HEADER BIOSYNTHETIC PROTEIN 05-MAR-18 6FW8 TITLE CRYSTAL STRUCTURE OF L-TRYPTOPHAN OXIDASE VIOA FROM CHROMOBACTERIUM TITLE 2 VIOLACEUM IN COMPLEX WITH 5-METHYL-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 3 17-JAN-24 6FW8 1 REMARK REVDAT 2 15-NOV-23 6FW8 1 JRNL LINK ATOM REVDAT 1 13-FEB-19 6FW8 0 JRNL AUTH H.E.LAI,A.M.C.OBLED,S.M.CHEE,R.M.MORGAN,S.V.SHARMA, JRNL AUTH 2 S.J.MOORE,K.M.POLIZZI,R.J.M.GOSS,P.S.FREEMONT JRNL TITL A GENOCHEMETIC STRATEGY FOR DERIVATIZATION OF THE VIOLACEIN JRNL TITL 2 NATURAL PRODUCT SCAFFOLD JRNL REF BIORXIV 2019 JRNL REFN ISSN 2692-8205 JRNL DOI 10.1101/202523 REMARK 2 REMARK 2 RESOLUTION. 2.40 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.88 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 47819 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.870 REMARK 3 FREE R VALUE TEST SET COUNT : 2327 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 58.8932 - 6.1683 0.99 2919 115 0.1690 0.2114 REMARK 3 2 6.1683 - 4.8967 1.00 2779 150 0.1670 0.2128 REMARK 3 3 4.8967 - 4.2780 1.00 2751 133 0.1401 0.1741 REMARK 3 4 4.2780 - 3.8869 1.00 2731 140 0.1462 0.1833 REMARK 3 5 3.8869 - 3.6084 1.00 2710 149 0.1704 0.2575 REMARK 3 6 3.6084 - 3.3956 1.00 2719 153 0.1959 0.2454 REMARK 3 7 3.3956 - 3.2256 1.00 2698 140 0.1922 0.2610 REMARK 3 8 3.2256 - 3.0852 0.99 2712 131 0.2057 0.2883 REMARK 3 9 3.0852 - 2.9664 0.99 2663 140 0.2125 0.3008 REMARK 3 10 2.9664 - 2.8641 0.98 2664 137 0.2286 0.2870 REMARK 3 11 2.8641 - 2.7745 0.98 2687 129 0.2402 0.3425 REMARK 3 12 2.7745 - 2.6952 0.98 2590 160 0.2658 0.3308 REMARK 3 13 2.6952 - 2.6243 0.97 2621 136 0.2635 0.3600 REMARK 3 14 2.6243 - 2.5602 0.96 2579 121 0.2796 0.3407 REMARK 3 15 2.5602 - 2.5020 0.96 2621 125 0.3001 0.3517 REMARK 3 16 2.5020 - 2.4488 0.96 2567 145 0.3241 0.4211 REMARK 3 17 2.4488 - 2.3998 0.93 2481 123 0.3610 0.4281 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) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.870 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 : 0.008 6820 REMARK 3 ANGLE : 1.023 9276 REMARK 3 CHIRALITY : 0.053 971 REMARK 3 PLANARITY : 0.006 1187 REMARK 3 DIHEDRAL : 15.383 3992 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 6FW8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-MAR-18. REMARK 100 THE DEPOSITION ID IS D_1200009004. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-DEC-17 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 : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48699 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 58.875 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.10530 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 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 (%): 62.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.31 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 46.96100 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 46.96100 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 75.56500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 87.04400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 75.56500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 87.04400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 46.96100 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 75.56500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 87.04400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 46.96100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 75.56500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 87.04400 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: 4590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 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 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 ASP B 53 CG OD1 OD2 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 SER B 120 OG REMARK 470 ARG B 127 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 129 CG CD OE1 NE2 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 SER B 369 OG REMARK 470 ASP B 370 CG OD1 OD2 REMARK 470 ILE B 371 CG1 CG2 CD1 REMARK 470 ASP B 372 CG OD1 OD2 REMARK 470 HIS B 373 CG ND1 CD2 CE1 NE2 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 LYS A 93 CG CD CE NZ REMARK 470 HIS A 97 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 101 CG CD CE NZ REMARK 470 ARG A 104 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 112 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 113 CG CD1 CD2 REMARK 470 LYS A 114 CG CD CE NZ REMARK 470 GLU A 115 CG CD OE1 OE2 REMARK 470 HIS A 116 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 118 CG CD CE NZ REMARK 470 GLU A 154 CG CD OE1 OE2 REMARK 470 ASP A 158 CG OD1 OD2 REMARK 470 ARG A 201 NE CZ NH1 NH2 REMARK 470 ARG A 235 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 368 CG OD1 OD2 REMARK 470 SER A 369 OG REMARK 470 ASP A 370 CG OD1 OD2 REMARK 470 ILE A 371 CG1 CG2 CD1 REMARK 470 ASP A 372 CG OD1 OD2 REMARK 470 SER A 375 OG REMARK 470 GLU A 393 CG CD OE1 OE2 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 OE2 GLU A 119 NH2 ARG A 127 1.52 REMARK 500 CD2 LEU A 102 CG MET A 137 1.93 REMARK 500 CD2 LEU A 102 SD MET A 137 1.98 REMARK 500 O ARG A 104 OE1 GLU A 108 1.98 REMARK 500 O ARG B 112 O GLU B 115 2.01 REMARK 500 CD2 LEU A 102 CE MET A 137 2.12 REMARK 500 NH1 ARG A 334 O ILE A 348 2.14 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 111 C - N - CD ANGL. DEV. = -18.0 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 -159.45 -116.82 REMARK 500 ASP B 53 -10.07 70.05 REMARK 500 LYS B 93 -50.74 -120.35 REMARK 500 PHE B 94 45.02 -83.75 REMARK 500 HIS B 116 19.60 59.82 REMARK 500 ASP B 214 86.20 -153.57 REMARK 500 ASN B 250 42.93 -102.16 REMARK 500 TRP B 257 -50.71 -127.97 REMARK 500 ARG B 296 -66.95 64.68 REMARK 500 SER B 312 -132.83 56.26 REMARK 500 ALA B 417 -159.42 -73.93 REMARK 500 HIS A 3 76.28 -103.96 REMARK 500 LEU A 109 9.18 -68.92 REMARK 500 GLU A 119 -177.58 -64.08 REMARK 500 PHE A 124 -70.04 -51.38 REMARK 500 ASP A 171 31.83 -95.11 REMARK 500 ARG A 296 -57.47 65.23 REMARK 500 SER A 312 -135.60 50.66 REMARK 500 LEU A 352 -76.07 -62.35 REMARK 500 SER A 388 149.23 -173.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS A 101 14.17 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 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 240 O REMARK 620 2 FAD B 501 O1P 117.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 240 O REMARK 620 2 FAD A 501 O1P 117.3 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 D0Q B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue D0Q A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide LEU A 102 and MET A REMARK 800 137 DBREF 6FW8 B 2 418 UNP Q9S3V1 VIOA_CHRVO 2 418 DBREF 6FW8 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 D0Q B 502 16 HET MG B 503 1 HET FAD A 501 53 HET D0Q A 502 16 HET MG A 503 1 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM D0Q 5-METHYL-L-TRYPTOPHAN HETNAM MG MAGNESIUM ION FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 D0Q 2(C12 H14 N2 O2) FORMUL 5 MG 2(MG 2+) FORMUL 9 HOH *97(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 HIS B 70 TYR B 80 1 11 HELIX 4 AA4 HIS B 97 SER B 110 1 14 HELIX 5 AA5 PRO B 111 LYS B 114 5 4 HELIX 6 AA6 SER B 120 SER B 126 1 7 HELIX 7 AA7 GLY B 130 SER B 140 1 11 HELIX 8 AA8 MET B 141 GLY B 142 5 2 HELIX 9 AA9 TYR B 143 LEU B 148 5 6 HELIX 10 AB1 SER B 152 LYS B 162 1 11 HELIX 11 AB2 ILE B 166 ASP B 171 5 6 HELIX 12 AB3 PHE B 184 ALA B 198 1 15 HELIX 13 AB4 PRO B 242 GLY B 248 1 7 HELIX 14 AB5 PRO B 277 LYS B 283 5 7 HELIX 15 AB6 SER B 312 GLU B 324 1 13 HELIX 16 AB7 GLY B 325 GLY B 342 1 18 HELIX 17 AB8 VAL B 344 ILE B 348 5 5 HELIX 18 AB9 SER B 388 THR B 392 5 5 HELIX 19 AC1 TRP B 397 ALA B 417 1 21 HELIX 20 AC2 GLY A 13 SER A 26 1 14 HELIX 21 AC3 PRO A 27 ARG A 30 5 4 HELIX 22 AC4 HIS A 70 TYR A 80 1 11 HELIX 23 AC5 SER A 96 LEU A 102 1 7 HELIX 24 AC6 LEU A 102 LEU A 109 1 8 HELIX 25 AC7 SER A 120 GLN A 129 1 10 HELIX 26 AC8 GLY A 130 SER A 140 1 11 HELIX 27 AC9 MET A 141 GLY A 142 5 2 HELIX 28 AD1 TYR A 143 LEU A 148 5 6 HELIX 29 AD2 SER A 152 LYS A 162 1 11 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 PRO A 277 LYS A 283 5 7 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 418 1 22 SHEET 1 AA1 6 ARG B 201 LEU B 204 0 SHEET 2 AA1 6 LEU B 34 ASP B 38 1 N LEU B 34 O ARG B 201 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 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 LEU B 34 O ARG B 201 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 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 ILE A 36 O SER A 203 SHEET 3 AA6 6 SER A 4 VAL A 10 1 N ILE A 7 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 TYR A 218 O THR A 234 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 ILE A 36 O SER A 203 SHEET 3 AA7 6 SER A 4 VAL A 10 1 N ILE A 7 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 ILE A 58 N LYS A 50 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 ARG A 261 LEU A 272 -1 N LEU A 272 O LEU A 306 SHEET 5 AB1 5 HIS A 354 ARG A 367 -1 O VAL A 355 N PHE A 271 LINK O ALA B 240 MG MG B 503 1555 1555 2.85 LINK O1P FAD B 501 MG MG B 503 1555 1555 2.72 LINK O ALA A 240 MG MG A 503 1555 1555 2.64 LINK O1P FAD A 501 MG MG A 503 1555 1555 2.82 CISPEP 1 PHE B 253 PRO B 254 0 2.98 CISPEP 2 PHE A 253 PRO A 254 0 3.75 SITE 1 AC1 33 VAL B 10 GLY B 11 GLY B 13 ILE B 14 SITE 2 AC1 33 SER B 15 ASP B 38 MET B 39 GLN B 40 SITE 3 AC1 33 GLY B 45 ARG B 46 GLY B 61 ALA B 62 SITE 4 AC1 33 GLY B 63 ARG B 64 TYR B 206 ARG B 207 SITE 5 AC1 33 LEU B 208 ALA B 240 ILE B 241 ALA B 245 SITE 6 AC1 33 LEU B 267 TRP B 359 GLY B 362 ASP B 389 SITE 7 AC1 33 GLY B 396 TRP B 397 MET B 398 D0Q B 502 SITE 8 AC1 33 MG B 503 HOH B 602 HOH B 608 HOH B 614 SITE 9 AC1 33 HOH B 618 SITE 1 AC2 9 ARG B 64 TYR B 143 HIS B 163 TYR B 309 SITE 2 AC2 9 ASP B 311 GLY B 396 FAD B 501 HOH B 615 SITE 3 AC2 9 HOH B 633 SITE 1 AC3 5 GLY B 13 SER B 15 GLY B 16 ALA B 240 SITE 2 AC3 5 FAD B 501 SITE 1 AC4 34 VAL A 10 GLY A 11 GLY A 13 ILE A 14 SITE 2 AC4 34 SER A 15 ASP A 38 MET A 39 GLN A 40 SITE 3 AC4 34 GLY A 45 ARG A 46 GLY A 61 ALA A 62 SITE 4 AC4 34 GLY A 63 ARG A 64 ARG A 207 LEU A 208 SITE 5 AC4 34 ILE A 241 ALA A 245 LEU A 267 TRP A 359 SITE 6 AC4 34 GLY A 362 ASP A 389 GLY A 396 TRP A 397 SITE 7 AC4 34 MET A 398 D0Q A 502 MG A 503 HOH A 614 SITE 8 AC4 34 HOH A 629 HOH A 631 HOH A 636 HOH A 640 SITE 9 AC4 34 HOH A 645 HOH A 653 SITE 1 AC5 13 ARG A 64 TYR A 143 HIS A 163 LEU A 265 SITE 2 AC5 13 TYR A 309 ASP A 311 VAL A 363 GLY A 396 SITE 3 AC5 13 TRP A 397 FAD A 501 HOH A 603 HOH A 627 SITE 4 AC5 13 HOH A 645 SITE 1 AC6 5 GLY A 11 GLY A 13 GLY A 16 ALA A 240 SITE 2 AC6 5 FAD A 501 SITE 1 AC7 15 VAL A 98 GLN A 100 LYS A 101 LYS A 103 SITE 2 AC7 15 ARG A 104 ALA A 105 MET A 106 VAL A 125 SITE 3 AC7 15 SER A 133 ALA A 134 VAL A 135 GLY A 136 SITE 4 AC7 15 ILE A 138 ARG A 139 SER A 140 CRYST1 151.130 174.088 93.922 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 0.006617 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005744 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010647 0.00000