10 20 30 40 50 60 70 80 3C3Y - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 29-JAN-08 3C3Y
TITLE CRYSTAL STRUCTURE OF PFOMT, PHENYLPROPANOID AND FLAVONOID O- TITLE 2 METHYLTRANSFERASE FROM M. CRYSTALLINUM
COMPND MOL_ID: 1; COMPND 2 MOLECULE: O-METHYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PFOMT; COMPND 5 EC: 2.1.1.104; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MESEMBRYANTHEMUM CRYSTALLINUM; SOURCE 3 ORGANISM_COMMON: COMMON ICEPLANT; SOURCE 4 ORGANISM_TAXID: 3544; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: M15 PREP4; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PQE30
KEYWDS PLANT SECONDARY METABOLISM, O-METHYLTRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR J.G.KOPYCKI,D.RAUH,P.NEUMANN,M.T.STUBBS
REVDAT 3 24-FEB-09 3C3Y 1 VERSN REVDAT 2 08-APR-08 3C3Y 1 JRNL REVDAT 1 01-APR-08 3C3Y 0
JRNL AUTH J.G.KOPYCKI,D.RAUH,A.A.CHUMANEVICH,P.NEUMANN, JRNL AUTH 2 T.VOGT,M.T.STUBBS JRNL TITL BIOCHEMICAL AND STRUCTURAL ANALYSIS OF SUBSTRATE JRNL TITL 2 PROMISCUITY IN PLANT MG(2+)-DEPENDENT JRNL TITL 3 O-METHYLTRANSFERASES JRNL REF J.MOL.BIOL. V. 378 154 2008 JRNL REFN ISSN 0022-2836 JRNL PMID 18342334 JRNL DOI 10.1016/J.JMB.2008.02.019
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 1.37 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0062 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.37 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 94023 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.300 REMARK 3 FREE R VALUE TEST SET COUNT : 4041 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) : 1.37 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6165 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE SET COUNT : 277 REMARK 3 BIN FREE R VALUE : 0.2790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3577 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.18 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.31000 REMARK 3 B22 (A**2) : -0.73000 REMARK 3 B33 (A**2) : -1.59000 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): 0.073 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.066 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.046 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.572 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3700 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5015 ; 1.260 ; 2.003 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 454 ; 5.353 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 165 ;38.998 ;24.424 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 645 ;11.389 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;17.254 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 563 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2783 ; 0.007 ; 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): 2264 ; 1.455 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3648 ; 2.145 ; 3.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1436 ; 1.634 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1367 ; 2.363 ; 3.000 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 3700 ; 1.323 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 484 ; 4.543 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3623 ; 4.513 ; 3.000 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 3C3Y COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-FEB-08. REMARK 100 THE RCSB ID CODE IS RCSB046310.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAY-04; 20-MAY-04 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG; MPG/DESY, REMARK 200 HAMBURG REMARK 200 BEAMLINE : BW6; BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 1.05; 0.97905 0.9500 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111); REMARK 200 NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH; MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 94082 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.370 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 4.677 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : 0.06900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.8800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.37 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.39700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 4000, 0.2M CACL2, 100MM REMARK 280 HEPES/NAOH, PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 298K
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 24.44500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.06000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.91500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.06000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.44500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.91500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -58.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000
REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ASP A 2 REMARK 465 PHE A 3 REMARK 465 ALA A 4 REMARK 465 VAL A 5 REMARK 465 MET A 6 REMARK 465 LYS A 7 REMARK 465 GLN A 8 REMARK 465 VAL A 9 REMARK 465 LYS A 10 REMARK 465 ASN A 11 REMARK 465 THR A 12 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 PHE B 3 REMARK 465 ALA B 4 REMARK 465 VAL B 5 REMARK 465 MET B 6 REMARK 465 LYS B 7 REMARK 465 GLN B 8 REMARK 465 VAL B 9 REMARK 465 LYS B 10 REMARK 465 ASN B 11 REMARK 465 THR B 12
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 GLU A 194 CD OE1 OE2 REMARK 480 GLU B 143 CD OE1 OE2
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 GLU A 194 CG GLU A 194 CD -0.091 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 LEU A 14 -162.77 -125.46 REMARK 500 VAL A 29 -61.50 -102.45 REMARK 500 PHE A 80 -131.64 52.28 REMARK 500 ASP A 154 36.68 -148.24 REMARK 500 ALA A 155 -136.04 -98.19 REMARK 500 TRP A 184 66.26 31.28 REMARK 500 VAL B 29 -60.17 -103.86 REMARK 500 PHE B 80 -131.09 51.08 REMARK 500 ASP B 154 39.37 -148.28 REMARK 500 ALA B 155 -133.11 -102.69 REMARK 500 TRP B 184 68.08 32.71 REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 647 DISTANCE = 5.14 ANGSTROMS REMARK 525 HOH B 701 DISTANCE = 5.19 ANGSTROMS
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 CA A 239 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 106 OE2 REMARK 620 2 GLU A 109 OE1 86.2 REMARK 620 3 HOH A 700 O 89.2 93.3 REMARK 620 4 HOH A 703 O 101.8 85.0 168.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 238 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 154 OD1 REMARK 620 2 ASP A 154 OD2 52.3 REMARK 620 3 ASP A 180 OD2 96.1 92.0 REMARK 620 4 ASN A 181 OD1 77.5 129.3 85.7 REMARK 620 5 HOH A 693 O 155.1 144.1 100.6 85.4 REMARK 620 6 HOH A 470 O 126.8 74.5 82.4 153.9 74.1 REMARK 620 7 HOH A 694 O 78.1 91.7 169.0 83.9 82.2 108.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 238 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 154 OD1 REMARK 620 2 ASP B 154 OD2 53.2 REMARK 620 3 ASP B 180 OD2 97.6 92.0 REMARK 620 4 ASN B 181 OD1 76.5 129.1 87.0 REMARK 620 5 HOH B 696 O 127.8 74.7 86.0 155.4 REMARK 620 6 HOH B 695 O 151.2 145.3 102.0 83.7 74.8 REMARK 620 7 HOH B 694 O 79.1 92.5 171.1 84.2 102.6 78.3 REMARK 620 N 1 2 3 4 5 6
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 238 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 239 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 238 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH A 464 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH B 465
DBREF 3C3Y A 1 237 UNP Q6YI95 Q6YI95_MESCR 1 237 DBREF 3C3Y B 1 237 UNP Q6YI95 Q6YI95_MESCR 1 237
SEQRES 1 A 237 MET ASP PHE ALA VAL MET LYS GLN VAL LYS ASN THR GLY SEQRES 2 A 237 LEU LEU GLN SER GLU GLU LEU CYS GLN TYR ILE LEU ARG SEQRES 3 A 237 THR SER VAL TYR PRO ARG GLU ALA GLY PHE LEU LYS GLU SEQRES 4 A 237 LEU ARG GLU ALA ASN GLU SER HIS PRO ASP SER TYR MET SEQRES 5 A 237 SER THR SER PRO LEU ALA GLY GLN LEU MET SER PHE VAL SEQRES 6 A 237 LEU LYS LEU VAL ASN ALA LYS LYS THR ILE GLU VAL GLY SEQRES 7 A 237 VAL PHE THR GLY TYR SER LEU LEU LEU THR ALA LEU SER SEQRES 8 A 237 ILE PRO ASP ASP GLY LYS ILE THR ALA ILE ASP PHE ASP SEQRES 9 A 237 ARG GLU ALA TYR GLU ILE GLY LEU PRO PHE ILE ARG LYS SEQRES 10 A 237 ALA GLY VAL GLU HIS LYS ILE ASN PHE ILE GLU SER ASP SEQRES 11 A 237 ALA MET LEU ALA LEU ASP ASN LEU LEU GLN GLY GLN GLU SEQRES 12 A 237 SER GLU GLY SER TYR ASP PHE GLY PHE VAL ASP ALA ASP SEQRES 13 A 237 LYS PRO ASN TYR ILE LYS TYR HIS GLU ARG LEU MET LYS SEQRES 14 A 237 LEU VAL LYS VAL GLY GLY ILE VAL ALA TYR ASP ASN THR SEQRES 15 A 237 LEU TRP GLY GLY THR VAL ALA GLN PRO GLU SER GLU VAL SEQRES 16 A 237 PRO ASP PHE MET LYS GLU ASN ARG GLU ALA VAL ILE GLU SEQRES 17 A 237 LEU ASN LYS LEU LEU ALA ALA ASP PRO ARG ILE GLU ILE SEQRES 18 A 237 VAL HIS LEU PRO LEU GLY ASP GLY ILE THR PHE CYS ARG SEQRES 19 A 237 ARG LEU TYR SEQRES 1 B 237 MET ASP PHE ALA VAL MET LYS GLN VAL LYS ASN THR GLY SEQRES 2 B 237 LEU LEU GLN SER GLU GLU LEU CYS GLN TYR ILE LEU ARG SEQRES 3 B 237 THR SER VAL TYR PRO ARG GLU ALA GLY PHE LEU LYS GLU SEQRES 4 B 237 LEU ARG GLU ALA ASN GLU SER HIS PRO ASP SER TYR MET SEQRES 5 B 237 SER THR SER PRO LEU ALA GLY GLN LEU MET SER PHE VAL SEQRES 6 B 237 LEU LYS LEU VAL ASN ALA LYS LYS THR ILE GLU VAL GLY SEQRES 7 B 237 VAL PHE THR GLY TYR SER LEU LEU LEU THR ALA LEU SER SEQRES 8 B 237 ILE PRO ASP ASP GLY LYS ILE THR ALA ILE ASP PHE ASP SEQRES 9 B 237 ARG GLU ALA TYR GLU ILE GLY LEU PRO PHE ILE ARG LYS SEQRES 10 B 237 ALA GLY VAL GLU HIS LYS ILE ASN PHE ILE GLU SER ASP SEQRES 11 B 237 ALA MET LEU ALA LEU ASP ASN LEU LEU GLN GLY GLN GLU SEQRES 12 B 237 SER GLU GLY SER TYR ASP PHE GLY PHE VAL ASP ALA ASP SEQRES 13 B 237 LYS PRO ASN TYR ILE LYS TYR HIS GLU ARG LEU MET LYS SEQRES 14 B 237 LEU VAL LYS VAL GLY GLY ILE VAL ALA TYR ASP ASN THR SEQRES 15 B 237 LEU TRP GLY GLY THR VAL ALA GLN PRO GLU SER GLU VAL SEQRES 16 B 237 PRO ASP PHE MET LYS GLU ASN ARG GLU ALA VAL ILE GLU SEQRES 17 B 237 LEU ASN LYS LEU LEU ALA ALA ASP PRO ARG ILE GLU ILE SEQRES 18 B 237 VAL HIS LEU PRO LEU GLY ASP GLY ILE THR PHE CYS ARG SEQRES 19 B 237 ARG LEU TYR
HET CA A 238 1 HET CA A 239 1 HET CA B 238 1 HET SAH A 464 26 HET SAH B 465 26
HETNAM CA CALCIUM ION HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE
FORMUL 3 CA 3(CA 2+) FORMUL 6 SAH 2(C14 H20 N6 O5 S) FORMUL 8 HOH *480(H2 O)
HELIX 1 1 SER A 17 VAL A 29 1 13 HELIX 2 2 TYR A 30 GLU A 33 5 4 HELIX 3 3 ALA A 34 GLU A 45 1 12 HELIX 4 4 ASP A 49 SER A 53 5 5 HELIX 5 5 SER A 55 VAL A 69 1 15 HELIX 6 6 GLY A 82 ILE A 92 1 11 HELIX 7 7 ASP A 104 ALA A 118 1 15 HELIX 8 8 VAL A 120 HIS A 122 5 3 HELIX 9 9 ASP A 130 GLY A 141 1 12 HELIX 10 10 ASP A 156 PRO A 158 5 3 HELIX 11 11 ASN A 159 LEU A 170 1 12 HELIX 12 12 LEU A 183 GLN A 190 5 8 HELIX 13 13 PRO A 191 VAL A 195 5 5 HELIX 14 14 PRO A 196 PHE A 198 5 3 HELIX 15 15 MET A 199 ASP A 216 1 18 HELIX 16 16 SER B 17 VAL B 29 1 13 HELIX 17 17 TYR B 30 GLU B 33 5 4 HELIX 18 18 ALA B 34 GLU B 45 1 12 HELIX 19 19 ASP B 49 SER B 53 5 5 HELIX 20 20 SER B 55 VAL B 69 1 15 HELIX 21 21 GLY B 82 ILE B 92 1 11 HELIX 22 22 ASP B 104 ALA B 118 1 15 HELIX 23 23 VAL B 120 HIS B 122 5 3 HELIX 24 24 ASP B 130 LEU B 139 1 10 HELIX 25 25 ASP B 156 PRO B 158 5 3 HELIX 26 26 ASN B 159 LEU B 170 1 12 HELIX 27 27 LEU B 183 GLN B 190 5 8 HELIX 28 28 PRO B 191 VAL B 195 5 5 HELIX 29 29 PRO B 196 PHE B 198 5 3 HELIX 30 30 MET B 199 ASP B 216 1 18
SHEET 1 A 7 ILE A 124 GLU A 128 0 SHEET 2 A 7 LYS A 97 ASP A 102 1 N ALA A 100 O ILE A 127 SHEET 3 A 7 LYS A 73 VAL A 77 1 N GLU A 76 O THR A 99 SHEET 4 A 7 TYR A 148 VAL A 153 1 O PHE A 152 N VAL A 77 SHEET 5 A 7 VAL A 171 ASP A 180 1 O ALA A 178 N VAL A 153 SHEET 6 A 7 ILE A 230 ARG A 235 -1 O ARG A 235 N GLY A 174 SHEET 7 A 7 ILE A 219 LEU A 224 -1 N LEU A 224 O ILE A 230 SHEET 1 B 7 ILE B 124 GLU B 128 0 SHEET 2 B 7 LYS B 97 ASP B 102 1 N ALA B 100 O ILE B 127 SHEET 3 B 7 LYS B 73 VAL B 77 1 N GLU B 76 O ILE B 101 SHEET 4 B 7 TYR B 148 VAL B 153 1 O ASP B 149 N LYS B 73 SHEET 5 B 7 VAL B 171 ASP B 180 1 O ALA B 178 N VAL B 153 SHEET 6 B 7 ILE B 230 ARG B 235 -1 O ARG B 235 N GLY B 174 SHEET 7 B 7 ILE B 219 LEU B 224 -1 N LEU B 224 O ILE B 230
LINK OE2 GLU A 106 CA CA A 239 1555 1555 2.25 LINK OE1 GLU A 109 CA CA A 239 1555 1555 2.34 LINK OD1 ASP A 154 CA CA A 238 1555 1555 2.33 LINK OD2 ASP A 154 CA CA A 238 1555 1555 2.62 LINK OD2 ASP A 180 CA CA A 238 1555 1555 2.36 LINK OD1 ASN A 181 CA CA A 238 1555 1555 2.38 LINK OD1 ASP B 154 CA CA B 238 1555 1555 2.37 LINK OD2 ASP B 154 CA CA B 238 1555 1555 2.57 LINK OD2 ASP B 180 CA CA B 238 1555 1555 2.34 LINK OD1 ASN B 181 CA CA B 238 1555 1555 2.37 LINK CA CA A 238 O HOH A 693 1555 1555 2.36 LINK CA CA A 238 O HOH A 470 1555 1555 2.36 LINK CA CA A 238 O HOH A 694 1555 1555 2.49 LINK CA CA A 239 O HOH A 700 1555 1555 2.50 LINK CA CA A 239 O HOH A 703 1555 1555 2.42 LINK CA CA B 238 O HOH B 696 1555 1555 2.32 LINK CA CA B 238 O HOH B 695 1555 1555 2.36 LINK CA CA B 238 O HOH B 694 1555 1555 2.44
SITE 1 AC1 6 ASP A 154 ASP A 180 ASN A 181 HOH A 470 SITE 2 AC1 6 HOH A 693 HOH A 694 SITE 1 AC2 6 GLU A 106 GLU A 109 GLU A 204 GLU A 208 SITE 2 AC2 6 HOH A 700 HOH A 703 SITE 1 AC3 6 ASP B 154 ASP B 180 ASN B 181 HOH B 694 SITE 2 AC3 6 HOH B 695 HOH B 696 SITE 1 AC4 20 MET A 52 SER A 53 THR A 54 GLY A 78 SITE 2 AC4 20 VAL A 79 PHE A 80 SER A 84 ASP A 102 SITE 3 AC4 20 PHE A 103 ASP A 104 SER A 129 ASP A 130 SITE 4 AC4 20 ALA A 131 ASP A 154 ALA A 155 ASP A 156 SITE 5 AC4 20 HOH A 466 HOH A 513 HOH A 532 HOH A 643 SITE 1 AC5 20 MET B 52 SER B 53 THR B 54 GLY B 78 SITE 2 AC5 20 VAL B 79 PHE B 80 SER B 84 ASP B 102 SITE 3 AC5 20 PHE B 103 ASP B 104 SER B 129 ASP B 130 SITE 4 AC5 20 ALA B 131 ASP B 154 ALA B 155 ASP B 156 SITE 5 AC5 20 HOH B 480 HOH B 559 HOH B 583 HOH B 636
CRYST1 48.890 71.830 128.120 90.00 90.00 90.00 P 21 21 21 8
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 0.020454 0.000000 0.000000 0.00000
SCALE2 0.000000 0.013922 0.000000 0.00000
SCALE3 0.000000 0.000000 0.007805 0.00000