PDB Short entry for 3F0F HEADER LYASE 24-OCT-08 3F0F TITLE CO-CRYSTAL STRUCTURE OF 2C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE TITLE 2 SYNTHASE FROM BURKHOLDERIA PSEUDOMALLEI WITH HYDROLYZED CDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: MECPS, MECDP-SYNTHASE; COMPND 5 EC: 4.6.1.12; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA PSEUDOMALLEI; SOURCE 3 ORGANISM_COMMON: PSEUDOMONAS PSEUDOMALLEI; SOURCE 4 ORGANISM_TAXID: 28450; SOURCE 5 STRAIN: 1710B; SOURCE 6 GENE: ISPF, MECS, BPSL2098; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: AVA0421 KEYWDS SSGCID, NIAID, BURKHOLDERIA PSEUDOMALLEI, ISOPRENE BIOSYNTHESIS, KEYWDS 2 LYASE, METAL-BINDING, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL KEYWDS 3 GENOMICS CENTER FOR INFECTIOUS DISEASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 6 06-SEP-23 3F0F 1 REMARK SEQADV LINK REVDAT 5 25-OCT-17 3F0F 1 REMARK REVDAT 4 30-OCT-13 3F0F 1 JRNL REVDAT 3 13-JUL-11 3F0F 1 VERSN REVDAT 2 24-FEB-09 3F0F 1 VERSN REVDAT 1 04-NOV-08 3F0F 0 JRNL AUTH L.BAUGH,L.A.GALLAGHER,R.PATRAPUVICH,M.C.CLIFTON, JRNL AUTH 2 A.S.GARDBERG,T.E.EDWARDS,B.ARMOUR,D.W.BEGLEY,S.H.DIETERICH, JRNL AUTH 3 D.M.DRANOW,J.ABENDROTH,J.W.FAIRMAN,D.FOX,B.L.STAKER,I.PHAN, JRNL AUTH 4 A.GILLESPIE,R.CHOI,S.NAKAZAWA-HEWITT,M.T.NGUYEN,A.NAPULI, JRNL AUTH 5 L.BARRETT,G.W.BUCHKO,R.STACY,P.J.MYLER,L.J.STEWART,C.MANOIL, JRNL AUTH 6 W.C.VAN VOORHIS JRNL TITL COMBINING FUNCTIONAL AND STRUCTURAL GENOMICS TO SAMPLE THE JRNL TITL 2 ESSENTIAL BURKHOLDERIA STRUCTOME. JRNL REF PLOS ONE V. 8 53851 2013 JRNL REFN ESSN 1932-6203 JRNL PMID 23382856 JRNL DOI 10.1371/JOURNAL.PONE.0053851 REMARK 2 REMARK 2 RESOLUTION. 2.09 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.5.0053 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.09 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 27759 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1406 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.09 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1842 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.45 REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE SET COUNT : 107 REMARK 3 BIN FREE R VALUE : 0.2410 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3508 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 203 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.49000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : -0.48000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.242 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.199 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.140 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.240 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3590 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4868 ; 1.048 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 470 ; 4.962 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 157 ;31.180 ;23.121 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 556 ;13.684 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;13.916 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 560 ; 0.068 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2741 ; 0.003 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2339 ; 0.461 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3693 ; 0.847 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1251 ; 1.097 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1175 ; 1.811 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3F0F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-OCT-08. REMARK 100 THE DEPOSITION ID IS D_1000049989. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-SEP-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27899 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.090 REMARK 200 RESOLUTION RANGE LOW (A) : 65.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.8890 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.09 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.54900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3F0D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 34.4 MG/ML PROTEIN, CRYSTAL ID REMARK 280 200564D9, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K 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 26.53900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.73250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.22850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.73250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.53900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.22850 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16500 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -142.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -20 REMARK 465 ALA A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 MET A -12 REMARK 465 GLY A -11 REMARK 465 THR A -10 REMARK 465 LEU A -9 REMARK 465 GLU A -8 REMARK 465 ALA A -7 REMARK 465 GLN A -6 REMARK 465 THR A -5 REMARK 465 GLN A -4 REMARK 465 GLY A -3 REMARK 465 PRO A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 ALA A 160 REMARK 465 ALA A 161 REMARK 465 ALA A 162 REMARK 465 MET B -20 REMARK 465 ALA B -19 REMARK 465 HIS B -18 REMARK 465 HIS B -17 REMARK 465 HIS B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 MET B -12 REMARK 465 GLY B -11 REMARK 465 THR B -10 REMARK 465 LEU B -9 REMARK 465 GLU B -8 REMARK 465 ALA B -7 REMARK 465 GLN B -6 REMARK 465 THR B -5 REMARK 465 GLN B -4 REMARK 465 GLY B -3 REMARK 465 PRO B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 ALA B 160 REMARK 465 ALA B 161 REMARK 465 ALA B 162 REMARK 465 MET C -20 REMARK 465 ALA C -19 REMARK 465 HIS C -18 REMARK 465 HIS C -17 REMARK 465 HIS C -16 REMARK 465 HIS C -15 REMARK 465 HIS C -14 REMARK 465 HIS C -13 REMARK 465 MET C -12 REMARK 465 GLY C -11 REMARK 465 THR C -10 REMARK 465 LEU C -9 REMARK 465 GLU C -8 REMARK 465 ALA C -7 REMARK 465 GLN C -6 REMARK 465 THR C -5 REMARK 465 GLN C -4 REMARK 465 GLY C -3 REMARK 465 PRO C -2 REMARK 465 GLY C -1 REMARK 465 SER C 0 REMARK 465 ASP C 65 REMARK 465 THR C 66 REMARK 465 ASP C 67 REMARK 465 ALA C 160 REMARK 465 ALA C 161 REMARK 465 ALA C 162 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 ARG A 61 CG CD NE CZ NH1 NH2 REMARK 470 THR B 66 OG1 CG2 REMARK 470 ARG B 69 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 71 CG CD CE NZ REMARK 470 LYS B 106 CG CD CE NZ REMARK 470 GLU B 159 CG CD OE1 OE2 REMARK 470 MET C 1 CG SD CE REMARK 470 HIS C 36 CG ND1 CD2 CE1 NE2 REMARK 470 ARG C 61 CG CD NE CZ NH1 NH2 REMARK 470 SER C 64 OG REMARK 470 ARG C 69 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 71 CG CD 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 ASP A 67 117.06 -162.14 REMARK 500 SER B 37 -132.45 57.61 REMARK 500 ALA B 39 42.64 39.92 REMARK 500 SER C 37 -142.38 -80.78 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 ZN A 165 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 10 OD2 REMARK 620 2 HIS A 12 NE2 99.9 REMARK 620 3 HIS A 44 ND1 95.4 111.7 REMARK 620 4 GOL A 163 O3 126.2 111.8 110.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 164 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 201 O REMARK 620 2 HOH C 165 O 91.3 REMARK 620 3 HOH C 217 O 98.2 83.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 164 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 203 O REMARK 620 2 ASP C 10 OD2 119.5 REMARK 620 3 HIS C 12 NE2 109.2 92.4 REMARK 620 4 HIS C 44 ND1 118.3 99.6 115.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 163 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 10 OD2 REMARK 620 2 HIS B 12 NE2 98.6 REMARK 620 3 HIS B 44 ND1 101.7 119.4 REMARK 620 4 HOH C 198 O 125.7 94.5 116.7 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 C5P C 163 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 163 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 164 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 163 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 164 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 165 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3F0D RELATED DB: PDB REMARK 900 HIGH RESOLUTION STRUCTURE APO REMARK 900 RELATED ID: 3F0E RELATED DB: PDB REMARK 900 ALTERNATIVE CRYSTAL FORM APO REMARK 900 RELATED ID: BUPSA.00122.A RELATED DB: TARGETDB DBREF 3F0F A 1 162 UNP Q63T71 ISPF_BURPS 1 162 DBREF 3F0F B 1 162 UNP Q63T71 ISPF_BURPS 1 162 DBREF 3F0F C 1 162 UNP Q63T71 ISPF_BURPS 1 162 SEQADV 3F0F MET A -20 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F ALA A -19 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS A -18 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS A -17 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS A -16 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS A -15 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS A -14 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS A -13 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F MET A -12 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLY A -11 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F THR A -10 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F LEU A -9 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLU A -8 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F ALA A -7 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLN A -6 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F THR A -5 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLN A -4 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLY A -3 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F PRO A -2 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLY A -1 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F SER A 0 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F MET B -20 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F ALA B -19 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS B -18 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS B -17 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS B -16 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS B -15 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS B -14 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS B -13 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F MET B -12 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLY B -11 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F THR B -10 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F LEU B -9 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLU B -8 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F ALA B -7 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLN B -6 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F THR B -5 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLN B -4 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLY B -3 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F PRO B -2 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLY B -1 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F SER B 0 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F MET C -20 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F ALA C -19 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS C -18 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS C -17 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS C -16 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS C -15 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS C -14 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F HIS C -13 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F MET C -12 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLY C -11 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F THR C -10 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F LEU C -9 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLU C -8 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F ALA C -7 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLN C -6 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F THR C -5 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLN C -4 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLY C -3 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F PRO C -2 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F GLY C -1 UNP Q63T71 EXPRESSION TAG SEQADV 3F0F SER C 0 UNP Q63T71 EXPRESSION TAG SEQRES 1 A 183 MET ALA HIS HIS HIS HIS HIS HIS MET GLY THR LEU GLU SEQRES 2 A 183 ALA GLN THR GLN GLY PRO GLY SER MET ASP PHE ARG ILE SEQRES 3 A 183 GLY GLN GLY TYR ASP VAL HIS GLN LEU VAL PRO GLY ARG SEQRES 4 A 183 PRO LEU ILE ILE GLY GLY VAL THR ILE PRO TYR GLU ARG SEQRES 5 A 183 GLY LEU LEU GLY HIS SER ASP ALA ASP VAL LEU LEU HIS SEQRES 6 A 183 ALA ILE THR ASP ALA LEU PHE GLY ALA ALA ALA LEU GLY SEQRES 7 A 183 ASP ILE GLY ARG HIS PHE SER ASP THR ASP PRO ARG PHE SEQRES 8 A 183 LYS GLY ALA ASP SER ARG ALA LEU LEU ARG GLU CYS ALA SEQRES 9 A 183 SER ARG VAL ALA GLN ALA GLY PHE ALA ILE ARG ASN VAL SEQRES 10 A 183 ASP SER THR ILE ILE ALA GLN ALA PRO LYS LEU ALA PRO SEQRES 11 A 183 HIS ILE ASP ALA MET ARG ALA ASN ILE ALA ALA ASP LEU SEQRES 12 A 183 ASP LEU PRO LEU ASP ARG VAL ASN VAL LYS ALA LYS THR SEQRES 13 A 183 ASN GLU LYS LEU GLY TYR LEU GLY ARG GLY GLU GLY ILE SEQRES 14 A 183 GLU ALA GLN ALA ALA ALA LEU VAL VAL ARG GLU ALA ALA SEQRES 15 A 183 ALA SEQRES 1 B 183 MET ALA HIS HIS HIS HIS HIS HIS MET GLY THR LEU GLU SEQRES 2 B 183 ALA GLN THR GLN GLY PRO GLY SER MET ASP PHE ARG ILE SEQRES 3 B 183 GLY GLN GLY TYR ASP VAL HIS GLN LEU VAL PRO GLY ARG SEQRES 4 B 183 PRO LEU ILE ILE GLY GLY VAL THR ILE PRO TYR GLU ARG SEQRES 5 B 183 GLY LEU LEU GLY HIS SER ASP ALA ASP VAL LEU LEU HIS SEQRES 6 B 183 ALA ILE THR ASP ALA LEU PHE GLY ALA ALA ALA LEU GLY SEQRES 7 B 183 ASP ILE GLY ARG HIS PHE SER ASP THR ASP PRO ARG PHE SEQRES 8 B 183 LYS GLY ALA ASP SER ARG ALA LEU LEU ARG GLU CYS ALA SEQRES 9 B 183 SER ARG VAL ALA GLN ALA GLY PHE ALA ILE ARG ASN VAL SEQRES 10 B 183 ASP SER THR ILE ILE ALA GLN ALA PRO LYS LEU ALA PRO SEQRES 11 B 183 HIS ILE ASP ALA MET ARG ALA ASN ILE ALA ALA ASP LEU SEQRES 12 B 183 ASP LEU PRO LEU ASP ARG VAL ASN VAL LYS ALA LYS THR SEQRES 13 B 183 ASN GLU LYS LEU GLY TYR LEU GLY ARG GLY GLU GLY ILE SEQRES 14 B 183 GLU ALA GLN ALA ALA ALA LEU VAL VAL ARG GLU ALA ALA SEQRES 15 B 183 ALA SEQRES 1 C 183 MET ALA HIS HIS HIS HIS HIS HIS MET GLY THR LEU GLU SEQRES 2 C 183 ALA GLN THR GLN GLY PRO GLY SER MET ASP PHE ARG ILE SEQRES 3 C 183 GLY GLN GLY TYR ASP VAL HIS GLN LEU VAL PRO GLY ARG SEQRES 4 C 183 PRO LEU ILE ILE GLY GLY VAL THR ILE PRO TYR GLU ARG SEQRES 5 C 183 GLY LEU LEU GLY HIS SER ASP ALA ASP VAL LEU LEU HIS SEQRES 6 C 183 ALA ILE THR ASP ALA LEU PHE GLY ALA ALA ALA LEU GLY SEQRES 7 C 183 ASP ILE GLY ARG HIS PHE SER ASP THR ASP PRO ARG PHE SEQRES 8 C 183 LYS GLY ALA ASP SER ARG ALA LEU LEU ARG GLU CYS ALA SEQRES 9 C 183 SER ARG VAL ALA GLN ALA GLY PHE ALA ILE ARG ASN VAL SEQRES 10 C 183 ASP SER THR ILE ILE ALA GLN ALA PRO LYS LEU ALA PRO SEQRES 11 C 183 HIS ILE ASP ALA MET ARG ALA ASN ILE ALA ALA ASP LEU SEQRES 12 C 183 ASP LEU PRO LEU ASP ARG VAL ASN VAL LYS ALA LYS THR SEQRES 13 C 183 ASN GLU LYS LEU GLY TYR LEU GLY ARG GLY GLU GLY ILE SEQRES 14 C 183 GLU ALA GLN ALA ALA ALA LEU VAL VAL ARG GLU ALA ALA SEQRES 15 C 183 ALA HET GOL A 163 6 HET MG A 164 1 HET ZN A 165 1 HET ZN B 163 1 HET C5P C 163 21 HET ZN C 164 1 HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION HETNAM C5P CYTIDINE-5'-MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 GOL C3 H8 O3 FORMUL 5 MG MG 2+ FORMUL 6 ZN 3(ZN 2+) FORMUL 8 C5P C9 H14 N3 O8 P FORMUL 10 HOH *203(H2 O) HELIX 1 1 ASP A 40 ALA A 54 1 15 HELIX 2 2 ASP A 58 PHE A 63 1 6 HELIX 3 3 ASP A 67 LYS A 71 5 5 HELIX 4 4 ASP A 74 ALA A 89 1 16 HELIX 5 5 LEU A 107 PRO A 109 5 3 HELIX 6 6 HIS A 110 LEU A 122 1 13 HELIX 7 7 PRO A 125 VAL A 129 5 5 HELIX 8 8 LEU A 139 ARG A 144 1 6 HELIX 9 9 ASP B 40 ALA B 54 1 15 HELIX 10 10 ASP B 58 PHE B 63 1 6 HELIX 11 11 ASP B 74 ALA B 89 1 16 HELIX 12 12 LEU B 107 PRO B 109 5 3 HELIX 13 13 HIS B 110 ASP B 123 1 14 HELIX 14 14 PRO B 125 ASP B 127 5 3 HELIX 15 15 LEU B 139 ARG B 144 1 6 HELIX 16 16 ASP C 40 ALA C 54 1 15 HELIX 17 17 ASP C 58 PHE C 63 1 6 HELIX 18 18 ASP C 74 ALA C 89 1 16 HELIX 19 19 LEU C 107 PRO C 109 5 3 HELIX 20 20 HIS C 110 ASP C 123 1 14 HELIX 21 21 PRO C 125 VAL C 129 5 5 HELIX 22 22 LEU C 139 ARG C 144 1 6 SHEET 1 A 5 GLY A 32 LEU A 33 0 SHEET 2 A 5 ASP A 2 VAL A 15 -1 N VAL A 15 O GLY A 32 SHEET 3 A 5 GLY A 147 ARG A 158 -1 O ALA A 150 N ASP A 10 SHEET 4 A 5 PHE A 91 ILE A 101 -1 N ARG A 94 O LEU A 155 SHEET 5 A 5 LYS A 132 LYS A 134 1 O LYS A 132 N ILE A 100 SHEET 1 B 2 ILE A 21 ILE A 22 0 SHEET 2 B 2 VAL A 25 THR A 26 -1 O VAL A 25 N ILE A 22 SHEET 1 C 5 GLY B 32 LEU B 33 0 SHEET 2 C 5 ASP B 2 VAL B 15 -1 N VAL B 15 O GLY B 32 SHEET 3 C 5 GLY B 147 ARG B 158 -1 O ALA B 152 N GLY B 8 SHEET 4 C 5 PHE B 91 ILE B 101 -1 N ARG B 94 O LEU B 155 SHEET 5 C 5 VAL B 129 LYS B 134 1 O LYS B 134 N ILE B 100 SHEET 1 D 2 LEU B 20 ILE B 22 0 SHEET 2 D 2 VAL B 25 ILE B 27 -1 O ILE B 27 N LEU B 20 SHEET 1 E 5 ARG C 31 LEU C 34 0 SHEET 2 E 5 PHE C 3 PRO C 16 -1 N VAL C 15 O GLY C 32 SHEET 3 E 5 GLY C 147 ARG C 158 -1 O ALA C 152 N GLY C 8 SHEET 4 E 5 PHE C 91 ILE C 101 -1 N ILE C 101 O GLU C 149 SHEET 5 E 5 LYS C 132 LYS C 134 1 O LYS C 132 N ILE C 100 SHEET 1 F 2 LEU C 20 ILE C 22 0 SHEET 2 F 2 VAL C 25 ILE C 27 -1 O ILE C 27 N LEU C 20 LINK OD2 ASP A 10 ZN ZN A 165 1555 1555 2.05 LINK NE2 HIS A 12 ZN ZN A 165 1555 1555 2.12 LINK ND1 HIS A 44 ZN ZN A 165 1555 1555 2.16 LINK O3 GOL A 163 ZN ZN A 165 1555 1555 2.21 LINK MG MG A 164 O HOH A 201 1555 1555 2.56 LINK MG MG A 164 O HOH C 165 1555 1555 2.47 LINK MG MG A 164 O HOH C 217 1555 1555 2.35 LINK O HOH A 203 ZN ZN C 164 1555 1555 2.00 LINK OD2 ASP B 10 ZN ZN B 163 1555 1555 2.10 LINK NE2 HIS B 12 ZN ZN B 163 1555 1555 2.27 LINK ND1 HIS B 44 ZN ZN B 163 1555 1555 2.10 LINK ZN ZN B 163 O HOH C 198 1555 1555 2.13 LINK OD2 ASP C 10 ZN ZN C 164 1555 1555 2.20 LINK NE2 HIS C 12 ZN ZN C 164 1555 1555 2.22 LINK ND1 HIS C 44 ZN ZN C 164 1555 1555 2.02 CISPEP 1 ALA A 104 PRO A 105 0 -1.61 CISPEP 2 ALA B 104 PRO B 105 0 -2.30 CISPEP 3 ALA C 104 PRO C 105 0 -6.75 SITE 1 AC1 11 ASP B 58 GLY B 60 HOH B 178 ALA C 102 SITE 2 AC1 11 PRO C 105 LEU C 107 ALA C 108 ALA C 133 SITE 3 AC1 11 LYS C 134 THR C 135 GLU C 137 SITE 1 AC2 6 ASP A 10 HIS A 12 HIS A 44 ZN A 165 SITE 2 AC2 6 HOH A 175 LYS B 134 SITE 1 AC3 3 HOH A 201 HOH C 165 HOH C 217 SITE 1 AC4 4 ASP B 10 HIS B 12 HIS B 44 HOH C 198 SITE 1 AC5 4 HOH A 203 ASP C 10 HIS C 12 HIS C 44 SITE 1 AC6 4 ASP A 10 HIS A 12 HIS A 44 GOL A 163 CRYST1 53.078 66.457 131.465 90.00 90.00 90.00 P 21 21 21 12 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 0.018840 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015047 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007607 0.00000