HEADER FLAVOPROTEIN 28-SEP-21 7VJ7 TITLE SFX STRUCTURE OF ARCHAEAL CLASS II CPD PHOTOLYASE FROM METHANOSARCINA TITLE 2 MAZEI IN THE FULLY REDUCED STATE 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 OXIDOREDUCTASE, REDOX STATE, PHOTOREDUCTION, FLAVOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.MAESTRE-REYNA,C.-H.YANG,W.C.HUANG,E.NANGO,E.-P.GUSTI-NGURAH-PUTU, AUTHOR 2 S.FRANZ-BADUR,W.-J.WU,H.-Y.WU,P.-H.WANG,J.-H.LIAO,C.-C.LEE,K.- AUTHOR 3 F.HUANG,Y.-K.CHANG,J.-H.WENG,M.SUGAHARA,S.OWADA,Y.JOTI,R.TANAKA, AUTHOR 4 K.TONO,S.KIONTKE,J.YAMAMOTO,S.IWATA,L.-O.ESSEN,Y.BESSHO,M.-D.TSAI REVDAT 4 29-NOV-23 7VJ7 1 REMARK REVDAT 3 22-JUN-22 7VJ7 1 JRNL REVDAT 2 20-APR-22 7VJ7 1 JRNL REVDAT 1 09-MAR-22 7VJ7 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. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.60 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 28634 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.790 REMARK 3 FREE R VALUE TEST SET COUNT : 1372 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 42.6000 - 4.9500 1.00 2969 150 0.2052 0.2573 REMARK 3 2 4.9500 - 3.9300 1.00 2784 138 0.1693 0.1927 REMARK 3 3 3.9300 - 3.4400 1.00 2763 122 0.1806 0.2285 REMARK 3 4 3.4400 - 3.1200 1.00 2697 155 0.2236 0.2636 REMARK 3 5 3.1200 - 2.9000 1.00 2718 129 0.2709 0.3419 REMARK 3 6 2.9000 - 2.7300 1.00 2674 134 0.2738 0.3182 REMARK 3 7 2.7300 - 2.5900 1.00 2676 146 0.3043 0.3248 REMARK 3 8 2.5900 - 2.4800 1.00 2675 132 0.3403 0.4060 REMARK 3 9 2.4800 - 2.3800 1.00 2664 118 0.3256 0.3120 REMARK 3 10 2.3800 - 2.3000 1.00 2642 148 0.3437 0.3628 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.150 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 : 0.002 3725 REMARK 3 ANGLE : 0.529 5084 REMARK 3 CHIRALITY : 0.038 538 REMARK 3 PLANARITY : 0.003 648 REMARK 3 DIHEDRAL : 4.590 501 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 133 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.9172 26.6059 110.9467 REMARK 3 T TENSOR REMARK 3 T11: 0.5668 T22: 0.8014 REMARK 3 T33: 0.5318 T12: 0.0334 REMARK 3 T13: -0.0574 T23: 0.0097 REMARK 3 L TENSOR REMARK 3 L11: 3.0264 L22: 3.1118 REMARK 3 L33: 3.4003 L12: 1.1246 REMARK 3 L13: 0.2951 L23: -0.7355 REMARK 3 S TENSOR REMARK 3 S11: -0.0109 S12: -0.2560 S13: -0.1486 REMARK 3 S21: 0.0408 S22: 0.0988 S23: 0.4100 REMARK 3 S31: 0.0329 S32: -1.0108 S33: -0.0929 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 134 THROUGH 291 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.6847 24.3633 99.3751 REMARK 3 T TENSOR REMARK 3 T11: 0.6759 T22: 0.6102 REMARK 3 T33: 0.5198 T12: -0.0297 REMARK 3 T13: -0.0557 T23: 0.0212 REMARK 3 L TENSOR REMARK 3 L11: 1.2164 L22: 1.5757 REMARK 3 L33: 2.7574 L12: 0.4190 REMARK 3 L13: 0.7032 L23: -0.5668 REMARK 3 S TENSOR REMARK 3 S11: -0.0304 S12: 0.2177 S13: 0.0020 REMARK 3 S21: -0.3436 S22: 0.0667 S23: 0.0933 REMARK 3 S31: 0.1303 S32: -0.1545 S33: -0.0154 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 292 THROUGH 462 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.5202 24.3309 108.0239 REMARK 3 T TENSOR REMARK 3 T11: 0.6281 T22: 0.7112 REMARK 3 T33: 0.5031 T12: -0.0053 REMARK 3 T13: 0.0013 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 2.3130 L22: 1.7966 REMARK 3 L33: 4.0380 L12: -0.0198 REMARK 3 L13: 0.9698 L23: -0.8103 REMARK 3 S TENSOR REMARK 3 S11: -0.0667 S12: 0.2334 S13: -0.0239 REMARK 3 S21: -0.1020 S22: -0.0883 S23: -0.1748 REMARK 3 S31: -0.0031 S32: 0.7131 S33: 0.1730 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 7VJ7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-OCT-21. REMARK 100 THE DEPOSITION ID IS D_1300024802. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-NOV-17 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 8 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) : 1.7712035 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : K/B MIRROR 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 : 28742 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 42.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.648 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.6100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.62 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.610 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.2 REMARK 200 STARTING MODEL: 6IWX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.5-0.65 M LI2SO4, 10-15% (W/V) PEG REMARK 280 8000, PH 8, 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 122.85000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 35.27500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 35.27500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 184.27500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 35.27500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 35.27500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 61.42500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 35.27500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.27500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 184.27500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 35.27500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 35.27500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 61.42500 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 122.85000 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 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 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 LYS A 6 CE NZ REMARK 470 ARG A 9 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 GLN A 16 CG CD OE1 NE2 REMARK 470 ASP A 18 CG OD1 OD2 REMARK 470 GLU A 46 CG CD OE1 OE2 REMARK 470 LYS A 74 CE NZ REMARK 470 ARG A 85 CZ NH1 NH2 REMARK 470 LYS A 87 NZ REMARK 470 ARG A 94 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 100 CE NZ REMARK 470 LYS A 106 CG CD CE NZ REMARK 470 GLN A 154 CG CD OE1 NE2 REMARK 470 LYS A 155 NZ REMARK 470 GLU A 180 CD OE1 OE2 REMARK 470 GLU A 182 CG CD OE1 OE2 REMARK 470 VAL A 186 CG1 CG2 REMARK 470 THR A 187 OG1 CG2 REMARK 470 GLU A 189 CG CD OE1 OE2 REMARK 470 VAL A 197 CG1 CG2 REMARK 470 GLU A 198 CG CD OE1 OE2 REMARK 470 SER A 201 OG REMARK 470 ASP A 202 CG OD1 OD2 REMARK 470 VAL A 203 CG1 CG2 REMARK 470 GLU A 205 CG CD OE1 OE2 REMARK 470 LYS A 209 CG CD CE NZ REMARK 470 LEU A 212 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 GLU A 231 OE1 OE2 REMARK 470 LYS A 235 CD CE NZ REMARK 470 LYS A 238 CD CE NZ REMARK 470 LYS A 239 CG CD CE NZ REMARK 470 ASN A 262 CG OD1 ND2 REMARK 470 LYS A 296 CD CE NZ REMARK 470 GLU A 348 CG CD OE1 OE2 REMARK 470 LYS A 354 CE NZ REMARK 470 GLU A 390 CD OE1 OE2 REMARK 470 LYS A 394 NZ REMARK 470 ARG A 429 NE CZ NH1 NH2 REMARK 470 LYS A 439 CD 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 CG 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 LYS A 460 CD CE NZ REMARK 470 SER A 462 OG REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ALA A 288 NZ LYS A 295 2.05 REMARK 500 O ASP A 357 ND2 ASN A 361 2.11 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 ASP A 18 30.53 -96.57 REMARK 500 SER A 26 -65.78 -138.59 REMARK 500 ALA A 64 -155.59 -112.70 REMARK 500 LEU A 303 -64.50 -100.08 REMARK 500 VAL A 436 -65.95 70.24 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 663 DISTANCE = 7.16 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7VJ6 RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII SEMIQUINONE STEADY STATE STRUCTURE REMARK 900 RELATED ID: 7VIW RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (DARK ADAPTED STATE) REMARK 900 RELATED ID: 7VIX RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (10 NS TIME-POINT) REMARK 900 RELATED ID: 7VIY RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (50 NS TIME-POINT) REMARK 900 RELATED ID: 7VIZ RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (250 NS TIME-POINT) REMARK 900 RELATED ID: 7VJ0 RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (1 US TIME-POINT) REMARK 900 RELATED ID: 7VJ1 RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (10US TIME-POINT) REMARK 900 RELATED ID: 7VJ2 RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (125US NS TIME-POINT) REMARK 900 RELATED ID: 7VJ3 RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (400 US TIME-POINT) REMARK 900 RELATED ID: 7VJ4 RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (1 MS TIME-POINT) REMARK 900 RELATED ID: 7VJ5 RELATED DB: PDB REMARK 900 CLASS II PHOTOLYASE MMCPDII OXIDIZED TO SEMIQUINONE TR-SFX STUDIES REMARK 900 (5 MS TIME-POINT) DBREF 7VJ7 A 3 464 UNP Q8PYK9 Q8PYK9_METMA 3 464 SEQADV 7VJ7 MET A -17 UNP Q8PYK9 INITIATING METHIONINE SEQADV 7VJ7 GLY A -16 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 SER A -15 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 SER A -14 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 HIS A -13 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 HIS A -12 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 HIS A -11 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 HIS A -10 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 HIS A -9 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 HIS A -8 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 SER A -7 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 SER A -6 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 GLY A -5 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 LEU A -4 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 VAL A -3 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 PRO A -2 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 ARG A -1 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 GLY A 0 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 SER A 1 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 HIS A 2 UNP Q8PYK9 EXPRESSION TAG SEQADV 7VJ7 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 DTT A 503 8 HET FAD A 504 53 HET SO4 A 505 5 HETNAM SO4 SULFATE ION HETNAM DTT 2,3-DIHYDROXY-1,4-DITHIOBUTANE HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETSYN DTT 1,4-DITHIOTHREITOL FORMUL 2 SO4 3(O4 S 2-) FORMUL 4 DTT C4 H10 O2 S2 FORMUL 5 FAD C27 H33 N9 O15 P2 FORMUL 7 HOH *63(H2 O) HELIX 1 AA1 ASN A 4 LYS A 6 5 3 HELIX 2 AA2 ASN A 34 ALA A 47 1 14 HELIX 3 AA3 THR A 58 ALA A 64 5 7 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 SER A 132 1 13 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 GLU A 140 N ARG A 9 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 70.550 70.550 245.700 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 0.014174 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014174 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004070 0.00000