HEADER FLAVOPROTEIN 28-SEP-21 7VIW TITLE DARK ADAPTED MMCPDII DURING OXIDIZED TO SEMIQUINONE TR-SFX STUDIES COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA PHOTOLYASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DEOXYRIBODIPYRIMIDINE PHOTO-LYASE; COMPND 5 EC: 4.1.99.3; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOSARCINA MAZEI GO1; SOURCE 3 ORGANISM_COMMON: METHANOSARCINA FRISIA; SOURCE 4 ORGANISM_TAXID: 192952; SOURCE 5 STRAIN: GO1; SOURCE 6 GENE: MM_0852; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS FLAVOPROTEIN, PHOTOLYASE, ELECTRON TRANSPORT, PHOTOREDUCTION, TIME- KEYWDS 2 RESOLVED SERIAL CRYSTALLOGRAPHY. EXPDTA X-RAY DIFFRACTION AUTHOR M.MAESTRE-REYNA,C.-H.YANG,W.-C.HUANG,E.NANGO,E.P.G.NGURA PUTU, AUTHOR 2 S.FRANZ-BADUR,W.-J.WU,H.-Y.WU,P.-H.WANG,Y.HOSOKAWA,M.SAFT,H.- AUTHOR 3 J.EMMERICH,J.-H.LIAO,C.-C.LEE,K.-F.HUANG,Y.-K.CHANG,J.-H.WENG, AUTHOR 4 A.ROYANT,W.GAD,A.H.PANG,C.-W.CHANG,M.SUGAHARA,S.OWADA,Y.JOTI, AUTHOR 5 A.YAMASHITA,R.TANAKA,T.TANAKA,F.J.LUO,K.TONO,S.KIONTKE,J.YAMAMOTO, AUTHOR 6 S.IWATA,L.-O.ESSEN,Y.BESSHO,M.-D.TSAI REVDAT 4 29-NOV-23 7VIW 1 REMARK REVDAT 3 22-JUN-22 7VIW 1 JRNL REVDAT 2 20-APR-22 7VIW 1 JRNL REVDAT 1 09-MAR-22 7VIW 0 JRNL AUTH M.MAESTRE-REYNA,C.H.YANG,E.NANGO,W.C.HUANG, JRNL AUTH 2 E.P.G.NGURAH PUTU,W.J.WU,P.H.WANG,S.FRANZ-BADUR,M.SAFT, JRNL AUTH 3 H.J.EMMERICH,H.Y.WU,C.C.LEE,K.F.HUANG,Y.K.CHANG,J.H.LIAO, JRNL AUTH 4 J.H.WENG,W.GAD,C.W.CHANG,A.H.PANG,M.SUGAHARA,S.OWADA, JRNL AUTH 5 Y.HOSOKAWA,Y.JOTI,A.YAMASHITA,R.TANAKA,T.TANAKA,F.LUO, JRNL AUTH 6 K.TONO,K.C.HSU,S.KIONTKE,I.SCHAPIRO,R.SPADACCINI,A.ROYANT, JRNL AUTH 7 J.YAMAMOTO,S.IWATA,L.O.ESSEN,Y.BESSHO,M.D.TSAI JRNL TITL SERIAL CRYSTALLOGRAPHY CAPTURES DYNAMIC CONTROL OF JRNL TITL 2 SEQUENTIAL ELECTRON AND PROTON TRANSFER EVENTS IN A JRNL TITL 3 FLAVOENZYME. JRNL REF NAT.CHEM. V. 14 677 2022 JRNL REFN ESSN 1755-4349 JRNL PMID 35393554 JRNL DOI 10.1038/S41557-022-00922-3 REMARK 2 REMARK 2 RESOLUTION. 1.74 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.19_4092: ???) 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) : 1.74 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 64897 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.920 REMARK 3 FREE R VALUE TEST SET COUNT : 3193 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 35.4900 - 4.9400 1.00 2982 148 0.1930 0.2394 REMARK 3 2 4.9400 - 3.9300 1.00 2801 138 0.1399 0.1700 REMARK 3 3 3.9300 - 3.4300 1.00 2777 124 0.1363 0.1664 REMARK 3 4 3.4300 - 3.1200 1.00 2719 158 0.1562 0.1805 REMARK 3 5 3.1200 - 2.8900 1.00 2732 127 0.1690 0.2076 REMARK 3 6 2.8900 - 2.7200 1.00 2681 134 0.1559 0.1930 REMARK 3 7 2.7200 - 2.5900 1.00 2694 145 0.1613 0.2024 REMARK 3 8 2.5900 - 2.4700 1.00 2694 134 0.1643 0.2019 REMARK 3 9 2.4700 - 2.3800 1.00 2688 121 0.1540 0.1894 REMARK 3 10 2.3800 - 2.3000 1.00 2663 148 0.1458 0.1939 REMARK 3 11 2.3000 - 2.2200 1.00 2656 138 0.1337 0.1720 REMARK 3 12 2.2200 - 2.1600 1.00 2661 140 0.1255 0.1438 REMARK 3 13 2.1600 - 2.1000 1.00 2654 125 0.1332 0.1782 REMARK 3 14 2.1000 - 2.0500 1.00 2640 163 0.1654 0.1999 REMARK 3 15 2.0500 - 2.0100 1.00 2635 134 0.1976 0.2513 REMARK 3 16 2.0100 - 1.9600 1.00 2632 130 0.2142 0.2697 REMARK 3 17 1.9600 - 1.9200 1.00 2622 148 0.2050 0.2189 REMARK 3 18 1.9200 - 1.8900 1.00 2653 126 0.2106 0.2247 REMARK 3 19 1.8900 - 1.8500 1.00 2597 148 0.2169 0.2587 REMARK 3 20 1.8500 - 1.8200 1.00 2658 157 0.2441 0.2969 REMARK 3 21 1.8200 - 1.7900 1.00 2613 136 0.2928 0.2758 REMARK 3 22 1.7900 - 1.7700 0.99 2607 138 0.3566 0.3789 REMARK 3 23 1.7700 - 1.7400 1.00 2645 133 0.3994 0.4431 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.320 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 : 0.013 3731 REMARK 3 ANGLE : 1.111 5097 REMARK 3 CHIRALITY : 0.066 538 REMARK 3 PLANARITY : 0.011 649 REMARK 3 DIHEDRAL : 5.163 502 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): 19.5585 25.0556 106.2090 REMARK 3 T TENSOR REMARK 3 T11: 0.2550 T22: 0.2420 REMARK 3 T33: 0.2074 T12: -0.0107 REMARK 3 T13: -0.0135 T23: -0.0028 REMARK 3 L TENSOR REMARK 3 L11: 1.1986 L22: 0.9208 REMARK 3 L33: 2.3324 L12: -0.0597 REMARK 3 L13: 0.3462 L23: -0.2619 REMARK 3 S TENSOR REMARK 3 S11: -0.0281 S12: 0.0541 S13: -0.0048 REMARK 3 S21: -0.0763 S22: -0.0021 S23: 0.0566 REMARK 3 S31: -0.0231 S32: -0.0426 S33: 0.0302 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 7VIW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-OCT-21. REMARK 100 THE DEPOSITION ID IS D_1300024790. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-MAY-19 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : FREE ELECTRON LASER REMARK 200 BEAMLINE : BL2 REMARK 200 X-RAY GENERATOR MODEL : SACLA BEAMLINE BL2 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2398 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MPCCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTFEL 0.6.3 REMARK 200 DATA SCALING SOFTWARE : CRYSTFEL 0.6.3 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66271 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.740 REMARK 200 RESOLUTION RANGE LOW (A) : 38.750 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4844. REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.2400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.74 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.78 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 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 : 0.720 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC 5.8.0253 REMARK 200 STARTING MODEL: 2XRY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.5-0.65 M LI2SO4 10-15% (W/V) REMARK 280 PEG8000, BATCH MODE, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 123.20000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 35.25000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 35.25000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 184.80000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 35.25000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 35.25000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 61.60000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 35.25000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.25000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 184.80000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 35.25000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 35.25000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 61.60000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 123.20000 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: 230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 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 -17 REMARK 465 GLY A -16 REMARK 465 SER A -15 REMARK 465 SER A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 SER A -7 REMARK 465 SER A -6 REMARK 465 GLY A -5 REMARK 465 LEU A -4 REMARK 465 VAL A -3 REMARK 465 PRO A -2 REMARK 465 ARG A -1 REMARK 465 GLY A 0 REMARK 465 SER A 1 REMARK 465 HIS A 2 REMARK 465 VAL A 186 REMARK 465 THR A 187 REMARK 465 PRO A 188 REMARK 465 GLU A 189 REMARK 465 LEU A 190 REMARK 465 SER A 191 REMARK 465 ALA A 192 REMARK 465 GLY A 193 REMARK 465 ALA A 194 REMARK 465 GLY A 195 REMARK 465 MET A 196 REMARK 465 ALA A 463 REMARK 465 LEU A 464 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 ARG A 9 CZ NH1 NH2 REMARK 470 LYS A 12 CD CE NZ REMARK 470 SER A 13 OG REMARK 470 LYS A 15 CG CD CE NZ REMARK 470 LYS A 45 NZ REMARK 470 GLU A 46 CG CD OE1 OE2 REMARK 470 LYS A 74 NZ REMARK 470 ARG A 85 CZ NH1 NH2 REMARK 470 ARG A 94 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 100 CE NZ REMARK 470 SER A 102 OG REMARK 470 ARG A 103 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 106 CG CD CE NZ REMARK 470 SER A 135 OG REMARK 470 GLN A 154 CG CD OE1 NE2 REMARK 470 LYS A 155 NZ REMARK 470 GLU A 180 CG CD OE1 OE2 REMARK 470 GLU A 182 CG CD OE1 OE2 REMARK 470 VAL A 197 CG1 CG2 REMARK 470 GLU A 198 CG CD OE1 OE2 REMARK 470 THR A 199 OG1 CG2 REMARK 470 SER A 201 OG REMARK 470 GLU A 205 CG CD OE1 OE2 REMARK 470 LYS A 209 CG CD CE NZ REMARK 470 LEU A 218 CG CD1 CD2 REMARK 470 LYS A 219 CG CD CE NZ REMARK 470 ASN A 220 CG OD1 ND2 REMARK 470 LYS A 221 CG CD CE NZ REMARK 470 LYS A 235 CD CE NZ REMARK 470 LYS A 238 CD CE NZ REMARK 470 LYS A 239 CE NZ REMARK 470 ASN A 262 CG OD1 ND2 REMARK 470 LYS A 296 NZ REMARK 470 GLU A 331 CD OE1 OE2 REMARK 470 LYS A 354 CE NZ REMARK 470 LYS A 394 NZ REMARK 470 ARG A 429 NE CZ NH1 NH2 REMARK 470 LYS A 439 CE NZ REMARK 470 GLU A 446 CG CD OE1 OE2 REMARK 470 LYS A 449 CG CD CE NZ REMARK 470 ARG A 450 CD NE CZ NH1 NH2 REMARK 470 LYS A 451 CG CD CE NZ REMARK 470 LYS A 455 CG CD CE NZ REMARK 470 GLU A 459 CG CD OE1 OE2 REMARK 470 LYS A 460 CE NZ 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 O2 SO4 A 505 O HOH A 601 1.95 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 56 CB CYS A 56 SG -0.104 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 SER A 26 -59.36 -142.76 REMARK 500 ALA A 64 -152.59 -120.19 REMARK 500 LYS A 221 -4.29 78.92 REMARK 500 LEU A 303 -63.97 -97.38 REMARK 500 VAL A 436 -60.15 71.82 REMARK 500 TYR A 461 70.42 -116.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 777 DISTANCE = 6.28 ANGSTROMS REMARK 525 HOH A 778 DISTANCE = 7.75 ANGSTROMS DBREF 7VIW A 3 464 UNP Q8PYK9 Q8PYK9_METMA 3 464 SEQADV 7VIW MET A -17 UNP Q8PYK9 INITIATING METHIONINE SEQADV 7VIW GLY A -16 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW SER A -15 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW SER A -14 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW HIS A -13 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW HIS A -12 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW HIS A -11 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW HIS A -10 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW HIS A -9 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW HIS A -8 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW SER A -7 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW SER A -6 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW GLY A -5 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW LEU A -4 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW VAL A -3 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW PRO A -2 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW ARG A -1 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW GLY A 0 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW SER A 1 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW HIS A 2 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VIW THR A 377 UNP Q8PYK9 MET 377 ENGINEERED MUTATION SEQRES 1 A 482 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 482 LEU VAL PRO ARG GLY SER HIS MET ASN PRO LYS ARG ILE SEQRES 3 A 482 ARG ALA LEU LYS SER GLY LYS GLN GLY ASP GLY PRO VAL SEQRES 4 A 482 VAL TYR TRP MET SER ARG ASP GLN ARG ALA GLU ASP ASN SEQRES 5 A 482 TRP ALA LEU LEU PHE SER ARG ALA ILE ALA LYS GLU ALA SEQRES 6 A 482 ASN VAL PRO VAL VAL VAL VAL PHE CYS LEU THR ASP GLU SEQRES 7 A 482 PHE LEU GLU ALA GLY ILE ARG GLN TYR GLU PHE MET LEU SEQRES 8 A 482 LYS GLY LEU GLN GLU LEU GLU VAL SER LEU SER ARG LYS SEQRES 9 A 482 LYS ILE PRO SER PHE PHE LEU ARG GLY ASP PRO GLY GLU SEQRES 10 A 482 LYS ILE SER ARG PHE VAL LYS ASP TYR ASN ALA GLY THR SEQRES 11 A 482 LEU VAL THR ASP PHE SER PRO LEU ARG ILE LYS ASN GLN SEQRES 12 A 482 TRP ILE GLU LYS VAL ILE SER GLY ILE SER ILE PRO PHE SEQRES 13 A 482 PHE GLU VAL ASP ALA HIS ASN VAL VAL PRO CYS TRP GLU SEQRES 14 A 482 ALA SER GLN LYS HIS GLU TYR ALA ALA HIS THR PHE ARG SEQRES 15 A 482 PRO LYS LEU TYR ALA LEU LEU PRO GLU PHE LEU GLU GLU SEQRES 16 A 482 PHE PRO GLU LEU GLU PRO ASN SER VAL THR PRO GLU LEU SEQRES 17 A 482 SER ALA GLY ALA GLY MET VAL GLU THR LEU SER ASP VAL SEQRES 18 A 482 LEU GLU THR GLY VAL LYS ALA LEU LEU PRO GLU ARG ALA SEQRES 19 A 482 LEU LEU LYS ASN LYS ASP PRO LEU PHE GLU PRO TRP HIS SEQRES 20 A 482 PHE GLU PRO GLY GLU LYS ALA ALA LYS LYS VAL MET GLU SEQRES 21 A 482 SER PHE ILE ALA ASP ARG LEU ASP SER TYR GLY ALA LEU SEQRES 22 A 482 ARG ASN ASP PRO THR LYS ASN MET LEU SER ASN LEU SER SEQRES 23 A 482 PRO TYR LEU HIS PHE GLY GLN ILE SER SER GLN ARG VAL SEQRES 24 A 482 VAL LEU GLU VAL GLU LYS ALA GLU SER ASN PRO GLY SER SEQRES 25 A 482 LYS LYS ALA PHE LEU ASP GLU ILE LEU ILE TRP LYS GLU SEQRES 26 A 482 ILE SER ASP ASN PHE CYS TYR TYR ASN PRO GLY TYR ASP SEQRES 27 A 482 GLY PHE GLU SER PHE PRO SER TRP ALA LYS GLU SER LEU SEQRES 28 A 482 ASN ALA HIS ARG ASN ASP VAL ARG SER HIS ILE TYR THR SEQRES 29 A 482 LEU GLU GLU PHE GLU ALA GLY LYS THR HIS ASP PRO LEU SEQRES 30 A 482 TRP ASN ALA SER GLN MET GLU LEU LEU SER THR GLY LYS SEQRES 31 A 482 MET HIS GLY TYR THR ARG MET TYR TRP ALA LYS LYS ILE SEQRES 32 A 482 LEU GLU TRP SER GLU SER PRO GLU LYS ALA LEU GLU ILE SEQRES 33 A 482 ALA ILE CYS LEU ASN ASP ARG TYR GLU LEU ASP GLY ARG SEQRES 34 A 482 ASP PRO ASN GLY TYR ALA GLY ILE ALA TRP SER ILE GLY SEQRES 35 A 482 GLY VAL HIS ASP ARG ALA TRP GLY GLU ARG GLU VAL THR SEQRES 36 A 482 GLY LYS ILE ARG TYR MET SER TYR GLU GLY CYS LYS ARG SEQRES 37 A 482 LYS PHE ASP VAL LYS LEU TYR ILE GLU LYS TYR SER ALA SEQRES 38 A 482 LEU HET SO4 A 501 5 HET SO4 A 502 5 HET FAD A 503 53 HET SO4 A 504 5 HET SO4 A 505 5 HETNAM SO4 SULFATE ION HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE FORMUL 2 SO4 4(O4 S 2-) FORMUL 4 FAD C27 H33 N9 O15 P2 FORMUL 7 HOH *178(H2 O) HELIX 1 AA1 ASN A 4 LYS A 6 5 3 HELIX 2 AA2 ASN A 34 ASN A 48 1 15 HELIX 3 AA3 GLU A 60 ALA A 64 5 5 HELIX 4 AA4 GLY A 65 LYS A 86 1 22 HELIX 5 AA5 ASP A 96 TYR A 108 1 13 HELIX 6 AA6 LEU A 120 ILE A 134 1 15 HELIX 7 AA7 PRO A 148 SER A 153 1 6 HELIX 8 AA8 ALA A 159 LEU A 175 1 17 HELIX 9 AA9 THR A 199 LEU A 212 1 14 HELIX 10 AB1 PRO A 213 ARG A 215 5 3 HELIX 11 AB2 GLY A 233 ARG A 248 1 16 HELIX 12 AB3 ARG A 248 ARG A 256 1 9 HELIX 13 AB4 LEU A 267 PHE A 273 1 7 HELIX 14 AB5 SER A 277 LYS A 287 1 11 HELIX 15 AB6 ASN A 291 LEU A 303 1 13 HELIX 16 AB7 LEU A 303 ASN A 316 1 14 HELIX 17 AB8 GLY A 321 PHE A 325 5 5 HELIX 18 AB9 PRO A 326 HIS A 336 1 11 HELIX 19 AC1 THR A 346 ALA A 352 1 7 HELIX 20 AC2 ASP A 357 GLY A 371 1 15 HELIX 21 AC3 HIS A 374 TRP A 388 1 15 HELIX 22 AC4 SER A 391 GLU A 407 1 17 HELIX 23 AC5 ASP A 412 GLY A 425 1 14 HELIX 24 AC6 SER A 444 ARG A 450 1 7 HELIX 25 AC7 ASP A 453 TYR A 461 1 9 SHEET 1 AA1 6 ILE A 8 LYS A 12 0 SHEET 2 AA1 6 PHE A 138 VAL A 141 -1 O PHE A 138 N LEU A 11 SHEET 3 AA1 6 THR A 112 ASP A 116 1 N LEU A 113 O PHE A 139 SHEET 4 AA1 6 VAL A 21 TRP A 24 1 N TRP A 24 O VAL A 114 SHEET 5 AA1 6 VAL A 51 LEU A 57 1 O VAL A 52 N TYR A 23 SHEET 6 AA1 6 SER A 90 ARG A 94 1 O LEU A 93 N LEU A 57 CRYST1 70.500 70.500 246.400 90.00 90.00 90.00 P 43 21 2 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 0.014184 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014184 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004058 0.00000