HEADER TRANSFERASE 31-OCT-07 3B7P TITLE CRYSTAL STRUCTURE OF SPERMIDINE SYNTHASE FROM PLASMODIUM FALCIPARUM IN TITLE 2 COMPLEX WITH SPERMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPERMIDINE SYNTHASE; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: RESIDUES 40-321; COMPND 5 EC: 2.5.1.16; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 STRAIN: 3D7; SOURCE 5 GENE: PF11_0301; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-(DE3)-ROSETTA OXFORD; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A-LIC KEYWDS TRANSFERASE, SPERMIDINE SYNTHASE, SPERMINE, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC EXPDTA X-RAY DIFFRACTION AUTHOR W.QIU,A.DONG,H.REN,H.WU,Y.ZHAO,M.SCHAPIRA,G.WASNEY,M.VEDADI,J.LEW, AUTHOR 2 I.KOZIERADZKI,A.M.EDWARDS,C.H.ARROWSMITH,J.WEIGELT,M.SUNDSTROM, AUTHOR 3 A.N.PLOTNIKOV,A.BOCHKAREV,R.HUI,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 4 30-AUG-23 3B7P 1 REMARK SEQADV REVDAT 3 13-JUL-11 3B7P 1 VERSN REVDAT 2 24-FEB-09 3B7P 1 VERSN REVDAT 1 20-NOV-07 3B7P 0 JRNL AUTH W.QIU,A.DONG,H.REN,H.WU,Y.ZHAO,M.SCHAPIRA,G.WASNEY,M.VEDADI, JRNL AUTH 2 J.LEW,I.KOZIERADZKI,A.M.EDWARDS,C.H.ARROWSMITH,J.WEIGELT, JRNL AUTH 3 M.SUNDSTROM,A.N.PLOTNIKOV,A.BOCHKAREV,R.HUI JRNL TITL CRYSTAL STRUCTURE OF SPERMIDINE SYNTHASE FROM PLASMODIUM JRNL TITL 2 FALCIPARUM IN COMPLEX WITH SPERMINE. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.44 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 80454 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) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4239 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5580 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.95 REMARK 3 BIN R VALUE (WORKING SET) : 0.3490 REMARK 3 BIN FREE R VALUE SET COUNT : 303 REMARK 3 BIN FREE R VALUE : 0.4010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6753 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 102 REMARK 3 SOLVENT ATOMS : 574 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : -0.05000 REMARK 3 B33 (A**2) : -0.06000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.06000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.167 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.155 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.128 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.724 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7080 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9578 ; 1.325 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 865 ; 6.343 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 301 ;40.081 ;25.814 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1297 ;14.082 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;22.620 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1065 ; 0.095 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5191 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3412 ; 0.196 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4897 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 476 ; 0.131 ; 0.200 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): 61 ; 0.160 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 0.099 ; 0.200 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): 4372 ; 0.662 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6910 ; 1.124 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3146 ; 1.657 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2656 ; 2.511 ; 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 : 1.40 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 3B7P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000045182. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-MAY-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 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 FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 84798 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.6700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.47200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.210 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: PDB ENTRY 2PWP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% W/V PEG 3350, 0.1M AMMONIUM REMARK 280 SULFATE, 0.1M BIS-TRIS, PH 5.5, VAPOR DIFFUSION, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 99.74150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 67.29200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 99.74150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 67.29200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2900 ANGSTROM**2 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 -1.000000 0.000000 0.000000 -5.35819 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 48.07231 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 2910 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 573 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 GLY A 39 REMARK 465 SER A 40 REMARK 465 GLY B 39 REMARK 465 SER B 40 REMARK 465 ILE B 321 REMARK 465 GLY C 39 REMARK 465 SER C 40 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS B 70 CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 LYS B 70 CG LYS B 70 CD 0.501 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LYS B 70 CB - CG - CD ANGL. DEV. = -16.0 DEGREES REMARK 500 LYS B 70 CG - CD - CE ANGL. DEV. = 23.2 DEGREES 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 ASP A 196 68.80 -100.07 REMARK 500 GLU A 231 -166.87 -56.67 REMARK 500 LEU A 250 -43.23 -132.88 REMARK 500 TYR A 298 -61.43 -130.90 REMARK 500 ASP B 196 71.99 -109.63 REMARK 500 SER B 198 -176.98 -69.00 REMARK 500 ILE B 235 -60.02 -103.22 REMARK 500 CYS B 266 -3.71 83.01 REMARK 500 TYR B 298 -59.17 -134.60 REMARK 500 PHE C 160 54.14 -140.39 REMARK 500 GLU C 177 147.15 -170.14 REMARK 500 PHE C 208 52.61 -114.92 REMARK 500 CYS C 230 40.73 -146.42 REMARK 500 GLU C 231 -173.06 71.04 REMARK 500 CYS C 266 -2.55 76.29 REMARK 500 TYR C 298 -61.98 -132.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SPM A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SPM B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SPM C 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA C 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HTE RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH 5'-METHYLTHIOADENOSINE REMARK 900 RELATED ID: 2I7C RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH AN INHIBITOR, ADODATO REMARK 900 RELATED ID: 2PWP RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH SPERMIDINE DBREF 3B7P A 40 321 UNP Q8II73 Q8II73_PLAF7 40 321 DBREF 3B7P B 40 321 UNP Q8II73 Q8II73_PLAF7 40 321 DBREF 3B7P C 40 321 UNP Q8II73 Q8II73_PLAF7 40 321 SEQADV 3B7P GLY A 39 UNP Q8II73 EXPRESSION TAG SEQADV 3B7P GLY B 39 UNP Q8II73 EXPRESSION TAG SEQADV 3B7P GLY C 39 UNP Q8II73 EXPRESSION TAG SEQRES 1 A 283 GLY SER LYS LYS TRP PHE SER GLU PHE SER ILE MET TRP SEQRES 2 A 283 PRO GLY GLN ALA PHE SER LEU LYS ILE LYS LYS ILE LEU SEQRES 3 A 283 TYR GLU THR LYS SER LYS TYR GLN ASN VAL LEU VAL PHE SEQRES 4 A 283 GLU SER THR THR TYR GLY LYS VAL LEU VAL LEU ASP GLY SEQRES 5 A 283 VAL ILE GLN LEU THR GLU LYS ASP GLU PHE ALA TYR HIS SEQRES 6 A 283 GLU MET MET THR HIS VAL PRO MET THR VAL SER LYS GLU SEQRES 7 A 283 PRO LYS ASN VAL LEU VAL VAL GLY GLY GLY ASP GLY GLY SEQRES 8 A 283 ILE ILE ARG GLU LEU CYS LYS TYR LYS SER VAL GLU ASN SEQRES 9 A 283 ILE ASP ILE CYS GLU ILE ASP GLU THR VAL ILE GLU VAL SEQRES 10 A 283 SER LYS ILE TYR PHE LYS ASN ILE SER CYS GLY TYR GLU SEQRES 11 A 283 ASP LYS ARG VAL ASN VAL PHE ILE GLU ASP ALA SER LYS SEQRES 12 A 283 PHE LEU GLU ASN VAL THR ASN THR TYR ASP VAL ILE ILE SEQRES 13 A 283 VAL ASP SER SER ASP PRO ILE GLY PRO ALA GLU THR LEU SEQRES 14 A 283 PHE ASN GLN ASN PHE TYR GLU LYS ILE TYR ASN ALA LEU SEQRES 15 A 283 LYS PRO ASN GLY TYR CYS VAL ALA GLN CYS GLU SER LEU SEQRES 16 A 283 TRP ILE HIS VAL GLY THR ILE LYS ASN MET ILE GLY TYR SEQRES 17 A 283 ALA LYS LYS LEU PHE LYS LYS VAL GLU TYR ALA ASN ILE SEQRES 18 A 283 SER ILE PRO THR TYR PRO CYS GLY CYS ILE GLY ILE LEU SEQRES 19 A 283 CYS CYS SER LYS THR ASP THR GLY LEU THR LYS PRO ASN SEQRES 20 A 283 LYS LYS LEU GLU SER LYS GLU PHE ALA ASP LEU LYS TYR SEQRES 21 A 283 TYR ASN TYR GLU ASN HIS SER ALA ALA PHE LYS LEU PRO SEQRES 22 A 283 ALA PHE LEU LEU LYS GLU ILE GLU ASN ILE SEQRES 1 B 283 GLY SER LYS LYS TRP PHE SER GLU PHE SER ILE MET TRP SEQRES 2 B 283 PRO GLY GLN ALA PHE SER LEU LYS ILE LYS LYS ILE LEU SEQRES 3 B 283 TYR GLU THR LYS SER LYS TYR GLN ASN VAL LEU VAL PHE SEQRES 4 B 283 GLU SER THR THR TYR GLY LYS VAL LEU VAL LEU ASP GLY SEQRES 5 B 283 VAL ILE GLN LEU THR GLU LYS ASP GLU PHE ALA TYR HIS SEQRES 6 B 283 GLU MET MET THR HIS VAL PRO MET THR VAL SER LYS GLU SEQRES 7 B 283 PRO LYS ASN VAL LEU VAL VAL GLY GLY GLY ASP GLY GLY SEQRES 8 B 283 ILE ILE ARG GLU LEU CYS LYS TYR LYS SER VAL GLU ASN SEQRES 9 B 283 ILE ASP ILE CYS GLU ILE ASP GLU THR VAL ILE GLU VAL SEQRES 10 B 283 SER LYS ILE TYR PHE LYS ASN ILE SER CYS GLY TYR GLU SEQRES 11 B 283 ASP LYS ARG VAL ASN VAL PHE ILE GLU ASP ALA SER LYS SEQRES 12 B 283 PHE LEU GLU ASN VAL THR ASN THR TYR ASP VAL ILE ILE SEQRES 13 B 283 VAL ASP SER SER ASP PRO ILE GLY PRO ALA GLU THR LEU SEQRES 14 B 283 PHE ASN GLN ASN PHE TYR GLU LYS ILE TYR ASN ALA LEU SEQRES 15 B 283 LYS PRO ASN GLY TYR CYS VAL ALA GLN CYS GLU SER LEU SEQRES 16 B 283 TRP ILE HIS VAL GLY THR ILE LYS ASN MET ILE GLY TYR SEQRES 17 B 283 ALA LYS LYS LEU PHE LYS LYS VAL GLU TYR ALA ASN ILE SEQRES 18 B 283 SER ILE PRO THR TYR PRO CYS GLY CYS ILE GLY ILE LEU SEQRES 19 B 283 CYS CYS SER LYS THR ASP THR GLY LEU THR LYS PRO ASN SEQRES 20 B 283 LYS LYS LEU GLU SER LYS GLU PHE ALA ASP LEU LYS TYR SEQRES 21 B 283 TYR ASN TYR GLU ASN HIS SER ALA ALA PHE LYS LEU PRO SEQRES 22 B 283 ALA PHE LEU LEU LYS GLU ILE GLU ASN ILE SEQRES 1 C 283 GLY SER LYS LYS TRP PHE SER GLU PHE SER ILE MET TRP SEQRES 2 C 283 PRO GLY GLN ALA PHE SER LEU LYS ILE LYS LYS ILE LEU SEQRES 3 C 283 TYR GLU THR LYS SER LYS TYR GLN ASN VAL LEU VAL PHE SEQRES 4 C 283 GLU SER THR THR TYR GLY LYS VAL LEU VAL LEU ASP GLY SEQRES 5 C 283 VAL ILE GLN LEU THR GLU LYS ASP GLU PHE ALA TYR HIS SEQRES 6 C 283 GLU MET MET THR HIS VAL PRO MET THR VAL SER LYS GLU SEQRES 7 C 283 PRO LYS ASN VAL LEU VAL VAL GLY GLY GLY ASP GLY GLY SEQRES 8 C 283 ILE ILE ARG GLU LEU CYS LYS TYR LYS SER VAL GLU ASN SEQRES 9 C 283 ILE ASP ILE CYS GLU ILE ASP GLU THR VAL ILE GLU VAL SEQRES 10 C 283 SER LYS ILE TYR PHE LYS ASN ILE SER CYS GLY TYR GLU SEQRES 11 C 283 ASP LYS ARG VAL ASN VAL PHE ILE GLU ASP ALA SER LYS SEQRES 12 C 283 PHE LEU GLU ASN VAL THR ASN THR TYR ASP VAL ILE ILE SEQRES 13 C 283 VAL ASP SER SER ASP PRO ILE GLY PRO ALA GLU THR LEU SEQRES 14 C 283 PHE ASN GLN ASN PHE TYR GLU LYS ILE TYR ASN ALA LEU SEQRES 15 C 283 LYS PRO ASN GLY TYR CYS VAL ALA GLN CYS GLU SER LEU SEQRES 16 C 283 TRP ILE HIS VAL GLY THR ILE LYS ASN MET ILE GLY TYR SEQRES 17 C 283 ALA LYS LYS LEU PHE LYS LYS VAL GLU TYR ALA ASN ILE SEQRES 18 C 283 SER ILE PRO THR TYR PRO CYS GLY CYS ILE GLY ILE LEU SEQRES 19 C 283 CYS CYS SER LYS THR ASP THR GLY LEU THR LYS PRO ASN SEQRES 20 C 283 LYS LYS LEU GLU SER LYS GLU PHE ALA ASP LEU LYS TYR SEQRES 21 C 283 TYR ASN TYR GLU ASN HIS SER ALA ALA PHE LYS LEU PRO SEQRES 22 C 283 ALA PHE LEU LEU LYS GLU ILE GLU ASN ILE HET SPM A 501 14 HET MTA A 401 20 HET SPM B 502 14 HET MTA B 402 20 HET SPM C 503 14 HET MTA C 403 20 HETNAM SPM SPERMINE HETNAM MTA 5'-DEOXY-5'-METHYLTHIOADENOSINE FORMUL 4 SPM 3(C10 H26 N4) FORMUL 5 MTA 3(C11 H15 N5 O3 S) FORMUL 10 HOH *574(H2 O) HELIX 1 1 ASP A 98 SER A 114 1 17 HELIX 2 2 GLY A 128 CYS A 135 1 8 HELIX 3 3 ASP A 149 PHE A 160 1 12 HELIX 4 4 SER A 164 ASP A 169 5 6 HELIX 5 5 ASP A 178 VAL A 186 1 9 HELIX 6 6 GLY A 202 PHE A 208 5 7 HELIX 7 7 ASN A 209 ALA A 219 1 11 HELIX 8 8 HIS A 236 LYS A 249 1 14 HELIX 9 9 TYR A 264 CYS A 266 5 3 HELIX 10 10 SER A 290 ALA A 294 5 5 HELIX 11 11 ASN A 300 ALA A 307 1 8 HELIX 12 12 PRO A 311 GLU A 319 1 9 HELIX 13 13 ASP B 98 THR B 112 1 15 HELIX 14 14 GLY B 128 CYS B 135 1 8 HELIX 15 15 ASP B 149 PHE B 160 1 12 HELIX 16 16 PHE B 160 CYS B 165 1 6 HELIX 17 17 GLY B 166 ASP B 169 5 4 HELIX 18 18 ASP B 178 LEU B 183 1 6 HELIX 19 19 GLY B 202 PHE B 208 5 7 HELIX 20 20 ASN B 209 ALA B 219 1 11 HELIX 21 21 HIS B 236 LYS B 249 1 14 HELIX 22 22 TYR B 264 CYS B 266 5 3 HELIX 23 23 SER B 290 ALA B 294 5 5 HELIX 24 24 ASN B 300 ALA B 307 1 8 HELIX 25 25 PRO B 311 ASN B 320 1 10 HELIX 26 26 ASP C 98 SER C 114 1 17 HELIX 27 27 GLY C 128 LYS C 136 1 9 HELIX 28 28 ASP C 149 PHE C 160 1 12 HELIX 29 29 SER C 164 ASP C 169 5 6 HELIX 30 30 ASP C 178 LEU C 183 1 6 HELIX 31 31 GLY C 202 PHE C 208 5 7 HELIX 32 32 ASN C 209 ALA C 219 1 11 HELIX 33 33 HIS C 236 LYS C 249 1 14 HELIX 34 34 TYR C 264 CYS C 266 5 3 HELIX 35 35 SER C 290 ALA C 294 5 5 HELIX 36 36 ASN C 300 ALA C 307 1 8 HELIX 37 37 PRO C 311 GLU C 319 1 9 SHEET 1 A 5 TRP A 43 GLU A 46 0 SHEET 2 A 5 PHE A 56 LYS A 68 -1 O LEU A 58 N PHE A 44 SHEET 3 A 5 ASN A 73 SER A 79 -1 O GLU A 78 N LYS A 62 SHEET 4 A 5 LYS A 84 LEU A 88 -1 O VAL A 87 N LEU A 75 SHEET 5 A 5 VAL A 91 THR A 95 -1 O GLN A 93 N LEU A 86 SHEET 1 B 7 VAL A 172 ILE A 176 0 SHEET 2 B 7 ASN A 142 GLU A 147 1 N ILE A 143 O ASN A 173 SHEET 3 B 7 ASN A 119 GLY A 124 1 N GLY A 124 O CYS A 146 SHEET 4 B 7 TYR A 190 ASP A 196 1 O ILE A 194 N VAL A 123 SHEET 5 B 7 LEU A 220 CYS A 230 1 O VAL A 227 N VAL A 195 SHEET 6 B 7 CYS A 268 SER A 275 -1 O CYS A 274 N CYS A 226 SHEET 7 B 7 LYS A 253 SER A 260 -1 N GLU A 255 O CYS A 273 SHEET 1 C 4 TRP B 43 GLU B 46 0 SHEET 2 C 4 GLN B 54 LYS B 68 -1 O PHE B 56 N GLU B 46 SHEET 3 C 4 GLN C 54 LYS C 68 -1 O ALA C 55 N SER B 57 SHEET 4 C 4 TRP C 43 GLU C 46 -1 N PHE C 44 O LEU C 58 SHEET 1 D 8 VAL B 91 THR B 95 0 SHEET 2 D 8 LYS B 84 LEU B 88 -1 N LEU B 86 O GLN B 93 SHEET 3 D 8 ASN B 73 SER B 79 -1 N LEU B 75 O VAL B 87 SHEET 4 D 8 GLN B 54 LYS B 68 -1 N LEU B 64 O VAL B 76 SHEET 5 D 8 GLN C 54 LYS C 68 -1 O ALA C 55 N SER B 57 SHEET 6 D 8 ASN C 73 SER C 79 -1 O VAL C 74 N THR C 67 SHEET 7 D 8 LYS C 84 LEU C 88 -1 O VAL C 87 N LEU C 75 SHEET 8 D 8 VAL C 91 THR C 95 -1 O GLN C 93 N LEU C 86 SHEET 1 E 7 VAL B 172 ILE B 176 0 SHEET 2 E 7 ASN B 142 GLU B 147 1 N ILE B 145 O PHE B 175 SHEET 3 E 7 ASN B 119 GLY B 124 1 N GLY B 124 O CYS B 146 SHEET 4 E 7 TYR B 190 ASP B 196 1 O ASP B 191 N ASN B 119 SHEET 5 E 7 LEU B 220 CYS B 230 1 O VAL B 227 N VAL B 195 SHEET 6 E 7 CYS B 268 SER B 275 -1 O LEU B 272 N ALA B 228 SHEET 7 E 7 LYS B 253 SER B 260 -1 N GLU B 255 O CYS B 273 SHEET 1 F 7 VAL C 172 ILE C 176 0 SHEET 2 F 7 ASN C 142 GLU C 147 1 N ILE C 143 O ASN C 173 SHEET 3 F 7 ASN C 119 GLY C 124 1 N GLY C 124 O CYS C 146 SHEET 4 F 7 TYR C 190 ASP C 196 1 O ILE C 194 N VAL C 123 SHEET 5 F 7 LEU C 220 GLN C 229 1 O VAL C 227 N VAL C 195 SHEET 6 F 7 CYS C 268 SER C 275 -1 O CYS C 274 N CYS C 226 SHEET 7 F 7 LYS C 253 SER C 260 -1 N ALA C 257 O ILE C 271 SITE 1 AC1 15 TRP A 51 GLN A 93 TYR A 102 HIS A 103 SITE 2 AC1 15 ASP A 127 ASP A 196 SER A 197 ASP A 199 SITE 3 AC1 15 GLN A 229 GLU A 231 TYR A 264 PRO A 265 SITE 4 AC1 15 ILE A 269 MTA A 401 HOH A 631 SITE 1 AC2 13 TRP B 51 GLN B 93 TYR B 102 HIS B 103 SITE 2 AC2 13 ASP B 127 ASP B 196 SER B 197 ASP B 199 SITE 3 AC2 13 GLN B 229 GLU B 231 TYR B 264 MTA B 402 SITE 4 AC2 13 HOH B 548 SITE 1 AC3 16 TRP C 51 GLN C 93 TYR C 102 HIS C 103 SITE 2 AC3 16 ASP C 127 ASP C 196 SER C 197 ASP C 199 SITE 3 AC3 16 GLU C 231 SER C 232 TYR C 264 PRO C 265 SITE 4 AC3 16 CYS C 268 ILE C 269 MTA C 403 HOH C 611 SITE 1 AC4 20 GLN A 72 GLN A 93 GLY A 124 GLY A 125 SITE 2 AC4 20 ASP A 127 CYS A 146 GLU A 147 ILE A 148 SITE 3 AC4 20 ASP A 149 VAL A 152 GLU A 177 ASP A 178 SITE 4 AC4 20 ALA A 179 ASP A 196 SER A 198 PRO A 203 SITE 5 AC4 20 ALA A 204 THR A 206 LEU A 207 SPM A 501 SITE 1 AC5 21 GLN B 72 LEU B 88 GLN B 93 GLY B 124 SITE 2 AC5 21 GLY B 125 ASP B 127 CYS B 146 GLU B 147 SITE 3 AC5 21 ILE B 148 ASP B 149 VAL B 152 ASP B 178 SITE 4 AC5 21 ALA B 179 ASP B 196 SER B 197 SER B 198 SITE 5 AC5 21 PRO B 203 ALA B 204 THR B 206 LEU B 207 SITE 6 AC5 21 SPM B 502 SITE 1 AC6 18 GLN C 72 LEU C 88 GLN C 93 GLY C 124 SITE 2 AC6 18 ASP C 127 CYS C 146 GLU C 147 ILE C 148 SITE 3 AC6 18 ASP C 149 VAL C 152 ASP C 178 ALA C 179 SITE 4 AC6 18 ASP C 196 SER C 198 PRO C 203 ALA C 204 SITE 5 AC6 18 THR C 206 SPM C 503 CRYST1 199.483 134.584 48.370 90.00 96.36 90.00 C 1 2 1 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 0.005013 0.000000 0.000558 0.00000 SCALE2 0.000000 0.007430 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020802 0.00000