HEADER TRANSFERASE 21-MAY-13 4KU9 OBSLTE 10-DEC-14 4KU9 4RSR TITLE ARSM ARSENIC(III) S-ADENOSYLMETHIONINE METHYLTRANSFERASE WITH TITLE 2 TRIVALENT PHENYL ARSENCIAL DERIVATIVE-ROXARSONE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ARSENIC METHYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-370; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CYANIDIOSCHYZON SP. 5508; SOURCE 3 ORGANISM_TAXID: 610260; SOURCE 4 STRAIN: 5508; SOURCE 5 GENE: ARSM; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28(A) KEYWDS ROSSMANN FOLD, ARSENIC METHYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.PACKIANATHAN,K.MARAPAKALA,A.A.AJEES,P.KANDAVELU,B.P.ROSEN REVDAT 2 10-DEC-14 4KU9 1 OBSLTE REVDAT 1 21-MAY-14 4KU9 0 JRNL AUTH C.PACKIANATHAN,K.MARAPAKALA,A.A.AJEES,P.KANDAVELU,B.P.ROSEN JRNL TITL A NEW DISULFIDE CASCADE MECHANISM OF THE AS (III) JRNL TITL 2 S-ADENOSYLMETHYLTRANSFERASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.38 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.38 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.03 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 13465 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 713 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) : 2.38 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.45 REMARK 3 REFLECTION IN BIN (WORKING SET) : 881 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE SET COUNT : 59 REMARK 3 BIN FREE R VALUE : 0.4260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2573 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 83 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.03000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.411 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.266 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.187 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.071 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2650 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3581 ; 1.889 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 328 ; 6.782 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 128 ;39.137 ;23.438 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 444 ;17.758 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;17.062 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 393 ; 0.124 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2033 ; 0.008 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4KU9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-FEB-14. REMARK 100 THE RCSB ID CODE IS RCSB079801. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JAN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 104725 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.390 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : 0.07700 REMARK 200 FOR THE DATA SET : 17.0170 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.39 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.23000 REMARK 200 R SYM FOR SHELL (I) : 0.23000 REMARK 200 FOR SHELL : 7.920 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 4FS8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% POLYETHYLENE GLYCOL 3000, 0.2 M REMARK 280 CALCIUM ACETATE AND 0.1 M TRIS-HCL PH 7.0,10MM DTT, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293.0K 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 42.57900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.20550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 42.57900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.20550 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 PRO A 2 REMARK 465 CYS A 3 REMARK 465 SER A 4 REMARK 465 CYS A 5 REMARK 465 ALA A 6 REMARK 465 SER A 7 REMARK 465 GLY A 8 REMARK 465 CYS A 9 REMARK 465 GLN A 10 REMARK 465 LYS A 11 REMARK 465 SER A 12 REMARK 465 LYS A 13 REMARK 465 ASN A 14 REMARK 465 GLY A 15 REMARK 465 GLY A 16 REMARK 465 SER A 17 REMARK 465 THR A 18 REMARK 465 PRO A 19 REMARK 465 SER A 20 REMARK 465 ILE A 21 REMARK 465 ARG A 22 REMARK 465 ASP A 23 REMARK 465 HIS A 24 REMARK 465 VAL A 25 REMARK 465 ALA A 26 REMARK 465 ASP A 27 REMARK 465 TYR A 28 REMARK 465 TYR A 29 REMARK 465 GLY A 30 REMARK 465 LYS A 31 REMARK 465 THR A 32 REMARK 465 LEU A 33 REMARK 465 GLN A 34 REMARK 465 SER A 35 REMARK 465 SER A 36 REMARK 465 ALA A 37 REMARK 465 ASP A 38 REMARK 465 LEU A 39 REMARK 465 LYS A 40 REMARK 465 THR A 41 REMARK 465 SER A 42 REMARK 465 ALA A 43 REMARK 465 HIS A 373 REMARK 465 HIS A 374 REMARK 465 HIS A 375 REMARK 465 HIS A 376 REMARK 465 HIS A 377 REMARK 465 HIS A 378 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 HIS A 190 CG HIS A 190 CD2 0.056 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 PRO A 159 C - N - CA ANGL. DEV. = -10.7 DEGREES REMARK 500 ARG A 319 NE - CZ - NH2 ANGL. DEV. = -4.2 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 LYS A 45 -176.25 -59.40 REMARK 500 ALA A 47 -121.85 65.24 REMARK 500 ASP A 118 -58.76 -28.58 REMARK 500 ARG A 141 39.03 -81.69 REMARK 500 ASP A 164 152.31 -47.49 REMARK 500 SER A 165 42.41 39.42 REMARK 500 GLN A 343 -157.24 -101.60 REMARK 500 SER A 371 135.59 159.78 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 157 GLU A 158 -147.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 GLU A 158 22.7 L L OUTSIDE RANGE REMARK 500 ASP A 353 23.6 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 LIGAND RXO IS BOUND FORM OF ROXARSONE (4-HYDROXY-3- REMARK 600 NITROBENZENEARSONIC ACID). IN THE CRYSTAL STRUCTURE THE TWO REMARK 600 HYDROXYL WILL ELIMINATE TWO WATER MOLECULES AND BOUND BETWEEN TWO REMARK 600 CYSTEINES (CYS 174 AND CYS 224) AND THE OXYGEN GROUP ATTACHED WITH REMARK 600 ARSENIC IS UNSTABLE AND NOT MODELED. 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 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 563 O REMARK 620 2 HOH A 547 O 77.7 REMARK 620 3 HOH A 574 O 155.4 95.7 REMARK 620 4 HOH A 562 O 72.9 87.5 131.0 REMARK 620 5 GLY A 91 O 81.4 103.2 77.1 149.4 REMARK 620 6 HOH A 564 O 79.8 154.2 110.0 74.0 85.5 REMARK 620 7 HOH A 510 O 138.6 79.1 60.6 72.3 137.5 110.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 404 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 565 O REMARK 620 2 GLN A 269 OE1 71.1 REMARK 620 3 ASP A 207 OD2 94.5 79.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 292 OE1 REMARK 620 2 VAL A 320 O 115.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RXO A 401 AS REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 174 SG REMARK 620 2 RXO A 401 C1 106.5 REMARK 620 3 CYS A 224 SG 99.2 97.8 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RXO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DTT A 406 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4FR0 RELATED DB: PDB REMARK 900 ARSM ARSENIC(III) S-ADENOSYLMETHIONINE METHYLTRANSFERASE REMARK 900 WITH SAM REMARK 900 RELATED ID: 4FSD RELATED DB: PDB REMARK 900 ARSM ARSENIC(III) S-ADENOSYLMETHIONINE METHYLTRANSFERASE REMARK 900 WITH AS(III) REMARK 900 RELATED ID: 4FS8 RELATED DB: PDB REMARK 900 THE STRUCTURE OF AN AS(III) S-ADENOSYLMETHIONINE REMARK 900 METHYLTRANSFERASE: INSIGHTS INTO THE MECHANISM OF ARSENIC REMARK 900 BIOTRANSFORMATION REMARK 900 RELATED ID: 4KUP RELATED DB: PDB REMARK 900 THE STRUCTURE OF AN AS(III) S-ADENOSYLMETHIONINE REMARK 900 METHYLTRANSFERASE WITH PHENYLARSINE OXIDE(PAO) DBREF 4KU9 A 1 370 UNP C0JV69 C0JV69_9RHOD 1 370 SEQADV 4KU9 SER A 371 UNP C0JV69 EXPRESSION TAG SEQADV 4KU9 GLY A 372 UNP C0JV69 EXPRESSION TAG SEQADV 4KU9 HIS A 373 UNP C0JV69 EXPRESSION TAG SEQADV 4KU9 HIS A 374 UNP C0JV69 EXPRESSION TAG SEQADV 4KU9 HIS A 375 UNP C0JV69 EXPRESSION TAG SEQADV 4KU9 HIS A 376 UNP C0JV69 EXPRESSION TAG SEQADV 4KU9 HIS A 377 UNP C0JV69 EXPRESSION TAG SEQADV 4KU9 HIS A 378 UNP C0JV69 EXPRESSION TAG SEQRES 1 A 378 MET PRO CYS SER CYS ALA SER GLY CYS GLN LYS SER LYS SEQRES 2 A 378 ASN GLY GLY SER THR PRO SER ILE ARG ASP HIS VAL ALA SEQRES 3 A 378 ASP TYR TYR GLY LYS THR LEU GLN SER SER ALA ASP LEU SEQRES 4 A 378 LYS THR SER ALA CYS LYS LEU ALA ALA ALA VAL PRO GLU SEQRES 5 A 378 SER HIS ARG LYS ILE LEU ALA ASP ILE ALA ASP GLU VAL SEQRES 6 A 378 LEU GLU LYS PHE TYR GLY CYS GLY SER THR LEU PRO ALA SEQRES 7 A 378 ASP GLY SER LEU GLU GLY ALA THR VAL LEU ASP LEU GLY SEQRES 8 A 378 CYS GLY THR GLY ARG ASP VAL TYR LEU ALA SER LYS LEU SEQRES 9 A 378 VAL GLY GLU HIS GLY LYS VAL ILE GLY VAL ASP MET LEU SEQRES 10 A 378 ASP ASN GLN LEU GLU VAL ALA ARG LYS TYR VAL GLU TYR SEQRES 11 A 378 HIS ALA GLU LYS PHE PHE GLY SER PRO SER ARG SER ASN SEQRES 12 A 378 VAL ARG PHE LEU LYS GLY PHE ILE GLU ASN LEU ALA THR SEQRES 13 A 378 ALA GLU PRO GLU GLY VAL PRO ASP SER SER VAL ASP ILE SEQRES 14 A 378 VAL ILE SER ASN CYS VAL CYS ASN LEU SER THR ASN LYS SEQRES 15 A 378 LEU ALA LEU PHE LYS GLU ILE HIS ARG VAL LEU ARG ASP SEQRES 16 A 378 GLY GLY GLU LEU TYR PHE SER ASP VAL TYR ALA ASP ARG SEQRES 17 A 378 ARG LEU SER GLU ALA ALA GLN GLN ASP PRO ILE LEU TYR SEQRES 18 A 378 GLY GLU CYS LEU GLY GLY ALA LEU TYR LEU GLU ASP PHE SEQRES 19 A 378 ARG ARG LEU VAL ALA GLU ALA GLY PHE ARG ASP VAL ARG SEQRES 20 A 378 LEU VAL SER VAL GLY PRO VAL ASP VAL SER ASP PRO GLN SEQRES 21 A 378 LEU ARG LYS LEU VAL PRO ASP VAL GLN PHE TYR SER CYS SEQRES 22 A 378 THR PHE ARG CYS PHE LYS VAL ALA THR LEU GLU ALA THR SEQRES 23 A 378 ARG GLU ASP TYR GLY GLN SER ALA THR TYR LEU GLY GLY SEQRES 24 A 378 ILE GLY GLU GLU PHE LYS LEU ASP ARG PHE PHE THR PHE SEQRES 25 A 378 PRO ARG GLU LYS PRO VAL ARG VAL ASP ARG ASN THR ALA SEQRES 26 A 378 GLU ILE ILE ARG HIS SER ARG LEU HIS GLN TRP PHE SER SEQRES 27 A 378 VAL SER ALA GLU GLN GLN HIS MET GLY LEU PHE LYS ALA SEQRES 28 A 378 ASN ASP SER TYR ALA LEU LEU HIS ALA PRO LEU SER MET SEQRES 29 A 378 GLN VAL GLU GLN LEU VAL SER GLY HIS HIS HIS HIS HIS SEQRES 30 A 378 HIS HET RXO A 401 11 HET MG A 402 1 HET CA A 403 1 HET CA A 404 1 HET NA A 405 1 HET DTT A 406 8 HETNAM RXO 4-ARSANYL-2-NITROPHENOL HETNAM MG MAGNESIUM ION HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM DTT 2,3-DIHYDROXY-1,4-DITHIOBUTANE HETSYN DTT 1,4-DITHIOTHREITOL FORMUL 2 RXO C6 H6 AS N O3 FORMUL 3 MG MG 2+ FORMUL 4 CA 2(CA 2+) FORMUL 6 NA NA 1+ FORMUL 7 DTT C4 H10 O2 S2 FORMUL 8 HOH *83(H2 O) HELIX 1 1 PRO A 51 ASP A 60 1 10 HELIX 2 2 ALA A 62 PHE A 69 1 8 HELIX 3 3 ALA A 78 GLU A 83 5 6 HELIX 4 4 GLY A 95 GLY A 106 1 12 HELIX 5 5 LEU A 117 LYS A 126 1 10 HELIX 6 6 TYR A 127 GLY A 137 1 11 HELIX 7 7 ASN A 153 ALA A 157 5 5 HELIX 8 8 ASN A 181 VAL A 192 1 12 HELIX 9 9 SER A 211 ASP A 217 1 7 HELIX 10 10 ASP A 217 GLU A 223 1 7 HELIX 11 11 LEU A 231 ALA A 241 1 11 HELIX 12 12 ASP A 258 VAL A 265 1 8 HELIX 13 13 ASP A 321 SER A 331 1 11 HELIX 14 14 ARG A 332 GLN A 335 5 4 HELIX 15 15 SER A 354 HIS A 359 1 6 HELIX 16 16 PRO A 361 SER A 371 1 11 SHEET 1 A 6 VAL A 144 LYS A 148 0 SHEET 2 A 6 LYS A 110 ASP A 115 1 N GLY A 113 O LEU A 147 SHEET 3 A 6 THR A 86 LEU A 90 1 N ASP A 89 O ILE A 112 SHEET 4 A 6 VAL A 167 ASN A 173 1 O ILE A 169 N LEU A 88 SHEET 5 A 6 LEU A 193 ALA A 206 1 O TYR A 200 N VAL A 170 SHEET 6 A 6 LEU A 229 TYR A 230 1 O LEU A 229 N ALA A 206 SHEET 1 B 7 VAL A 144 LYS A 148 0 SHEET 2 B 7 LYS A 110 ASP A 115 1 N GLY A 113 O LEU A 147 SHEET 3 B 7 THR A 86 LEU A 90 1 N ASP A 89 O ILE A 112 SHEET 4 B 7 VAL A 167 ASN A 173 1 O ILE A 169 N LEU A 88 SHEET 5 B 7 LEU A 193 ALA A 206 1 O TYR A 200 N VAL A 170 SHEET 6 B 7 PHE A 270 PHE A 278 -1 O TYR A 271 N TYR A 205 SHEET 7 B 7 VAL A 246 VAL A 254 -1 N VAL A 249 O THR A 274 SHEET 1 C 3 VAL A 318 ARG A 319 0 SHEET 2 C 3 SER A 293 TYR A 296 -1 N ALA A 294 O VAL A 318 SHEET 3 C 3 PHE A 337 VAL A 339 -1 O SER A 338 N THR A 295 SHEET 1 D 2 GLU A 303 ASP A 307 0 SHEET 2 D 2 PHE A 310 PRO A 313 -1 O PHE A 312 N PHE A 304 SSBOND 1 CYS A 44 CYS A 72 1555 1555 2.07 LINK CA CA A 403 O HOH A 563 1555 1555 2.19 LINK CA CA A 403 O HOH A 547 1555 1555 2.33 LINK CA CA A 403 O HOH A 574 1555 1555 2.35 LINK CA CA A 404 O HOH A 565 1555 1555 2.44 LINK CA CA A 403 O HOH A 562 1555 1555 2.45 LINK OE1 GLN A 269 CA CA A 404 1555 1555 2.49 LINK O GLY A 91 CA CA A 403 1555 1555 2.49 LINK CA CA A 403 O HOH A 564 1555 1555 2.49 LINK CA CA A 403 O HOH A 510 1555 1555 2.56 LINK OD2 ASP A 207 CA CA A 404 1555 1555 2.58 LINK OE1 GLN A 292 MG MG A 402 1555 1555 2.71 LINK O VAL A 320 MG MG A 402 1555 1555 2.74 LINK AS RXO A 401 SG ACYS A 174 1555 1555 2.30 LINK AS RXO A 401 SG CYS A 224 1555 1555 2.38 SITE 1 AC1 6 CYS A 44 LYS A 45 CYS A 174 GLY A 222 SITE 2 AC1 6 GLU A 223 CYS A 224 SITE 1 AC2 6 TYR A 290 GLY A 291 GLN A 292 VAL A 320 SITE 2 AC2 6 ASP A 321 ARG A 322 SITE 1 AC3 7 GLY A 91 HOH A 510 HOH A 547 HOH A 562 SITE 2 AC3 7 HOH A 563 HOH A 564 HOH A 574 SITE 1 AC4 4 ASP A 207 GLN A 269 GLU A 367 HOH A 565 SITE 1 AC5 3 SER A 102 HIS A 131 ALA A 132 SITE 1 AC6 1 GLU A 160 CRYST1 85.158 46.411 100.260 90.00 114.07 90.00 C 1 2 1 4 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 0.011743 0.000000 0.005246 0.00000 SCALE2 0.000000 0.021547 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010924 0.00000