HEADER TRANSFERASE 02-APR-14 4Q0I TITLE DEINOCOCCUS RADIODURANS BPHP PAS-GAF D207A MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACTERIOPHYTOCHROME; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PAS-GAF; 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: DEINOCOCCUS RADIODURANS R1; SOURCE 3 ORGANISM_TAXID: 243230; SOURCE 4 STRAIN: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / SOURCE 5 NCIMB 9279 / R1 / VKM B-1422; SOURCE 6 GENE: BPHP, DR_A0050; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET21B KEYWDS PAS GAF, PHOTOSENSOR, RESPONSE REGULATOR, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.S.BURGIE,R.D.VIERSTRA REVDAT 2 17-SEP-14 4Q0I 1 JRNL REVDAT 1 16-JUL-14 4Q0I 0 JRNL AUTH E.S.BURGIE,T.WANG,A.N.BUSSELL,J.M.WALKER,H.LI,R.D.VIERSTRA JRNL TITL CRYSTALLOGRAPHIC AND ELECTRON MICROSCOPIC ANALYSES OF A JRNL TITL 2 BACTERIAL PHYTOCHROME REVEAL LOCAL AND GLOBAL REARRANGEMENTS JRNL TITL 3 DURING PHOTOCONVERSION. JRNL REF J.BIOL.CHEM. V. 289 24573 2014 JRNL REFN ISSN 0021-9258 JRNL PMID 25006244 JRNL DOI 10.1074/JBC.M114.571661 REMARK 2 REMARK 2 RESOLUTION. 1.74 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.4_1496) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.74 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.19 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 32498 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 1649 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 36.2005 - 3.9911 0.98 2616 151 0.1437 0.1699 REMARK 3 2 3.9911 - 3.1684 1.00 2611 137 0.1469 0.1740 REMARK 3 3 3.1684 - 2.7681 1.00 2599 151 0.1658 0.2245 REMARK 3 4 2.7681 - 2.5151 1.00 2578 144 0.1711 0.2056 REMARK 3 5 2.5151 - 2.3348 1.00 2591 142 0.1736 0.1796 REMARK 3 6 2.3348 - 2.1972 0.99 2572 136 0.1623 0.2016 REMARK 3 7 2.1972 - 2.0872 0.99 2579 143 0.1701 0.2352 REMARK 3 8 2.0872 - 1.9963 0.99 2568 121 0.1660 0.2172 REMARK 3 9 1.9963 - 1.9195 0.99 2549 145 0.1815 0.2315 REMARK 3 10 1.9195 - 1.8532 0.99 2582 126 0.1905 0.2317 REMARK 3 11 1.8532 - 1.7953 0.99 2546 134 0.2000 0.2439 REMARK 3 12 1.7953 - 1.7440 0.95 2458 119 0.2038 0.1861 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.030 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 : 0.015 2765 REMARK 3 ANGLE : 1.623 3818 REMARK 3 CHIRALITY : 0.085 424 REMARK 3 PLANARITY : 0.010 509 REMARK 3 DIHEDRAL : 17.181 1046 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: chain 'A' and (resid 4 through 31 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.5492 -31.5153 31.1317 REMARK 3 T TENSOR REMARK 3 T11: 0.4165 T22: 0.3897 REMARK 3 T33: 0.2242 T12: -0.0740 REMARK 3 T13: -0.0732 T23: 0.1061 REMARK 3 L TENSOR REMARK 3 L11: 9.4530 L22: 6.5709 REMARK 3 L33: 3.4775 L12: -2.9773 REMARK 3 L13: -2.7437 L23: 1.6419 REMARK 3 S TENSOR REMARK 3 S11: 0.1326 S12: -0.4157 S13: -0.5713 REMARK 3 S21: 0.5141 S22: -0.2505 S23: -0.3870 REMARK 3 S31: 0.5274 S32: 0.4657 S33: 0.0866 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: chain 'A' and (resid 32 through 118 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.7551 -11.4009 21.9866 REMARK 3 T TENSOR REMARK 3 T11: 0.2627 T22: 0.2847 REMARK 3 T33: 0.2829 T12: 0.0422 REMARK 3 T13: -0.0076 T23: -0.0677 REMARK 3 L TENSOR REMARK 3 L11: 4.9419 L22: 2.0525 REMARK 3 L33: 3.4621 L12: -0.4399 REMARK 3 L13: -0.0351 L23: 1.4560 REMARK 3 S TENSOR REMARK 3 S11: 0.0568 S12: -0.2682 S13: 0.7064 REMARK 3 S21: -0.1344 S22: -0.2223 S23: 0.1980 REMARK 3 S31: -0.4328 S32: -0.5062 S33: 0.1541 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: chain 'A' and (resid 119 through 152 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.9013 -22.4093 4.0651 REMARK 3 T TENSOR REMARK 3 T11: 0.2082 T22: 0.2503 REMARK 3 T33: 0.2889 T12: 0.0037 REMARK 3 T13: -0.0332 T23: 0.0291 REMARK 3 L TENSOR REMARK 3 L11: 0.9396 L22: 2.7882 REMARK 3 L33: 5.9061 L12: -0.8744 REMARK 3 L13: -0.8815 L23: 3.8209 REMARK 3 S TENSOR REMARK 3 S11: 0.0459 S12: 0.1062 S13: 0.0981 REMARK 3 S21: -0.4462 S22: -0.0999 S23: 0.0915 REMARK 3 S31: -0.6225 S32: -0.1202 S33: 0.1148 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: chain 'A' and (resid 153 through 298 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.4974 -27.2475 12.1146 REMARK 3 T TENSOR REMARK 3 T11: 0.1099 T22: 0.1278 REMARK 3 T33: 0.1548 T12: 0.0009 REMARK 3 T13: -0.0234 T23: 0.0276 REMARK 3 L TENSOR REMARK 3 L11: 1.4704 L22: 1.7046 REMARK 3 L33: 2.4611 L12: -0.0273 REMARK 3 L13: 0.1384 L23: 1.1256 REMARK 3 S TENSOR REMARK 3 S11: 0.0229 S12: -0.1187 S13: -0.0629 REMARK 3 S21: 0.1606 S22: 0.0188 S23: -0.1293 REMARK 3 S31: 0.1201 S32: 0.1430 S33: -0.0232 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: chain 'A' and (resid 299 through 324 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.2146 -32.8689 2.2105 REMARK 3 T TENSOR REMARK 3 T11: 0.1111 T22: 0.2420 REMARK 3 T33: 0.1772 T12: 0.0001 REMARK 3 T13: -0.0081 T23: 0.0192 REMARK 3 L TENSOR REMARK 3 L11: 4.9168 L22: 2.2006 REMARK 3 L33: 6.1714 L12: 1.7573 REMARK 3 L13: 1.3412 L23: 3.3849 REMARK 3 S TENSOR REMARK 3 S11: -0.0783 S12: 0.1391 S13: -0.4897 REMARK 3 S21: 0.2905 S22: 0.3060 S23: 0.0517 REMARK 3 S31: 0.3172 S32: 0.1591 S33: -0.2161 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 4Q0I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-APR-14. REMARK 100 THE RCSB ID CODE IS RCSB085450. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-DEC-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07500 REMARK 200 MONOCHROMATOR : HORIZONTAL FOCUSING REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32523 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.744 REMARK 200 RESOLUTION RANGE LOW (A) : 36.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : 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 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19% ISOPROPANO, 19% PEG 3350, 5% REMARK 280 GLYCEROL, 100 MM CITRIC ACID(NAOH) PH 5.6, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 43.74850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.66350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 43.74850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.66350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 5530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 634 LIES ON A SPECIAL POSITION. 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 -14 REMARK 465 ALA A -13 REMARK 465 LEU A -12 REMARK 465 SER A -11 REMARK 465 MET A -10 REMARK 465 THR A -9 REMARK 465 GLY A -8 REMARK 465 GLY A -7 REMARK 465 GLN A -6 REMARK 465 GLN A -5 REMARK 465 MET A -4 REMARK 465 GLY A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 ARG A 3 REMARK 465 ALA A 131 REMARK 465 TRP A 132 REMARK 465 ASP A 133 REMARK 465 SER A 134 REMARK 465 THR A 135 REMARK 465 GLY A 136 REMARK 465 HIS A 325 REMARK 465 HIS A 326 REMARK 465 HIS A 327 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 ASP A 4 CG OD1 OD2 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 ND2 ASN A 243 O HOH A 753 2.10 REMARK 500 O HOH A 527 O HOH A 708 2.10 REMARK 500 OD2 ASP A 95 O HOH A 708 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE2 GLU A 148 NH2 ARG A 310 2555 2.13 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 172 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 222 NE - CZ - NH1 ANGL. DEV. = -3.3 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 ASN A 23 18.31 -145.78 REMARK 500 ALA A 182 -0.08 75.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 701 DISTANCE = 5.03 ANGSTROMS REMARK 525 HOH A 761 DISTANCE = 6.89 ANGSTROMS REMARK 525 HOH A 763 DISTANCE = 6.11 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LBV A 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Q0J RELATED DB: PDB REMARK 900 RELATED ID: 4Q0H RELATED DB: PDB DBREF 4Q0I A 1 321 UNP Q9RZA4 BPHY_DEIRA 1 321 SEQADV 4Q0I MET A -14 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I ALA A -13 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I LEU A -12 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I SER A -11 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I MET A -10 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I THR A -9 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I GLY A -8 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I GLY A -7 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I GLN A -6 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I GLN A -5 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I MET A -4 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I GLY A -3 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I ARG A -2 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I GLY A -1 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I SER A 0 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I ALA A 207 UNP Q9RZA4 ASP 207 ENGINEERED MUTATION SEQADV 4Q0I SER A 307 UNP Q9RZA4 TYR 307 ENGINEERED MUTATION SEQADV 4Q0I HIS A 322 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I HIS A 323 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I HIS A 324 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I HIS A 325 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I HIS A 326 UNP Q9RZA4 EXPRESSION TAG SEQADV 4Q0I HIS A 327 UNP Q9RZA4 EXPRESSION TAG SEQRES 1 A 342 MET ALA LEU SER MET THR GLY GLY GLN GLN MET GLY ARG SEQRES 2 A 342 GLY SER MET SER ARG ASP PRO LEU PRO PHE PHE PRO PRO SEQRES 3 A 342 LEU TYR LEU GLY GLY PRO GLU ILE THR THR GLU ASN CYS SEQRES 4 A 342 GLU ARG GLU PRO ILE HIS ILE PRO GLY SER ILE GLN PRO SEQRES 5 A 342 HIS GLY ALA LEU LEU THR ALA ASP GLY HIS SER GLY GLU SEQRES 6 A 342 VAL LEU GLN MET SER LEU ASN ALA ALA THR PHE LEU GLY SEQRES 7 A 342 GLN GLU PRO THR VAL LEU ARG GLY GLN THR LEU ALA ALA SEQRES 8 A 342 LEU LEU PRO GLU GLN TRP PRO ALA LEU GLN ALA ALA LEU SEQRES 9 A 342 PRO PRO GLY CYS PRO ASP ALA LEU GLN TYR ARG ALA THR SEQRES 10 A 342 LEU ASP TRP PRO ALA ALA GLY HIS LEU SER LEU THR VAL SEQRES 11 A 342 HIS ARG VAL GLY GLU LEU LEU ILE LEU GLU PHE GLU PRO SEQRES 12 A 342 THR GLU ALA TRP ASP SER THR GLY PRO HIS ALA LEU ARG SEQRES 13 A 342 ASN ALA MET PHE ALA LEU GLU SER ALA PRO ASN LEU ARG SEQRES 14 A 342 ALA LEU ALA GLU VAL ALA THR GLN THR VAL ARG GLU LEU SEQRES 15 A 342 THR GLY PHE ASP ARG VAL MET LEU TYR LYS PHE ALA PRO SEQRES 16 A 342 ASP ALA THR GLY GLU VAL ILE ALA GLU ALA ARG ARG GLU SEQRES 17 A 342 GLY LEU HIS ALA PHE LEU GLY HIS ARG PHE PRO ALA SER SEQRES 18 A 342 ALA ILE PRO ALA GLN ALA ARG ALA LEU TYR THR ARG HIS SEQRES 19 A 342 LEU LEU ARG LEU THR ALA ASP THR ARG ALA ALA ALA VAL SEQRES 20 A 342 PRO LEU ASP PRO VAL LEU ASN PRO GLN THR ASN ALA PRO SEQRES 21 A 342 THR PRO LEU GLY GLY ALA VAL LEU ARG ALA THR SER PRO SEQRES 22 A 342 MET HIS MET GLN TYR LEU ARG ASN MET GLY VAL GLY SER SEQRES 23 A 342 SER LEU SER VAL SER VAL VAL VAL GLY GLY GLN LEU TRP SEQRES 24 A 342 GLY LEU ILE ALA CYS HIS HIS GLN THR PRO TYR VAL LEU SEQRES 25 A 342 PRO PRO ASP LEU ARG THR THR LEU GLU SER LEU GLY ARG SEQRES 26 A 342 LEU LEU SER LEU GLN VAL GLN VAL LYS GLU ALA HIS HIS SEQRES 27 A 342 HIS HIS HIS HIS HET IPA A 401 4 HET IPA A 402 4 HET LBV A 403 43 HETNAM IPA ISOPROPYL ALCOHOL HETNAM LBV 3-[2-[(Z)-[3-(2-CARBOXYETHYL)-5-[(Z)-(4-ETHENYL-3- HETNAM 2 LBV METHYL-5-OXIDANYLIDENE-PYRROL-2-YLIDENE)METHYL]-4- HETNAM 3 LBV METHYL-PYRROL-1-IUM-2-YLIDENE]METHYL]-5-[(Z)-[(3E)-3- HETNAM 4 LBV ETHYLIDENE-4-METHYL-5-OXIDANYLIDENE-PYRROLIDIN-2- HETNAM 5 LBV YLIDENE]METHYL]-4-METHYL-1H-PYRROL-3-YL]PROPANOIC ACID HETSYN IPA 2-PROPANOL HETSYN LBV 2(R),3(E)- PHYTOCHROMOBILIN FORMUL 2 IPA 2(C3 H8 O) FORMUL 4 LBV C33 H37 N4 O6 1+ FORMUL 5 HOH *270(H2 O) HELIX 1 1 PRO A 11 GLY A 15 5 5 HELIX 2 2 ASN A 23 GLU A 27 5 5 HELIX 3 3 ASN A 57 GLY A 63 1 7 HELIX 4 4 GLU A 65 ARG A 70 1 6 HELIX 5 5 THR A 73 LEU A 78 1 6 HELIX 6 6 GLN A 81 LEU A 89 1 9 HELIX 7 7 HIS A 138 ALA A 150 1 13 HELIX 8 8 ASN A 152 GLY A 169 1 18 HELIX 9 9 PRO A 204 ILE A 208 5 5 HELIX 10 10 PRO A 209 HIS A 219 1 11 HELIX 11 11 SER A 257 MET A 267 1 11 HELIX 12 12 PRO A 298 HIS A 322 1 25 SHEET 1 A 7 SER A 34 ILE A 35 0 SHEET 2 A 7 VAL A 232 ASP A 235 -1 O VAL A 232 N ILE A 35 SHEET 3 A 7 VAL A 51 SER A 55 -1 N MET A 54 O ASP A 235 SHEET 4 A 7 ALA A 40 ASP A 45 -1 N THR A 43 O LEU A 52 SHEET 5 A 7 LEU A 121 THR A 129 -1 O LEU A 124 N LEU A 42 SHEET 6 A 7 HIS A 110 VAL A 118 -1 N THR A 114 O GLU A 125 SHEET 7 A 7 TYR A 99 LEU A 103 -1 N LEU A 103 O LEU A 111 SHEET 1 B 6 ARG A 202 PHE A 203 0 SHEET 2 B 6 GLY A 184 ARG A 191 -1 N GLY A 184 O PHE A 203 SHEET 3 B 6 ARG A 172 PHE A 178 -1 N LYS A 177 O GLU A 185 SHEET 4 B 6 GLN A 282 HIS A 291 -1 O LEU A 286 N TYR A 176 SHEET 5 B 6 SER A 271 VAL A 279 -1 N LEU A 273 O CYS A 289 SHEET 6 B 6 LEU A 221 THR A 224 -1 N ARG A 222 O SER A 274 LINK SG CYS A 24 CBAALBV A 403 1555 1555 1.80 CISPEP 1 ASP A 235 PRO A 236 0 -14.93 SITE 1 AC1 5 ARG A 172 GLY A 268 HIS A 290 HIS A 323 SITE 2 AC1 5 HOH A 621 SITE 1 AC2 7 THR A 168 GLY A 169 LEU A 199 HIS A 291 SITE 2 AC2 7 TYR A 295 HOH A 523 HOH A 562 SITE 1 AC3 23 CYS A 24 MET A 174 TYR A 176 PHE A 198 SITE 2 AC3 23 PHE A 203 SER A 206 ALA A 207 ILE A 208 SITE 3 AC3 23 PRO A 209 TYR A 216 ARG A 254 SER A 257 SITE 4 AC3 23 HIS A 260 TYR A 263 MET A 267 SER A 272 SITE 5 AC3 23 SER A 274 HIS A 290 HOH A 511 HOH A 525 SITE 6 AC3 23 HOH A 550 HOH A 645 HOH A 768 CRYST1 87.497 51.327 80.368 90.00 115.75 90.00 C 1 2 1 4 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 0.011429 0.000000 0.005513 0.00000 SCALE2 0.000000 0.019483 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013815 0.00000