HEADER TRANSFERASE 20-AUG-08 3E8S TITLE CRYSTAL STRUCTURE OF PUTATIVE SAM DEPENDENT METHYLTRANSFERASE IN TITLE 2 COMPLEX WITH SAH (NP_744700.1) FROM PSEUDOMONAS PUTIDA KT2440 AT 2.10 TITLE 3 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE SAM DEPENDENT METHYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA KT2440; SOURCE 3 ORGANISM_TAXID: 160488; SOURCE 4 GENE: NP_744700.1, PP2555, PP_2555; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS NP_744700.1, PUTATIVE SAM DEPENDENT METHYLTRANSFERASE IN COMPLEX WITH KEYWDS 2 SAH, STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, KEYWDS 3 JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, METHYLTRANSFERASE DOMAIN, KEYWDS 4 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3E8S 1 REMARK SEQADV REVDAT 5 24-JUL-19 3E8S 1 REMARK LINK REVDAT 4 25-OCT-17 3E8S 1 REMARK REVDAT 3 13-JUL-11 3E8S 1 VERSN REVDAT 2 24-FEB-09 3E8S 1 VERSN REVDAT 1 02-SEP-08 3E8S 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE SAM DEPENDENT JRNL TITL 2 METHYLTRANSFERASE IN COMPLEX WITH SAH (NP_744700.1) FROM JRNL TITL 3 PSEUDOMONAS PUTIDA KT2440 AT 2.10 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 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 WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.24 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 31072 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) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.176 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1568 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2180 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2190 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.2370 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1699 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 219 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 38.34 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.63000 REMARK 3 B22 (A**2) : -1.63000 REMARK 3 B33 (A**2) : 2.45000 REMARK 3 B12 (A**2) : -0.82000 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): 0.103 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.098 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.066 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.465 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.963 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1824 ; 0.017 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1185 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2502 ; 1.637 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2882 ; 1.000 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 233 ; 3.779 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 87 ;38.910 ;24.023 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 272 ;10.759 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;18.651 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 273 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2097 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 371 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 325 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1295 ; 0.202 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 846 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 917 ; 0.087 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 160 ; 0.178 ; 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): 8 ; 0.235 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 26 ; 0.323 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.175 ; 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): 1233 ; 2.364 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 463 ; 0.550 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1800 ; 3.079 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 785 ; 5.234 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 699 ; 7.107 ;11.000 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 8 A 224 REMARK 3 ORIGIN FOR THE GROUP (A): 66.0444 17.9875 11.4044 REMARK 3 T TENSOR REMARK 3 T11: -0.1245 T22: -0.1769 REMARK 3 T33: -0.1203 T12: -0.0010 REMARK 3 T13: 0.0182 T23: 0.0109 REMARK 3 L TENSOR REMARK 3 L11: 0.9196 L22: 3.2167 REMARK 3 L33: 1.3997 L12: -0.2294 REMARK 3 L13: 0.0186 L23: 0.0718 REMARK 3 S TENSOR REMARK 3 S11: 0.0583 S12: -0.0152 S13: -0.1171 REMARK 3 S21: 0.0133 S22: -0.1081 S23: 0.0164 REMARK 3 S31: 0.1266 S32: 0.0104 S33: 0.0498 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 3 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. REMARK 3 4. 0.001 M S-ADENOSYL-METHIONINE (SAM) WAS ADDED DURING REMARK 3 CRYSTALLIZATION, BUT ELECTRON DENSITY AT THE PUTATIVE ACTIVE SITE REMARK 3 SUPPORTS THE MODELING OF S-ADENOSYL-HOMOCYSTEINE (SAH). THIS COULD REMARK 3 BE DUE TO DEMETHYLATION OF THE SAM OR CO-PURIFICATION OF NATIVE REMARK 3 SAH. REMARK 4 REMARK 4 3E8S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-AUG-08. REMARK 100 THE DEPOSITION ID IS D_1000049018. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-AUG-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837,0.97920,0.97845 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31089 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 28.239 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.0390 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.52100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, AUTOSHARP, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 76.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.6M SODIUM FORMATE, 10.0% GLYCEROL, REMARK 280 ADDITIVE 0.001 M S-ADENOSYLMETHIONINE (SAM), VAPOR DIFFUSION, REMARK 280 SITTING DROP,NANODROP, TEMPERATURE 277K, VAPOR DIFFUSION, REMARK 280 SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 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 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 18.14367 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 36.28733 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 18.14367 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 36.28733 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: 1310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 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 -1.000000 0.000000 0.000000 130.43300 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 CD2 TRP A 155 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 0 REMARK 465 MSE A 1 REMARK 465 GLU A 2 REMARK 465 PRO A 3 REMARK 465 ILE A 4 REMARK 465 MSE A 5 REMARK 465 ARG A 6 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 LYS A 109 CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O GLY A 93 O HOH A 499 2.05 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 ARG A 186 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 186 NE - CZ - NH2 ANGL. DEV. = -3.6 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 VAL A 38 -52.53 -142.87 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 SAH A 300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 381657 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3E8S A 1 226 UNP Q88JU2 Q88JU2_PSEPK 1 226 SEQADV 3E8S GLY A 0 UNP Q88JU2 EXPRESSION TAG SEQRES 1 A 227 GLY MSE GLU PRO ILE MSE ARG ASN PRO GLU ASP ALA LEU SEQRES 2 A 227 LEU ASP SER TRP HIS GLN ASN ALA GLN ALA TRP ILE ASP SEQRES 3 A 227 ALA VAL ARG HIS GLY ALA ILE GLU SER ARG ARG GLN VAL SEQRES 4 A 227 THR ASP GLN ALA ILE LEU LEU ALA ILE LEU GLY ARG GLN SEQRES 5 A 227 PRO GLU ARG VAL LEU ASP LEU GLY CYS GLY GLU GLY TRP SEQRES 6 A 227 LEU LEU ARG ALA LEU ALA ASP ARG GLY ILE GLU ALA VAL SEQRES 7 A 227 GLY VAL ASP GLY ASP ARG THR LEU VAL ASP ALA ALA ARG SEQRES 8 A 227 ALA ALA GLY ALA GLY GLU VAL HIS LEU ALA SER TYR ALA SEQRES 9 A 227 GLN LEU ALA GLU ALA LYS VAL PRO VAL GLY LYS ASP TYR SEQRES 10 A 227 ASP LEU ILE CYS ALA ASN PHE ALA LEU LEU HIS GLN ASP SEQRES 11 A 227 ILE ILE GLU LEU LEU SER ALA MSE ARG THR LEU LEU VAL SEQRES 12 A 227 PRO GLY GLY ALA LEU VAL ILE GLN THR LEU HIS PRO TRP SEQRES 13 A 227 SER VAL ALA ASP GLY ASP TYR GLN ASP GLY TRP ARG GLU SEQRES 14 A 227 GLU SER PHE ALA GLY PHE ALA GLY ASP TRP GLN PRO MSE SEQRES 15 A 227 PRO TRP TYR PHE ARG THR LEU ALA SER TRP LEU ASN ALA SEQRES 16 A 227 LEU ASP MSE ALA GLY LEU ARG LEU VAL SER LEU GLN GLU SEQRES 17 A 227 PRO GLN HIS PRO GLN SER ALA VAL PRO GLN SER LEU LEU SEQRES 18 A 227 MSE VAL ALA GLU ARG HIS MODRES 3E8S MSE A 137 MET SELENOMETHIONINE MODRES 3E8S MSE A 181 MET SELENOMETHIONINE MODRES 3E8S MSE A 197 MET SELENOMETHIONINE MODRES 3E8S MSE A 221 MET SELENOMETHIONINE HET MSE A 137 8 HET MSE A 181 8 HET MSE A 197 8 HET MSE A 221 8 HET SAH A 300 26 HETNAM MSE SELENOMETHIONINE HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 SAH C14 H20 N6 O5 S FORMUL 3 HOH *219(H2 O) HELIX 1 1 ASN A 7 HIS A 29 1 23 HELIX 2 2 ILE A 32 VAL A 38 1 7 HELIX 3 3 VAL A 38 ARG A 50 1 13 HELIX 4 4 GLY A 63 ASP A 71 1 9 HELIX 5 5 ASP A 82 ALA A 92 1 11 HELIX 6 6 SER A 101 GLU A 107 1 7 HELIX 7 7 ILE A 130 LEU A 140 1 11 HELIX 8 8 THR A 187 ALA A 198 1 12 SHEET 1 A 7 VAL A 97 LEU A 99 0 SHEET 2 A 7 GLU A 75 ASP A 80 1 N GLY A 78 O HIS A 98 SHEET 3 A 7 ARG A 54 LEU A 58 1 N VAL A 55 O VAL A 77 SHEET 4 A 7 TYR A 116 ASN A 122 1 O CYS A 120 N LEU A 58 SHEET 5 A 7 LEU A 141 THR A 151 1 O VAL A 148 N ILE A 119 SHEET 6 A 7 LEU A 219 ARG A 225 -1 O ALA A 223 N LEU A 147 SHEET 7 A 7 LEU A 200 GLN A 206 -1 N GLN A 206 O LEU A 220 SHEET 1 B 2 GLY A 165 GLU A 169 0 SHEET 2 B 2 MSE A 181 PHE A 185 -1 O MSE A 181 N GLU A 169 LINK C ALA A 136 N MSE A 137 1555 1555 1.33 LINK C MSE A 137 N ARG A 138 1555 1555 1.32 LINK C PRO A 180 N MSE A 181 1555 1555 1.33 LINK C MSE A 181 N PRO A 182 1555 1555 1.35 LINK C ASP A 196 N MSE A 197 1555 1555 1.32 LINK C MSE A 197 N ALA A 198 1555 1555 1.34 LINK C LEU A 220 N MSE A 221 1555 1555 1.33 LINK C MSE A 221 N VAL A 222 1555 1555 1.32 SITE 1 AC1 23 LEU A 13 TRP A 16 TRP A 23 ARG A 35 SITE 2 AC1 23 GLY A 59 CYS A 60 GLY A 61 TRP A 64 SITE 3 AC1 23 ASP A 80 GLY A 81 LEU A 85 ALA A 100 SITE 4 AC1 23 SER A 101 TYR A 102 ASN A 122 PHE A 123 SITE 5 AC1 23 HOH A 301 HOH A 302 HOH A 307 HOH A 308 SITE 6 AC1 23 HOH A 423 HOH A 500 HOH A 501 CRYST1 130.433 130.433 54.431 90.00 90.00 120.00 P 64 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 0.007667 0.004426 0.000000 0.00000 SCALE2 0.000000 0.008853 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018372 0.00000