HEADER LYASE 02-JUL-21 7F8T TITLE RE-REFINEMENT OF THE 2XRY X-RAY STRUCTURE OF ARCHAEAL CLASS II CPD TITLE 2 PHOTOLYASE FROM METHANOSARCINA MAZEI COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYRIBODIPYRIMIDINE PHOTOLYASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOSARCINA MAZEI; SOURCE 3 ORGANISM_COMMON: METHANOSARCINA FRISIA; SOURCE 4 ORGANISM_TAXID: 2209; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS OXIDOREDUCTASE, REDOX STATE, PHOTOREDUCTION, DNA BINDING PROTEIN, KEYWDS 2 LYASE 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 7F8T 1 REMARK REVDAT 3 22-JUN-22 7F8T 1 JRNL REVDAT 2 20-APR-22 7F8T 1 JRNL REVDAT 1 09-MAR-22 7F8T 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 0 REMARK 0 THIS ENTRY 7F8T REFLECTS AN ALTERNATIVE MODELING OF THE ORIGINAL REMARK 0 STRUCTURAL DATA R2XRYSF DETERMINED BY AUTHORS OF THE PDB ENTRY REMARK 0 2XRY: AUTHOR S.KIONTKE,Y.GEISSELBRECHT,R.POKORNY,T.CARELL, REMARK 0 A.BATSCHAUER,L.O.ESSEN REMARK 0 ORIGINAL DATA REFERENCE 1 REMARK 0 PDB ID: 2XRY REMARK 0 AUTH S.KIONTKE,Y.GEISSELBRECHT,R.POKORNY,T.CARELL,A.BATSCHAUER, REMARK 0 AUTH 2 L.O.ESSEN REMARK 0 TITL CRYSTAL STRUCTURES OF AN ARCHAEAL CLASS II DNA PHOTOLYASE REMARK 0 TITL 2 AND ITS COMPLEX WITH UV-DAMAGED DUPLEX DNA. REMARK 0 REF EMBO J. V. 30 4437 2011 REMARK 0 REFN ISSN 0261-4189 REMARK 0 PMID 21892138 REMARK 0 DOI 10.1038/EMBOJ.2011.313 REMARK 2 REMARK 2 RESOLUTION. 1.50 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.9 REMARK 3 NUMBER OF REFLECTIONS : 87280 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.500 REMARK 3 FREE R VALUE TEST SET COUNT : 1305 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 19.9400 - 3.1200 0.87 9766 141 0.1569 0.1798 REMARK 3 2 3.1200 - 2.4800 0.90 9637 139 0.1502 0.1799 REMARK 3 3 2.4800 - 2.1600 0.90 9587 150 0.1387 0.1718 REMARK 3 4 2.1600 - 1.9700 0.90 9581 141 0.1479 0.1729 REMARK 3 5 1.9700 - 1.8200 0.90 9475 154 0.1679 0.1802 REMARK 3 6 1.8200 - 1.7200 0.91 9572 152 0.1926 0.2308 REMARK 3 7 1.7200 - 1.6300 0.91 9541 127 0.2211 0.2724 REMARK 3 8 1.6300 - 1.5600 0.91 9498 149 0.2438 0.2883 REMARK 3 9 1.5600 - 1.5000 0.89 9318 152 0.2755 0.2982 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) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.130 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 : 0.018 4016 REMARK 3 ANGLE : 1.488 5487 REMARK 3 CHIRALITY : 0.072 571 REMARK 3 PLANARITY : 0.012 693 REMARK 3 DIHEDRAL : 13.238 1494 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): 18.6387 24.7176 104.7065 REMARK 3 T TENSOR REMARK 3 T11: 0.0510 T22: 0.0968 REMARK 3 T33: 0.0691 T12: 0.0090 REMARK 3 T13: -0.0070 T23: -0.0059 REMARK 3 L TENSOR REMARK 3 L11: 1.0450 L22: 0.6051 REMARK 3 L33: 1.0687 L12: -0.0249 REMARK 3 L13: 0.1478 L23: -0.0341 REMARK 3 S TENSOR REMARK 3 S11: -0.0271 S12: 0.0873 S13: 0.0005 REMARK 3 S21: -0.0454 S22: -0.0066 S23: 0.0290 REMARK 3 S31: -0.0058 S32: -0.0263 S33: 0.0178 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 7F8T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-JUL-21. REMARK 100 THE DEPOSITION ID IS D_1300023086. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-FEB-08 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.88567 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 <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: 2XRY REMARK 200 REMARK 200 REMARK: AUTHOR USED THE SF DATA FROM ENTRY 2XRY. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.5 M LITHIUM SULFATE, 7.5% (W/V) PEG REMARK 280 8000, VAPOR DIFFUSION, HANGING DROP, 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 121.54000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 34.88500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 34.88500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 182.31000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 34.88500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 34.88500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 60.77000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 34.88500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 34.88500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 182.31000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 34.88500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.88500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 60.77000 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 121.54000 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: 19490 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 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 VAL A 197 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 LEU A -4 CG CD1 CD2 REMARK 470 ARG A -1 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 94 NE CZ NH1 NH2 REMARK 470 LYS A 106 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 238 CD CE NZ REMARK 470 GLU A 348 CD OE1 OE2 REMARK 470 LYS A 394 CE NZ REMARK 470 LYS A 455 CD 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 O1 SO4 A 507 O HOH A 601 1.85 REMARK 500 O HOH A 916 O HOH A 950 2.05 REMARK 500 O3 GOL A 510 O HOH A 603 2.08 REMARK 500 O HOH A 848 O HOH A 901 2.16 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 GLU A 80 CB GLU A 80 CG -0.122 REMARK 500 MET A 379 SD MET A 379 CE -0.493 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 337 NE - CZ - NH2 ANGL. DEV. = -3.7 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 SER A 26 -61.80 -140.44 REMARK 500 ALA A 64 -145.79 -117.14 REMARK 500 LEU A 303 -61.33 -95.38 REMARK 500 VAL A 436 -58.80 64.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XRY RELATED DB: PDB REMARK 900 THIS IS A RE-REFINEMENT TO TAKE INTO ACCOUNT RADIATION DAMAGE ON REMARK 900 THE FAD DBREF1 7F8T A 3 464 UNP A0A0F8I5V2_METMZ DBREF2 7F8T A A0A0F8I5V2 1 462 SEQADV 7F8T MET A -17 UNP A0A0F8I5V INITIATING METHIONINE SEQADV 7F8T GLY A -16 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T SER A -15 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T SER A -14 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T HIS A -13 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T HIS A -12 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T HIS A -11 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T HIS A -10 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T HIS A -9 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T HIS A -8 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T SER A -7 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T SER A -6 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T GLY A -5 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T LEU A -4 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T VAL A -3 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T PRO A -2 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T ARG A -1 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T GLY A 0 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T SER A 1 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T HIS A 2 UNP A0A0F8I5V EXPRESSION TAG SEQADV 7F8T THR A 377 UNP A0A0F8I5V MET 375 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 SO4 A 503 5 HET SO4 A 504 5 HET SO4 A 505 5 HET SO4 A 506 5 HET SO4 A 507 5 HET SO4 A 508 5 HET SO4 A 509 5 HET GOL A 510 6 HET GOL A 511 6 HET FAD A 512 53 HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 SO4 9(O4 S 2-) FORMUL 11 GOL 2(C3 H8 O3) FORMUL 13 FAD C27 H33 N9 O15 P2 FORMUL 14 HOH *375(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 GLY A 293 LEU A 303 1 11 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 PHE A 452 1 9 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 THR A 115 O VAL A 141 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 69.770 69.770 243.080 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 0.014333 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014333 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004114 0.00000