HEADER SIGNALING PROTEIN 07-FEB-09 3G6O TITLE CRYSTAL STRUCTURE OF P. AERUGINOSA BACTERIOPHYTOCHROME PABPHP TITLE 2 PHOTOSENSORY CORE DOMAIN MUTANT Q188L COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACTERIOPHYTOCHROME; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PHOTOSENSORY CORE DOMAIN; COMPND 5 SYNONYM: PHYTOCHROME-LIKE PROTEIN; COMPND 6 EC: 2.7.13.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 STRAIN: PA01; SOURCE 5 GENE: BPHP, PA4117; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ALPHA/BETA STRUCTURE, PAS DOMAIN, CHROMOPHORE, KINASE, KEYWDS 2 PHOSPHOPROTEIN, PHOTORECEPTOR PROTEIN, RECEPTOR, SENSORY KEYWDS 3 TRANSDUCTION, TRANSFERASE, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR X.YANG,J.KUK,K.MOFFAT REVDAT 3 20-OCT-21 3G6O 1 REMARK SEQADV LINK REVDAT 2 20-OCT-09 3G6O 1 JRNL REVDAT 1 22-SEP-09 3G6O 0 JRNL AUTH X.YANG,J.KUK,K.MOFFAT JRNL TITL CONFORMATIONAL DIFFERENCES BETWEEN THE PFR AND PR STATES IN JRNL TITL 2 PSEUDOMONAS AERUGINOSA BACTERIOPHYTOCHROME JRNL REF PROC.NATL.ACAD.SCI.USA V. 106 15639 2009 JRNL REFN ISSN 0027-8424 JRNL PMID 19720999 JRNL DOI 10.1073/PNAS.0902178106 REMARK 2 REMARK 2 RESOLUTION. 2.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 2.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.47 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 82.8 REMARK 3 NUMBER OF REFLECTIONS : 24940 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.298 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.140 REMARK 3 FREE R VALUE TEST SET COUNT : 1281 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 42.4777 - 5.9235 0.97 3103 192 0.2005 0.2579 REMARK 3 2 5.9235 - 4.7036 1.00 3188 175 0.2069 0.2937 REMARK 3 3 4.7036 - 4.1096 1.00 3167 169 0.1938 0.2747 REMARK 3 4 4.1096 - 3.7341 1.00 3169 171 0.2392 0.2768 REMARK 3 5 3.7341 - 3.4666 1.00 3153 180 0.2556 0.3370 REMARK 3 6 3.4666 - 3.2623 0.88 2800 128 0.2846 0.3897 REMARK 3 7 3.2623 - 3.0990 0.70 2216 124 0.2993 0.3513 REMARK 3 8 3.0990 - 2.9641 0.54 1698 71 0.3164 0.3896 REMARK 3 9 2.9641 - 2.8500 0.37 1165 71 0.3437 0.4316 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 : 0.29 REMARK 3 B_SOL : 75.55 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 38.690 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) : 7.03010 REMARK 3 B22 (A**2) : 7.03010 REMARK 3 B33 (A**2) : -14.06010 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 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 : 0.006 7699 REMARK 3 ANGLE : 1.256 10481 REMARK 3 CHIRALITY : 0.074 1125 REMARK 3 PLANARITY : 0.005 1362 REMARK 3 DIHEDRAL : 18.014 2803 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 49.2126 57.7712 14.5137 REMARK 3 T TENSOR REMARK 3 T11: 0.4168 T22: 0.6308 REMARK 3 T33: 0.5945 T12: -0.1403 REMARK 3 T13: -0.1346 T23: -0.3232 REMARK 3 L TENSOR REMARK 3 L11: 2.2118 L22: 1.0104 REMARK 3 L33: 1.6629 L12: -0.0745 REMARK 3 L13: -1.3110 L23: 0.1069 REMARK 3 S TENSOR REMARK 3 S11: -0.0895 S12: -0.8384 S13: 0.6756 REMARK 3 S21: 0.2111 S22: 0.2680 S23: -0.2360 REMARK 3 S31: -0.2220 S32: 0.7255 S33: -0.2121 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): 29.4246 23.4086 17.2817 REMARK 3 T TENSOR REMARK 3 T11: 0.7778 T22: 0.3818 REMARK 3 T33: 0.5690 T12: 0.0159 REMARK 3 T13: -0.1907 T23: -0.2347 REMARK 3 L TENSOR REMARK 3 L11: 2.1502 L22: 1.3677 REMARK 3 L33: 1.0999 L12: -1.0066 REMARK 3 L13: 0.9724 L23: -1.2498 REMARK 3 S TENSOR REMARK 3 S11: 0.5251 S12: 0.4041 S13: -0.4262 REMARK 3 S21: -0.5125 S22: -0.2264 S23: 0.3977 REMARK 3 S31: 0.7916 S32: 0.1414 S33: -0.2930 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 3G6O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000051490. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUL-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.981 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28350 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.5% PEG4000(W/V), 0.01M SODIUM REMARK 280 ACETATE, 10MG/ML PROTEIN IN DARK, PH 4.6, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 126.07533 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 63.03767 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 94.55650 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 31.51883 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 157.59417 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: 5560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 42800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 MET A 1 REMARK 465 THR A 2 REMARK 465 SER A 3 REMARK 465 ILE A 4 REMARK 465 THR A 5 REMARK 465 GLY A 368 REMARK 465 ASP A 369 REMARK 465 PHE A 370 REMARK 465 PRO A 396 REMARK 465 GLN A 397 REMARK 465 PRO A 398 REMARK 465 SER A 399 REMARK 465 GLU A 400 REMARK 465 ASP A 401 REMARK 465 SER A 402 REMARK 465 PRO A 403 REMARK 465 ASP A 404 REMARK 465 GLY A 405 REMARK 465 HIS A 417 REMARK 465 ARG A 418 REMARK 465 GLN A 419 REMARK 465 GLU A 420 REMARK 465 SER A 421 REMARK 465 ARG A 434 REMARK 465 ILE A 435 REMARK 465 ARG A 436 REMARK 465 TRP A 437 REMARK 465 GLY A 438 REMARK 465 GLY A 439 REMARK 465 LYS A 440 REMARK 465 PRO A 441 REMARK 465 GLU A 442 REMARK 465 LYS A 443 REMARK 465 LEU A 444 REMARK 465 LEU A 445 REMARK 465 THR A 446 REMARK 465 ILE A 447 REMARK 465 ASN A 495 REMARK 465 HIS A 496 REMARK 465 ALA A 497 REMARK 465 LEU A 498 REMARK 465 GLU A 499 REMARK 465 HIS A 500 REMARK 465 HIS A 501 REMARK 465 HIS A 502 REMARK 465 HIS A 503 REMARK 465 HIS A 504 REMARK 465 HIS A 505 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 SER B 3 REMARK 465 ILE B 4 REMARK 465 THR B 5 REMARK 465 GLY B 368 REMARK 465 ASP B 369 REMARK 465 PHE B 370 REMARK 465 PRO B 396 REMARK 465 GLN B 397 REMARK 465 PRO B 398 REMARK 465 SER B 399 REMARK 465 GLU B 400 REMARK 465 ASP B 401 REMARK 465 SER B 402 REMARK 465 PRO B 403 REMARK 465 ASP B 404 REMARK 465 GLY B 405 REMARK 465 HIS B 417 REMARK 465 ARG B 418 REMARK 465 GLN B 419 REMARK 465 GLU B 420 REMARK 465 SER B 421 REMARK 465 ARG B 434 REMARK 465 ILE B 435 REMARK 465 ARG B 436 REMARK 465 TRP B 437 REMARK 465 GLY B 438 REMARK 465 GLY B 439 REMARK 465 LYS B 440 REMARK 465 PRO B 441 REMARK 465 GLU B 442 REMARK 465 LYS B 443 REMARK 465 LEU B 444 REMARK 465 LEU B 445 REMARK 465 THR B 446 REMARK 465 ILE B 447 REMARK 465 ASN B 495 REMARK 465 HIS B 496 REMARK 465 ALA B 497 REMARK 465 LEU B 498 REMARK 465 GLU B 499 REMARK 465 HIS B 500 REMARK 465 HIS B 501 REMARK 465 HIS B 502 REMARK 465 HIS B 503 REMARK 465 HIS B 504 REMARK 465 HIS B 505 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 PRO B 218 C - N - CA ANGL. DEV. = 11.6 DEGREES REMARK 500 PRO B 227 C - N - CA ANGL. DEV. = 9.0 DEGREES REMARK 500 PRO B 449 C - N - CA ANGL. DEV. = 9.7 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 ILE A 23 -164.81 -106.22 REMARK 500 ALA A 53 107.47 -59.38 REMARK 500 ASN A 79 -60.31 -105.56 REMARK 500 LYS A 103 -123.16 46.78 REMARK 500 ASP A 116 -167.45 -114.43 REMARK 500 PRO A 218 174.92 -50.20 REMARK 500 ASN A 230 -2.76 74.15 REMARK 500 ARG A 241 135.78 -38.33 REMARK 500 MET A 260 128.64 -177.17 REMARK 500 HIS A 341 92.94 -62.54 REMARK 500 LEU A 381 30.49 -97.99 REMARK 500 PRO A 385 0.48 -65.59 REMARK 500 ASN A 394 1.60 80.38 REMARK 500 SER A 475 157.09 -46.66 REMARK 500 VAL B 19 43.47 -140.74 REMARK 500 ALA B 34 4.59 -68.39 REMARK 500 ASN B 84 174.62 178.64 REMARK 500 GLU B 87 75.12 -102.37 REMARK 500 LYS B 103 -123.91 49.03 REMARK 500 LEU B 143 -71.11 -49.35 REMARK 500 ASP B 169 19.16 59.22 REMARK 500 SER B 177 119.50 -161.61 REMARK 500 PRO B 218 159.18 -48.53 REMARK 500 TYR B 237 -6.98 71.87 REMARK 500 MET B 260 134.10 179.22 REMARK 500 MET B 260 135.66 179.22 REMARK 500 PRO B 342 -11.62 -47.38 REMARK 500 ASP B 344 21.07 -78.62 REMARK 500 GLU B 430 70.73 -115.34 REMARK 500 VAL B 432 123.66 -37.98 REMARK 500 SER B 450 -15.22 -141.58 REMARK 500 LEU B 454 92.95 -55.54 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 ILE A 90 GLY A 91 -148.90 REMARK 500 LEU A 339 ALA A 340 -149.72 REMARK 500 HIS A 341 PRO A 342 -144.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BLA A 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BLA B 900 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3C2W RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PABPHP PHOTOSENSORY CORE DOMAIN WT REMARK 900 RELATED ID: 3IBR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF P. AERUGINOSA BACTERIOPHYTOCHROME PHOTOSENSORY REMARK 900 CORE MODULE MUTANT Q188L IN THE MIXED PR/PFR STATE DBREF 3G6O A 1 497 UNP Q9HWR3 BPHY_PSEAE 1 497 DBREF 3G6O B 1 497 UNP Q9HWR3 BPHY_PSEAE 1 497 SEQADV 3G6O LEU A 188 UNP Q9HWR3 GLN 188 ENGINEERED MUTATION SEQADV 3G6O LEU A 498 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O GLU A 499 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS A 500 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS A 501 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS A 502 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS A 503 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS A 504 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS A 505 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O LEU B 188 UNP Q9HWR3 GLN 188 ENGINEERED MUTATION SEQADV 3G6O LEU B 498 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O GLU B 499 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS B 500 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS B 501 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS B 502 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS B 503 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS B 504 UNP Q9HWR3 EXPRESSION TAG SEQADV 3G6O HIS B 505 UNP Q9HWR3 EXPRESSION TAG SEQRES 1 A 505 MET THR SER ILE THR PRO VAL THR LEU ALA ASN CYS GLU SEQRES 2 A 505 ASP GLU PRO ILE HIS VAL PRO GLY ALA ILE GLN PRO HIS SEQRES 3 A 505 GLY ALA LEU VAL THR LEU ARG ALA ASP GLY MET VAL LEU SEQRES 4 A 505 ALA ALA SER GLU ASN ILE GLN ALA LEU LEU GLY PHE VAL SEQRES 5 A 505 ALA SER PRO GLY SER TYR LEU THR GLN GLU GLN VAL GLY SEQRES 6 A 505 PRO GLU VAL LEU ARG MET LEU GLU GLU GLY LEU THR GLY SEQRES 7 A 505 ASN GLY PRO TRP SER ASN SER VAL GLU THR ARG ILE GLY SEQRES 8 A 505 GLU HIS LEU PHE ASP VAL ILE GLY HIS SER TYR LYS GLU SEQRES 9 A 505 VAL PHE TYR LEU GLU PHE GLU ILE ARG THR ALA ASP THR SEQRES 10 A 505 LEU SER ILE THR SER PHE THR LEU ASN ALA GLN ARG ILE SEQRES 11 A 505 ILE ALA GLN VAL GLN LEU HIS ASN ASP THR ALA SER LEU SEQRES 12 A 505 LEU SER ASN VAL THR ASP GLU LEU ARG ARG MET THR GLY SEQRES 13 A 505 TYR ASP ARG VAL MET ALA TYR ARG PHE ARG HIS ASP ASP SEQRES 14 A 505 SER GLY GLU VAL VAL ALA GLU SER ARG ARG GLU ASP LEU SEQRES 15 A 505 GLU SER TYR LEU GLY LEU ARG TYR PRO ALA SER ASP ILE SEQRES 16 A 505 PRO ALA GLN ALA ARG ARG LEU TYR ILE GLN ASN PRO ILE SEQRES 17 A 505 ARG LEU ILE ALA ASP VAL ALA TYR THR PRO MET ARG VAL SEQRES 18 A 505 PHE PRO ALA LEU ASN PRO GLU THR ASN GLU SER PHE ASP SEQRES 19 A 505 LEU SER TYR SER VAL LEU ARG SER VAL SER PRO ILE HIS SEQRES 20 A 505 CYS GLU TYR LEU THR ASN MET GLY VAL ARG ALA SER MET SEQRES 21 A 505 SER ILE SER ILE VAL VAL GLY GLY LYS LEU TRP GLY LEU SEQRES 22 A 505 PHE SER CYS HIS HIS MET SER PRO LYS LEU ILE PRO TYR SEQRES 23 A 505 PRO VAL ARG MET SER PHE GLN ILE PHE SER GLN VAL CYS SEQRES 24 A 505 SER ALA ILE VAL GLU ARG LEU GLU GLN GLY ARG ILE ALA SEQRES 25 A 505 GLU LEU LEU ARG VAL SER THR GLU ARG ARG LEU ALA LEU SEQRES 26 A 505 ALA ARG ARG ALA ARG ASP ALA ASP ASP LEU PHE GLY ALA SEQRES 27 A 505 LEU ALA HIS PRO ASP ASP GLY ILE ALA ALA LEU ILE PRO SEQRES 28 A 505 CYS ASP GLY ALA LEU VAL MET LEU GLY GLY ARG THR LEU SEQRES 29 A 505 SER ILE ARG GLY ASP PHE GLU ARG GLN ALA GLY ASN VAL SEQRES 30 A 505 LEU GLN ARG LEU GLN ARG ASP PRO GLU ARG ASP ILE TYR SEQRES 31 A 505 HIS THR ASP ASN TRP PRO GLN PRO SER GLU ASP SER PRO SEQRES 32 A 505 ASP GLY GLY ASP CYS CYS GLY VAL LEU ALA ILE ARG PHE SEQRES 33 A 505 HIS ARG GLN GLU SER GLY TRP ILE PHE TRP PHE ARG HIS SEQRES 34 A 505 GLU GLU VAL HIS ARG ILE ARG TRP GLY GLY LYS PRO GLU SEQRES 35 A 505 LYS LEU LEU THR ILE GLY PRO SER GLY PRO ARG LEU THR SEQRES 36 A 505 PRO ARG GLY SER PHE GLU ALA TRP GLU GLU VAL VAL ARG SEQRES 37 A 505 GLY HIS SER THR PRO TRP SER GLU THR ASP LEU ALA ILE SEQRES 38 A 505 ALA GLU LYS LEU ARG LEU ASP LEU MET GLU LEU CYS LEU SEQRES 39 A 505 ASN HIS ALA LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 505 MET THR SER ILE THR PRO VAL THR LEU ALA ASN CYS GLU SEQRES 2 B 505 ASP GLU PRO ILE HIS VAL PRO GLY ALA ILE GLN PRO HIS SEQRES 3 B 505 GLY ALA LEU VAL THR LEU ARG ALA ASP GLY MET VAL LEU SEQRES 4 B 505 ALA ALA SER GLU ASN ILE GLN ALA LEU LEU GLY PHE VAL SEQRES 5 B 505 ALA SER PRO GLY SER TYR LEU THR GLN GLU GLN VAL GLY SEQRES 6 B 505 PRO GLU VAL LEU ARG MET LEU GLU GLU GLY LEU THR GLY SEQRES 7 B 505 ASN GLY PRO TRP SER ASN SER VAL GLU THR ARG ILE GLY SEQRES 8 B 505 GLU HIS LEU PHE ASP VAL ILE GLY HIS SER TYR LYS GLU SEQRES 9 B 505 VAL PHE TYR LEU GLU PHE GLU ILE ARG THR ALA ASP THR SEQRES 10 B 505 LEU SER ILE THR SER PHE THR LEU ASN ALA GLN ARG ILE SEQRES 11 B 505 ILE ALA GLN VAL GLN LEU HIS ASN ASP THR ALA SER LEU SEQRES 12 B 505 LEU SER ASN VAL THR ASP GLU LEU ARG ARG MET THR GLY SEQRES 13 B 505 TYR ASP ARG VAL MET ALA TYR ARG PHE ARG HIS ASP ASP SEQRES 14 B 505 SER GLY GLU VAL VAL ALA GLU SER ARG ARG GLU ASP LEU SEQRES 15 B 505 GLU SER TYR LEU GLY LEU ARG TYR PRO ALA SER ASP ILE SEQRES 16 B 505 PRO ALA GLN ALA ARG ARG LEU TYR ILE GLN ASN PRO ILE SEQRES 17 B 505 ARG LEU ILE ALA ASP VAL ALA TYR THR PRO MET ARG VAL SEQRES 18 B 505 PHE PRO ALA LEU ASN PRO GLU THR ASN GLU SER PHE ASP SEQRES 19 B 505 LEU SER TYR SER VAL LEU ARG SER VAL SER PRO ILE HIS SEQRES 20 B 505 CYS GLU TYR LEU THR ASN MET GLY VAL ARG ALA SER MET SEQRES 21 B 505 SER ILE SER ILE VAL VAL GLY GLY LYS LEU TRP GLY LEU SEQRES 22 B 505 PHE SER CYS HIS HIS MET SER PRO LYS LEU ILE PRO TYR SEQRES 23 B 505 PRO VAL ARG MET SER PHE GLN ILE PHE SER GLN VAL CYS SEQRES 24 B 505 SER ALA ILE VAL GLU ARG LEU GLU GLN GLY ARG ILE ALA SEQRES 25 B 505 GLU LEU LEU ARG VAL SER THR GLU ARG ARG LEU ALA LEU SEQRES 26 B 505 ALA ARG ARG ALA ARG ASP ALA ASP ASP LEU PHE GLY ALA SEQRES 27 B 505 LEU ALA HIS PRO ASP ASP GLY ILE ALA ALA LEU ILE PRO SEQRES 28 B 505 CYS ASP GLY ALA LEU VAL MET LEU GLY GLY ARG THR LEU SEQRES 29 B 505 SER ILE ARG GLY ASP PHE GLU ARG GLN ALA GLY ASN VAL SEQRES 30 B 505 LEU GLN ARG LEU GLN ARG ASP PRO GLU ARG ASP ILE TYR SEQRES 31 B 505 HIS THR ASP ASN TRP PRO GLN PRO SER GLU ASP SER PRO SEQRES 32 B 505 ASP GLY GLY ASP CYS CYS GLY VAL LEU ALA ILE ARG PHE SEQRES 33 B 505 HIS ARG GLN GLU SER GLY TRP ILE PHE TRP PHE ARG HIS SEQRES 34 B 505 GLU GLU VAL HIS ARG ILE ARG TRP GLY GLY LYS PRO GLU SEQRES 35 B 505 LYS LEU LEU THR ILE GLY PRO SER GLY PRO ARG LEU THR SEQRES 36 B 505 PRO ARG GLY SER PHE GLU ALA TRP GLU GLU VAL VAL ARG SEQRES 37 B 505 GLY HIS SER THR PRO TRP SER GLU THR ASP LEU ALA ILE SEQRES 38 B 505 ALA GLU LYS LEU ARG LEU ASP LEU MET GLU LEU CYS LEU SEQRES 39 B 505 ASN HIS ALA LEU GLU HIS HIS HIS HIS HIS HIS HET BLA A 900 86 HET BLA B 900 86 HETNAM BLA BILIVERDINE IX ALPHA FORMUL 3 BLA 2(C33 H34 N4 O6) FORMUL 5 HOH *2(H2 O) HELIX 1 1 ASN A 44 LEU A 49 1 6 HELIX 2 2 THR A 60 GLY A 65 1 6 HELIX 3 3 GLY A 65 GLY A 78 1 14 HELIX 4 4 SER A 119 GLN A 135 1 17 HELIX 5 5 ASP A 139 GLY A 156 1 18 HELIX 6 6 PRO A 191 ILE A 195 5 5 HELIX 7 7 PRO A 196 ASN A 206 1 11 HELIX 8 8 ASP A 234 SER A 238 5 5 HELIX 9 9 PRO A 245 MET A 254 1 10 HELIX 10 10 PRO A 285 ARG A 328 1 44 HELIX 11 11 ASP A 334 LEU A 339 1 6 HELIX 12 12 GLY A 345 LEU A 349 5 5 HELIX 13 13 GLN A 373 LEU A 378 1 6 HELIX 14 14 THR A 455 ARG A 468 1 14 HELIX 15 15 SER A 475 MET A 490 1 16 HELIX 16 16 ASN B 44 GLY B 50 1 7 HELIX 17 17 THR B 60 THR B 77 1 18 HELIX 18 18 SER B 119 GLN B 135 1 17 HELIX 19 19 ASP B 139 GLY B 156 1 18 HELIX 20 20 PRO B 191 ILE B 195 5 5 HELIX 21 21 PRO B 196 ASN B 206 1 11 HELIX 22 22 SER B 244 MET B 254 1 11 HELIX 23 23 PRO B 285 ARG B 330 1 46 HELIX 24 24 ASP B 334 ALA B 340 1 7 HELIX 25 25 GLY B 345 LEU B 349 5 5 HELIX 26 26 GLU B 371 LEU B 381 1 11 HELIX 27 27 GLN B 382 ASP B 384 5 3 HELIX 28 28 THR B 455 ARG B 468 1 14 HELIX 29 29 SER B 475 MET B 490 1 16 SHEET 1 A 7 ALA A 22 ILE A 23 0 SHEET 2 A 7 MET A 219 PHE A 222 -1 O MET A 219 N ILE A 23 SHEET 3 A 7 VAL A 38 SER A 42 -1 N ALA A 41 O PHE A 222 SHEET 4 A 7 GLY A 27 LEU A 32 -1 N LEU A 29 O SER A 42 SHEET 5 A 7 VAL A 105 ILE A 112 -1 O PHE A 106 N LEU A 32 SHEET 6 A 7 HIS A 93 TYR A 102 -1 N HIS A 100 O TYR A 107 SHEET 7 A 7 SER A 83 ILE A 90 -1 N THR A 88 O PHE A 95 SHEET 1 B 6 ARG A 189 TYR A 190 0 SHEET 2 B 6 SER A 170 ARG A 178 -1 N GLY A 171 O TYR A 190 SHEET 3 B 6 ARG A 159 ARG A 166 -1 N ARG A 164 O GLU A 172 SHEET 4 B 6 LYS A 269 HIS A 278 -1 O HIS A 277 N ARG A 159 SHEET 5 B 6 ALA A 258 VAL A 266 -1 N MET A 260 O CYS A 276 SHEET 6 B 6 ILE A 208 ILE A 211 -1 N ILE A 211 O SER A 259 SHEET 1 C 5 SER A 365 ILE A 366 0 SHEET 2 C 5 GLY A 354 MET A 358 -1 N ALA A 355 O ILE A 366 SHEET 3 C 5 TRP A 423 ARG A 428 -1 O TRP A 423 N MET A 358 SHEET 4 C 5 GLY A 410 ILE A 414 -1 N ILE A 414 O ILE A 424 SHEET 5 C 5 ILE A 389 THR A 392 -1 N TYR A 390 O ALA A 413 SHEET 1 D 7 ALA B 22 ILE B 23 0 SHEET 2 D 7 MET B 219 PHE B 222 -1 O MET B 219 N ILE B 23 SHEET 3 D 7 VAL B 38 SER B 42 -1 N ALA B 41 O PHE B 222 SHEET 4 D 7 GLY B 27 LEU B 32 -1 N LEU B 29 O SER B 42 SHEET 5 D 7 VAL B 105 ILE B 112 -1 O PHE B 110 N ALA B 28 SHEET 6 D 7 PHE B 95 TYR B 102 -1 N ILE B 98 O GLU B 109 SHEET 7 D 7 SER B 83 VAL B 86 -1 N ASN B 84 O GLY B 99 SHEET 1 E 6 ARG B 189 TYR B 190 0 SHEET 2 E 6 GLY B 171 ARG B 178 -1 N GLY B 171 O TYR B 190 SHEET 3 E 6 ARG B 159 PHE B 165 -1 N VAL B 160 O SER B 177 SHEET 4 E 6 LYS B 269 HIS B 278 -1 O HIS B 277 N ARG B 159 SHEET 5 E 6 ALA B 258 VAL B 266 -1 N MET B 260 O CYS B 276 SHEET 6 E 6 ILE B 208 ARG B 209 -1 N ARG B 209 O SER B 261 SHEET 1 F 5 ARG B 362 ILE B 366 0 SHEET 2 F 5 GLY B 354 LEU B 359 -1 N LEU B 359 O ARG B 362 SHEET 3 F 5 TRP B 423 ARG B 428 -1 O TRP B 423 N MET B 358 SHEET 4 F 5 GLY B 410 ILE B 414 -1 N ILE B 414 O ILE B 424 SHEET 5 F 5 ILE B 389 THR B 392 -1 N TYR B 390 O ALA B 413 LINK SG BCYS A 12 CBCBBLA A 900 1555 1555 1.66 LINK SG ACYS A 12 CBCABLA A 900 1555 1555 1.66 LINK SG ACYS B 12 CBCABLA B 900 1555 1555 1.66 LINK SG BCYS B 12 CBCBBLA B 900 1555 1555 1.66 CISPEP 1 ALA A 115 ASP A 116 0 -1.43 CISPEP 2 PHE A 222 PRO A 223 0 -4.38 CISPEP 3 PHE B 222 PRO B 223 0 -2.52 CISPEP 4 ASP B 393 ASN B 394 0 10.25 SITE 1 AC1 25 CYS A 12 GLU A 15 ILE A 17 TYR A 163 SITE 2 AC1 25 TYR A 190 SER A 193 ASP A 194 ILE A 195 SITE 3 AC1 25 PRO A 196 ALA A 199 TYR A 203 ARG A 209 SITE 4 AC1 25 ILE A 211 ARG A 241 SER A 244 HIS A 247 SITE 5 AC1 25 TYR A 250 MET A 254 SER A 259 SER A 261 SITE 6 AC1 25 SER A 275 HIS A 277 LEU A 454 PRO A 456 SITE 7 AC1 25 HOH A 506 SITE 1 AC2 27 CYS B 12 GLU B 15 ILE B 17 MET B 161 SITE 2 AC2 27 TYR B 163 LEU B 188 TYR B 190 SER B 193 SITE 3 AC2 27 ASP B 194 ILE B 195 PRO B 196 ALA B 199 SITE 4 AC2 27 TYR B 203 ARG B 209 ARG B 241 VAL B 243 SITE 5 AC2 27 SER B 244 HIS B 247 TYR B 250 SER B 259 SITE 6 AC2 27 SER B 261 SER B 275 HIS B 277 ARG B 453 SITE 7 AC2 27 LEU B 454 PRO B 456 HOH B 506 CRYST1 109.786 109.786 189.113 90.00 90.00 120.00 P 65 12 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 0.009109 0.005259 0.000000 0.00000 SCALE2 0.000000 0.010518 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005288 0.00000