HEADER TRANSFERASE 18-OCT-07 2VEA TITLE THE COMPLETE SENSORY MODULE OF THE CYANOBACTERIAL TITLE 2 PHYTOCHROME CPH1 IN THE PR-STATE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHYTOCHROME-LIKE PROTEIN CPH1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SENSORY MODULE, RESIDUES 1-514; COMPND 5 SYNONYM: LIGHT-REGULATED HISTIDINE KINASE 1, COMPND 6 BACTERIOPHYTOCHROME CPH1, CYANOBACTERIAL PHYTOCHROME COMPND 7 CPH1; COMPND 8 ENGINEERED: YES; COMPND 9 OTHER_DETAILS: THIOETHER LINKAGE BETWEEN C259 AND C3(1) COMPND 10 ATOM OF PHYCOCYANOBILIN CHROMOPHORE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNECHOCYSTIS SP. PCC 6803; SOURCE 3 ORGANISM_TAXID: 1148; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 668369; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: DH5[ALPHA]; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: P45.2; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PQE12; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: P926.5 KEYWDS ARGININE FINGER, PHOSPHORYLATION, TANDEM GAF DOMAIN, KNOT, KEYWDS 2 KINASE, RECEPTOR, PAS DOMAIN, CHROMOPHORE, SENSORY KEYWDS 3 TRANSDUCTION, PHOTORECEPTOR PROTEIN, BILIN-LIKE KEYWDS 4 CHROMOPHORE, PHYTOCHROME, TRANSFERASE, PHOTORECEPTOR EXPDTA X-RAY DIFFRACTION AUTHOR L.-O.ESSEN,J.MAILLIET,J.HUGHES REVDAT 3 26-FEB-14 2VEA 1 SOURCE REMARK VERSN FORMUL REVDAT 2 24-FEB-09 2VEA 1 VERSN REVDAT 1 30-SEP-08 2VEA 0 JRNL AUTH L.-O.ESSEN,J.MAILLIET,J.HUGHES JRNL TITL THE STRUCTURE OF A COMPLETE PHYTOCHROME SENSORY JRNL TITL 2 MODULE IN THE PR GROUND STATE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 14709 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18799745 JRNL DOI 10.1073/PNAS.0806477105 REMARK 2 REMARK 2 RESOLUTION. 2.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 68.1 REMARK 3 NUMBER OF REFLECTIONS : 25188 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.245 REMARK 3 R VALUE (WORKING SET) : 0.244 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1062 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.21 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.27 REMARK 3 REFLECTION IN BIN (WORKING SET) : 113 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3370 REMARK 3 BIN FREE R VALUE SET COUNT : 8 REMARK 3 BIN FREE R VALUE : 0.2810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3950 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 29 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 65.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.01000 REMARK 3 B22 (A**2) : 1.01000 REMARK 3 B33 (A**2) : -2.02000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.413 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.276 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.241 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 21.506 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.929 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4092 ; 0.007 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2694 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5577 ; 1.301 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6556 ; 0.859 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 499 ; 6.427 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 191 ;36.297 ;23.717 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 650 ;16.791 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;18.740 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 631 ; 0.062 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4557 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 841 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 986 ; 0.189 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2854 ; 0.182 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1954 ; 0.172 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2182 ; 0.083 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 107 ; 0.128 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 18 ; 0.143 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 59 ; 0.176 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.130 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2672 ; 0.255 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4037 ; 0.420 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1737 ; 0.491 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1538 ; 0.758 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS.PHYTOCHROME CRYSTAL IS IN THE PR STATE. REMARK 3 DISORDERED LOOP REGIONS (Q73-R80, G100-D101, R148-Q150, E463- REMARK 3 G465) ARE NOT INCLUDED IN MODEL. REMARK 4 REMARK 4 2VEA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-OCT-07. REMARK 100 THE PDBE ID CODE IS EBI-34175. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUL-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9330 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26939 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.20 REMARK 200 RESOLUTION RANGE LOW (A) : 25.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 67.2 REMARK 200 DATA REDUNDANCY : 7.0 REMARK 200 R MERGE (I) : 0.05 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.00 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 6.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.36 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.50 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: DUE TO STRONG ANISOTROPISM OF THE CRYSTALS, REMARK 200 DIFFRACTION DATA WERE RESCALED USING THE DIFFRACTION REMARK 200 ANISOTROPY SERVER. THE FOLLOWING ANISOTROPIC CORRECTION REMARK 200 WAS APPLIED TO THE NATIVE DATASETS, VALUES GIVEN IN SQUARE- REMARK 200 ANGSTROM, -35.88,-35.88,17.94. THE COMPLETENESS OF THE REMARK 200 NATIVE DATASET AT 2.7 ANGSTROM RESOLUTION WAS 98.5 PERCENT REMARK 200 OVERALL. THE EFFECTIVE, CALCULATED RESOLUTION FOR THE REMARK 200 NATIVE DATASET IS 2.45 ANGSTROM RESOLUTION. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.5 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.2 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TETRAGONAL CRYSTALS OF THE CPH1 REMARK 280 PR STATE WERE GROWN IN 96-WELL CRYSTALLIZATION PLATES REMARK 280 USING DROPS COMPRISING 500 NL 10 MG/ML CPH1-DELTA2 IN 2.5 REMARK 280 MM TRIS/HCL PH 7.8, 15 MM NACL PLUS 500 NL RESERVOIR REMARK 280 SOLUTION (2.1 M SODIUM ACETATE, PH 6.7). 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 124.50000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 38.59000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 38.59000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 186.75000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 38.59000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 38.59000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 62.25000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 38.59000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.59000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 186.75000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 38.59000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.59000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 62.25000 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 124.50000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -71.3 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 THR A 3 REMARK 465 GLN A 73 REMARK 465 ILE A 74 REMARK 465 ASP A 75 REMARK 465 PRO A 76 REMARK 465 ILE A 77 REMARK 465 GLN A 78 REMARK 465 SER A 79 REMARK 465 ARG A 80 REMARK 465 GLY A 100 REMARK 465 ASP A 101 REMARK 465 ARG A 148 REMARK 465 GLN A 149 REMARK 465 GLN A 150 REMARK 465 ALA A 151 REMARK 465 GLU A 463 REMARK 465 ASP A 464 REMARK 465 GLY A 465 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 GLU A 37 CG CD OE1 OE2 REMARK 470 GLU A 58 CG CD OE1 OE2 REMARK 470 PHE A 133 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 180 CG CD OE1 OE2 REMARK 470 GLU A 196 CG CD OE1 OE2 REMARK 470 HIS A 282 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 323 CD OE1 OE2 REMARK 470 ARG A 433 NE CZ NH1 NH2 REMARK 470 THR A 461 OG1 CG2 REMARK 470 LYS A 466 CG CD CE NZ REMARK 470 GLU A 468 CG CD OE1 OE2 REMARK 470 GLN A 495 CG CD OE1 NE2 REMARK 470 ARG A 510 CD NE CZ NH1 NH2 REMARK 470 GLU A 514 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA A 19 71.90 -107.88 REMARK 500 ASP A 39 -36.65 161.54 REMARK 500 PRO A 57 7.36 -60.28 REMARK 500 GLU A 58 -72.10 -81.93 REMARK 500 LEU A 60 -122.43 -83.35 REMARK 500 LEU A 61 -124.92 46.30 REMARK 500 THR A 64 154.96 68.04 REMARK 500 THR A 82 -155.01 67.20 REMARK 500 ALA A 83 -105.78 -167.77 REMARK 500 LEU A 131 151.11 71.56 REMARK 500 ARG A 146 68.21 -65.46 REMARK 500 ASN A 243 43.40 70.43 REMARK 500 LEU A 248 42.98 -104.10 REMARK 500 PRO A 294 151.39 -48.18 REMARK 500 ALA A 346 -115.02 -68.23 REMARK 500 ASP A 402 -87.20 -76.44 REMARK 500 VAL A 403 127.07 -174.90 REMARK 500 ILE A 431 79.96 -118.38 REMARK 500 ALA A 432 -159.65 73.69 REMARK 500 HIS A 434 -11.42 66.05 REMARK 500 HIS A 519 -83.34 88.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 67 VAL A 68 144.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 HIS A 519 23.6 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 PHYCOCYANOBILIN (CYC): RING D IS TILTED BY 23 DEGREE REMARK 600 RELATIVE TO COPLANAR RINGS B AND C REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CYC A1521 REMARK 999 REMARK 999 SEQUENCE REMARK 999 TRANSMITTER REGION L515-N748 REPLACED BY HEXAHISTIDINE TAG DBREF 2VEA A 1 514 UNP Q55168 PHY1_SYNY3 1 514 DBREF 2VEA A 515 520 PDB 2VEA 2VEA 515 520 SEQRES 1 A 520 MET ALA THR THR VAL GLN LEU SER ASP GLN SER LEU ARG SEQRES 2 A 520 GLN LEU GLU THR LEU ALA ILE HIS THR ALA HIS LEU ILE SEQRES 3 A 520 GLN PRO HIS GLY LEU VAL VAL VAL LEU GLN GLU PRO ASP SEQRES 4 A 520 LEU THR ILE SER GLN ILE SER ALA ASN CYS THR GLY ILE SEQRES 5 A 520 LEU GLY ARG SER PRO GLU ASP LEU LEU GLY ARG THR LEU SEQRES 6 A 520 GLY GLU VAL PHE ASP SER PHE GLN ILE ASP PRO ILE GLN SEQRES 7 A 520 SER ARG LEU THR ALA GLY GLN ILE SER SER LEU ASN PRO SEQRES 8 A 520 SER LYS LEU TRP ALA ARG VAL MET GLY ASP ASP PHE VAL SEQRES 9 A 520 ILE PHE ASP GLY VAL PHE HIS ARG ASN SER ASP GLY LEU SEQRES 10 A 520 LEU VAL CYS GLU LEU GLU PRO ALA TYR THR SER ASP ASN SEQRES 11 A 520 LEU PRO PHE LEU GLY PHE TYR HIS MET ALA ASN ALA ALA SEQRES 12 A 520 LEU ASN ARG LEU ARG GLN GLN ALA ASN LEU ARG ASP PHE SEQRES 13 A 520 TYR ASP VAL ILE VAL GLU GLU VAL ARG ARG MET THR GLY SEQRES 14 A 520 PHE ASP ARG VAL MET LEU TYR ARG PHE ASP GLU ASN ASN SEQRES 15 A 520 HIS GLY ASP VAL ILE ALA GLU ASP LYS ARG ASP ASP MET SEQRES 16 A 520 GLU PRO TYR LEU GLY LEU HIS TYR PRO GLU SER ASP ILE SEQRES 17 A 520 PRO GLN PRO ALA ARG ARG LEU PHE ILE HIS ASN PRO ILE SEQRES 18 A 520 ARG VAL ILE PRO ASP VAL TYR GLY VAL ALA VAL PRO LEU SEQRES 19 A 520 THR PRO ALA VAL ASN PRO SER THR ASN ARG ALA VAL ASP SEQRES 20 A 520 LEU THR GLU SER ILE LEU ARG SER ALA TYR HIS CYS HIS SEQRES 21 A 520 LEU THR TYR LEU LYS ASN MET GLY VAL GLY ALA SER LEU SEQRES 22 A 520 THR ILE SER LEU ILE LYS ASP GLY HIS LEU TRP GLY LEU SEQRES 23 A 520 ILE ALA CYS HIS HIS GLN THR PRO LYS VAL ILE PRO PHE SEQRES 24 A 520 GLU LEU ARG LYS ALA CYS GLU PHE PHE GLY ARG VAL VAL SEQRES 25 A 520 PHE SER ASN ILE SER ALA GLN GLU ASP THR GLU THR PHE SEQRES 26 A 520 ASP TYR ARG VAL GLN LEU ALA GLU HIS GLU ALA VAL LEU SEQRES 27 A 520 LEU ASP LYS MET THR THR ALA ALA ASP PHE VAL GLU GLY SEQRES 28 A 520 LEU THR ASN HIS PRO ASP ARG LEU LEU GLY LEU THR GLY SEQRES 29 A 520 SER GLN GLY ALA ALA ILE CYS PHE GLY GLU LYS LEU ILE SEQRES 30 A 520 LEU VAL GLY GLU THR PRO ASP GLU LYS ALA VAL GLN TYR SEQRES 31 A 520 LEU LEU GLN TRP LEU GLU ASN ARG GLU VAL GLN ASP VAL SEQRES 32 A 520 PHE PHE THR SER SER LEU SER GLN ILE TYR PRO ASP ALA SEQRES 33 A 520 VAL ASN PHE LYS SER VAL ALA SER GLY LEU LEU ALA ILE SEQRES 34 A 520 PRO ILE ALA ARG HIS ASN PHE LEU LEU TRP PHE ARG PRO SEQRES 35 A 520 GLU VAL LEU GLN THR VAL ASN TRP GLY GLY ASP PRO ASN SEQRES 36 A 520 HIS ALA TYR GLU ALA THR GLN GLU ASP GLY LYS ILE GLU SEQRES 37 A 520 LEU HIS PRO ARG GLN SER PHE ASP LEU TRP LYS GLU ILE SEQRES 38 A 520 VAL ARG LEU GLN SER LEU PRO TRP GLN SER VAL GLU ILE SEQRES 39 A 520 GLN SER ALA LEU ALA LEU LYS LYS ALA ILE VAL ASN LEU SEQRES 40 A 520 ILE LEU ARG GLN ALA GLU GLU HIS HIS HIS HIS HIS HIS HET CYC A1521 43 HETNAM CYC PHYCOCYANOBILIN FORMUL 2 CYC C33 H40 N4 O6 FORMUL 3 HOH *29(H2 O) HELIX 1 1 THR A 4 LEU A 18 1 15 HELIX 2 2 ASN A 48 LEU A 53 1 6 HELIX 3 3 GLN A 85 ASN A 90 1 6 HELIX 4 4 TYR A 137 ARG A 146 1 10 HELIX 5 5 ASN A 152 GLY A 169 1 18 HELIX 6 6 PRO A 204 ILE A 208 5 5 HELIX 7 7 PRO A 209 ASN A 219 1 11 HELIX 8 8 TYR A 257 GLY A 268 1 12 HELIX 9 9 PRO A 298 ALA A 345 1 48 HELIX 10 10 ASP A 347 ASN A 354 1 8 HELIX 11 11 HIS A 355 LEU A 362 1 8 HELIX 12 12 ASP A 384 ARG A 398 1 15 HELIX 13 13 SER A 408 ILE A 412 5 5 HELIX 14 14 TYR A 413 LYS A 420 5 8 HELIX 15 15 ASP A 453 HIS A 456 5 4 HELIX 16 16 GLN A 490 HIS A 515 1 26 SHEET 1 AA 7 LEU A 25 ILE A 26 0 SHEET 2 AA 7 VAL A 232 THR A 235 -1 O VAL A 232 N ILE A 26 SHEET 3 AA 7 THR A 41 SER A 46 -1 O ILE A 45 N THR A 235 SHEET 4 AA 7 LEU A 31 GLN A 36 -1 O VAL A 32 N SER A 46 SHEET 5 AA 7 LEU A 118 PRO A 124 -1 O LEU A 118 N LEU A 35 SHEET 6 AA 7 PHE A 103 ARG A 112 -1 O ASP A 107 N GLU A 123 SHEET 7 AA 7 SER A 92 ARG A 97 -1 O SER A 92 N GLY A 108 SHEET 1 AB 6 HIS A 202 TYR A 203 0 SHEET 2 AB 6 GLY A 184 LYS A 191 -1 O GLY A 184 N TYR A 203 SHEET 3 AB 6 ARG A 172 PHE A 178 -1 O VAL A 173 N ASP A 190 SHEET 4 AB 6 HIS A 282 HIS A 291 -1 O TRP A 284 N PHE A 178 SHEET 5 AB 6 ALA A 271 LYS A 279 -1 O ALA A 271 N HIS A 291 SHEET 6 AB 6 ILE A 221 ILE A 224 -1 O ARG A 222 N THR A 274 SHEET 1 AC 2 VAL A 238 ASN A 239 0 SHEET 2 AC 2 ARG A 244 ALA A 245 -1 O ARG A 244 N ASN A 239 SHEET 1 AD 5 LYS A 375 GLY A 380 0 SHEET 2 AD 5 GLY A 367 PHE A 372 -1 O ALA A 368 N VAL A 379 SHEET 3 AD 5 PHE A 436 ARG A 441 -1 O PHE A 436 N CYS A 371 SHEET 4 AD 5 GLY A 425 PRO A 430 -1 O GLY A 425 N ARG A 441 SHEET 5 AD 5 PHE A 404 THR A 406 -1 O PHE A 404 N ALA A 428 SHEET 1 AE 2 GLN A 446 GLY A 451 0 SHEET 2 AE 2 LEU A 477 VAL A 482 -1 O TRP A 478 N TRP A 450 SHEET 1 AF 2 TYR A 458 THR A 461 0 SHEET 2 AF 2 GLU A 468 PRO A 471 -1 O GLU A 468 N THR A 461 LINK SG CYS A 259 CAC CYC A1521 1555 1555 1.61 CISPEP 1 GLU A 37 PRO A 38 0 4.66 CISPEP 2 ASN A 90 PRO A 91 0 -7.58 CISPEP 3 THR A 235 PRO A 236 0 -6.75 SITE 1 AC1 24 ILE A 20 MET A 174 TYR A 198 TYR A 203 SITE 2 AC1 24 SER A 206 ASP A 207 ILE A 208 PRO A 209 SITE 3 AC1 24 PHE A 216 ARG A 254 ALA A 256 TYR A 257 SITE 4 AC1 24 CYS A 259 HIS A 260 TYR A 263 THR A 274 SITE 5 AC1 24 ALA A 288 HIS A 290 TYR A 458 LEU A 469 SITE 6 AC1 24 HOH A2026 HOH A2027 HOH A2028 HOH A2029 CRYST1 77.180 77.180 249.000 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 0.012957 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012957 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004016 0.00000