HEADER BIOSYNTHETIC PROTEIN 23-MAR-18 6G2P TITLE CRYSTAL STRUCTURE OF L-TRYPTOPHAN OXIDASE VIOA FROM CHROMOBACTERIUM TITLE 2 VIOLACEUM IN COMPLEX WITH L-TRYPTOPHAN 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 ATCC 12472; SOURCE 3 ORGANISM_TAXID: 243365; SOURCE 4 GENE: VIOA, CV_3274; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: PLYSS 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 6G2P 1 JRNL LINK REVDAT 1 16-MAY-18 6G2P 0 SPRSDE 16-MAY-18 6G2P 6ESE JRNL AUTH H.E.LAI,S.M.CHEE,M.MORGAN,S.J.MOORE,K.M.POLIZZI,P.S.FREEMONT JRNL TITL A SEMI-SYNTHETIC STRATEGY FOR DERIVATIZATION OF THE JRNL TITL 2 VIOLACEIN NATURAL PRODUCT SCAFFOLD JRNL REF BIORXIV 2018 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 76.05 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 38555 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1851 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 76.0785 - 6.1126 0.97 2952 152 0.1929 0.2210 REMARK 3 2 6.1126 - 4.8520 0.99 2914 127 0.1680 0.2265 REMARK 3 3 4.8520 - 4.2388 0.98 2846 133 0.1417 0.1661 REMARK 3 4 4.2388 - 3.8512 1.00 2862 154 0.1468 0.1878 REMARK 3 5 3.8512 - 3.5752 1.00 2857 130 0.1765 0.2414 REMARK 3 6 3.5752 - 3.3644 0.98 2788 160 0.1906 0.2320 REMARK 3 7 3.3644 - 3.1959 0.99 2849 130 0.1905 0.2118 REMARK 3 8 3.1959 - 3.0568 1.00 2794 161 0.2023 0.2973 REMARK 3 9 3.0568 - 2.9391 0.99 2839 152 0.2083 0.2808 REMARK 3 10 2.9391 - 2.8377 1.00 2823 144 0.2012 0.2562 REMARK 3 11 2.8377 - 2.7489 0.96 2736 146 0.1958 0.2677 REMARK 3 12 2.7489 - 2.6704 0.96 2740 119 0.1971 0.2323 REMARK 3 13 2.6704 - 2.6001 0.95 2704 143 0.2186 0.2912 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.660 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 6775 REMARK 3 ANGLE : 1.021 9220 REMARK 3 CHIRALITY : 0.054 971 REMARK 3 PLANARITY : 0.007 1178 REMARK 3 DIHEDRAL : 15.026 3944 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 6G2P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-MAR-18. REMARK 100 THE DEPOSITION ID IS D_1200009050. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-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) : 0.928 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38572 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 76.046 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.04712 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.0900 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 (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: 6ESD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.37 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 47.21800 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 47.21800 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 76.04600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 87.66900 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 76.04600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 87.66900 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 47.21800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 76.04600 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 87.66900 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 47.21800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 76.04600 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 87.66900 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -38.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 733 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 SER B 369 REMARK 465 ASP B 370 REMARK 465 ILE B 371 REMARK 465 ASP A 368 REMARK 465 SER A 369 REMARK 465 ASP A 370 REMARK 465 ILE A 371 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 CG CD CE NZ REMARK 470 HIS B 3 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 55 CG CD CE NZ REMARK 470 LYS B 101 CG CD CE NZ REMARK 470 ARG B 104 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 107 CG OD1 ND2 REMARK 470 GLU B 108 CG CD OE1 OE2 REMARK 470 LEU B 109 CG CD1 CD2 REMARK 470 ARG B 112 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 113 CG CD1 CD2 REMARK 470 LYS B 114 CG CD CE NZ REMARK 470 GLU B 115 CG CD OE1 OE2 REMARK 470 ARG B 127 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 129 CG CD OE1 NE2 REMARK 470 ASP B 150 CG OD1 OD2 REMARK 470 ARG B 233 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 235 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 261 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 276 CG CD OE1 OE2 REMARK 470 GLU B 313 CG CD OE1 OE2 REMARK 470 GLU B 324 CG CD OE1 OE2 REMARK 470 ASP B 368 CG OD1 OD2 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 GLN A 91 CG CD OE1 NE2 REMARK 470 HIS A 97 CG ND1 CD2 CE1 NE2 REMARK 470 GLN A 99 CG CD OE1 NE2 REMARK 470 GLN A 100 CG CD OE1 NE2 REMARK 470 LYS A 101 CG CD CE NZ REMARK 470 ARG A 112 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 114 CG CD CE NZ REMARK 470 HIS A 116 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 118 CG CD CE NZ REMARK 470 ASP A 150 CG OD1 OD2 REMARK 470 GLU A 154 CG CD OE1 OE2 REMARK 470 GLN A 189 CG CD OE1 NE2 REMARK 470 ARG A 201 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 235 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 261 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 313 CG CD OE1 OE2 REMARK 470 GLN A 332 CG CD OE1 NE2 REMARK 470 GLU A 393 CG CD OE1 OE2 REMARK 470 ARG A 415 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 O CYS A 366 O HOH A 601 1.96 REMARK 500 NE2 GLN A 350 O HOH A 602 1.98 REMARK 500 OE1 GLU A 331 NH2 ARG A 345 2.09 REMARK 500 O HOH B 679 O HOH B 692 2.10 REMARK 500 O HOH A 656 O HOH A 724 2.15 REMARK 500 O HOH B 623 O HOH B 679 2.18 REMARK 500 NH1 ARG A 334 O ILE A 348 2.18 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 CYS A 366 CB CYS A 366 SG 0.178 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 TRP B 177 CB - CG - CD1 ANGL. DEV. = -8.2 DEGREES REMARK 500 TRP B 279 CB - CG - CD1 ANGL. DEV. = -7.8 DEGREES REMARK 500 TRP B 397 CB - CG - CD1 ANGL. DEV. = -8.1 DEGREES REMARK 500 TRP A 177 CB - CG - CD1 ANGL. DEV. = -8.0 DEGREES REMARK 500 TRP A 257 CB - CG - CD1 ANGL. DEV. = -8.0 DEGREES REMARK 500 TRP A 359 CB - CG - CD1 ANGL. DEV. = -8.2 DEGREES REMARK 500 CYS A 366 CA - CB - SG ANGL. DEV. = 13.0 DEGREES REMARK 500 CYS A 395 CA - CB - SG ANGL. DEV. = 8.2 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 HIS B 3 -138.64 -142.11 REMARK 500 LYS B 55 -6.93 -152.42 REMARK 500 GLU B 115 -74.35 -86.52 REMARK 500 HIS B 116 44.09 -78.55 REMARK 500 ASP B 214 85.08 -152.38 REMARK 500 ASN B 250 43.20 -98.79 REMARK 500 ALA B 256 5.30 -68.89 REMARK 500 PRO B 277 73.27 -67.58 REMARK 500 ARG B 296 -56.32 60.00 REMARK 500 SER B 312 -132.82 58.48 REMARK 500 GLN A 129 -160.95 -117.87 REMARK 500 THR A 170 -163.73 -112.50 REMARK 500 ARG A 296 -59.73 63.81 REMARK 500 SER A 312 -134.94 63.18 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 PHE A 365 CYS A 366 -143.68 REMARK 500 REMARK 500 REMARK: NULL 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 MG B 504 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 240 O REMARK 620 2 FAD B 501 O1P 117.8 REMARK 620 N 1 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 TRP B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRP A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 504 DBREF 6G2P B 2 418 UNP Q9S3V1 VIOA_CHRVO 2 418 DBREF 6G2P A 2 418 UNP Q9S3V1 VIOA_CHRVO 2 418 SEQRES 1 B 417 LYS HIS SER SER ASP ILE CYS ILE VAL GLY ALA GLY ILE SEQRES 2 B 417 SER GLY LEU THR CYS ALA SER HIS LEU LEU ASP SER PRO SEQRES 3 B 417 ALA CYS ARG GLY LEU SER LEU ARG ILE PHE ASP MET GLN SEQRES 4 B 417 GLN GLU ALA GLY GLY ARG ILE ARG SER LYS MET LEU ASP SEQRES 5 B 417 GLY LYS ALA SER ILE GLU LEU GLY ALA GLY ARG TYR SER SEQRES 6 B 417 PRO GLN LEU HIS PRO HIS PHE GLN SER ALA MET GLN HIS SEQRES 7 B 417 TYR SER GLN LYS SER GLU VAL TYR PRO PHE THR GLN LEU SEQRES 8 B 417 LYS PHE LYS SER HIS VAL GLN GLN LYS LEU LYS ARG ALA SEQRES 9 B 417 MET ASN GLU LEU SER PRO ARG LEU LYS GLU HIS GLY LYS SEQRES 10 B 417 GLU SER PHE LEU GLN PHE VAL SER ARG TYR GLN GLY HIS SEQRES 11 B 417 ASP SER ALA VAL GLY MET ILE ARG SER MET GLY TYR ASP SEQRES 12 B 417 ALA LEU PHE LEU PRO ASP ILE SER ALA GLU MET ALA TYR SEQRES 13 B 417 ASP ILE VAL GLY LYS HIS PRO GLU ILE GLN SER VAL THR SEQRES 14 B 417 ASP ASN ASP ALA ASN GLN TRP PHE ALA ALA GLU THR GLY SEQRES 15 B 417 PHE ALA GLY LEU ILE GLN GLY ILE LYS ALA LYS VAL LYS SEQRES 16 B 417 ALA ALA GLY ALA ARG PHE SER LEU GLY TYR ARG LEU LEU SEQRES 17 B 417 SER VAL ARG THR ASP GLY ASP GLY TYR LEU LEU GLN LEU SEQRES 18 B 417 ALA GLY ASP ASP GLY TRP LYS LEU GLU HIS ARG THR ARG SEQRES 19 B 417 HIS LEU ILE LEU ALA ILE PRO PRO SER ALA MET ALA GLY SEQRES 20 B 417 LEU ASN VAL ASP PHE PRO GLU ALA TRP SER GLY ALA ARG SEQRES 21 B 417 TYR GLY SER LEU PRO LEU PHE LYS GLY PHE LEU THR TYR SEQRES 22 B 417 GLY GLU PRO TRP TRP LEU ASP TYR LYS LEU ASP ASP GLN SEQRES 23 B 417 VAL LEU ILE VAL ASP ASN PRO LEU ARG LYS ILE TYR PHE SEQRES 24 B 417 LYS GLY ASP LYS TYR LEU PHE PHE TYR THR ASP SER GLU SEQRES 25 B 417 MET ALA ASN TYR TRP ARG GLY CYS VAL ALA GLU GLY GLU SEQRES 26 B 417 ASP GLY TYR LEU GLU GLN ILE ARG THR HIS LEU ALA SER SEQRES 27 B 417 ALA LEU GLY ILE VAL ARG GLU ARG ILE PRO GLN PRO LEU SEQRES 28 B 417 ALA HIS VAL HIS LYS TYR TRP ALA HIS GLY VAL GLU PHE SEQRES 29 B 417 CYS ARG ASP SER ASP ILE ASP HIS PRO SER ALA LEU SER SEQRES 30 B 417 HIS ARG ASP SER GLY ILE ILE ALA CYS SER ASP ALA TYR SEQRES 31 B 417 THR GLU HIS CYS GLY TRP MET GLU GLY GLY LEU LEU SER SEQRES 32 B 417 ALA ARG GLU ALA SER ARG LEU LEU LEU GLN ARG ILE ALA SEQRES 33 B 417 ALA SEQRES 1 A 417 LYS HIS SER SER ASP ILE CYS ILE VAL GLY ALA GLY ILE SEQRES 2 A 417 SER GLY LEU THR CYS ALA SER HIS LEU LEU ASP SER PRO SEQRES 3 A 417 ALA CYS ARG GLY LEU SER LEU ARG ILE PHE ASP MET GLN SEQRES 4 A 417 GLN GLU ALA GLY GLY ARG ILE ARG SER LYS MET LEU ASP SEQRES 5 A 417 GLY LYS ALA SER ILE GLU LEU GLY ALA GLY ARG TYR SER SEQRES 6 A 417 PRO GLN LEU HIS PRO HIS PHE GLN SER ALA MET GLN HIS SEQRES 7 A 417 TYR SER GLN LYS SER GLU VAL TYR PRO PHE THR GLN LEU SEQRES 8 A 417 LYS PHE LYS SER HIS VAL GLN GLN LYS LEU LYS ARG ALA SEQRES 9 A 417 MET ASN GLU LEU SER PRO ARG LEU LYS GLU HIS GLY LYS SEQRES 10 A 417 GLU SER PHE LEU GLN PHE VAL SER ARG TYR GLN GLY HIS SEQRES 11 A 417 ASP SER ALA VAL GLY MET ILE ARG SER MET GLY TYR ASP SEQRES 12 A 417 ALA LEU PHE LEU PRO ASP ILE SER ALA GLU MET ALA TYR SEQRES 13 A 417 ASP ILE VAL GLY LYS HIS PRO GLU ILE GLN SER VAL THR SEQRES 14 A 417 ASP ASN ASP ALA ASN GLN TRP PHE ALA ALA GLU THR GLY SEQRES 15 A 417 PHE ALA GLY LEU ILE GLN GLY ILE LYS ALA LYS VAL LYS SEQRES 16 A 417 ALA ALA GLY ALA ARG PHE SER LEU GLY TYR ARG LEU LEU SEQRES 17 A 417 SER VAL ARG THR ASP GLY ASP GLY TYR LEU LEU GLN LEU SEQRES 18 A 417 ALA GLY ASP ASP GLY TRP LYS LEU GLU HIS ARG THR ARG SEQRES 19 A 417 HIS LEU ILE LEU ALA ILE PRO PRO SER ALA MET ALA GLY SEQRES 20 A 417 LEU ASN VAL ASP PHE PRO GLU ALA TRP SER GLY ALA ARG SEQRES 21 A 417 TYR GLY SER LEU PRO LEU PHE LYS GLY PHE LEU THR TYR SEQRES 22 A 417 GLY GLU PRO TRP TRP LEU ASP TYR LYS LEU ASP ASP GLN SEQRES 23 A 417 VAL LEU ILE VAL ASP ASN PRO LEU ARG LYS ILE TYR PHE SEQRES 24 A 417 LYS GLY ASP LYS TYR LEU PHE PHE TYR THR ASP SER GLU SEQRES 25 A 417 MET ALA ASN TYR TRP ARG GLY CYS VAL ALA GLU GLY GLU SEQRES 26 A 417 ASP GLY TYR LEU GLU GLN ILE ARG THR HIS LEU ALA SER SEQRES 27 A 417 ALA LEU GLY ILE VAL ARG GLU ARG ILE PRO GLN PRO LEU SEQRES 28 A 417 ALA HIS VAL HIS LYS TYR TRP ALA HIS GLY VAL GLU PHE SEQRES 29 A 417 CYS ARG ASP SER ASP ILE ASP HIS PRO SER ALA LEU SER SEQRES 30 A 417 HIS ARG ASP SER GLY ILE ILE ALA CYS SER ASP ALA TYR SEQRES 31 A 417 THR GLU HIS CYS GLY TRP MET GLU GLY GLY LEU LEU SER SEQRES 32 A 417 ALA ARG GLU ALA SER ARG LEU LEU LEU GLN ARG ILE ALA SEQRES 33 A 417 ALA HET FAD B 501 53 HET TRP B 502 15 HET EDO B 503 4 HET MG B 504 1 HET FAD A 501 53 HET TRP A 502 15 HET EDO A 503 4 HET MG A 504 1 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM TRP TRYPTOPHAN HETNAM EDO 1,2-ETHANEDIOL HETNAM MG MAGNESIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 TRP 2(C11 H12 N2 O2) FORMUL 5 EDO 2(C2 H6 O2) FORMUL 6 MG 2(MG 2+) FORMUL 11 HOH *243(H2 O) HELIX 1 AA1 GLY B 13 SER B 26 1 14 HELIX 2 AA2 PRO B 27 ARG B 30 5 4 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 PRO B 111 GLU B 115 5 5 HELIX 7 AA7 SER B 120 TYR B 128 1 9 HELIX 8 AA8 GLY B 130 SER B 140 1 11 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 SER B 152 LYS B 162 1 11 HELIX 12 AB3 ILE B 166 ASP B 171 5 6 HELIX 13 AB4 PHE B 184 ALA B 198 1 15 HELIX 14 AB5 PRO B 242 GLY B 248 1 7 HELIX 15 AB6 PRO B 277 LYS B 283 5 7 HELIX 16 AB7 SER B 312 GLU B 324 1 13 HELIX 17 AB8 GLY B 325 GLY B 342 1 18 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 ALA B 417 1 21 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 ARG A 112 GLY A 117 1 6 HELIX 26 AC8 SER A 120 SER A 126 1 7 HELIX 27 AC9 GLY A 130 SER A 140 1 11 HELIX 28 AD1 MET A 141 GLY A 142 5 2 HELIX 29 AD2 TYR A 143 LEU A 148 5 6 HELIX 30 AD3 SER A 152 LYS A 162 1 11 HELIX 31 AD4 ILE A 166 THR A 170 5 5 HELIX 32 AD5 PHE A 184 ALA A 198 1 15 HELIX 33 AD6 PRO A 242 ALA A 247 1 6 HELIX 34 AD7 SER A 312 GLU A 324 1 13 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 ALA A 417 1 21 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 ARG B 201 SHEET 3 AA1 6 SER B 4 VAL B 10 1 N ILE B 9 O PHE B 37 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 222 O LEU B 230 SHEET 6 AA1 6 TYR B 206 ASP B 214 -1 N LEU B 209 O GLN B 221 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 ARG B 201 SHEET 3 AA2 6 SER B 4 VAL B 10 1 N ILE B 9 O PHE B 37 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 ILE B 58 N LYS B 50 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 LEU B 272 O LEU B 306 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 LEU A 34 O ARG A 201 SHEET 3 AA6 6 SER A 4 VAL A 10 1 N ILE A 9 O ARG A 35 SHEET 4 AA6 6 LYS A 229 LEU A 239 1 O HIS A 236 N CYS A 8 SHEET 5 AA6 6 GLY A 217 GLY A 224 -1 N LEU A 222 O LEU A 230 SHEET 6 AA6 6 TYR A 206 ASP A 214 -1 N LEU A 209 O GLN A 221 SHEET 1 AA7 6 ARG A 201 LEU A 204 0 SHEET 2 AA7 6 LEU A 34 ASP A 38 1 N LEU A 34 O ARG A 201 SHEET 3 AA7 6 SER A 4 VAL A 10 1 N ILE A 9 O ARG A 35 SHEET 4 AA7 6 LYS A 229 LEU A 239 1 O HIS A 236 N CYS A 8 SHEET 5 AA7 6 ILE A 385 ALA A 386 1 O ILE A 385 N LEU A 239 SHEET 6 AA7 6 LEU A 377 SER A 378 -1 N LEU A 377 O ALA A 386 SHEET 1 AA8 2 SER A 49 LEU A 52 0 SHEET 2 AA8 2 ALA A 56 GLU A 59 -1 O ALA A 56 N LEU A 52 SHEET 1 AA9 2 SER A 84 VAL A 86 0 SHEET 2 AA9 2 PHE A 178 ALA A 180 -1 O ALA A 179 N GLU A 85 SHEET 1 AB1 5 VAL A 288 ILE A 290 0 SHEET 2 AB1 5 LYS A 297 LYS A 301 -1 O ILE A 298 N LEU A 289 SHEET 3 AB1 5 TYR A 305 ASP A 311 -1 O PHE A 307 N TYR A 299 SHEET 4 AB1 5 GLY A 263 THR A 273 -1 N PHE A 268 O THR A 310 SHEET 5 AB1 5 ALA A 353 PHE A 365 -1 O VAL A 355 N PHE A 271 SSBOND 1 CYS A 366 CYS A 395 1555 1555 2.05 LINK O ALA B 240 MG MG B 504 1555 1555 2.94 LINK O1P FAD B 501 MG MG B 504 1555 1555 2.85 LINK O ALA A 240 MG MG A 504 1555 1555 2.69 CISPEP 1 PHE B 253 PRO B 254 0 1.54 CISPEP 2 PHE A 253 PRO A 254 0 4.95 SITE 1 AC1 32 VAL B 10 GLY B 11 GLY B 13 ILE B 14 SITE 2 AC1 32 SER B 15 ASP B 38 MET B 39 GLN B 40 SITE 3 AC1 32 GLY B 45 ARG B 46 GLY B 61 ALA B 62 SITE 4 AC1 32 GLY B 63 ARG B 64 LEU B 208 ILE B 241 SITE 5 AC1 32 ALA B 245 LEU B 267 TRP B 359 GLY B 362 SITE 6 AC1 32 ASP B 389 GLY B 396 TRP B 397 MET B 398 SITE 7 AC1 32 MG B 504 HOH B 622 HOH B 624 HOH B 637 SITE 8 AC1 32 HOH B 638 HOH B 647 HOH B 664 HOH B 669 SITE 1 AC2 8 ARG B 64 HIS B 163 LEU B 265 TYR B 309 SITE 2 AC2 8 VAL B 363 GLY B 396 TRP B 397 HOH B 658 SITE 1 AC3 4 ASP B 292 ASN B 293 SER B 339 ALA B 340 SITE 1 AC4 5 GLY B 11 GLY B 13 GLY B 16 ALA B 240 SITE 2 AC4 5 FAD B 501 SITE 1 AC5 30 VAL A 10 GLY A 11 GLY A 13 ILE A 14 SITE 2 AC5 30 SER A 15 ASP A 38 MET A 39 GLY A 45 SITE 3 AC5 30 ARG A 46 GLY A 61 ALA A 62 GLY A 63 SITE 4 AC5 30 ARG A 64 ARG A 207 LEU A 208 ILE A 241 SITE 5 AC5 30 LEU A 267 TRP A 359 GLY A 362 ASP A 389 SITE 6 AC5 30 TRP A 397 MET A 398 TRP A 502 MG A 504 SITE 7 AC5 30 HOH A 619 HOH A 621 HOH A 628 HOH A 631 SITE 8 AC5 30 HOH A 644 HOH A 655 SITE 1 AC6 9 ARG A 64 TYR A 143 HIS A 163 TYR A 309 SITE 2 AC6 9 VAL A 363 GLY A 396 TRP A 397 FAD A 501 SITE 3 AC6 9 HOH A 675 SITE 1 AC7 4 GLU A 276 PRO A 277 LEU A 280 ASP A 281 SITE 1 AC8 5 GLY A 11 GLY A 13 GLY A 16 ALA A 240 SITE 2 AC8 5 FAD A 501 CRYST1 152.092 175.338 94.436 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 0.006575 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005703 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010589 0.00000