HEADER BIOSYNTHETIC PROTEIN 20-OCT-17 6ESD TITLE CRYSTAL STRUCTURE OF L-TRYPTOPHAN OXIDASE VIOA FROM CHROMOBACTERIUM TITLE 2 VIOLACEUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: FLAVIN-DEPENDENT L-TRYPTOPHAN OXIDASE VIOA; COMPND 3 CHAIN: B, A; COMPND 4 EC: 1.4.3.23; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHROMOBACTERIUM VIOLACEUM (STRAIN ATCC 12472 / SOURCE 3 DSM 30191 / JCM 1249 / NBRC 12614 / NCIMB 9131 / NCTC 9757); SOURCE 4 ORGANISM_TAXID: 243365; SOURCE 5 STRAIN: ATCC 12472 / DSM 30191 / JCM 1249 / NBRC 12614 / NCIMB 9131 SOURCE 6 / NCTC 9757; SOURCE 7 GENE: VIOA, CV_3274; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS VIOLACEIN BIOSYNTHESIS, L-TRYPTOPHAN OXIDASE, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR H.E.LAI,M.MORGAN,S.MOORE,P.FREEMONT REVDAT 2 17-JAN-24 6ESD 1 JRNL REVDAT 1 06-DEC-17 6ESD 0 JRNL AUTH H.E.LAI,S.M.CHEE,M.MORGAN,S.MOORE,K.POLIZZI,P.FREEMONT JRNL TITL A SEMI-SYNTHETIC STRATEGY FOR DERIVATIZATION OF THE JRNL TITL 2 VIOLACEIN NATURAL PRODUCT SCAFFOLD JRNL REF BIORXIV 2017 JRNL REFN ISSN 2692-8205 JRNL DOI 10.1101/202523 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.78 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 38070 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.140 REMARK 3 FREE R VALUE TEST SET COUNT : 1958 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 63.7967 - 6.2649 0.98 2747 133 0.1842 0.2010 REMARK 3 2 6.2649 - 4.9732 0.98 2606 134 0.1903 0.2256 REMARK 3 3 4.9732 - 4.3447 1.00 2622 146 0.1660 0.1980 REMARK 3 4 4.3447 - 3.9476 0.98 2575 143 0.1680 0.2565 REMARK 3 5 3.9476 - 3.6646 0.99 2573 154 0.1979 0.2322 REMARK 3 6 3.6646 - 3.4486 0.99 2586 143 0.2222 0.2857 REMARK 3 7 3.4486 - 3.2759 0.99 2594 130 0.2255 0.2499 REMARK 3 8 3.2759 - 3.1333 0.99 2577 135 0.2383 0.3068 REMARK 3 9 3.1333 - 3.0127 0.97 2507 139 0.2508 0.3300 REMARK 3 10 3.0127 - 2.9087 0.99 2550 143 0.2609 0.3051 REMARK 3 11 2.9087 - 2.8178 0.99 2533 155 0.2647 0.3619 REMARK 3 12 2.8178 - 2.7372 0.99 2568 132 0.2857 0.3532 REMARK 3 13 2.7372 - 2.6652 0.99 2532 134 0.2938 0.3714 REMARK 3 14 2.6652 - 2.6001 0.98 2542 137 0.3129 0.3981 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.590 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 6457 REMARK 3 ANGLE : 1.135 8783 REMARK 3 CHIRALITY : 0.055 933 REMARK 3 PLANARITY : 0.006 1123 REMARK 3 DIHEDRAL : 13.272 3703 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6ESD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1200006918. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-NOV-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9282 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38134 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 63.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 4.550 REMARK 200 R MERGE (I) : 0.04776 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.3500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.02 REMARK 200 R MERGE FOR SHELL (I) : 0.30200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.340 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: 3X0V REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES PH 7.5, 9% PEG 8000 AND REMARK 280 9% ETHYLENE GLYCOL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 47.33500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 47.33500 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 1.000000 0.000000 0.000000 75.80500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 86.30000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 75.80500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 86.30000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 47.33500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 75.80500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 86.30000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 47.33500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 75.80500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 86.30000 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 ASP B 370 REMARK 465 LYS A 114 REMARK 465 GLU A 115 REMARK 465 HIS A 116 REMARK 465 ASP A 372 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 B 2 N CB CG CD CE NZ REMARK 470 ARG B 30 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 55 CG CD CE NZ REMARK 470 GLN B 78 CD OE1 NE2 REMARK 470 GLN B 91 CG CD OE1 NE2 REMARK 470 LYS B 93 CG CD CE NZ REMARK 470 LYS B 95 CG CD CE NZ REMARK 470 HIS B 97 CG ND1 CD2 CE1 NE2 REMARK 470 GLN B 99 CG CD OE1 NE2 REMARK 470 GLN B 100 CG CD OE1 NE2 REMARK 470 LYS B 101 CG CD CE NZ REMARK 470 GLU B 108 CG CD OE1 OE2 REMARK 470 LEU B 109 CG CD1 CD2 REMARK 470 SER B 110 OG REMARK 470 ARG B 112 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 114 CG CD CE NZ REMARK 470 GLU B 115 CG CD OE1 OE2 REMARK 470 LYS B 118 CB CG CD CE NZ REMARK 470 ARG B 127 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 148 CD1 CD2 REMARK 470 ASP B 150 CG OD1 OD2 REMARK 470 GLU B 154 CG CD OE1 OE2 REMARK 470 VAL B 169 CG1 CG2 REMARK 470 ASP B 173 CG OD1 OD2 REMARK 470 ARG B 201 NE CZ NH1 NH2 REMARK 470 ARG B 212 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 219 CD1 CD2 REMARK 470 ARG B 233 CZ NH1 NH2 REMARK 470 ARG B 235 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 250 OD1 REMARK 470 GLU B 255 CG CD OE1 OE2 REMARK 470 SER B 258 OG REMARK 470 ARG B 261 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 265 CD1 CD2 REMARK 470 LYS B 304 CE NZ REMARK 470 GLU B 313 CG CD OE1 OE2 REMARK 470 ASP B 327 CG OD1 OD2 REMARK 470 ASP B 368 CB CG OD1 OD2 REMARK 470 SER B 369 CB OG REMARK 470 ILE B 371 CB CG1 CG2 CD1 REMARK 470 ASP B 372 CG OD1 OD2 REMARK 470 GLU B 393 CG CD OE1 OE2 REMARK 470 LYS A 2 CG CD CE NZ REMARK 470 GLU A 42 CG CD OE1 OE2 REMARK 470 LYS A 50 CG CD CE NZ REMARK 470 LEU A 52 CG CD1 CD2 REMARK 470 ASP A 53 CG OD1 OD2 REMARK 470 LYS A 55 CG CD CE NZ REMARK 470 LYS A 83 CG CD CE NZ REMARK 470 LEU A 92 CG CD1 CD2 REMARK 470 LYS A 93 CG CD CE NZ REMARK 470 LYS A 95 CG CD CE NZ REMARK 470 LYS A 101 CG CD CE NZ REMARK 470 LYS A 103 CE NZ REMARK 470 ARG A 104 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 107 CG OD1 ND2 REMARK 470 GLU A 108 CG CD OE1 OE2 REMARK 470 LEU A 109 CG CD1 CD2 REMARK 470 ARG A 112 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 113 CG CD1 CD2 REMARK 470 LYS A 118 CG CD CE NZ REMARK 470 GLU A 119 CG CD OE1 OE2 REMARK 470 VAL A 125 CG1 CG2 REMARK 470 ARG A 127 CG CD NE CZ NH1 NH2 REMARK 470 TYR A 128 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 129 CG CD OE1 NE2 REMARK 470 ASP A 150 CG OD1 OD2 REMARK 470 SER A 152 OG REMARK 470 GLU A 154 CG CD OE1 OE2 REMARK 470 ASP A 171 CG OD1 OD2 REMARK 470 ASP A 173 CG OD1 OD2 REMARK 470 ARG A 201 CZ NH1 NH2 REMARK 470 LYS A 229 CG CD CE NZ REMARK 470 ARG A 233 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 235 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 255 CG CD OE1 OE2 REMARK 470 SER A 258 OG REMARK 470 ARG A 261 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 276 CG CD OE1 OE2 REMARK 470 LYS A 283 CG CD CE NZ REMARK 470 LYS A 304 CG CD CE NZ REMARK 470 GLU A 313 CG CD OE1 OE2 REMARK 470 ARG A 347 CD NE CZ NH1 NH2 REMARK 470 ASP A 368 CG OD1 OD2 REMARK 470 SER A 369 CB OG REMARK 470 ASP A 370 CG OD1 OD2 REMARK 470 ILE A 371 CG1 CG2 CD1 REMARK 470 HIS A 373 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 393 CG CD OE1 OE2 REMARK 470 ARG A 406 CG CD NE CZ NH1 NH2 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 CB LYS A 95 OE1 GLN A 99 1.66 REMARK 500 O ASN A 293 O LEU A 295 1.67 REMARK 500 O ASN B 293 O LEU B 295 1.97 REMARK 500 OH TYR B 87 O HOH B 601 2.04 REMARK 500 O ASP A 53 N LYS A 55 2.06 REMARK 500 OE2 GLU B 331 NH2 ARG B 345 2.09 REMARK 500 OH TYR B 206 O HOH B 602 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 B 276 C PRO B 277 N -0.166 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 95 N - CA - C ANGL. DEV. = -17.5 DEGREES REMARK 500 LEU B 295 N - CA - C ANGL. DEV. = -26.9 DEGREES REMARK 500 LEU A 280 CA - CB - CG ANGL. DEV. = 19.1 DEGREES REMARK 500 LEU A 295 N - CA - C ANGL. DEV. = -27.6 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 ALA B 28 5.41 -59.94 REMARK 500 MET B 39 3.10 -65.92 REMARK 500 PRO B 111 21.86 -69.02 REMARK 500 ASP B 150 5.93 -69.67 REMARK 500 ASP B 214 88.76 -152.79 REMARK 500 LEU B 249 -156.76 -109.67 REMARK 500 SER B 258 -43.74 -140.36 REMARK 500 SER B 312 -135.94 50.83 REMARK 500 ALA A 28 0.89 -69.79 REMARK 500 ARG A 112 108.05 -50.19 REMARK 500 LYS A 118 -1.75 62.41 REMARK 500 ASP A 150 3.58 -60.12 REMARK 500 ASP A 171 31.13 -76.72 REMARK 500 ASP A 173 3.07 -66.95 REMARK 500 TRP A 257 -53.63 -126.71 REMARK 500 ASP A 281 -17.69 -49.30 REMARK 500 SER A 312 -131.75 54.42 REMARK 500 HIS A 361 62.74 -119.99 REMARK 500 ARG A 367 79.40 -108.40 REMARK 500 SER A 388 145.82 -171.07 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 ASP B 303 LYS B 304 -144.23 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 FAD B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 502 DBREF 6ESD B 2 417 UNP Q9S3V1 VIOA_CHRVO 2 417 DBREF 6ESD A 2 417 UNP Q9S3V1 VIOA_CHRVO 2 417 SEQRES 1 B 416 LYS HIS SER SER ASP ILE CYS ILE VAL GLY ALA GLY ILE SEQRES 2 B 416 SER GLY LEU THR CYS ALA SER HIS LEU LEU ASP SER PRO SEQRES 3 B 416 ALA CYS ARG GLY LEU SER LEU ARG ILE PHE ASP MET GLN SEQRES 4 B 416 GLN GLU ALA GLY GLY ARG ILE ARG SER LYS MET LEU ASP SEQRES 5 B 416 GLY LYS ALA SER ILE GLU LEU GLY ALA GLY ARG TYR SER SEQRES 6 B 416 PRO GLN LEU HIS PRO HIS PHE GLN SER ALA MET GLN HIS SEQRES 7 B 416 TYR SER GLN LYS SER GLU VAL TYR PRO PHE THR GLN LEU SEQRES 8 B 416 LYS PHE LYS SER HIS VAL GLN GLN LYS LEU LYS ARG ALA SEQRES 9 B 416 MET ASN GLU LEU SER PRO ARG LEU LYS GLU HIS GLY LYS SEQRES 10 B 416 GLU SER PHE LEU GLN PHE VAL SER ARG TYR GLN GLY HIS SEQRES 11 B 416 ASP SER ALA VAL GLY MET ILE ARG SER MET GLY TYR ASP SEQRES 12 B 416 ALA LEU PHE LEU PRO ASP ILE SER ALA GLU MET ALA TYR SEQRES 13 B 416 ASP ILE VAL GLY LYS HIS PRO GLU ILE GLN SER VAL THR SEQRES 14 B 416 ASP ASN ASP ALA ASN GLN TRP PHE ALA ALA GLU THR GLY SEQRES 15 B 416 PHE ALA GLY LEU ILE GLN GLY ILE LYS ALA LYS VAL LYS SEQRES 16 B 416 ALA ALA GLY ALA ARG PHE SER LEU GLY TYR ARG LEU LEU SEQRES 17 B 416 SER VAL ARG THR ASP GLY ASP GLY TYR LEU LEU GLN LEU SEQRES 18 B 416 ALA GLY ASP ASP GLY TRP LYS LEU GLU HIS ARG THR ARG SEQRES 19 B 416 HIS LEU ILE LEU ALA ILE PRO PRO SER ALA MET ALA GLY SEQRES 20 B 416 LEU ASN VAL ASP PHE PRO GLU ALA TRP SER GLY ALA ARG SEQRES 21 B 416 TYR GLY SER LEU PRO LEU PHE LYS GLY PHE LEU THR TYR SEQRES 22 B 416 GLY GLU PRO TRP TRP LEU ASP TYR LYS LEU ASP ASP GLN SEQRES 23 B 416 VAL LEU ILE VAL ASP ASN PRO LEU ARG LYS ILE TYR PHE SEQRES 24 B 416 LYS GLY ASP LYS TYR LEU PHE PHE TYR THR ASP SER GLU SEQRES 25 B 416 MET ALA ASN TYR TRP ARG GLY CYS VAL ALA GLU GLY GLU SEQRES 26 B 416 ASP GLY TYR LEU GLU GLN ILE ARG THR HIS LEU ALA SER SEQRES 27 B 416 ALA LEU GLY ILE VAL ARG GLU ARG ILE PRO GLN PRO LEU SEQRES 28 B 416 ALA HIS VAL HIS LYS TYR TRP ALA HIS GLY VAL GLU PHE SEQRES 29 B 416 CYS ARG ASP SER ASP ILE ASP HIS PRO SER ALA LEU SER SEQRES 30 B 416 HIS ARG ASP SER GLY ILE ILE ALA CYS SER ASP ALA TYR SEQRES 31 B 416 THR GLU HIS CYS GLY TRP MET GLU GLY GLY LEU LEU SER SEQRES 32 B 416 ALA ARG GLU ALA SER ARG LEU LEU LEU GLN ARG ILE ALA SEQRES 1 A 416 LYS HIS SER SER ASP ILE CYS ILE VAL GLY ALA GLY ILE SEQRES 2 A 416 SER GLY LEU THR CYS ALA SER HIS LEU LEU ASP SER PRO SEQRES 3 A 416 ALA CYS ARG GLY LEU SER LEU ARG ILE PHE ASP MET GLN SEQRES 4 A 416 GLN GLU ALA GLY GLY ARG ILE ARG SER LYS MET LEU ASP SEQRES 5 A 416 GLY LYS ALA SER ILE GLU LEU GLY ALA GLY ARG TYR SER SEQRES 6 A 416 PRO GLN LEU HIS PRO HIS PHE GLN SER ALA MET GLN HIS SEQRES 7 A 416 TYR SER GLN LYS SER GLU VAL TYR PRO PHE THR GLN LEU SEQRES 8 A 416 LYS PHE LYS SER HIS VAL GLN GLN LYS LEU LYS ARG ALA SEQRES 9 A 416 MET ASN GLU LEU SER PRO ARG LEU LYS GLU HIS GLY LYS SEQRES 10 A 416 GLU SER PHE LEU GLN PHE VAL SER ARG TYR GLN GLY HIS SEQRES 11 A 416 ASP SER ALA VAL GLY MET ILE ARG SER MET GLY TYR ASP SEQRES 12 A 416 ALA LEU PHE LEU PRO ASP ILE SER ALA GLU MET ALA TYR SEQRES 13 A 416 ASP ILE VAL GLY LYS HIS PRO GLU ILE GLN SER VAL THR SEQRES 14 A 416 ASP ASN ASP ALA ASN GLN TRP PHE ALA ALA GLU THR GLY SEQRES 15 A 416 PHE ALA GLY LEU ILE GLN GLY ILE LYS ALA LYS VAL LYS SEQRES 16 A 416 ALA ALA GLY ALA ARG PHE SER LEU GLY TYR ARG LEU LEU SEQRES 17 A 416 SER VAL ARG THR ASP GLY ASP GLY TYR LEU LEU GLN LEU SEQRES 18 A 416 ALA GLY ASP ASP GLY TRP LYS LEU GLU HIS ARG THR ARG SEQRES 19 A 416 HIS LEU ILE LEU ALA ILE PRO PRO SER ALA MET ALA GLY SEQRES 20 A 416 LEU ASN VAL ASP PHE PRO GLU ALA TRP SER GLY ALA ARG SEQRES 21 A 416 TYR GLY SER LEU PRO LEU PHE LYS GLY PHE LEU THR TYR SEQRES 22 A 416 GLY GLU PRO TRP TRP LEU ASP TYR LYS LEU ASP ASP GLN SEQRES 23 A 416 VAL LEU ILE VAL ASP ASN PRO LEU ARG LYS ILE TYR PHE SEQRES 24 A 416 LYS GLY ASP LYS TYR LEU PHE PHE TYR THR ASP SER GLU SEQRES 25 A 416 MET ALA ASN TYR TRP ARG GLY CYS VAL ALA GLU GLY GLU SEQRES 26 A 416 ASP GLY TYR LEU GLU GLN ILE ARG THR HIS LEU ALA SER SEQRES 27 A 416 ALA LEU GLY ILE VAL ARG GLU ARG ILE PRO GLN PRO LEU SEQRES 28 A 416 ALA HIS VAL HIS LYS TYR TRP ALA HIS GLY VAL GLU PHE SEQRES 29 A 416 CYS ARG ASP SER ASP ILE ASP HIS PRO SER ALA LEU SER SEQRES 30 A 416 HIS ARG ASP SER GLY ILE ILE ALA CYS SER ASP ALA TYR SEQRES 31 A 416 THR GLU HIS CYS GLY TRP MET GLU GLY GLY LEU LEU SER SEQRES 32 A 416 ALA ARG GLU ALA SER ARG LEU LEU LEU GLN ARG ILE ALA HET FAD B 501 53 HET CL B 502 1 HET FAD A 501 53 HET CL A 502 1 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM CL CHLORIDE ION FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 CL 2(CL 1-) FORMUL 7 HOH *49(H2 O) HELIX 1 AA1 GLY B 13 ASP B 25 1 13 HELIX 2 AA2 SER B 26 ARG B 30 5 5 HELIX 3 AA3 ASP B 53 LYS B 55 5 3 HELIX 4 AA4 HIS B 70 TYR B 80 1 11 HELIX 5 AA5 SER B 96 SER B 110 1 15 HELIX 6 AA6 ARG B 112 GLY B 117 1 6 HELIX 7 AA7 SER B 120 SER B 126 1 7 HELIX 8 AA8 GLN B 129 SER B 140 1 12 HELIX 9 AA9 MET B 141 GLY B 142 5 2 HELIX 10 AB1 TYR B 143 LEU B 148 5 6 HELIX 11 AB2 ALA B 153 HIS B 163 1 11 HELIX 12 AB3 ILE B 166 THR B 170 5 5 HELIX 13 AB4 PHE B 184 ALA B 198 1 15 HELIX 14 AB5 PRO B 242 ALA B 247 1 6 HELIX 15 AB6 PRO B 277 ASP B 281 5 5 HELIX 16 AB7 SER B 312 GLY B 325 1 14 HELIX 17 AB8 GLY B 325 LEU B 341 1 17 HELIX 18 AB9 VAL B 344 ILE B 348 5 5 HELIX 19 AC1 SER B 388 THR B 392 5 5 HELIX 20 AC2 TRP B 397 ILE B 416 1 20 HELIX 21 AC3 GLY A 13 SER A 26 1 14 HELIX 22 AC4 PRO A 27 ARG A 30 5 4 HELIX 23 AC5 HIS A 70 TYR A 80 1 11 HELIX 24 AC6 SER A 96 SER A 110 1 15 HELIX 25 AC7 SER A 120 SER A 126 1 7 HELIX 26 AC8 GLY A 130 ARG A 139 1 10 HELIX 27 AC9 SER A 140 GLY A 142 5 3 HELIX 28 AD1 TYR A 143 LEU A 148 5 6 HELIX 29 AD2 SER A 152 HIS A 163 1 12 HELIX 30 AD3 ILE A 166 THR A 170 5 5 HELIX 31 AD4 PHE A 184 ALA A 198 1 15 HELIX 32 AD5 PRO A 242 GLY A 248 1 7 HELIX 33 AD6 TRP A 279 LYS A 283 5 5 HELIX 34 AD7 SER A 312 GLY A 325 1 14 HELIX 35 AD8 GLY A 325 GLY A 342 1 18 HELIX 36 AD9 VAL A 344 ILE A 348 5 5 HELIX 37 AE1 SER A 388 THR A 392 5 5 HELIX 38 AE2 TRP A 397 ILE A 416 1 20 SHEET 1 AA1 6 ARG B 201 LEU B 204 0 SHEET 2 AA1 6 LEU B 34 ASP B 38 1 N ILE B 36 O SER B 203 SHEET 3 AA1 6 SER B 4 VAL B 10 1 N ILE B 9 O ARG B 35 SHEET 4 AA1 6 LYS B 229 LEU B 239 1 O HIS B 236 N CYS B 8 SHEET 5 AA1 6 GLY B 217 GLY B 224 -1 N LEU B 220 O HIS B 232 SHEET 6 AA1 6 TYR B 206 ASP B 214 -1 N ARG B 212 O LEU B 219 SHEET 1 AA2 6 ARG B 201 LEU B 204 0 SHEET 2 AA2 6 LEU B 34 ASP B 38 1 N ILE B 36 O SER B 203 SHEET 3 AA2 6 SER B 4 VAL B 10 1 N ILE B 9 O ARG B 35 SHEET 4 AA2 6 LYS B 229 LEU B 239 1 O HIS B 236 N CYS B 8 SHEET 5 AA2 6 ILE B 385 ALA B 386 1 O ILE B 385 N LEU B 239 SHEET 6 AA2 6 LEU B 377 SER B 378 -1 N LEU B 377 O ALA B 386 SHEET 1 AA3 2 SER B 49 LEU B 52 0 SHEET 2 AA3 2 ALA B 56 GLU B 59 -1 O ALA B 56 N LEU B 52 SHEET 1 AA4 2 SER B 84 VAL B 86 0 SHEET 2 AA4 2 PHE B 178 ALA B 180 -1 O ALA B 179 N GLU B 85 SHEET 1 AA5 5 LEU B 289 ILE B 290 0 SHEET 2 AA5 5 LYS B 297 LYS B 301 -1 O ILE B 298 N LEU B 289 SHEET 3 AA5 5 TYR B 305 ASP B 311 -1 O PHE B 307 N TYR B 299 SHEET 4 AA5 5 TYR B 262 THR B 273 -1 N PHE B 268 O THR B 310 SHEET 5 AA5 5 ALA B 353 CYS B 366 -1 O VAL B 355 N PHE B 271 SHEET 1 AA6 6 ARG A 201 LEU A 204 0 SHEET 2 AA6 6 LEU A 34 ASP A 38 1 N ILE A 36 O SER A 203 SHEET 3 AA6 6 ILE A 7 VAL A 10 1 N ILE A 7 O ARG A 35 SHEET 4 AA6 6 HIS A 236 LEU A 239 1 O ILE A 238 N CYS A 8 SHEET 5 AA6 6 ILE A 385 ALA A 386 1 O ILE A 385 N LEU A 239 SHEET 6 AA6 6 LEU A 377 SER A 378 -1 N LEU A 377 O ALA A 386 SHEET 1 AA7 2 SER A 49 ASP A 53 0 SHEET 2 AA7 2 ALA A 56 GLU A 59 -1 O ILE A 58 N LYS A 50 SHEET 1 AA8 2 SER A 84 VAL A 86 0 SHEET 2 AA8 2 PHE A 178 ALA A 180 -1 O ALA A 179 N GLU A 85 SHEET 1 AA9 3 TYR A 206 ASP A 214 0 SHEET 2 AA9 3 GLY A 217 GLY A 224 -1 O GLY A 217 N ASP A 214 SHEET 3 AA9 3 LYS A 229 THR A 234 -1 O HIS A 232 N LEU A 220 SHEET 1 AB1 5 GLN A 287 ILE A 290 0 SHEET 2 AB1 5 LYS A 297 LYS A 301 -1 O PHE A 300 N GLN A 287 SHEET 3 AB1 5 TYR A 305 ASP A 311 -1 O TYR A 305 N LYS A 301 SHEET 4 AB1 5 TYR A 262 THR A 273 -1 N LEU A 272 O LEU A 306 SHEET 5 AB1 5 ALA A 353 CYS A 366 -1 O VAL A 355 N PHE A 271 CISPEP 1 PHE B 253 PRO B 254 0 8.04 CISPEP 2 PHE A 253 PRO A 254 0 5.59 SITE 1 AC1 27 VAL B 10 GLY B 11 GLY B 13 ILE B 14 SITE 2 AC1 27 SER B 15 ASP B 38 MET B 39 GLN B 40 SITE 3 AC1 27 GLY B 45 ARG B 46 GLY B 61 ALA B 62 SITE 4 AC1 27 GLY B 63 ARG B 64 TYR B 206 ARG B 207 SITE 5 AC1 27 LEU B 208 ILE B 241 LEU B 267 TRP B 359 SITE 6 AC1 27 GLY B 362 ASP B 389 TRP B 397 MET B 398 SITE 7 AC1 27 CL B 502 HOH B 603 HOH B 607 SITE 1 AC2 3 ARG B 64 TYR B 309 FAD B 501 SITE 1 AC3 28 VAL A 10 GLY A 11 GLY A 13 ILE A 14 SITE 2 AC3 28 SER A 15 ASP A 38 MET A 39 GLN A 40 SITE 3 AC3 28 GLY A 45 ARG A 46 GLY A 61 ALA A 62 SITE 4 AC3 28 GLY A 63 ARG A 64 ARG A 207 LEU A 208 SITE 5 AC3 28 ALA A 240 ILE A 241 LEU A 267 TYR A 309 SITE 6 AC3 28 TRP A 359 GLY A 362 ASP A 389 GLY A 396 SITE 7 AC3 28 TRP A 397 MET A 398 HOH A 606 HOH A 611 SITE 1 AC4 2 ARG A 64 TYR A 309 CRYST1 151.610 172.600 94.670 90.00 90.00 90.00 C 2 2 21 16 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 0.006596 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005794 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010563 0.00000