HEADER FLAVOPROTEIN 30-JAN-19 6QKX TITLE 2-NAPHTHOYL-COA REDUCTASE-DIHYDRONAPHTHOYL-COA COMPLEX(NCR-DHNCOA CO- TITLE 2 CRYSTALLIZED COMPLEX) COMPND MOL_ID: 1; COMPND 2 MOLECULE: NCR; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: SF4, FAD, FMN, LIG SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTERIUM ENRICHMENT CULTURE CLONE N47; SOURCE 3 ORGANISM_TAXID: 700510; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS REDUCTASE, 2-NAPHTHOYL-COA, 2-NAPHTHOYL-COA REDUCTASE, NAPHTHALENE, KEYWDS 2 FAD, FMN, [4FE-4S], HYDRIDE TRANSFER, CO-CRYSTALLIZED, FLAVOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.KAYASTHA,U.ERMLER REVDAT 2 24-JAN-24 6QKX 1 REMARK REVDAT 1 15-MAY-19 6QKX 0 JRNL AUTH M.WILLISTEIN,D.F.BECHTEL,C.S.MULLER,U.DEMMER,L.HEIMANN, JRNL AUTH 2 K.KAYASTHA,V.SCHUNEMANN,A.J.PIERIK,G.M.ULLMANN,U.ERMLER, JRNL AUTH 3 M.BOLL JRNL TITL LOW POTENTIAL ENZYMATIC HYDRIDE TRANSFER VIA HIGHLY JRNL TITL 2 COOPERATIVE AND INVERSELY FUNCTIONALIZED FLAVIN COFACTORS. JRNL REF NAT COMMUN V. 10 2074 2019 JRNL REFN ESSN 2041-1723 JRNL PMID 31061390 JRNL DOI 10.1038/S41467-019-10078-3 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14_3260: ???) 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) : 47.42 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 29947 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.231 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 1449 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 47.4272 - 5.1685 0.99 2955 170 0.1941 0.2284 REMARK 3 2 5.1685 - 4.1032 1.00 2850 164 0.1852 0.2311 REMARK 3 3 4.1032 - 3.5847 0.98 2850 131 0.2164 0.2571 REMARK 3 4 3.5847 - 3.2570 0.99 2846 138 0.2541 0.2925 REMARK 3 5 3.2570 - 3.0236 0.99 2817 150 0.2593 0.3324 REMARK 3 6 3.0236 - 2.8454 0.99 2850 135 0.2722 0.3513 REMARK 3 7 2.8454 - 2.7029 1.00 2832 138 0.3061 0.3819 REMARK 3 8 2.7029 - 2.5852 0.98 2804 137 0.3702 0.4485 REMARK 3 9 2.5852 - 2.4857 1.00 2865 138 0.3347 0.4337 REMARK 3 10 2.4857 - 2.4000 1.00 2830 148 0.3521 0.4357 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) : 38.250 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 : 0.004 5317 REMARK 3 ANGLE : 0.915 7212 REMARK 3 CHIRALITY : 0.052 789 REMARK 3 PLANARITY : 0.007 1567 REMARK 3 DIHEDRAL : 9.064 3158 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 2.3383 -27.9047 -9.1934 REMARK 3 T TENSOR REMARK 3 T11: 0.8007 T22: 0.7818 REMARK 3 T33: 0.7734 T12: 0.0237 REMARK 3 T13: -0.0437 T23: 0.1064 REMARK 3 L TENSOR REMARK 3 L11: 1.5759 L22: 1.6907 REMARK 3 L33: 0.5992 L12: -0.8995 REMARK 3 L13: 0.3289 L23: -0.1898 REMARK 3 S TENSOR REMARK 3 S11: -0.0275 S12: -0.0543 S13: 0.0320 REMARK 3 S21: -0.0994 S22: 0.1308 S23: 1.0052 REMARK 3 S31: -0.0166 S32: -0.2571 S33: -0.0859 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 6QKX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1292100355. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-OCT-18 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 : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29947 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07100 REMARK 200 FOR THE DATA SET : 12.9000 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) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 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: 6QKR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, NAF, PH 7.5, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y,Z REMARK 290 7555 -Y+1/2,X,Z+3/4 REMARK 290 8555 Y,-X+1/2,Z+1/4 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 88.43000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 88.43000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 24.61000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 88.43000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 12.30500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 88.43000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 36.91500 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 88.43000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 88.43000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 24.61000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 88.43000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 36.91500 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 88.43000 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 12.30500 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 TOTAL BURIED SURFACE AREA: 2670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 KCAL/MOL 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 GLU A 2 REMARK 465 LEU A 3 REMARK 465 ILE A 4 REMARK 465 LEU A 5 REMARK 465 THR A 6 REMARK 465 LYS A 7 REMARK 465 GLY A 8 REMARK 465 GLY A 9 REMARK 465 VAL A 10 REMARK 465 THR A 11 REMARK 465 ILE A 12 REMARK 465 SER A 673 REMARK 465 LEU A 674 REMARK 465 GLU A 675 REMARK 465 VAL A 676 REMARK 465 ASP A 677 REMARK 465 LEU A 678 REMARK 465 GLN A 679 REMARK 465 GLY A 680 REMARK 465 ASP A 681 REMARK 465 HIS A 682 REMARK 465 GLY A 683 REMARK 465 LEU A 684 REMARK 465 SER A 685 REMARK 465 ALA A 686 REMARK 465 TRP A 687 REMARK 465 SER A 688 REMARK 465 HIS A 689 REMARK 465 PRO A 690 REMARK 465 GLN A 691 REMARK 465 PHE A 692 REMARK 465 GLU A 693 REMARK 465 LYS A 694 REMARK 465 GLY A 695 REMARK 465 GLY A 696 REMARK 465 GLY A 697 REMARK 465 SER A 698 REMARK 465 GLY A 699 REMARK 465 GLY A 700 REMARK 465 GLY A 701 REMARK 465 SER A 702 REMARK 465 GLY A 703 REMARK 465 GLY A 704 REMARK 465 GLY A 705 REMARK 465 SER A 706 REMARK 465 TRP A 707 REMARK 465 SER A 708 REMARK 465 HIS A 709 REMARK 465 PRO A 710 REMARK 465 GLN A 711 REMARK 465 PHE A 712 REMARK 465 GLU A 713 REMARK 465 LYS A 714 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 ALA A 406 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 NH1 ARG A 60 O GLY A 346 2.08 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 ILE A 194 -156.63 -125.55 REMARK 500 VAL A 195 -4.59 0.58 REMARK 500 LEU A 276 136.16 -170.03 REMARK 500 ALA A 319 -145.20 -143.93 REMARK 500 TYR A 320 77.00 71.41 REMARK 500 MET A 322 58.26 -95.19 REMARK 500 ALA A 369 37.47 70.14 REMARK 500 CYS A 374 -70.04 -96.72 REMARK 500 ALA A 405 73.48 59.89 REMARK 500 ALA A 406 1.37 -56.89 REMARK 500 LYS A 408 69.00 64.64 REMARK 500 LYS A 527 46.66 -84.80 REMARK 500 ASP A 569 30.52 -98.28 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 SF4 A 801 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 367 SG REMARK 620 2 SF4 A 801 S1 114.6 REMARK 620 3 SF4 A 801 S2 104.3 104.3 REMARK 620 4 SF4 A 801 S4 123.1 104.0 104.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 801 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 370 SG REMARK 620 2 SF4 A 801 S1 126.9 REMARK 620 3 SF4 A 801 S2 119.6 104.5 REMARK 620 4 SF4 A 801 S3 92.7 103.8 104.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 801 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 374 SG REMARK 620 2 SF4 A 801 S2 94.4 REMARK 620 3 SF4 A 801 S3 122.8 104.6 REMARK 620 4 SF4 A 801 S4 122.3 104.0 104.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 801 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 386 SG REMARK 620 2 SF4 A 801 S1 118.3 REMARK 620 3 SF4 A 801 S3 114.8 104.2 REMARK 620 4 SF4 A 801 S4 109.6 104.0 104.5 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMN A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue J5H A 804 DBREF 6QKX A 1 670 UNP E1YD54 E1YD54_9DELT 1 670 SEQADV 6QKX ARG A 671 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 672 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX SER A 673 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX LEU A 674 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLU A 675 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX VAL A 676 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX ASP A 677 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX LEU A 678 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLN A 679 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 680 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX ASP A 681 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX HIS A 682 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 683 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX LEU A 684 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX SER A 685 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX ALA A 686 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX TRP A 687 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX SER A 688 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX HIS A 689 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX PRO A 690 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLN A 691 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX PHE A 692 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLU A 693 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX LYS A 694 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 695 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 696 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 697 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX SER A 698 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 699 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 700 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 701 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX SER A 702 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 703 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 704 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLY A 705 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX SER A 706 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX TRP A 707 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX SER A 708 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX HIS A 709 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX PRO A 710 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLN A 711 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX PHE A 712 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX GLU A 713 UNP E1YD54 EXPRESSION TAG SEQADV 6QKX LYS A 714 UNP E1YD54 EXPRESSION TAG SEQRES 1 A 714 MET GLU LEU ILE LEU THR LYS GLY GLY VAL THR ILE MET SEQRES 2 A 714 TYR GLU ASN LEU CYS LYS PRO ILE LYS ILE GLY ASN HIS SEQRES 3 A 714 LEU VAL LYS ASN ARG MET LYS TYR ALA ALA THR VAL ASP SEQRES 4 A 714 ASN PHE CYS ASP THR LYS ASN GLY ASN VAL ILE ASP ARG SEQRES 5 A 714 GLU ILE GLU TYR LEU ARG GLU ARG ALA LYS GLY GLY PHE SEQRES 6 A 714 GLY ILE VAL VAL SER GLN GLY GLY TYR THR HIS ILE LEU SEQRES 7 A 714 GLY LYS GLY TYR VAL GLY GLN MET GLY LEU VAL GLU GLU SEQRES 8 A 714 SER HIS LEU PRO GLY LEU LYS LYS LEU ALA ASP ALA ILE SEQRES 9 A 714 ASN ALA GLU GLY ALA MET SER ILE GLY GLN ILE MET HIS SEQRES 10 A 714 THR GLY ARG TYR GLY HIS ALA HIS GLU TYR GLY ILE HIS SEQRES 11 A 714 GLU ALA ILE ALA GLY GLY LYS THR VAL GLY PRO GLU PRO SEQRES 12 A 714 VAL GLY PRO THR ALA MET SER SER PRO ILE LYS ARG TYR SEQRES 13 A 714 SER PRO CYS ARG GLU MET THR PRO GLU GLU ILE GLU GLU SEQRES 14 A 714 GLN ILE GLN ALA HIS ILE VAL ALA ALA ARG MET PHE LYS SEQRES 15 A 714 GLN THR GLY TRP LYS GLY VAL GLU VAL CYS ALA ILE VAL SEQRES 16 A 714 GLY TYR LEU ILE ALA ASP PHE LEU SER ARG TRP THR ASN SEQRES 17 A 714 LYS ARG THR ASP LYS TRP GLY GLY SER LEU GLU ASN ARG SEQRES 18 A 714 ALA ARG PHE LEU ILE GLU ILE LEU LYS GLY ILE ARG LYS SEQRES 19 A 714 GLU VAL GLY ASP ASP TYR PRO LEU VAL MET ARG LEU ASN SEQRES 20 A 714 SER THR ASP LEU ILE GLU GLY GLY ASN THR ASP GLU GLU SEQRES 21 A 714 TYR ILE GLU ILE ALA LYS MET CYS GLU ALA ALA VAL ARG SEQRES 22 A 714 ILE ASP LEU PHE SER ILE THR VAL GLY TRP HIS GLU SER SEQRES 23 A 714 PRO GLY ALA ALA ILE THR ALA GLU LYS ARG PRO GLY ASP SEQRES 24 A 714 TRP LEU HIS LEU ALA ASP ASN TRP LYS LYS ALA GLY ILE SEQRES 25 A 714 LYS ALA PRO ILE CYS MET ALA TYR ARG MET ASN GLN PRO SEQRES 26 A 714 ASP VAL ALA GLU LYS ALA VAL ALA GLU GLY ARG ILE ASP SEQRES 27 A 714 ILE TRP GLU MET CYS ARG PRO GLY ILE ALA ASP PRO TYR SEQRES 28 A 714 LEU PRO LYS LYS VAL CYS GLU GLY ARG PRO GLU ASP ILE SEQRES 29 A 714 VAL THR CYS THR ALA CYS ASN GLN GLY CYS PHE TYR TYR SEQRES 30 A 714 VAL PHE ILE ASP ALA ILE MET GLY CYS MET VAL ASN PRO SEQRES 31 A 714 ARG VAL GLY ASN GLU TRP ASP PRO ALA TYR ALA ILE ASN SEQRES 32 A 714 PRO ALA ALA LYS LYS LYS LYS VAL LEU VAL VAL GLY ALA SEQRES 33 A 714 GLY PRO SER GLY MET GLU CYS ALA ARG LEU ALA ALA VAL SEQRES 34 A 714 ARG GLY HIS ASP VAL THR ILE MET GLU LYS SER ASP SER SEQRES 35 A 714 ILE GLY GLY GLU VAL LYS LEU GLY VAL LYS SER PRO LEU SEQRES 36 A 714 LEU TYR ASP TRP ALA GLU THR ILE ARG TYR TYR LYS ALA SEQRES 37 A 714 GLN ILE ASP LYS LEU GLY ILE LYS LEU LYS LEU ASN THR SEQRES 38 A 714 GLU ALA THR ALA ASP SER ILE LYS ALA GLU ALA PRO ASP SEQRES 39 A 714 VAL LEU VAL ILE ALA THR GLY GLY LYS PRO SER ARG PRO SEQRES 40 A 714 LYS ILE GLU GLY ILE ASP ASN LYS ILE VAL THR ASN VAL SEQRES 41 A 714 PHE ASP ILE LEU GLU GLY LYS VAL LYS LEU GLY ASP LYS SEQRES 42 A 714 VAL VAL PHE ILE GLY GLY ASN GLU ILE SER ILE GLN THR SEQRES 43 A 714 ALA GLU TYR VAL ALA GLU GLN GLY LYS GLU VAL THR VAL SEQRES 44 A 714 LEU GLU LYS GLY LYS HIS ILE CYS PHE ASP VAL ASN ILE SEQRES 45 A 714 PHE ASN ILE LEU GLN HIS ARG ARG LEU MET ALA LYS LEU SEQRES 46 A 714 ASN MET LYS SER MET THR ASN VAL THR ILE ASN GLU ILE SEQRES 47 A 714 ASN ASP ASP GLY VAL GLU ILE SER THR ALA GLY GLY LYS SEQRES 48 A 714 ASP VAL THR ILE GLU ALA ASP ASN VAL VAL VAL ALA GLU SEQRES 49 A 714 GLY MET ASP ALA ASP ASP ALA LEU ALA LYS ALA VAL GLY SEQRES 50 A 714 THR LYS ILE ALA PRO GLU VAL TYR SER ILE GLY ASP CYS SEQRES 51 A 714 ALA GLY VAL ARG LYS LEU TYR GLU ALA ILE HIS ASP GLY SEQRES 52 A 714 TYR LYS MET GLY VAL LYS ILE ARG GLY SER LEU GLU VAL SEQRES 53 A 714 ASP LEU GLN GLY ASP HIS GLY LEU SER ALA TRP SER HIS SEQRES 54 A 714 PRO GLN PHE GLU LYS GLY GLY GLY SER GLY GLY GLY SER SEQRES 55 A 714 GLY GLY GLY SER TRP SER HIS PRO GLN PHE GLU LYS HET SF4 A 801 8 HET FAD A 802 53 HET FMN A 803 31 HET J5H A 804 60 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM J5H ~{S}-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5- HETNAM 2 J5H (6-AMINOPURIN-9-YL)-4-OXIDANYL-3-PHOSPHONOOXY-OXOLAN- HETNAM 3 J5H 2-YL]METHOXY-OXIDANYL-PHOSPHORYL]OXY-OXIDANYL- HETNAM 4 J5H PHOSPHORYL]OXY-3,3-DIMETHYL-2-OXIDANYL- HETNAM 5 J5H BUTANOYL]AMINO]PROPANOYLAMINO]ETHYL] NAPHTHALENE-2- HETNAM 6 J5H CARBOTHIOATE HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 2 SF4 FE4 S4 FORMUL 3 FAD C27 H33 N9 O15 P2 FORMUL 4 FMN C17 H21 N4 O9 P FORMUL 5 J5H C32 H42 N7 O17 P3 S FORMUL 6 HOH *27(H2 O) HELIX 1 AA1 GLU A 15 LYS A 19 5 5 HELIX 2 AA2 ILE A 50 GLY A 63 1 14 HELIX 3 AA3 HIS A 76 LYS A 80 5 5 HELIX 4 AA4 GLU A 90 SER A 92 5 3 HELIX 5 AA5 HIS A 93 GLU A 107 1 15 HELIX 6 AA6 THR A 118 GLY A 122 5 5 HELIX 7 AA7 HIS A 123 GLY A 128 5 6 HELIX 8 AA8 THR A 163 GLN A 183 1 21 HELIX 9 AA9 TYR A 197 SER A 204 1 8 HELIX 10 AB1 SER A 217 ALA A 222 1 6 HELIX 11 AB2 ALA A 222 GLY A 237 1 16 HELIX 12 AB3 THR A 257 VAL A 272 1 16 HELIX 13 AB4 TRP A 300 ALA A 310 1 11 HELIX 14 AB5 GLN A 324 GLU A 334 1 11 HELIX 15 AB6 CYS A 343 ASP A 349 1 7 HELIX 16 AB7 TYR A 351 GLU A 358 1 8 HELIX 17 AB8 ARG A 360 ILE A 364 5 5 HELIX 18 AB9 CYS A 374 ILE A 380 1 7 HELIX 19 AC1 ASP A 397 ALA A 401 5 5 HELIX 20 AC2 GLY A 417 ARG A 430 1 14 HELIX 21 AC3 GLY A 445 VAL A 451 1 7 HELIX 22 AC4 LYS A 452 TYR A 457 5 6 HELIX 23 AC5 ASP A 458 LEU A 473 1 16 HELIX 24 AC6 THR A 484 ALA A 492 1 9 HELIX 25 AC7 ASN A 519 GLU A 525 1 7 HELIX 26 AC8 ASN A 540 GLN A 553 1 14 HELIX 27 AC9 ASN A 571 LEU A 585 1 15 HELIX 28 AD1 ASP A 630 VAL A 636 1 7 HELIX 29 AD2 GLY A 648 GLY A 652 5 5 HELIX 30 AD3 LYS A 655 VAL A 668 1 14 SHEET 1 AA1 2 ILE A 21 ILE A 23 0 SHEET 2 AA1 2 HIS A 26 VAL A 28 -1 O VAL A 28 N ILE A 21 SHEET 1 AA2 9 MET A 32 TYR A 34 0 SHEET 2 AA2 9 ILE A 67 GLY A 73 1 O ILE A 67 N TYR A 34 SHEET 3 AA2 9 MET A 110 ILE A 115 1 O ILE A 112 N SER A 70 SHEET 4 AA2 9 GLY A 188 ALA A 193 1 O GLU A 190 N GLY A 113 SHEET 5 AA2 9 LEU A 242 THR A 249 1 O ARG A 245 N VAL A 191 SHEET 6 AA2 9 PHE A 277 VAL A 281 1 O SER A 278 N LEU A 246 SHEET 7 AA2 9 ILE A 316 MET A 318 1 O CYS A 317 N PHE A 277 SHEET 8 AA2 9 ILE A 339 MET A 342 1 O GLU A 341 N MET A 318 SHEET 9 AA2 9 MET A 32 TYR A 34 1 N LYS A 33 O TRP A 340 SHEET 1 AA3 2 ALA A 132 ALA A 134 0 SHEET 2 AA3 2 LYS A 137 VAL A 139 -1 O VAL A 139 N ALA A 132 SHEET 1 AA4 2 VAL A 144 GLY A 145 0 SHEET 2 AA4 2 ARG A 160 GLU A 161 1 O ARG A 160 N GLY A 145 SHEET 1 AA5 5 LYS A 476 LYS A 478 0 SHEET 2 AA5 5 ASP A 433 MET A 437 1 N ILE A 436 O LYS A 476 SHEET 3 AA5 5 LYS A 410 VAL A 414 1 N VAL A 413 O THR A 435 SHEET 4 AA5 5 VAL A 495 ILE A 498 1 O VAL A 497 N VAL A 414 SHEET 5 AA5 5 GLU A 643 SER A 646 1 O TYR A 645 N ILE A 498 SHEET 1 AA6 2 GLY A 502 PRO A 504 0 SHEET 2 AA6 2 MET A 626 ALA A 628 -1 O ASP A 627 N LYS A 503 SHEET 1 AA7 5 VAL A 517 THR A 518 0 SHEET 2 AA7 5 ASN A 619 VAL A 622 1 O VAL A 622 N THR A 518 SHEET 3 AA7 5 LYS A 533 ILE A 537 1 N ILE A 537 O VAL A 621 SHEET 4 AA7 5 GLU A 556 GLU A 561 1 O LEU A 560 N PHE A 536 SHEET 5 AA7 5 LYS A 588 THR A 591 1 O MET A 590 N GLU A 561 SHEET 1 AA8 3 THR A 594 ILE A 598 0 SHEET 2 AA8 3 GLY A 602 THR A 607 -1 O SER A 606 N THR A 594 SHEET 3 AA8 3 GLY A 610 GLU A 616 -1 O VAL A 613 N ILE A 605 SSBOND 1 CYS A 18 CYS A 357 1555 1555 2.04 LINK SG CYS A 367 FE3 SF4 A 801 1555 1555 2.55 LINK SG CYS A 370 FE4 SF4 A 801 1555 1555 2.60 LINK SG CYS A 374 FE1 SF4 A 801 1555 1555 2.56 LINK SG CYS A 386 FE2 SF4 A 801 1555 1555 2.60 SITE 1 AC1 10 ARG A 344 CYS A 367 THR A 368 ALA A 369 SITE 2 AC1 10 CYS A 370 ASN A 371 GLY A 373 CYS A 374 SITE 3 AC1 10 CYS A 386 MET A 387 SITE 1 AC2 25 GLY A 415 GLY A 417 PRO A 418 SER A 419 SITE 2 AC2 25 MET A 437 GLU A 438 LYS A 439 GLY A 445 SITE 3 AC2 25 GLU A 446 TRP A 459 THR A 481 ALA A 483 SITE 4 AC2 25 ALA A 499 THR A 500 GLY A 501 LEU A 524 SITE 5 AC2 25 GLU A 541 ILE A 542 GLN A 545 LEU A 632 SITE 6 AC2 25 GLY A 648 ASP A 649 ARG A 654 LYS A 655 SITE 7 AC2 25 LEU A 656 SITE 1 AC3 20 ALA A 35 ALA A 36 THR A 37 VAL A 38 SITE 2 AC3 20 GLY A 72 GLN A 114 MET A 116 CYS A 192 SITE 3 AC3 20 ILE A 194 ARG A 245 ALA A 319 TYR A 320 SITE 4 AC3 20 ARG A 321 MET A 342 CYS A 343 ARG A 344 SITE 5 AC3 20 PRO A 345 CYS A 374 PHE A 375 J5H A 804 SITE 1 AC4 22 VAL A 38 TYR A 82 ILE A 153 LYS A 154 SITE 2 AC4 22 ARG A 155 ILE A 194 VAL A 195 TYR A 197 SITE 3 AC4 22 VAL A 281 GLY A 282 TRP A 283 HIS A 284 SITE 4 AC4 22 GLU A 285 SER A 286 PRO A 287 TYR A 320 SITE 5 AC4 22 PHE A 379 ILE A 572 PHE A 573 LEU A 576 SITE 6 AC4 22 ARG A 579 FMN A 803 CRYST1 176.860 176.860 49.220 90.00 90.00 90.00 I 41 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.005654 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005654 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020317 0.00000