HEADER DNA BINDING PROTEIN 28-AUG-06 2J4D TITLE CRYPTOCHROME 3 FROM ARABIDOPSIS THALIANA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CRYPTOCHROME DASH; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: MATURE PROTEIN WITHOUT PLASTID IMPORT SEQUENCE, RESIDUES COMPND 5 45-569; COMPND 6 SYNONYM: CRYPTOCHROME 3; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: M15-PREP4; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PQE-60 KEYWDS DNA-BINDING PROTEIN, CRYPTOCHROME, FLAVOPROTEIN, FAD, MITOCHONDRION, KEYWDS 2 PLASTID, CHROMOPHORE, CHLOROPLAST, TRANSIT PEPTIDE, BLUE-LIGHT KEYWDS 3 RESPONSE, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.KLAR,R.POKORNY,A.BATSCHAUER,L.-O.ESSEN REVDAT 4 13-DEC-23 2J4D 1 REMARK REVDAT 3 24-JUL-19 2J4D 1 REMARK REVDAT 2 24-FEB-09 2J4D 1 VERSN REVDAT 1 19-JUN-07 2J4D 0 JRNL AUTH T.KLAR,R.POKORNY,J.MOLDT,A.BATSCHAUER,L.-O.ESSEN JRNL TITL CRYPTOCHROME 3 FROM ARABIDOPSIS THALIANA: STRUCTURAL AND JRNL TITL 2 FUNCTIONAL ANALYSIS OF ITS COMPLEX WITH A FOLATE LIGHT JRNL TITL 3 ANTENNA JRNL REF J.MOL.BIOL. V. 366 954 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17188299 JRNL DOI 10.1016/J.JMB.2006.11.066 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.POKORNY,T.KLAR,L.-O.ESSEN,A.BATSCHAUER REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF REMARK 1 TITL 2 CRYPTOCHROME 3 FROM ARABIDOPSIS THALIANA REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 61 935 2005 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 16511200 REMARK 1 DOI 10.1107/S1744309105028897 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 10000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 93157 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : SHELL-WISE REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.500 REMARK 3 FREE R VALUE TEST SET COUNT : 1420 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 28 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4692 REMARK 3 BIN R VALUE (WORKING SET) : 0.3190 REMARK 3 BIN FREE R VALUE : 0.3900 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 1.50 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 71 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8119 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 172 REMARK 3 SOLVENT ATOMS : 747 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.03000 REMARK 3 B22 (A**2) : 0.03600 REMARK 3 B33 (A**2) : -0.00700 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.574 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : BULK REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 48.40 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : COFACS.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : COFACS.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2J4D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1290029578. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8125 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93259 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 4.470 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.45000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1NP7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 MG/ML PROTEIN, 85 MM NA-CITRATE PH REMARK 280 4.6, 170 MM NH4-ACETATE, 21.5 W/V-% PEG 4000 AND 7.5 V/V-% REMARK 280 GLYCEROL, PH 4.60 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 38.14900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.51200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 58.39100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 67.51200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.14900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 58.39100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 ASN A 1 REMARK 465 ASN A 498 REMARK 465 GLY A 499 REMARK 465 PRO A 500 REMARK 465 MET A 501 REMARK 465 ALA A 502 REMARK 465 GLY A 503 REMARK 465 GLY A 504 REMARK 465 SER A 505 REMARK 465 LYS A 506 REMARK 465 SER A 507 REMARK 465 GLY A 508 REMARK 465 GLY A 509 REMARK 465 GLY A 510 REMARK 465 PHE A 511 REMARK 465 ARG A 512 REMARK 465 GLY A 513 REMARK 465 SER A 514 REMARK 465 HIS A 515 REMARK 465 SER A 516 REMARK 465 GLY A 517 REMARK 465 ARG A 518 REMARK 465 ARG A 519 REMARK 465 SER A 520 REMARK 465 ARG A 521 REMARK 465 HIS A 522 REMARK 465 ASN A 523 REMARK 465 GLY A 524 REMARK 465 PRO A 525 REMARK 465 ASN B 1 REMARK 465 MET B 501 REMARK 465 ALA B 502 REMARK 465 GLY B 503 REMARK 465 GLY B 504 REMARK 465 SER B 505 REMARK 465 LYS B 506 REMARK 465 SER B 507 REMARK 465 GLY B 508 REMARK 465 GLY B 509 REMARK 465 GLY B 510 REMARK 465 PHE B 511 REMARK 465 ARG B 512 REMARK 465 GLY B 513 REMARK 465 SER B 514 REMARK 465 HIS B 515 REMARK 465 SER B 516 REMARK 465 GLY B 517 REMARK 465 ARG B 518 REMARK 465 ARG B 519 REMARK 465 SER B 520 REMARK 465 ARG B 521 REMARK 465 HIS B 522 REMARK 465 ASN B 523 REMARK 465 GLY B 524 REMARK 465 PRO B 525 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 TRP B 481 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 480 TRP B 481 CZ3 CH2 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 GLY B 164 N ASN B 165 1.42 REMARK 500 O GLY B 164 CA ASN B 165 1.68 REMARK 500 NH1 ARG B 484 OD1 ASP B 489 1.78 REMARK 500 N SER B 33 N VAL B 34 1.79 REMARK 500 O LYS B 35 CE LYS B 39 2.19 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 GLY A 164 C ASN A 165 N -0.242 REMARK 500 GLY B 164 C ASN B 165 N -0.544 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 TRP A 356 N - CA - C ANGL. DEV. = 18.5 DEGREES REMARK 500 SER B 32 N - CA - C ANGL. DEV. = -17.9 DEGREES REMARK 500 SER B 33 N - CA - C ANGL. DEV. = -29.5 DEGREES REMARK 500 LYS B 39 N - CA - C ANGL. DEV. = 24.2 DEGREES REMARK 500 GLY B 164 CA - C - N ANGL. DEV. = -13.7 DEGREES REMARK 500 GLY B 164 O - C - N ANGL. DEV. = -36.5 DEGREES REMARK 500 SER B 166 N - CA - C ANGL. DEV. = -25.7 DEGREES REMARK 500 THR B 167 O - C - N ANGL. DEV. = -10.9 DEGREES REMARK 500 TRP B 356 N - CA - C ANGL. DEV. = 17.1 DEGREES REMARK 500 ASP B 445 CB - CA - C ANGL. DEV. = 14.9 DEGREES REMARK 500 ASP B 445 N - CA - C ANGL. DEV. = -19.8 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 ARG A 47 -97.23 -134.02 REMARK 500 ASN A 48 52.79 -111.24 REMARK 500 ASP A 49 48.38 -143.17 REMARK 500 HIS A 80 -126.59 -100.08 REMARK 500 LEU A 114 -160.08 -117.59 REMARK 500 ASN A 165 -134.47 -83.92 REMARK 500 SER A 166 -36.87 72.14 REMARK 500 SER A 175 -34.48 67.24 REMARK 500 TRP A 264 -60.43 -93.57 REMARK 500 ARG A 313 -78.09 -117.09 REMARK 500 GLN A 353 -161.29 33.00 REMARK 500 LYS A 355 -151.44 25.96 REMARK 500 TRP A 356 126.05 59.92 REMARK 500 ASP A 359 108.93 -49.02 REMARK 500 ASP A 458 53.63 -150.58 REMARK 500 LEU A 468 74.76 -118.83 REMARK 500 LYS A 476 -177.15 -57.47 REMARK 500 GLU A 477 -54.99 76.58 REMARK 500 TYR A 487 -95.60 -121.74 REMARK 500 HIS B 3 -121.58 -163.75 REMARK 500 SER B 30 -113.54 -13.06 REMARK 500 SER B 31 142.82 68.08 REMARK 500 SER B 33 4.40 137.52 REMARK 500 VAL B 34 -106.13 -65.66 REMARK 500 LYS B 35 67.55 111.75 REMARK 500 ARG B 47 -99.30 -133.39 REMARK 500 ASN B 48 48.54 -108.24 REMARK 500 ASP B 54 51.05 35.74 REMARK 500 HIS B 80 -120.81 -98.36 REMARK 500 ASN B 86 56.55 33.42 REMARK 500 LEU B 114 -157.84 -115.40 REMARK 500 SER B 166 -104.11 -108.10 REMARK 500 THR B 167 99.87 -17.41 REMARK 500 SER B 175 -29.72 64.74 REMARK 500 ARG B 313 -90.17 -124.67 REMARK 500 LYS B 355 -132.30 -36.16 REMARK 500 TRP B 356 113.34 57.02 REMARK 500 ASP B 359 108.28 -50.97 REMARK 500 ASP B 445 -82.74 -112.38 REMARK 500 ARG B 446 124.27 80.68 REMARK 500 ASP B 458 51.83 -155.65 REMARK 500 LEU B 468 78.57 -115.17 REMARK 500 LEU B 485 -71.34 -61.70 REMARK 500 TYR B 487 -96.50 -109.35 REMARK 500 ASN B 498 175.80 147.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY B 164 49.38 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 A2040 DISTANCE = 6.26 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A1498 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MHF A1499 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD B1501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MHF B1502 DBREF 2J4D A 1 525 UNP Q84KJ5 CRYD_ARATH 45 569 DBREF 2J4D B 1 525 UNP Q84KJ5 CRYD_ARATH 45 569 SEQRES 1 A 525 ASN ASP HIS ILE HIS ARG VAL PRO ALA LEU THR GLU GLU SEQRES 2 A 525 GLU ILE ASP SER VAL ALA ILE LYS THR PHE GLU ARG TYR SEQRES 3 A 525 ALA LEU PRO SER SER SER SER VAL LYS ARG LYS GLY LYS SEQRES 4 A 525 GLY VAL THR ILE LEU TRP PHE ARG ASN ASP LEU ARG VAL SEQRES 5 A 525 LEU ASP ASN ASP ALA LEU TYR LYS ALA TRP SER SER SER SEQRES 6 A 525 ASP THR ILE LEU PRO VAL TYR CYS LEU ASP PRO ARG LEU SEQRES 7 A 525 PHE HIS THR THR HIS PHE PHE ASN PHE PRO LYS THR GLY SEQRES 8 A 525 ALA LEU ARG GLY GLY PHE LEU MET GLU CYS LEU VAL ASP SEQRES 9 A 525 LEU ARG LYS ASN LEU MET LYS ARG GLY LEU ASN LEU LEU SEQRES 10 A 525 ILE ARG SER GLY LYS PRO GLU GLU ILE LEU PRO SER LEU SEQRES 11 A 525 ALA LYS ASP PHE GLY ALA ARG THR VAL PHE ALA HIS LYS SEQRES 12 A 525 GLU THR CYS SER GLU GLU VAL ASP VAL GLU ARG LEU VAL SEQRES 13 A 525 ASN GLN GLY LEU LYS ARG VAL GLY ASN SER THR LYS LEU SEQRES 14 A 525 GLU LEU ILE TRP GLY SER THR MET TYR HIS LYS ASP ASP SEQRES 15 A 525 LEU PRO PHE ASP VAL PHE ASP LEU PRO ASP VAL TYR THR SEQRES 16 A 525 GLN PHE ARG LYS SER VAL GLU ALA LYS CYS SER ILE ARG SEQRES 17 A 525 SER SER THR ARG ILE PRO LEU SER LEU GLY PRO THR PRO SEQRES 18 A 525 SER VAL ASP ASP TRP GLY ASP VAL PRO THR LEU GLU LYS SEQRES 19 A 525 LEU GLY VAL GLU PRO GLN GLU VAL THR ARG GLY MET ARG SEQRES 20 A 525 PHE VAL GLY GLY GLU SER ALA GLY VAL GLY ARG VAL PHE SEQRES 21 A 525 GLU TYR PHE TRP LYS LYS ASP LEU LEU LYS VAL TYR LYS SEQRES 22 A 525 GLU THR ARG ASN GLY MET LEU GLY PRO ASP TYR SER THR SEQRES 23 A 525 LYS PHE SER PRO TRP LEU ALA PHE GLY CYS ILE SER PRO SEQRES 24 A 525 ARG PHE ILE TYR GLU GLU VAL GLN ARG TYR GLU LYS GLU SEQRES 25 A 525 ARG VAL ALA ASN ASN SER THR TYR TRP VAL LEU PHE GLU SEQRES 26 A 525 LEU ILE TRP ARG ASP TYR PHE ARG PHE LEU SER ILE LYS SEQRES 27 A 525 CYS GLY ASN SER LEU PHE HIS LEU GLY GLY PRO ARG ASN SEQRES 28 A 525 VAL GLN GLY LYS TRP SER GLN ASP GLN LYS LEU PHE GLU SEQRES 29 A 525 SER TRP ARG ASP ALA LYS THR GLY TYR PRO LEU ILE ASP SEQRES 30 A 525 ALA ASN MET LYS GLU LEU SER THR THR GLY PHE MET SER SEQRES 31 A 525 ASN ARG GLY ARG GLN ILE VAL CYS SER PHE LEU VAL ARG SEQRES 32 A 525 ASP MET GLY LEU ASP TRP ARG MET GLY ALA GLU TRP PHE SEQRES 33 A 525 GLU THR CYS LEU LEU ASP TYR ASP PRO CYS SER ASN TYR SEQRES 34 A 525 GLY ASN TRP THR TYR GLY ALA GLY VAL GLY ASN ASP PRO SEQRES 35 A 525 ARG GLU ASP ARG TYR PHE SER ILE PRO LYS GLN ALA GLN SEQRES 36 A 525 ASN TYR ASP PRO GLU GLY GLU TYR VAL ALA PHE TRP LEU SEQRES 37 A 525 GLN GLN LEU ARG ARG LEU PRO LYS GLU LYS ARG HIS TRP SEQRES 38 A 525 PRO GLY ARG LEU MET TYR MET ASP THR VAL VAL PRO LEU SEQRES 39 A 525 LYS HIS GLY ASN GLY PRO MET ALA GLY GLY SER LYS SER SEQRES 40 A 525 GLY GLY GLY PHE ARG GLY SER HIS SER GLY ARG ARG SER SEQRES 41 A 525 ARG HIS ASN GLY PRO SEQRES 1 B 525 ASN ASP HIS ILE HIS ARG VAL PRO ALA LEU THR GLU GLU SEQRES 2 B 525 GLU ILE ASP SER VAL ALA ILE LYS THR PHE GLU ARG TYR SEQRES 3 B 525 ALA LEU PRO SER SER SER SER VAL LYS ARG LYS GLY LYS SEQRES 4 B 525 GLY VAL THR ILE LEU TRP PHE ARG ASN ASP LEU ARG VAL SEQRES 5 B 525 LEU ASP ASN ASP ALA LEU TYR LYS ALA TRP SER SER SER SEQRES 6 B 525 ASP THR ILE LEU PRO VAL TYR CYS LEU ASP PRO ARG LEU SEQRES 7 B 525 PHE HIS THR THR HIS PHE PHE ASN PHE PRO LYS THR GLY SEQRES 8 B 525 ALA LEU ARG GLY GLY PHE LEU MET GLU CYS LEU VAL ASP SEQRES 9 B 525 LEU ARG LYS ASN LEU MET LYS ARG GLY LEU ASN LEU LEU SEQRES 10 B 525 ILE ARG SER GLY LYS PRO GLU GLU ILE LEU PRO SER LEU SEQRES 11 B 525 ALA LYS ASP PHE GLY ALA ARG THR VAL PHE ALA HIS LYS SEQRES 12 B 525 GLU THR CYS SER GLU GLU VAL ASP VAL GLU ARG LEU VAL SEQRES 13 B 525 ASN GLN GLY LEU LYS ARG VAL GLY ASN SER THR LYS LEU SEQRES 14 B 525 GLU LEU ILE TRP GLY SER THR MET TYR HIS LYS ASP ASP SEQRES 15 B 525 LEU PRO PHE ASP VAL PHE ASP LEU PRO ASP VAL TYR THR SEQRES 16 B 525 GLN PHE ARG LYS SER VAL GLU ALA LYS CYS SER ILE ARG SEQRES 17 B 525 SER SER THR ARG ILE PRO LEU SER LEU GLY PRO THR PRO SEQRES 18 B 525 SER VAL ASP ASP TRP GLY ASP VAL PRO THR LEU GLU LYS SEQRES 19 B 525 LEU GLY VAL GLU PRO GLN GLU VAL THR ARG GLY MET ARG SEQRES 20 B 525 PHE VAL GLY GLY GLU SER ALA GLY VAL GLY ARG VAL PHE SEQRES 21 B 525 GLU TYR PHE TRP LYS LYS ASP LEU LEU LYS VAL TYR LYS SEQRES 22 B 525 GLU THR ARG ASN GLY MET LEU GLY PRO ASP TYR SER THR SEQRES 23 B 525 LYS PHE SER PRO TRP LEU ALA PHE GLY CYS ILE SER PRO SEQRES 24 B 525 ARG PHE ILE TYR GLU GLU VAL GLN ARG TYR GLU LYS GLU SEQRES 25 B 525 ARG VAL ALA ASN ASN SER THR TYR TRP VAL LEU PHE GLU SEQRES 26 B 525 LEU ILE TRP ARG ASP TYR PHE ARG PHE LEU SER ILE LYS SEQRES 27 B 525 CYS GLY ASN SER LEU PHE HIS LEU GLY GLY PRO ARG ASN SEQRES 28 B 525 VAL GLN GLY LYS TRP SER GLN ASP GLN LYS LEU PHE GLU SEQRES 29 B 525 SER TRP ARG ASP ALA LYS THR GLY TYR PRO LEU ILE ASP SEQRES 30 B 525 ALA ASN MET LYS GLU LEU SER THR THR GLY PHE MET SER SEQRES 31 B 525 ASN ARG GLY ARG GLN ILE VAL CYS SER PHE LEU VAL ARG SEQRES 32 B 525 ASP MET GLY LEU ASP TRP ARG MET GLY ALA GLU TRP PHE SEQRES 33 B 525 GLU THR CYS LEU LEU ASP TYR ASP PRO CYS SER ASN TYR SEQRES 34 B 525 GLY ASN TRP THR TYR GLY ALA GLY VAL GLY ASN ASP PRO SEQRES 35 B 525 ARG GLU ASP ARG TYR PHE SER ILE PRO LYS GLN ALA GLN SEQRES 36 B 525 ASN TYR ASP PRO GLU GLY GLU TYR VAL ALA PHE TRP LEU SEQRES 37 B 525 GLN GLN LEU ARG ARG LEU PRO LYS GLU LYS ARG HIS TRP SEQRES 38 B 525 PRO GLY ARG LEU MET TYR MET ASP THR VAL VAL PRO LEU SEQRES 39 B 525 LYS HIS GLY ASN GLY PRO MET ALA GLY GLY SER LYS SER SEQRES 40 B 525 GLY GLY GLY PHE ARG GLY SER HIS SER GLY ARG ARG SER SEQRES 41 B 525 ARG HIS ASN GLY PRO HET FAD A1498 53 HET MHF A1499 33 HET FAD B1501 53 HET MHF B1502 33 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM MHF 5,10-METHENYL-6,7,8-TRIHYDROFOLIC ACID FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 MHF 2(C20 H23 N7 O6) FORMUL 7 HOH *747(H2 O) HELIX 1 1 THR A 11 ALA A 27 1 17 HELIX 2 2 ASN A 55 SER A 64 1 10 HELIX 3 3 ASP A 75 HIS A 80 5 6 HELIX 4 4 GLY A 91 ARG A 112 1 22 HELIX 5 5 LYS A 122 GLY A 135 1 14 HELIX 6 6 CYS A 146 ARG A 162 1 17 HELIX 7 7 HIS A 179 LEU A 183 5 5 HELIX 8 8 ASP A 186 LEU A 190 5 5 HELIX 9 9 VAL A 193 CYS A 205 1 13 HELIX 10 10 GLY A 251 TRP A 264 1 14 HELIX 11 11 LEU A 268 LYS A 270 5 3 HELIX 12 12 VAL A 271 ARG A 276 1 6 HELIX 13 13 PHE A 288 PHE A 294 1 7 HELIX 14 14 SER A 298 ARG A 313 1 16 HELIX 15 15 ASN A 316 GLY A 340 1 25 HELIX 16 16 ASN A 341 PHE A 344 5 4 HELIX 17 17 ASP A 359 ASP A 368 1 10 HELIX 18 18 TYR A 373 GLY A 387 1 15 HELIX 19 19 SER A 390 ASP A 404 1 15 HELIX 20 20 ASP A 408 LEU A 420 1 13 HELIX 21 21 ASP A 424 ALA A 436 1 13 HELIX 22 22 ASP A 441 ASP A 445 5 5 HELIX 23 23 SER A 449 ASP A 458 1 10 HELIX 24 24 GLY A 461 LEU A 468 1 8 HELIX 25 25 GLN A 469 ARG A 472 5 4 HELIX 26 26 PRO A 482 TYR A 487 1 6 HELIX 27 27 THR B 11 ALA B 27 1 17 HELIX 28 28 ASN B 55 SER B 64 1 10 HELIX 29 29 ASP B 75 HIS B 80 5 6 HELIX 30 30 GLY B 91 ARG B 112 1 22 HELIX 31 31 LYS B 122 GLY B 135 1 14 HELIX 32 32 CYS B 146 ARG B 162 1 17 HELIX 33 33 HIS B 179 LEU B 183 5 5 HELIX 34 34 ASP B 186 LEU B 190 5 5 HELIX 35 35 VAL B 193 CYS B 205 1 13 HELIX 36 36 GLY B 251 TRP B 264 1 14 HELIX 37 37 LEU B 268 LYS B 270 5 3 HELIX 38 38 VAL B 271 ARG B 276 1 6 HELIX 39 39 PHE B 288 PHE B 294 1 7 HELIX 40 40 SER B 298 ARG B 313 1 16 HELIX 41 41 ASN B 316 GLY B 340 1 25 HELIX 42 42 ASN B 341 PHE B 344 5 4 HELIX 43 43 ASP B 359 ASP B 368 1 10 HELIX 44 44 TYR B 373 GLY B 387 1 15 HELIX 45 45 SER B 390 ASP B 404 1 15 HELIX 46 46 ASP B 408 LEU B 420 1 13 HELIX 47 47 ASP B 424 ALA B 436 1 13 HELIX 48 48 SER B 449 ASP B 458 1 10 HELIX 49 49 GLY B 461 LEU B 468 1 8 HELIX 50 50 GLN B 469 ARG B 472 5 4 HELIX 51 51 PRO B 475 HIS B 480 1 6 HELIX 52 52 PRO B 482 TYR B 487 1 6 SHEET 1 AA 2 ILE A 4 VAL A 7 0 SHEET 2 AA 2 GLY A 245 PHE A 248 1 O GLY A 245 N HIS A 5 SHEET 1 AB 5 LEU A 117 SER A 120 0 SHEET 2 AB 5 THR A 67 LEU A 74 1 O PRO A 70 N LEU A 117 SHEET 3 AB 5 VAL A 41 PHE A 46 1 O THR A 42 N LEU A 69 SHEET 4 AB 5 THR A 138 HIS A 142 1 O THR A 138 N ILE A 43 SHEET 5 AB 5 LYS A 168 ILE A 172 1 O LYS A 168 N VAL A 139 SHEET 1 BA 2 ILE B 4 VAL B 7 0 SHEET 2 BA 2 GLY B 245 PHE B 248 1 O GLY B 245 N HIS B 5 SHEET 1 BB 5 LEU B 117 SER B 120 0 SHEET 2 BB 5 THR B 67 LEU B 74 1 O PRO B 70 N LEU B 117 SHEET 3 BB 5 VAL B 41 PHE B 46 1 O THR B 42 N LEU B 69 SHEET 4 BB 5 THR B 138 HIS B 142 1 O THR B 138 N ILE B 43 SHEET 5 BB 5 LYS B 168 ILE B 172 1 O LYS B 168 N VAL B 139 CISPEP 1 VAL A 7 PRO A 8 0 -0.27 CISPEP 2 GLY A 218 PRO A 219 0 0.15 CISPEP 3 VAL B 7 PRO B 8 0 -0.03 CISPEP 4 GLY B 218 PRO B 219 0 0.18 SITE 1 AC1 27 TYR A 272 SER A 285 THR A 286 LYS A 287 SITE 2 AC1 27 PHE A 288 SER A 289 LEU A 292 GLU A 325 SITE 3 AC1 27 ARG A 329 PHE A 388 ASN A 391 ARG A 394 SITE 4 AC1 27 GLN A 395 LEU A 420 ASP A 422 TYR A 423 SITE 5 AC1 27 ASP A 424 SER A 427 ASN A 428 ASN A 431 SITE 6 AC1 27 TRP A 432 HOH A2302 HOH A2346 HOH A2380 SITE 7 AC1 27 HOH A2394 HOH A2429 HOH A2430 SITE 1 AC2 21 HIS A 83 LYS A 89 CYS A 146 SER A 147 SITE 2 AC2 21 GLU A 148 GLU A 149 ASN A 341 PHE A 344 SITE 3 AC2 21 HIS A 345 GLU A 417 TYR A 423 PRO A 425 SITE 4 AC2 21 TYR A 429 HOH A2431 HOH A2433 HOH A2434 SITE 5 AC2 21 HOH A2436 PHE B 188 ASP B 189 LYS B 338 SITE 6 AC2 21 HOH B2147 SITE 1 AC3 26 TYR B 272 SER B 285 THR B 286 LYS B 287 SITE 2 AC3 26 PHE B 288 SER B 289 LEU B 292 GLU B 325 SITE 3 AC3 26 ARG B 329 PHE B 332 PHE B 388 ASN B 391 SITE 4 AC3 26 ARG B 394 LEU B 420 ASP B 422 TYR B 423 SITE 5 AC3 26 ASP B 424 SER B 427 ASN B 428 ASN B 431 SITE 6 AC3 26 TRP B 432 HOH B2197 HOH B2278 HOH B2303 SITE 7 AC3 26 HOH B2304 HOH B2305 SITE 1 AC4 19 PHE A 188 ASP A 189 LYS A 338 HIS B 83 SITE 2 AC4 19 LYS B 89 CYS B 146 SER B 147 GLU B 148 SITE 3 AC4 19 GLU B 149 ASN B 341 PHE B 344 HIS B 345 SITE 4 AC4 19 GLU B 417 TYR B 423 PRO B 425 TYR B 429 SITE 5 AC4 19 HOH B2306 HOH B2307 HOH B2309 CRYST1 76.298 116.782 135.024 90.00 90.00 90.00 P 21 21 21 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 0.013107 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008563 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007406 0.00000 MTRIX1 1 0.884630 0.394350 0.248810 35.12920 1 MTRIX2 1 0.400880 0.370660 0.837800 41.44744 1 MTRIX3 1 0.238160 0.840890 -0.485990 -84.50620 1