HEADER OXIDOREDUCTASE 29-JUN-18 6A6V TITLE CRYSTAL STRUCTURE OF THE MODIFIED FRUCTOSYL PEPTIDE OXIDASE FROM TITLE 2 ASPERGILLUS NIDULANS WITH 7 ADDITIONAL MUTATIONS, IN COMPLEX WITH FSA COMPND MOL_ID: 1; COMPND 2 MOLECULE: FRUCTOSYL AMINE: OXYGEN OXIDOREDUCTASE; COMPND 3 CHAIN: A, H; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ASPERGILLUS NIDULANS; SOURCE 3 ORGANISM_TAXID: 162425; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FRUCTOSYL PEPTIDE, OXIDOREDUCTASE, ASPERGILLUS NIDULANS, FAD-BINDING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR N.OGAWA,Y.MARUYAMA,T.ITOH,W.HASHIMOTO,K.MURATA REVDAT 4 20-NOV-24 6A6V 1 REMARK REVDAT 3 22-NOV-23 6A6V 1 HETSYN REVDAT 2 29-JUL-20 6A6V 1 REMARK SITE ATOM REVDAT 1 15-MAY-19 6A6V 0 JRNL AUTH N.OGAWA,T.KIMURA,F.UMEHARA,Y.KATAYAMA,G.NAGAI,K.SUZUKI, JRNL AUTH 2 K.AISAKA,Y.MARUYAMA,T.ITOH,W.HASHIMOTO,K.MURATA,M.ICHIMURA JRNL TITL CREATION OF HAEMOGLOBIN A1C DIRECT OXIDASE FROM FRUCTOSYL JRNL TITL 2 PEPTIDE OXIDASE BY COMBINED STRUCTURE-BASED SITE SPECIFIC JRNL TITL 3 MUTAGENESIS AND RANDOM MUTAGENESIS. JRNL REF SCI REP V. 9 942 2019 JRNL REFN ESSN 2045-2322 JRNL PMID 30700768 JRNL DOI 10.1038/S41598-018-37806-X REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.46 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 33394 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.780 REMARK 3 FREE R VALUE TEST SET COUNT : 1597 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 49.4645 - 6.4446 0.99 2924 151 0.1443 0.1578 REMARK 3 2 6.4446 - 5.1170 1.00 2933 114 0.1463 0.1857 REMARK 3 3 5.1170 - 4.4706 1.00 2913 141 0.1207 0.1425 REMARK 3 4 4.4706 - 4.0621 1.00 2894 144 0.1186 0.1511 REMARK 3 5 4.0621 - 3.7711 1.00 2851 180 0.1488 0.1995 REMARK 3 6 3.7711 - 3.5488 1.00 2886 139 0.1783 0.2140 REMARK 3 7 3.5488 - 3.3711 1.00 2921 125 0.1899 0.2331 REMARK 3 8 3.3711 - 3.2244 1.00 2857 155 0.2187 0.3171 REMARK 3 9 3.2244 - 3.1003 1.00 2874 159 0.2428 0.3252 REMARK 3 10 3.1003 - 2.9933 1.00 2887 139 0.2611 0.3349 REMARK 3 11 2.9933 - 2.8997 0.99 2857 150 0.2480 0.3092 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) : 0.370 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.310 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 : 0.007 7077 REMARK 3 ANGLE : 1.477 9593 REMARK 3 CHIRALITY : 0.144 1018 REMARK 3 PLANARITY : 0.005 1216 REMARK 3 DIHEDRAL : 12.293 2567 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 80 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.9882 -55.1530 -0.9900 REMARK 3 T TENSOR REMARK 3 T11: 0.2140 T22: 0.3974 REMARK 3 T33: 0.2710 T12: 0.0492 REMARK 3 T13: -0.0114 T23: 0.0391 REMARK 3 L TENSOR REMARK 3 L11: 3.7794 L22: 4.6025 REMARK 3 L33: 2.6818 L12: 1.7640 REMARK 3 L13: -1.5818 L23: -0.8912 REMARK 3 S TENSOR REMARK 3 S11: -0.1177 S12: -0.0078 S13: -0.2267 REMARK 3 S21: -0.0166 S22: -0.0378 S23: -0.4792 REMARK 3 S31: 0.1043 S32: 0.4483 S33: 0.1123 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 81 THROUGH 234 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.8521 -57.1296 0.0502 REMARK 3 T TENSOR REMARK 3 T11: 0.2355 T22: 0.2999 REMARK 3 T33: 0.2353 T12: 0.1107 REMARK 3 T13: 0.0729 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 1.8848 L22: 3.5590 REMARK 3 L33: 2.2442 L12: 0.9901 REMARK 3 L13: -0.1294 L23: -1.0438 REMARK 3 S TENSOR REMARK 3 S11: 0.0523 S12: -0.0726 S13: -0.0089 REMARK 3 S21: 0.2365 S22: 0.0220 S23: 0.0397 REMARK 3 S31: 0.1345 S32: 0.0101 S33: -0.0590 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 235 THROUGH 434 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.7475 -49.8730 0.0667 REMARK 3 T TENSOR REMARK 3 T11: 0.2474 T22: 0.2983 REMARK 3 T33: 0.2967 T12: 0.0341 REMARK 3 T13: 0.0376 T23: 0.0215 REMARK 3 L TENSOR REMARK 3 L11: 1.9980 L22: 2.1135 REMARK 3 L33: 2.4493 L12: -0.2905 REMARK 3 L13: -0.5198 L23: -0.4853 REMARK 3 S TENSOR REMARK 3 S11: -0.0738 S12: -0.1257 S13: 0.0206 REMARK 3 S21: 0.3142 S22: 0.1186 S23: 0.0043 REMARK 3 S31: -0.1119 S32: -0.1356 S33: -0.0483 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 3 THROUGH 80 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.8133 -56.0381 -46.9344 REMARK 3 T TENSOR REMARK 3 T11: 0.4375 T22: 0.6346 REMARK 3 T33: 0.5023 T12: -0.1409 REMARK 3 T13: 0.1042 T23: -0.2438 REMARK 3 L TENSOR REMARK 3 L11: 2.5597 L22: 3.1824 REMARK 3 L33: 2.3051 L12: -0.8699 REMARK 3 L13: -1.0546 L23: 0.4727 REMARK 3 S TENSOR REMARK 3 S11: -0.3090 S12: 0.5407 S13: -0.6780 REMARK 3 S21: -0.1529 S22: -0.2645 S23: 0.4249 REMARK 3 S31: 0.3190 S32: -0.7291 S33: 0.5171 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 81 THROUGH 160 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.3492 -68.6800 -54.0120 REMARK 3 T TENSOR REMARK 3 T11: 0.6607 T22: 0.4867 REMARK 3 T33: 0.9074 T12: -0.0653 REMARK 3 T13: 0.3065 T23: -0.2131 REMARK 3 L TENSOR REMARK 3 L11: 3.4653 L22: 2.5147 REMARK 3 L33: 2.2105 L12: 0.1830 REMARK 3 L13: 0.0015 L23: 0.0447 REMARK 3 S TENSOR REMARK 3 S11: -0.3827 S12: 0.3724 S13: -1.1747 REMARK 3 S21: -0.2505 S22: -0.0149 S23: -0.5318 REMARK 3 S31: 0.6189 S32: 0.1105 S33: 0.4427 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 161 THROUGH 332 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.8737 -45.7423 -48.7623 REMARK 3 T TENSOR REMARK 3 T11: 0.4109 T22: 0.4458 REMARK 3 T33: 0.3441 T12: -0.0767 REMARK 3 T13: 0.0567 T23: -0.1441 REMARK 3 L TENSOR REMARK 3 L11: 2.0321 L22: 1.6418 REMARK 3 L33: 2.2055 L12: -0.2442 REMARK 3 L13: -0.9874 L23: 0.6264 REMARK 3 S TENSOR REMARK 3 S11: -0.1442 S12: 0.4377 S13: -0.3759 REMARK 3 S21: -0.4354 S22: -0.0876 S23: 0.0317 REMARK 3 S31: -0.1531 S32: -0.2629 S33: 0.1953 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'H' AND (RESID 333 THROUGH 434 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.1027 -51.0058 -41.9631 REMARK 3 T TENSOR REMARK 3 T11: 0.3716 T22: 0.3528 REMARK 3 T33: 0.4710 T12: -0.0809 REMARK 3 T13: 0.1143 T23: -0.1061 REMARK 3 L TENSOR REMARK 3 L11: 2.3629 L22: 1.0226 REMARK 3 L33: 3.4669 L12: -0.0854 REMARK 3 L13: -1.4263 L23: 0.7259 REMARK 3 S TENSOR REMARK 3 S11: -0.3149 S12: 0.1419 S13: -0.7174 REMARK 3 S21: -0.2721 S22: -0.0430 S23: -0.0756 REMARK 3 S31: 0.1043 S32: -0.1366 S33: 0.3427 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 6A6V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1300008134. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-17A 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 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33508 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.500 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.85200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: 6A6R REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5% PGA, 20% PEG 3350, 0.1M CAPS (PH REMARK 280 8.8), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 96.45333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 48.22667 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 72.34000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 24.11333 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 120.56667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: H 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 ALA A 2 REMARK 465 GLU A 435 REMARK 465 ALA A 436 REMARK 465 LYS A 437 REMARK 465 MET A 438 REMARK 465 MET H 1 REMARK 465 ALA H 2 REMARK 465 SER H 61 REMARK 465 GLY H 62 REMARK 465 ALA H 63 REMARK 465 GLU H 435 REMARK 465 ALA H 436 REMARK 465 LYS H 437 REMARK 465 MET H 438 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 H 282 O3 FSA H 502 1.44 REMARK 500 OE1 GLU A 282 O3 FSA A 502 1.44 REMARK 500 OD1 ASP A 40 O2B FAD A 501 1.50 REMARK 500 OG SER A 49 O1A FAD A 501 1.64 REMARK 500 O GLY A 376 O5 FSA A 502 1.80 REMARK 500 NH1 ARG A 419 O4 FSA A 502 1.84 REMARK 500 NH1 ARG H 419 O4 FSA H 502 1.85 REMARK 500 O GLY H 376 O5 FSA H 502 1.92 REMARK 500 OD2 ASP H 40 O2B FAD H 501 1.92 REMARK 500 OH TYR A 261 OE2 GLU A 282 1.99 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 ARG A 419 NE - CZ - NH1 ANGL. DEV. = 3.4 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 A 219 60.58 -110.65 REMARK 500 TYR A 265 -42.01 -136.39 REMARK 500 ASP A 272 -169.29 -78.27 REMARK 500 THR A 316 -106.55 -128.01 REMARK 500 THR A 372 -155.63 -157.23 REMARK 500 HIS A 377 14.87 -147.49 REMARK 500 SER A 417 -132.67 52.63 REMARK 500 THR H 17 -70.86 -70.78 REMARK 500 ALA H 160 84.31 -69.57 REMARK 500 ALA H 219 60.47 -110.79 REMARK 500 TYR H 265 -41.38 -135.29 REMARK 500 ASP H 272 -168.46 -77.01 REMARK 500 THR H 316 -106.27 -127.84 REMARK 500 THR H 372 -154.87 -157.18 REMARK 500 HIS H 377 14.87 -146.48 REMARK 500 SER H 417 -132.90 53.27 REMARK 500 REMARK 500 REMARK: NULL DBREF 6A6V A 1 438 PDB 6A6V 6A6V 1 438 DBREF 6A6V H 1 438 PDB 6A6V 6A6V 1 438 SEQRES 1 A 438 MET ALA PRO ARG ALA ASN THR LYS ILE ILE VAL VAL GLY SEQRES 2 A 438 GLY GLY GLY THR MET GLY SER SER THR ALA LEU HIS LEU SEQRES 3 A 438 LEU ARG ALA GLY TYR THR PRO SER ASN ILE THR VAL LEU SEQRES 4 A 438 ASP THR TYR PRO ILE PRO SER ALA GLN SER ALA GLY TYR SEQRES 5 A 438 ASP LEU ASN LYS ILE PHE GLY ILE SER GLY ALA ASN LYS SEQRES 6 A 438 PRO ASP LEU GLN LEU SER LEU GLU ALA PHE ASP MET TRP SEQRES 7 A 438 LYS ASN ASP PRO LEU PHE LYS PRO PHE PHE HIS ASN VAL SEQRES 8 A 438 GLY GLN MET ASP VAL SER SER THR GLU GLU GLY ILE LYS SEQRES 9 A 438 LYS LEU ARG LYS ARG TYR GLN SER LEU LEU ARG ALA GLY SEQRES 10 A 438 ILE GLY LEU GLU LYS THR ASN PHE LEU LEU GLU SER GLU SEQRES 11 A 438 ASP GLU ILE LEU ALA LYS ALA PRO HIS PHE THR ARG GLU SEQRES 12 A 438 GLN ILE LYS GLY TRP LYS GLY LEU PHE CYS GLY ASP GLY SEQRES 13 A 438 GLY TRP LEU ALA ALA ALA LYS ALA ILE ASN ALA ILE GLY SEQRES 14 A 438 GLN PHE LEU LYS GLU GLN GLY VAL LYS PHE GLY PHE GLY SEQRES 15 A 438 GLU ALA GLY THR PHE LYS LYS PRO LEU PHE ALA ASP ALA SEQRES 16 A 438 ASP GLU LYS THR CYS ILE GLY VAL GLU THR VAL ASP GLY SEQRES 17 A 438 THR LYS TYR TYR ALA ASP LYS VAL VAL LEU ALA ALA GLY SEQRES 18 A 438 ALA TRP SER SER THR LEU VAL ASP LEU GLU GLU GLN CYS SEQRES 19 A 438 VAL SER LYS ALA TRP VAL PHE ALA HIS ILE GLN LEU THR SEQRES 20 A 438 PRO ALA GLU ALA ALA ALA TYR LYS ASN THR PRO VAL ILE SEQRES 21 A 438 TYR ASP GLY ASP TYR GLY PHE PHE ILE GLU PRO ASP GLU SEQRES 22 A 438 ASN GLY ILE ILE LYS VAL CYS ASP GLU PHE PRO GLY PHE SEQRES 23 A 438 THR HIS PHE LYS MET HIS GLN PRO TYR GLY SER PRO VAL SEQRES 24 A 438 PRO LYS LEU ILE SER VAL PRO ARG SER HIS ALA LYS HIS SEQRES 25 A 438 PRO THR ASP THR TYR PRO HIS ALA SER GLU VAL THR ILE SEQRES 26 A 438 LYS LYS ALA ILE ASN ARG PHE LEU PRO ARG PHE ASN ASP SEQRES 27 A 438 LYS GLU LEU PHE ASN ARG ALA MET CYS TRP CYS THR ASP SEQRES 28 A 438 THR ALA ASP ALA ASN LEU LEU VAL CYS GLU HIS PRO ARG SEQRES 29 A 438 TRP LYS GLY PHE TYR LEU ALA THR GLY ASP SER GLY HIS SEQRES 30 A 438 SER PHE LYS LEU LEU PRO ASN ILE GLY LYS HIS VAL VAL SEQRES 31 A 438 GLU LEU LEU GLU GLY ARG LEU GLU SER VAL PHE LYS ASP SEQRES 32 A 438 ALA TRP ARG TRP ARG PRO GLY SER GLY ASP ALA LEU LYS SEQRES 33 A 438 SER ARG ARG ALA ALA PRO ALA LYS ASP LEU ALA ASP MET SEQRES 34 A 438 PRO GLY TRP ARG ASN GLU ALA LYS MET SEQRES 1 H 438 MET ALA PRO ARG ALA ASN THR LYS ILE ILE VAL VAL GLY SEQRES 2 H 438 GLY GLY GLY THR MET GLY SER SER THR ALA LEU HIS LEU SEQRES 3 H 438 LEU ARG ALA GLY TYR THR PRO SER ASN ILE THR VAL LEU SEQRES 4 H 438 ASP THR TYR PRO ILE PRO SER ALA GLN SER ALA GLY TYR SEQRES 5 H 438 ASP LEU ASN LYS ILE PHE GLY ILE SER GLY ALA ASN LYS SEQRES 6 H 438 PRO ASP LEU GLN LEU SER LEU GLU ALA PHE ASP MET TRP SEQRES 7 H 438 LYS ASN ASP PRO LEU PHE LYS PRO PHE PHE HIS ASN VAL SEQRES 8 H 438 GLY GLN MET ASP VAL SER SER THR GLU GLU GLY ILE LYS SEQRES 9 H 438 LYS LEU ARG LYS ARG TYR GLN SER LEU LEU ARG ALA GLY SEQRES 10 H 438 ILE GLY LEU GLU LYS THR ASN PHE LEU LEU GLU SER GLU SEQRES 11 H 438 ASP GLU ILE LEU ALA LYS ALA PRO HIS PHE THR ARG GLU SEQRES 12 H 438 GLN ILE LYS GLY TRP LYS GLY LEU PHE CYS GLY ASP GLY SEQRES 13 H 438 GLY TRP LEU ALA ALA ALA LYS ALA ILE ASN ALA ILE GLY SEQRES 14 H 438 GLN PHE LEU LYS GLU GLN GLY VAL LYS PHE GLY PHE GLY SEQRES 15 H 438 GLU ALA GLY THR PHE LYS LYS PRO LEU PHE ALA ASP ALA SEQRES 16 H 438 ASP GLU LYS THR CYS ILE GLY VAL GLU THR VAL ASP GLY SEQRES 17 H 438 THR LYS TYR TYR ALA ASP LYS VAL VAL LEU ALA ALA GLY SEQRES 18 H 438 ALA TRP SER SER THR LEU VAL ASP LEU GLU GLU GLN CYS SEQRES 19 H 438 VAL SER LYS ALA TRP VAL PHE ALA HIS ILE GLN LEU THR SEQRES 20 H 438 PRO ALA GLU ALA ALA ALA TYR LYS ASN THR PRO VAL ILE SEQRES 21 H 438 TYR ASP GLY ASP TYR GLY PHE PHE ILE GLU PRO ASP GLU SEQRES 22 H 438 ASN GLY ILE ILE LYS VAL CYS ASP GLU PHE PRO GLY PHE SEQRES 23 H 438 THR HIS PHE LYS MET HIS GLN PRO TYR GLY SER PRO VAL SEQRES 24 H 438 PRO LYS LEU ILE SER VAL PRO ARG SER HIS ALA LYS HIS SEQRES 25 H 438 PRO THR ASP THR TYR PRO HIS ALA SER GLU VAL THR ILE SEQRES 26 H 438 LYS LYS ALA ILE ASN ARG PHE LEU PRO ARG PHE ASN ASP SEQRES 27 H 438 LYS GLU LEU PHE ASN ARG ALA MET CYS TRP CYS THR ASP SEQRES 28 H 438 THR ALA ASP ALA ASN LEU LEU VAL CYS GLU HIS PRO ARG SEQRES 29 H 438 TRP LYS GLY PHE TYR LEU ALA THR GLY ASP SER GLY HIS SEQRES 30 H 438 SER PHE LYS LEU LEU PRO ASN ILE GLY LYS HIS VAL VAL SEQRES 31 H 438 GLU LEU LEU GLU GLY ARG LEU GLU SER VAL PHE LYS ASP SEQRES 32 H 438 ALA TRP ARG TRP ARG PRO GLY SER GLY ASP ALA LEU LYS SEQRES 33 H 438 SER ARG ARG ALA ALA PRO ALA LYS ASP LEU ALA ASP MET SEQRES 34 H 438 PRO GLY TRP ARG ASN GLU ALA LYS MET HET FAD A 501 53 HET FSA A 502 16 HET FAD H 501 53 HET FSA H 502 16 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM FSA 1-S-(CARBOXYMETHYL)-1-THIO-BETA-D-FRUCTOPYRANOSE HETSYN FSA 1-S-(CARBOXYMETHYL)-1-THIO-BETA-D-FRUCTOSE; 1-S- HETSYN 2 FSA (CARBOXYMETHYL)-1-THIO-D-FRUCTOSE; 1-S- HETSYN 3 FSA (CARBOXYMETHYL)-1-THIO-FRUCTOSE FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 FSA 2(C8 H14 O7 S) HELIX 1 AA1 PRO A 3 THR A 7 5 5 HELIX 2 AA2 GLY A 16 GLY A 30 1 15 HELIX 3 AA3 THR A 32 SER A 34 5 3 HELIX 4 AA4 ASN A 64 ASP A 81 1 18 HELIX 5 AA5 PHE A 84 PRO A 86 5 3 HELIX 6 AA6 THR A 99 ARG A 115 1 17 HELIX 7 AA7 GLY A 119 LYS A 122 5 4 HELIX 8 AA8 SER A 129 ALA A 137 1 9 HELIX 9 AA9 ALA A 160 GLY A 176 1 17 HELIX 10 AB1 GLU A 183 GLY A 185 5 3 HELIX 11 AB2 ALA A 220 ALA A 222 5 3 HELIX 12 AB3 TRP A 223 VAL A 228 1 6 HELIX 13 AB4 THR A 247 ALA A 252 1 6 HELIX 14 AB5 ALA A 253 LYS A 255 5 3 HELIX 15 AB6 PRO A 318 LEU A 333 1 16 HELIX 16 AB7 PRO A 334 ASN A 337 5 4 HELIX 17 AB8 SER A 378 LEU A 382 5 5 HELIX 18 AB9 ASN A 384 GLU A 394 1 11 HELIX 19 AC1 GLU A 398 TRP A 405 1 8 HELIX 20 AC2 ALA A 427 MET A 429 5 3 HELIX 21 AC3 PRO H 3 THR H 7 5 5 HELIX 22 AC4 GLY H 16 GLY H 30 1 15 HELIX 23 AC5 THR H 32 SER H 34 5 3 HELIX 24 AC6 PRO H 66 ASP H 81 1 16 HELIX 25 AC7 PHE H 84 PRO H 86 5 3 HELIX 26 AC8 THR H 99 ARG H 115 1 17 HELIX 27 AC9 GLY H 119 LYS H 122 5 4 HELIX 28 AD1 SER H 129 ALA H 137 1 9 HELIX 29 AD2 ALA H 160 GLY H 176 1 17 HELIX 30 AD3 GLU H 183 GLY H 185 5 3 HELIX 31 AD4 ALA H 220 ALA H 222 5 3 HELIX 32 AD5 TRP H 223 VAL H 228 1 6 HELIX 33 AD6 THR H 247 ALA H 253 1 7 HELIX 34 AD7 PRO H 318 LEU H 333 1 16 HELIX 35 AD8 PRO H 334 ASN H 337 5 4 HELIX 36 AD9 SER H 378 LEU H 382 5 5 HELIX 37 AE1 ASN H 384 GLU H 394 1 11 HELIX 38 AE2 GLU H 398 TRP H 405 1 8 HELIX 39 AE3 ALA H 427 MET H 429 5 3 SHEET 1 AA1 6 LYS A 178 PHE A 181 0 SHEET 2 AA1 6 ILE A 36 ASP A 40 1 N VAL A 38 O LYS A 178 SHEET 3 AA1 6 ILE A 9 VAL A 12 1 N VAL A 11 O THR A 37 SHEET 4 AA1 6 LYS A 215 LEU A 218 1 O VAL A 217 N ILE A 10 SHEET 5 AA1 6 PHE A 368 THR A 372 1 O TYR A 369 N LEU A 218 SHEET 6 AA1 6 LEU A 358 GLU A 361 -1 N LEU A 358 O THR A 372 SHEET 1 AA2 3 LYS A 56 PHE A 58 0 SHEET 2 AA2 3 GLY A 157 LEU A 159 -1 O GLY A 157 N PHE A 58 SHEET 3 AA2 3 PHE A 88 HIS A 89 -1 N HIS A 89 O TRP A 158 SHEET 1 AA3 8 ASN A 124 LEU A 127 0 SHEET 2 AA3 8 LYS A 149 CYS A 153 -1 O GLY A 150 N LEU A 127 SHEET 3 AA3 8 GLN A 93 SER A 97 -1 N GLN A 93 O CYS A 153 SHEET 4 AA3 8 VAL A 259 ASP A 262 1 O VAL A 259 N MET A 94 SHEET 5 AA3 8 GLY A 266 PHE A 268 -1 O GLY A 266 N ASP A 262 SHEET 6 AA3 8 ILE A 276 CYS A 280 -1 O CYS A 280 N PHE A 267 SHEET 7 AA3 8 VAL A 235 GLN A 245 -1 N ALA A 242 O VAL A 279 SHEET 8 AA3 8 PHE A 342 ASP A 351 -1 O CYS A 347 N TRP A 239 SHEET 1 AA4 3 PHE A 187 PHE A 192 0 SHEET 2 AA4 3 CYS A 200 THR A 205 -1 O GLY A 202 N LEU A 191 SHEET 3 AA4 3 LYS A 210 TYR A 212 -1 O TYR A 211 N VAL A 203 SHEET 1 AA5 2 PHE A 286 THR A 287 0 SHEET 2 AA5 2 LYS A 424 ASP A 425 1 O LYS A 424 N THR A 287 SHEET 1 AA6 2 PHE A 289 HIS A 292 0 SHEET 2 AA6 2 LYS A 301 SER A 304 -1 O LYS A 301 N HIS A 292 SHEET 1 AA7 6 LYS H 178 PHE H 181 0 SHEET 2 AA7 6 ILE H 36 ASP H 40 1 N VAL H 38 O LYS H 178 SHEET 3 AA7 6 ILE H 9 VAL H 12 1 N VAL H 11 O THR H 37 SHEET 4 AA7 6 LYS H 215 LEU H 218 1 O VAL H 217 N ILE H 10 SHEET 5 AA7 6 PHE H 368 THR H 372 1 O TYR H 369 N VAL H 216 SHEET 6 AA7 6 LEU H 358 GLU H 361 -1 N LEU H 358 O THR H 372 SHEET 1 AA8 3 LYS H 56 PHE H 58 0 SHEET 2 AA8 3 GLY H 157 LEU H 159 -1 O GLY H 157 N PHE H 58 SHEET 3 AA8 3 PHE H 88 HIS H 89 -1 N HIS H 89 O TRP H 158 SHEET 1 AA9 8 ASN H 124 LEU H 127 0 SHEET 2 AA9 8 LYS H 149 CYS H 153 -1 O GLY H 150 N LEU H 127 SHEET 3 AA9 8 GLN H 93 SER H 97 -1 N GLN H 93 O CYS H 153 SHEET 4 AA9 8 VAL H 259 ASP H 262 1 O VAL H 259 N MET H 94 SHEET 5 AA9 8 GLY H 266 PHE H 268 -1 O GLY H 266 N ASP H 262 SHEET 6 AA9 8 ILE H 276 CYS H 280 -1 O CYS H 280 N PHE H 267 SHEET 7 AA9 8 VAL H 235 GLN H 245 -1 N ALA H 242 O VAL H 279 SHEET 8 AA9 8 PHE H 342 ASP H 351 -1 O CYS H 347 N TRP H 239 SHEET 1 AB1 3 PHE H 187 PHE H 192 0 SHEET 2 AB1 3 CYS H 200 THR H 205 -1 O GLY H 202 N LEU H 191 SHEET 3 AB1 3 LYS H 210 TYR H 212 -1 O TYR H 211 N VAL H 203 SHEET 1 AB2 2 PHE H 286 THR H 287 0 SHEET 2 AB2 2 LYS H 424 ASP H 425 1 O LYS H 424 N THR H 287 SHEET 1 AB3 2 PHE H 289 HIS H 292 0 SHEET 2 AB3 2 LYS H 301 SER H 304 -1 O LYS H 301 N HIS H 292 LINK SG CYS A 347 C8M FAD A 501 1555 1555 1.61 LINK SG CYS H 347 C8M FAD H 501 1555 1555 1.62 CISPEP 1 ILE A 44 PRO A 45 0 2.01 CISPEP 2 ILE H 44 PRO H 45 0 1.83 CRYST1 135.540 135.540 144.680 90.00 90.00 120.00 P 65 12 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 0.007378 0.004260 0.000000 0.00000 SCALE2 0.000000 0.008519 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006912 0.00000