JRNL REF BIOCHEMISTRY V. 54 7142 2015 JRNL REFN ISSN 0006-2960 JRNL PMID 26598179 JRNL DOI 10.1021/ACS.BIOCHEM.5B01143 REMARK 2 REMARK 2 RESOLUTION. 2.11 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 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) : 2.11 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.17 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 46193 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 : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.920 REMARK 3 FREE R VALUE TEST SET COUNT : 2275 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 48.1850 - 5.3163 0.98 3022 174 0.1910 0.2269 REMARK 3 2 5.3163 - 4.2205 0.96 2777 150 0.1700 0.1869 REMARK 3 3 4.2205 - 3.6872 0.95 2732 131 0.1719 0.1970 REMARK 3 4 3.6872 - 3.3502 0.97 2747 133 0.2002 0.2438 REMARK 3 5 3.3502 - 3.1101 0.98 2743 153 0.2185 0.2550 REMARK 3 6 3.1101 - 2.9268 0.99 2742 151 0.2297 0.3070 REMARK 3 7 2.9268 - 2.7802 0.98 2697 162 0.2280 0.2838 REMARK 3 8 2.7802 - 2.6592 0.99 2768 134 0.2311 0.2935 REMARK 3 9 2.6592 - 2.5568 0.99 2757 118 0.2218 0.2669 REMARK 3 10 2.5568 - 2.4686 0.99 2731 145 0.2192 0.2868 REMARK 3 11 2.4686 - 2.3914 0.99 2708 145 0.2294 0.2980 REMARK 3 12 2.3914 - 2.3230 1.00 2755 132 0.2565 0.3015 REMARK 3 13 2.3230 - 2.2619 1.00 2704 158 0.2729 0.3873 REMARK 3 14 2.2619 - 2.2067 0.99 2729 149 0.2801 0.3067 REMARK 3 15 2.2067 - 2.1565 0.99 2699 121 0.2867 0.3406 REMARK 3 16 2.1565 - 2.1107 0.96 2607 119 0.3062 0.3682 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) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.910 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 : 0.005 5285 REMARK 3 ANGLE : 0.914 7231 REMARK 3 CHIRALITY : 0.035 768 REMARK 3 PLANARITY : 0.005 938 REMARK 3 DIHEDRAL : 13.423 1907 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 5DZ2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000213941. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46408 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.110 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 (%) : 98.8 REMARK 200 DATA REDUNDANCY : 12.20 REMARK 200 R MERGE (I) : 0.14500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.6400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.11 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : 11.10 REMARK 200 R MERGE FOR SHELL (I) : 0.91800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.680 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: PDB ENTRY 5DW7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM ACETATE TRIHYDRATE, PH REMARK 280 7.0, 20% W/V PEG3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 172.69400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 33.60650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 33.60650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 259.04100 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 33.60650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 33.60650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 86.34700 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 33.60650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 33.60650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 259.04100 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 33.60650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 33.60650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 86.34700 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 172.69400 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 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 575 LIES ON A SPECIAL POSITION. 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 465 THR A 2 REMARK 465 GLN A 3 REMARK 465 ASP A 116 REMARK 465 ASP A 117 REMARK 465 ALA A 118 REMARK 465 ALA A 119 REMARK 465 GLY A 330 REMARK 465 GLU A 331 REMARK 465 ARG A 332 REMARK 465 PRO A 333 REMARK 465 LEU A 334 REMARK 465 ALA A 335 REMARK 465 GLY A 336 REMARK 465 TRP A 337 REMARK 465 GLN A 338 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 GLN B 3 REMARK 465 ASP B 116 REMARK 465 ASP B 117 REMARK 465 ALA B 118 REMARK 465 ALA B 119 REMARK 465 GLY B 330 REMARK 465 GLU B 331 REMARK 465 ARG B 332 REMARK 465 PRO B 333 REMARK 465 LEU B 334 REMARK 465 ALA B 335 REMARK 465 GLY B 336 REMARK 465 TRP B 337 REMARK 465 GLN B 338 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 HIS A 10 CG ND1 CD2 CE1 NE2 REMARK 470 ASP A 24 OD1 OD2 REMARK 470 GLU A 47 CG CD OE1 OE2 REMARK 470 LYS A 103 CE NZ REMARK 470 ARG A 125 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 173 NE CZ NH1 NH2 REMARK 470 GLU A 179 CD OE1 OE2 REMARK 470 LYS A 186 CD CE NZ REMARK 470 ARG A 212 CZ NH1 NH2 REMARK 470 ARG A 215 CD NE CZ NH1 NH2 REMARK 470 GLU A 284 CD OE1 OE2 REMARK 470 LEU A 290 CG CD1 CD2 REMARK 470 GLU A 291 CG CD OE1 OE2 REMARK 470 LYS A 292 CE NZ REMARK 470 LEU A 297 CG CD1 CD2 REMARK 470 GLN B 7 CG CD OE1 NE2 REMARK 470 HIS B 10 CG ND1 CD2 CE1 NE2 REMARK 470 GLU B 41 CG CD OE1 OE2 REMARK 470 LYS B 103 CD CE NZ REMARK 470 GLU B 171 CD OE1 OE2 REMARK 470 GLU B 179 CD OE1 OE2 REMARK 470 LYS B 186 CG CD CE NZ REMARK 470 ARG B 212 CZ NH1 NH2 REMARK 470 GLU B 261 CG CD OE1 OE2 REMARK 470 LEU B 290 CG CD1 CD2 REMARK 470 GLU B 291 CG CD OE1 OE2 REMARK 470 LEU B 297 CG CD1 CD2 REMARK 470 LYS B 329 CE NZ 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 LEU A 40 -128.87 -99.11 REMARK 500 ASP A 55 67.02 64.46 REMARK 500 THR A 201 -89.36 -117.41 REMARK 500 ASP A 240 -40.86 -144.93 REMARK 500 LEU B 40 -126.10 -111.67 REMARK 500 VAL B 45 -58.44 -126.88 REMARK 500 ASP B 55 73.46 56.87 REMARK 500 THR B 201 -91.06 -131.01 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 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 86 OD1 REMARK 620 2 212 A 404 O9 94.9 REMARK 620 3 HOH A 515 O 84.6 169.5 REMARK 620 4 HOH A 522 O 176.3 88.8 91.6 REMARK 620 5 HOH A 529 O 87.3 88.2 81.3 92.3 REMARK 620 6 HOH A 543 O 83.1 82.9 107.4 97.9 166.3 REMARK 620 N 1 2 3 4 5 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 86 OD2 REMARK 620 2 212 A 404 O3 105.6 REMARK 620 3 212 A 404 O9 98.6 99.3 REMARK 620 4 HOH A 519 O 147.8 80.3 111.9 REMARK 620 5 HOH A 543 O 79.3 171.0 87.2 91.6 REMARK 620 6 HOH A 553 O 76.0 86.6 172.9 72.7 87.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 229 OD1 REMARK 620 2 SER A 233 OG 84.5 REMARK 620 3 GLU A 237 OE2 158.1 76.0 REMARK 620 4 212 A 404 O10 104.9 170.6 94.8 REMARK 620 5 212 A 404 O2 97.4 81.3 89.5 96.7 REMARK 620 6 HOH A 508 O 83.8 86.7 85.2 94.7 167.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 86 OD1 REMARK 620 2 212 B 404 O10 105.1 REMARK 620 3 HOH B 513 O 84.5 170.4 REMARK 620 4 HOH B 517 O 97.0 93.3 85.0 REMARK 620 5 HOH B 533 O 86.1 86.8 94.3 176.7 REMARK 620 6 HOH B 541 O 169.2 85.4 85.0 84.7 92.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 86 OD2 REMARK 620 2 212 B 404 O3 107.7 REMARK 620 3 212 B 404 O10 99.6 97.6 REMARK 620 4 HOH B 518 O 75.1 92.1 170.1 REMARK 620 5 HOH B 521 O 151.4 87.0 102.7 80.0 REMARK 620 6 HOH B 533 O 79.6 172.2 83.7 87.0 85.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 229 OD1 REMARK 620 2 SER B 233 OG 85.8 REMARK 620 3 GLU B 237 OE2 168.5 86.4 REMARK 620 4 212 B 404 O9 90.9 176.2 97.2 REMARK 620 5 212 B 404 O5 90.4 90.9 98.2 87.4 REMARK 620 6 HOH B 502 O 81.3 82.6 89.4 98.7 169.7 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 MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 212 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 212 B 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5DW7 RELATED DB: PDB REMARK 900 STREPTOMYCES COELICOLOR GEOSMIN SYNTHASE IN THE UNLIGANDED STATE DBREF 5DZ2 A 1 338 UNP Q9X839 CYC2_STRCO 1 338 DBREF 5DZ2 B 1 338 UNP Q9X839 CYC2_STRCO 1 338 SEQRES 1 A 338 MET THR GLN GLN PRO PHE GLN LEU PRO HIS PHE TYR LEU SEQRES 2 A 338 PRO HIS PRO ALA ARG LEU ASN PRO HIS LEU ASP GLU ALA SEQRES 3 A 338 ARG ALA HIS SER THR THR TRP ALA ARG GLU MET GLY MET SEQRES 4 A 338 LEU GLU GLY SER GLY VAL TRP GLU GLN SER ASP LEU GLU SEQRES 5 A 338 ALA HIS ASP TYR GLY LEU LEU CYS ALA TYR THR HIS PRO SEQRES 6 A 338 ASP CYS ASP GLY PRO ALA LEU SER LEU ILE THR ASP TRP SEQRES 7 A 338 TYR VAL TRP VAL PHE PHE PHE ASP ASP HIS PHE LEU GLU SEQRES 8 A 338 LYS TYR LYS ARG SER GLN ASP ARG LEU ALA GLY LYS ALA SEQRES 9 A 338 HIS LEU ASP ARG LEU PRO LEU PHE MET PRO LEU ASP ASP SEQRES 10 A 338 ALA ALA GLY MET PRO GLU PRO ARG ASN PRO VAL GLU ALA SEQRES 11 A 338 GLY LEU ALA ASP LEU TRP THR ARG THR VAL PRO ALA MET SEQRES 12 A 338 SER ALA ASP TRP ARG ARG ARG PHE ALA VAL ALA THR GLU SEQRES 13 A 338 HIS LEU LEU ASN GLU SER MET TRP GLU LEU SER ASN ILE SEQRES 14 A 338 ASN GLU GLY ARG VAL ALA ASN PRO VAL GLU TYR ILE GLU SEQRES 15 A 338 MET ARG ARG LYS VAL GLY GLY ALA PRO TRP SER ALA GLY SEQRES 16 A 338 LEU VAL GLU TYR ALA THR ALA GLU VAL PRO ALA ALA VAL SEQRES 17 A 338 ALA GLY THR ARG PRO LEU ARG VAL LEU MET GLU THR PHE SEQRES 18 A 338 SER ASP ALA VAL HIS LEU ARG ASN ASP LEU PHE SER TYR SEQRES 19 A 338 GLN ARG GLU VAL GLU ASP GLU GLY GLU LEU SER ASN GLY SEQRES 20 A 338 VAL LEU VAL LEU GLU THR PHE PHE GLY CYS THR THR GLN SEQRES 21 A 338 GLU ALA ALA ASP LEU VAL ASN ASP VAL LEU THR SER ARG SEQRES 22 A 338 LEU HIS GLN PHE GLU HIS THR ALA PHE THR GLU VAL PRO SEQRES 23 A 338 ALA VAL ALA LEU GLU LYS GLY LEU THR PRO LEU GLU VAL SEQRES 24 A 338 ALA ALA VAL GLY ALA TYR THR LYS GLY LEU GLN ASP TRP SEQRES 25 A 338 GLN SER GLY GLY HIS GLU TRP HIS MET ARG SER SER ARG SEQRES 26 A 338 TYR MET ASN LYS GLY GLU ARG PRO LEU ALA GLY TRP GLN SEQRES 1 B 338 MET THR GLN GLN PRO PHE GLN LEU PRO HIS PHE TYR LEU SEQRES 2 B 338 PRO HIS PRO ALA ARG LEU ASN PRO HIS LEU ASP GLU ALA SEQRES 3 B 338 ARG ALA HIS SER THR THR TRP ALA ARG GLU MET GLY MET SEQRES 4 B 338 LEU GLU GLY SER GLY VAL TRP GLU GLN SER ASP LEU GLU SEQRES 5 B 338 ALA HIS ASP TYR GLY LEU LEU CYS ALA TYR THR HIS PRO SEQRES 6 B 338 ASP CYS ASP GLY PRO ALA LEU SER LEU ILE THR ASP TRP SEQRES 7 B 338 TYR VAL TRP VAL PHE PHE PHE ASP ASP HIS PHE LEU GLU SEQRES 8 B 338 LYS TYR LYS ARG SER GLN ASP ARG LEU ALA GLY LYS ALA SEQRES 9 B 338 HIS LEU ASP ARG LEU PRO LEU PHE MET PRO LEU ASP ASP SEQRES 10 B 338 ALA ALA GLY MET PRO GLU PRO ARG ASN PRO VAL GLU ALA SEQRES 11 B 338 GLY LEU ALA ASP LEU TRP THR ARG THR VAL PRO ALA MET SEQRES 12 B 338 SER ALA ASP TRP ARG ARG ARG PHE ALA VAL ALA THR GLU SEQRES 13 B 338 HIS LEU LEU ASN GLU SER MET TRP GLU LEU SER ASN ILE SEQRES 14 B 338 ASN GLU GLY ARG VAL ALA ASN PRO VAL GLU TYR ILE GLU SEQRES 15 B 338 MET ARG ARG LYS VAL GLY GLY ALA PRO TRP SER ALA GLY SEQRES 16 B 338 LEU VAL GLU TYR ALA THR ALA GLU VAL PRO ALA ALA VAL SEQRES 17 B 338 ALA GLY THR ARG PRO LEU ARG VAL LEU MET GLU THR PHE SEQRES 18 B 338 SER ASP ALA VAL HIS LEU ARG ASN ASP LEU PHE SER TYR SEQRES 19 B 338 GLN ARG GLU VAL GLU ASP GLU GLY GLU LEU SER ASN GLY SEQRES 20 B 338 VAL LEU VAL LEU GLU THR PHE PHE GLY CYS THR THR GLN SEQRES 21 B 338 GLU ALA ALA ASP LEU VAL ASN ASP VAL LEU THR SER ARG SEQRES 22 B 338 LEU HIS GLN PHE GLU HIS THR ALA PHE THR GLU VAL PRO SEQRES 23 B 338 ALA VAL ALA LEU GLU LYS GLY LEU THR PRO LEU GLU VAL SEQRES 24 B 338 ALA ALA VAL GLY ALA TYR THR LYS GLY LEU GLN ASP TRP SEQRES 25 B 338 GLN SER GLY GLY HIS GLU TRP HIS MET ARG SER SER ARG SEQRES 26 B 338 TYR MET ASN LYS GLY GLU ARG PRO LEU ALA GLY TRP GLN HET MG A 401 1 HET MG A 402 1 HET MG A 403 1 HET 212 A 404 14 HET MG B 401 1 HET MG B 402 1 HET MG B 403 1 HET 212 B 404 14 HETNAM MG MAGNESIUM ION HETNAM 212 ALENDRONATE HETSYN 212 (4-AMINO-1-HYDROXY-1-PHOSPHONO-BUTYL)PHOSPHONIC ACID FORMUL 3 MG 6(MG 2+) FORMUL 6 212 2(C4 H13 N O7 P2) FORMUL 11 HOH *145(H2 O) HELIX 1 AA1 HIS A 22 GLY A 38 1 17 HELIX 2 AA2 GLU A 47 ASP A 55 1 9 HELIX 3 AA3 ASP A 55 HIS A 64 1 10 HELIX 4 AA4 ASP A 68 TYR A 93 1 26 HELIX 5 AA5 ASP A 98 LEU A 109 1 12 HELIX 6 AA6 PRO A 110 MET A 113 5 4 HELIX 7 AA7 ASN A 126 VAL A 140 1 15 HELIX 8 AA8 PRO A 141 MET A 143 5 3 HELIX 9 AA9 SER A 144 GLY A 172 1 29 HELIX 10 AB1 ASN A 176 GLY A 188 1 13 HELIX 11 AB2 GLY A 189 THR A 201 1 13 HELIX 12 AB3 PRO A 205 GLY A 210 1 6 HELIX 13 AB4 THR A 211 ASP A 240 1 30 HELIX 14 AB5 ASN A 246 GLY A 256 1 11 HELIX 15 AB6 THR A 258 THR A 283 1 26 HELIX 16 AB7 THR A 283 LYS A 292 1 10 HELIX 17 AB8 THR A 295 MET A 321 1 27 HELIX 18 AB9 HIS B 22 GLY B 38 1 17 HELIX 19 AC1 GLU B 47 ASP B 55 1 9 HELIX 20 AC2 ASP B 55 HIS B 64 1 10 HELIX 21 AC3 ASP B 68 TYR B 93 1 26 HELIX 22 AC4 ASP B 98 LEU B 109 1 12 HELIX 23 AC5 PRO B 110 MET B 113 5 4 HELIX 24 AC6 ASN B 126 VAL B 140 1 15 HELIX 25 AC7 PRO B 141 MET B 143 5 3 HELIX 26 AC8 SER B 144 GLY B 172 1 29 HELIX 27 AC9 ASN B 176 GLY B 188 1 13 HELIX 28 AD1 GLY B 189 THR B 201 1 13 HELIX 29 AD2 PRO B 205 GLY B 210 1 6 HELIX 30 AD3 THR B 211 ASP B 240 1 30 HELIX 31 AD4 ASN B 246 GLY B 256 1 11 HELIX 32 AD5 THR B 258 THR B 283 1 26 HELIX 33 AD6 THR B 283 LYS B 292 1 10 HELIX 34 AD7 THR B 295 MET B 321 1 27 LINK OD1 ASP A 86 MG MG A 401 1555 1555 2.12 LINK OD2 ASP A 86 MG MG A 403 1555 1555 2.17 LINK OD1 ASN A 229 MG MG A 402 1555 1555 2.04 LINK OG SER A 233 MG MG A 402 1555 1555 2.50 LINK OE2 GLU A 237 MG MG A 402 1555 1555 2.18 LINK MG MG A 401 O9 212 A 404 1555 1555 2.16 LINK MG MG A 401 O HOH A 515 1555 1555 1.96 LINK MG MG A 401 O HOH A 522 1555 1555 2.18 LINK MG MG A 401 O HOH A 529 1555 1555 2.05 LINK MG MG A 401 O HOH A 543 1555 1555 2.10 LINK MG MG A 402 O10 212 A 404 1555 1555 1.90 LINK MG MG A 402 O2 212 A 404 1555 1555 2.06 LINK MG MG A 402 O HOH A 508 1555 1555 2.13 LINK MG MG A 403 O3 212 A 404 1555 1555 2.10 LINK MG MG A 403 O9 212 A 404 1555 1555 1.94 LINK MG MG A 403 O HOH A 519 1555 1555 2.22 LINK MG MG A 403 O HOH A 543 1555 1555 2.14 LINK MG MG A 403 O HOH A 553 1555 1555 2.34 LINK OD1 ASP B 86 MG MG B 401 1555 1555 2.02 LINK OD2 ASP B 86 MG MG B 403 1555 1555 2.09 LINK OD1 ASN B 229 MG MG B 402 1555 1555 2.18 LINK OG SER B 233 MG MG B 402 1555 1555 2.32 LINK OE2 GLU B 237 MG MG B 402 1555 1555 1.99 LINK MG MG B 401 O10 212 B 404 1555 1555 1.96 LINK MG MG B 401 O HOH B 513 1555 1555 2.07 LINK MG MG B 401 O HOH B 517 1555 1555 1.96 LINK MG MG B 401 O HOH B 533 1555 1555 2.06 LINK MG MG B 401 O HOH B 541 1555 1555 2.20 LINK MG MG B 402 O9 212 B 404 1555 1555 2.01 LINK MG MG B 402 O5 212 B 404 1555 1555 2.06 LINK MG MG B 402 O HOH B 502 1555 1555 2.21 LINK MG MG B 403 O3 212 B 404 1555 1555 2.10 LINK MG MG B 403 O10 212 B 404 1555 1555 1.96 LINK MG MG B 403 O HOH B 518 1555 1555 2.21 LINK MG MG B 403 O HOH B 521 1555 1555 2.14 LINK MG MG B 403 O HOH B 533 1555 1555 2.17 SITE 1 AC1 7 ASP A 86 MG A 403 212 A 404 HOH A 515 SITE 2 AC1 7 HOH A 522 HOH A 529 HOH A 543 SITE 1 AC2 5 ASN A 229 SER A 233 GLU A 237 212 A 404 SITE 2 AC2 5 HOH A 508 SITE 1 AC3 6 ASP A 86 MG A 401 212 A 404 HOH A 519 SITE 2 AC3 6 HOH A 543 HOH A 553 SITE 1 AC4 20 VAL A 82 ASP A 86 ARG A 184 ASN A 229 SITE 2 AC4 20 SER A 233 ARG A 236 GLU A 237 ARG A 325 SITE 3 AC4 20 TYR A 326 MG A 401 MG A 402 MG A 403 SITE 4 AC4 20 HOH A 508 HOH A 519 HOH A 522 HOH A 528 SITE 5 AC4 20 HOH A 529 HOH A 543 HOH A 551 HOH A 553 SITE 1 AC5 7 ASP B 86 MG B 403 212 B 404 HOH B 513 SITE 2 AC5 7 HOH B 517 HOH B 533 HOH B 541 SITE 1 AC6 5 ASN B 229 SER B 233 GLU B 237 212 B 404 SITE 2 AC6 5 HOH B 502 SITE 1 AC7 6 ASP B 86 MG B 401 212 B 404 HOH B 518 SITE 2 AC7 6 HOH B 521 HOH B 533 SITE 1 AC8 19 VAL B 82 PHE B 83 ASP B 86 ARG B 184 SITE 2 AC8 19 ASN B 229 SER B 233 ARG B 236 GLU B 237 SITE 3 AC8 19 ARG B 325 TYR B 326 MG B 401 MG B 402 SITE 4 AC8 19 MG B 403 HOH B 517 HOH B 521 HOH B 533 SITE 5 AC8 19 HOH B 536 HOH B 539 HOH B 541 CRYST1 67.213 67.213 345.388 90.00 90.00 90.00 P 43 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 0.014878 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014878 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002895 0.00000