HEADER TRANSFERASE 05-OCT-10 3P41 TITLE CRYSTAL STRUCTURE OF POLYPRENYL SYNTHETASE FROM PSEUDOMONAS TITLE 2 FLUORESCENS PF-5 COMPLEXED WITH MAGNESIUM AND ISOPRENYL PYROPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GERANYLTRANSTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 3-295; COMPND 5 SYNONYM: POLYPRENYL SYNTHETASE; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS FLUORESCENS; SOURCE 3 ORGANISM_TAXID: 220664; SOURCE 4 STRAIN: PF-5; SOURCE 5 GENE: PFL_5509; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON+RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BN-PSGX2(BN) KEYWDS STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, NEW YORK KEYWDS 2 STRUCTURAL GENOMIX RESEARCH CONSORTIUM, NYSGXRC, ISOPRENE KEYWDS 3 BIOSYNTHESIS, TRANSFERASE, PSI-2, NEW YORK SGX RESEARCH CENTER FOR KEYWDS 4 STRUCTURAL GENOMICS EXPDTA X-RAY DIFFRACTION AUTHOR Y.PATSKOVSKY,R.TORO,J.M.SAUDER,S.K.BURLEY,C.D.POULTER,J.A.GERLT, AUTHOR 2 S.C.ALMO,NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS AUTHOR 3 (NYSGXRC) REVDAT 10 06-DEC-23 3P41 1 REMARK REVDAT 9 06-SEP-23 3P41 1 REMARK REVDAT 8 10-FEB-21 3P41 1 AUTHOR REMARK SEQADV LINK REVDAT 7 21-NOV-18 3P41 1 AUTHOR REVDAT 6 08-NOV-17 3P41 1 REMARK REVDAT 5 08-MAY-13 3P41 1 HET HETATM REVDAT 4 24-APR-13 3P41 1 JRNL REVDAT 3 27-MAR-13 3P41 1 JRNL REVDAT 2 13-MAR-13 3P41 1 JRNL VERSN REVDAT 1 20-OCT-10 3P41 0 JRNL AUTH F.H.WALLRAPP,J.J.PAN,G.RAMAMOORTHY,D.E.ALMONACID, JRNL AUTH 2 B.S.HILLERICH,R.SEIDEL,Y.PATSKOVSKY,P.C.BABBITT,S.C.ALMO, JRNL AUTH 3 M.P.JACOBSON,C.D.POULTER JRNL TITL PREDICTION OF FUNCTION FOR THE POLYPRENYL TRANSFERASE JRNL TITL 2 SUBGROUP IN THE ISOPRENOID SYNTHASE SUPERFAMILY. JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 E1196 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 23493556 JRNL DOI 10.1073/PNAS.1300632110 REMARK 2 REMARK 2 RESOLUTION. 1.76 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.76 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 27540 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.200 REMARK 3 FREE R VALUE TEST SET COUNT : 918 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) : 1.76 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.81 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1634 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.19 REMARK 3 BIN R VALUE (WORKING SET) : 0.3300 REMARK 3 BIN FREE R VALUE SET COUNT : 54 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2117 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 142 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.08 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.46000 REMARK 3 B22 (A**2) : -2.46000 REMARK 3 B33 (A**2) : 3.69000 REMARK 3 B12 (A**2) : -1.23000 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): 0.129 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.119 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.103 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.395 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2351 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3203 ; 1.417 ; 1.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 312 ; 4.900 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 104 ;28.630 ;23.269 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 389 ;15.899 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;17.257 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 361 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1777 ; 0.006 ; 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): 1487 ; 3.896 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2362 ; 5.421 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 864 ; 8.156 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 829 ;11.059 ; 6.000 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3P41 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1000061928. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 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 : NULL 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, DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29256 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.760 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -5.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.76 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 78.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.69000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 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: PDB ENTRY 3LJI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CACODYLATE, PH 6.5, 20% REMARK 280 PEG 8K, 200MM MAGNESIUM ACETATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 69.53067 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 139.06133 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 139.06133 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 69.53067 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: 7710 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -126.0 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 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 69.53067 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 MSE A -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 LEU A 234 REMARK 465 GLY A 235 REMARK 465 LYS A 236 REMARK 465 ARG A 237 REMARK 465 GLN A 238 REMARK 465 GLY A 239 REMARK 465 ALA A 240 REMARK 465 ASP A 241 REMARK 465 ILE A 242 REMARK 465 ALA A 243 REMARK 465 ARG A 244 REMARK 465 ASP A 245 REMARK 465 LYS A 246 REMARK 465 ARG A 294 REMARK 465 SER A 295 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 MSE A 40 57.05 -69.15 REMARK 500 MSE A 88 -107.39 -99.78 REMARK 500 PHE A 104 -105.02 -109.44 REMARK 500 LEU A 166 151.03 -31.00 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 297 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 83 OD1 REMARK 620 2 ASP A 89 OD1 92.0 REMARK 620 3 DMA A 300 O2A 90.0 73.4 REMARK 620 4 HOH A 304 O 84.9 96.5 168.6 REMARK 620 5 HOH A 383 O 171.3 83.5 95.8 88.2 REMARK 620 6 HOH A 384 O 98.3 169.7 105.6 85.3 86.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 298 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 83 OD2 REMARK 620 2 ASP A 89 OD1 86.0 REMARK 620 3 DMA A 300 O2B 100.0 157.4 REMARK 620 4 DMA A 300 O2A 87.5 76.6 81.9 REMARK 620 5 HOH A 381 O 92.6 102.9 98.6 179.5 REMARK 620 6 HOH A 382 O 168.6 82.7 91.2 91.7 88.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 296 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 223 OD1 REMARK 620 2 POP A 301 O4 137.6 REMARK 620 3 HOH A 338 O 80.2 141.8 REMARK 620 4 HOH A 360 O 79.4 88.0 108.6 REMARK 620 5 HOH A 375 O 73.2 64.4 152.5 73.9 REMARK 620 6 HOH A 380 O 77.6 90.4 94.7 143.7 72.8 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 296 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 297 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 298 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMA A 299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMA A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE POP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LSN RELATED DB: PDB REMARK 900 LIGAND-FREE REMARK 900 RELATED ID: 3LJI RELATED DB: PDB REMARK 900 COMPLEX WITH MAGNESIUM REMARK 900 RELATED ID: NYSGXRC-20027B RELATED DB: TARGETDB DBREF 3P41 A 3 295 UNP Q4K5A6 Q4K5A6_PSEF5 3 295 SEQADV 3P41 MSE A -7 UNP Q4K5A6 EXPRESSION TAG SEQADV 3P41 ALA A -6 UNP Q4K5A6 EXPRESSION TAG SEQADV 3P41 HIS A -5 UNP Q4K5A6 EXPRESSION TAG SEQADV 3P41 HIS A -4 UNP Q4K5A6 EXPRESSION TAG SEQADV 3P41 HIS A -3 UNP Q4K5A6 EXPRESSION TAG SEQADV 3P41 HIS A -2 UNP Q4K5A6 EXPRESSION TAG SEQADV 3P41 HIS A -1 UNP Q4K5A6 EXPRESSION TAG SEQADV 3P41 HIS A 0 UNP Q4K5A6 EXPRESSION TAG SEQADV 3P41 SER A 1 UNP Q4K5A6 EXPRESSION TAG SEQADV 3P41 LEU A 2 UNP Q4K5A6 EXPRESSION TAG SEQRES 1 A 303 MSE ALA HIS HIS HIS HIS HIS HIS SER LEU THR ALA TYR SEQRES 2 A 303 GLN ALA SER SER GLN ALA ARG VAL ASP ALA ALA MSE HIS SEQRES 3 A 303 THR LEU PHE THR ALA PRO SER PRO GLU LEU ALA ARG LEU SEQRES 4 A 303 TYR GLU ALA MSE ARG TYR SER VAL MSE ASN GLY GLY LYS SEQRES 5 A 303 ARG VAL ARG PRO LEU LEU ALA TYR ALA ALA CYS GLU ALA SEQRES 6 A 303 LEU GLY GLY LYS PRO GLU GLN ALA ASN GLY ALA ALA CYS SEQRES 7 A 303 ALA VAL GLU LEU ILE HIS ALA TYR SER LEU VAL HIS ASP SEQRES 8 A 303 ASP LEU PRO ALA MSE ASP ASP ASP ASP LEU ARG ARG GLY SEQRES 9 A 303 GLN PRO THR THR HIS LYS ALA PHE ASP GLU ALA SCY ALA SEQRES 10 A 303 ILE LEU ALA GLY ASP GLY LEU GLN SER LEU ALA PHE SER SEQRES 11 A 303 ALA LEU LEU ASP PRO ALA LEU SER ASP ALA SER ALA GLU SEQRES 12 A 303 ILE ARG LEU ARG MSE VAL THR THR LEU ALA GLN ALA ALA SEQRES 13 A 303 GLY PRO ALA GLY MSE VAL GLY GLY GLN ALA ILE ASP LEU SEQRES 14 A 303 GLY SER VAL GLY LEU LYS LEU ASP GLN GLN ALA LEU GLU SEQRES 15 A 303 TYR MSE HIS ARG HIS LYS THR GLY ALA LEU ILE GLU ALA SEQRES 16 A 303 SER VAL ILE LEU GLY ALA LEU ALA SER GLY ARG ALA GLU SEQRES 17 A 303 LYS GLY GLU LEU LYS ALA LEU GLN THR TYR ALA GLN ALA SEQRES 18 A 303 ILE GLY LEU ALA PHE GLN VAL GLN ASP ASP ILE LEU ASP SEQRES 19 A 303 VAL GLU SER ASP THR ALA THR LEU GLY LYS ARG GLN GLY SEQRES 20 A 303 ALA ASP ILE ALA ARG ASP LYS PRO THR TYR PRO ALA LEU SEQRES 21 A 303 LEU GLY LEU ALA ALA ALA LYS GLU TYR ALA LEU GLU LEU SEQRES 22 A 303 ARG ASP GLN ALA LEU HIS ALA LEU ARG PRO PHE ASP ALA SEQRES 23 A 303 ALA ALA GLU PRO LEU ARG GLU LEU ALA ARG TYR ILE VAL SEQRES 24 A 303 GLU ARG ARG SER MODRES 3P41 MSE A 17 MET SELENOMETHIONINE MODRES 3P41 MSE A 35 MET SELENOMETHIONINE MODRES 3P41 MSE A 40 MET SELENOMETHIONINE MODRES 3P41 MSE A 88 MET SELENOMETHIONINE MODRES 3P41 SCY A 108 CYS S-ACETYL-CYSTEINE MODRES 3P41 MSE A 140 MET SELENOMETHIONINE MODRES 3P41 MSE A 153 MET SELENOMETHIONINE MODRES 3P41 MSE A 176 MET SELENOMETHIONINE HET MSE A 17 8 HET MSE A 35 8 HET MSE A 40 8 HET MSE A 88 8 HET SCY A 108 9 HET MSE A 140 16 HET MSE A 153 13 HET MSE A 176 13 HET MG A 296 1 HET MG A 297 1 HET MG A 298 1 HET DMA A 299 14 HET DMA A 300 14 HET POP A 301 9 HET GOL A 302 6 HET CL A 303 1 HETNAM MSE SELENOMETHIONINE HETNAM SCY S-ACETYL-CYSTEINE HETNAM MG MAGNESIUM ION HETNAM DMA DIMETHYLALLYL DIPHOSPHATE HETNAM POP PYROPHOSPHATE 2- HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 1 SCY C5 H9 N O3 S FORMUL 2 MG 3(MG 2+) FORMUL 5 DMA 2(C5 H12 O7 P2) FORMUL 7 POP H2 O7 P2 2- FORMUL 8 GOL C3 H8 O3 FORMUL 9 CL CL 1- FORMUL 10 HOH *142(H2 O) HELIX 1 1 HIS A -1 THR A 19 1 21 HELIX 2 2 SER A 25 GLU A 27 5 3 HELIX 3 3 LEU A 28 MSE A 40 1 13 HELIX 4 4 ARG A 45 LEU A 58 1 14 HELIX 5 5 LYS A 61 GLN A 64 5 4 HELIX 6 6 ALA A 65 LEU A 85 1 21 HELIX 7 7 THR A 99 PHE A 104 1 6 HELIX 8 8 ASP A 105 ASP A 126 1 22 HELIX 9 9 SER A 133 GLY A 149 1 17 HELIX 10 10 GLY A 152 SER A 163 1 12 HELIX 11 11 ASP A 169 THR A 181 1 13 HELIX 12 12 THR A 181 SER A 196 1 16 HELIX 13 13 GLU A 200 THR A 231 1 32 HELIX 14 14 THR A 248 GLY A 254 1 7 HELIX 15 15 GLY A 254 LEU A 273 1 20 HELIX 16 16 ASP A 277 ALA A 279 5 3 HELIX 17 17 ALA A 280 ARG A 293 1 14 SHEET 1 A 2 LEU A 93 ARG A 94 0 SHEET 2 A 2 GLN A 97 PRO A 98 -1 O GLN A 97 N ARG A 94 LINK C ALA A 16 N MSE A 17 1555 1555 1.34 LINK C MSE A 17 N HIS A 18 1555 1555 1.33 LINK C ALA A 34 N MSE A 35 1555 1555 1.33 LINK C MSE A 35 N ARG A 36 1555 1555 1.33 LINK C VAL A 39 N MSE A 40 1555 1555 1.34 LINK C MSE A 40 N ASN A 41 1555 1555 1.32 LINK C ALA A 87 N MSE A 88 1555 1555 1.32 LINK C MSE A 88 N ASP A 89 1555 1555 1.33 LINK C ALA A 107 N SCY A 108 1555 1555 1.36 LINK C SCY A 108 N ALA A 109 1555 1555 1.30 LINK C AARG A 139 N AMSE A 140 1555 1555 1.33 LINK C BARG A 139 N BMSE A 140 1555 1555 1.33 LINK C AMSE A 140 N AVAL A 141 1555 1555 1.33 LINK C BMSE A 140 N BVAL A 141 1555 1555 1.32 LINK C GLY A 152 N MSE A 153 1555 1555 1.34 LINK C MSE A 153 N VAL A 154 1555 1555 1.35 LINK C TYR A 175 N MSE A 176 1555 1555 1.32 LINK C MSE A 176 N HIS A 177 1555 1555 1.32 LINK OD1 ASP A 83 MG MG A 297 1555 1555 2.06 LINK OD2 ASP A 83 MG MG A 298 1555 1555 2.10 LINK OD1 ASP A 89 MG MG A 297 1555 1555 2.21 LINK OD1 ASP A 89 MG MG A 298 1555 1555 2.09 LINK OD1 ASP A 223 MG MG A 296 1555 1555 2.21 LINK MG MG A 296 O4 POP A 301 1555 1555 2.38 LINK MG MG A 296 O HOH A 338 1555 1555 2.27 LINK MG MG A 296 O HOH A 360 1555 1555 2.26 LINK MG MG A 296 O HOH A 375 1555 1555 2.61 LINK MG MG A 296 O HOH A 380 1555 1555 2.11 LINK MG MG A 297 O2A DMA A 300 1555 1555 2.16 LINK MG MG A 297 O HOH A 304 1555 1555 2.19 LINK MG MG A 297 O HOH A 383 1555 1555 2.09 LINK MG MG A 297 O HOH A 384 1555 1555 2.04 LINK MG MG A 298 O2B DMA A 300 1555 1555 1.80 LINK MG MG A 298 O2A DMA A 300 1555 1555 2.11 LINK MG MG A 298 O HOH A 381 1555 1555 1.95 LINK MG MG A 298 O HOH A 382 1555 1555 2.20 SITE 1 AC1 6 ASP A 223 POP A 301 HOH A 338 HOH A 360 SITE 2 AC1 6 HOH A 375 HOH A 380 SITE 1 AC2 7 ASP A 83 ASP A 89 MG A 298 DMA A 300 SITE 2 AC2 7 HOH A 304 HOH A 383 HOH A 384 SITE 1 AC3 6 ASP A 83 ASP A 89 MG A 297 DMA A 300 SITE 2 AC3 6 HOH A 381 HOH A 382 SITE 1 AC4 14 LYS A 44 ARG A 45 VAL A 46 ARG A 47 SITE 2 AC4 14 HIS A 76 ARG A 95 ILE A 185 PHE A 218 SITE 3 AC4 14 ILE A 290 HOH A 305 HOH A 306 HOH A 313 SITE 4 AC4 14 HOH A 387 HOH A 389 SITE 1 AC5 13 SER A 79 ASP A 83 ASP A 89 ARG A 94 SITE 2 AC5 13 GLN A 157 LYS A 180 MG A 297 MG A 298 SITE 3 AC5 13 POP A 301 HOH A 311 HOH A 381 HOH A 382 SITE 4 AC5 13 HOH A 385 SITE 1 AC6 8 ASP A 160 MSE A 176 HIS A 177 LYS A 180 SITE 2 AC6 8 MG A 296 DMA A 300 HOH A 311 HOH A 375 SITE 1 AC7 7 ASP A 90 ASP A 91 ASP A 92 LEU A 93 SITE 2 AC7 7 GLY A 197 ARG A 198 HOH A 371 SITE 1 AC8 4 ALA A 23 ARG A 36 LYS A 61 HOH A 431 CRYST1 48.362 48.362 208.592 90.00 90.00 120.00 P 31 2 1 6 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 0.020677 0.011938 0.000000 0.00000 SCALE2 0.000000 0.023876 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004794 0.00000