HEADER TRANSFERASE 26-JUN-98 1YPN TITLE REDUCED FORM HYDROXYMETHYLBILANE SYNTHASE (K59Q MUTANT) CRYSTAL TITLE 2 STRUCTURE AFTER 2 HOURS IN A FLOW CELL DETERMINED BY TIME-RESOLVED TITLE 3 LAUE DIFFRACTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYDROXYMETHYLBILANE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: THREE DOMAINS; COMPND 5 SYNONYM: PORPHOBILINOGEN DEAMINASE; COMPND 6 EC: 2.5.1.61; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: CONTAINS A DIPYRROMETHANE COFACTOR LINKED TO CYSTEINE COMPND 10 242 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BIOSYNTHESIS OF LINEAR TETRAPYRROLE, ALL ALPHA/BETA, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.R.HELLIWELL,Y.P.NIEH,J.RAFTERY,A.CASSETTA,J.HABASH,P.D.CARR, AUTHOR 2 T.URSBY,M.WULFF,A.W.THOMPSON,A.C.NIEMANN,A.HAEDENER REVDAT 7 09-AUG-23 1YPN 1 REMARK REVDAT 6 03-NOV-21 1YPN 1 REMARK SEQADV LINK REVDAT 5 18-SEP-13 1YPN 1 HETNAM VERSN REVDAT 4 27-APR-11 1YPN 1 COMPND HEADER JRNL REVDAT 3 24-FEB-09 1YPN 1 VERSN REVDAT 2 20-APR-99 1YPN 1 COMPND REMARK TITLE REVDAT 1 02-MAR-99 1YPN 0 JRNL AUTH J.R.HELLIWELL,Y.P.NIEH,A.CASSETTA,J.HABASH,P.D.CARR,T.URSBY, JRNL AUTH 2 M.WULFF,A.W.THOMPSON,A.C.NIEMANN,A.HAEDENER JRNL TITL TIME-RESOLVED STRUCTURES OF HYDROXYMETHYLBILANE SYNTHASE JRNL TITL 2 (LYS59GLN MUTANT) AS IT ISLOADED WITH SUBSTRATE IN THE JRNL TITL 3 CRYSTAL DETERMINED BY LAUE DIFFRACTION JRNL REF J.CHEM.SOC.,FARADAY TRANS. V. 94 2615 1998 JRNL REFN ISSN 0956-5000 JRNL DOI 10.1039/A802217H REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.R.HELLIWELL,Y.P.NIEH,A.CASSETTA,J.RAFTERY,A.HAEDENER, REMARK 1 AUTH 2 A.C.NIEMANN,A.R.BATTERSBY,P.D.CARR,M.WULFF,T.URSBY,J.P.MOY, REMARK 1 AUTH 3 A.W.THOMPSON REMARK 1 TITL TIME-RESOLVED PROTEIN CRYSTAL DIFFRACTION: DETERMINATION BY REMARK 1 TITL 2 THE LAUE METHOD OF THE BEHAVIOUR OF THE ENZYME REMARK 1 TITL 3 HYDROXYMETHYLBILANE SYNTHASE (LYS59GLN MUTANT) AS IT IS REMARK 1 TITL 4 LOADED WITH SUBSTRATE IN THE CRYSTAL REMARK 1 EDIT J.R.HELLIWELL, P.M.RENTZEPIS REMARK 1 REF TIME-RESOLVED DIFFRACTION 187 1997 REMARK 1 REF 2 (IN: OXFORD SERIES ON REMARK 1 REF 3 SYNCHROTRON RADIATION, V.2) REMARK 1 PUBL OXFORD : CLARENDON PRESS REMARK 1 REFN ISSN 0-19-850032-7 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 72.9 REMARK 3 NUMBER OF REFLECTIONS : 11383 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 SET) : 0.199 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1176 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 : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.40 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 68.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1172 REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE : 0.3470 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 125 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 : 2224 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 103 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.00 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 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) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.671 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.23 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.276 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 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 : PARHCSDX.PRO REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPHCSDX.PRO REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE FOLLOWING REPRESENTS TWO POSSIBLE INTERPRETATIONS FOR REMARK 3 THE RESIDUAL DENSITY PEAKS NEAR THE ACTIVE SITE. THESE REMARK 3 ATOMS ARE NOT INCLUDED IN THE REFINED ENTRY. REMARK 3 REMARK 3 ES REMARK 3 REMARK 3 C1 MPU 317 18.066 7.441 24.741 1.00 37.78 REMARK 3 C2 MPU 317 18.656 7.598 25.957 1.00 34.85 REMARK 3 C3 MPU 317 17.636 7.431 26.931 1.00 34.45 REMARK 3 C4 MPU 317 16.462 7.194 26.266 1.00 34.64 REMARK 3 C5 MPU 317 20.126 7.927 26.193 1.00 35.91 REMARK 3 C6 MPU 317 20.580 9.306 25.663 1.00 37.14 REMARK 3 C7 MPU 317 17.812 7.376 28.420 1.00 39.33 REMARK 3 C8 MPU 317 17.441 8.637 29.164 1.00 41.42 REMARK 3 C9 MPU 317 17.216 8.375 30.652 1.00 44.03 REMARK 3 CH MPU 317 18.660 7.490 23.334 1.00 39.78 REMARK 3 N1 MPU 317 16.714 7.196 24.934 1.00 35.83 REMARK 3 O1 MPU 317 21.627 9.819 26.117 1.00 26.39 REMARK 3 O2 MPU 317 19.882 9.874 24.789 1.00 39.95 REMARK 3 O3 MPU 317 17.777 7.371 31.189 1.00 41.51 REMARK 3 O4 MPU 317 16.457 9.168 31.272 1.00 44.53 REMARK 3 N2 MPU 317 18.671 6.176 22.688 1.00 35.23 REMARK 3 REMARK 3 EP REMARK 3 REMARK 3 C1 MPU 317 16.744 7.168 25.091 1.00 53.28 REMARK 3 C2 MPU 317 18.034 7.174 24.679 1.00 54.37 REMARK 3 C3 MPU 317 18.838 7.176 25.840 1.00 52.21 REMARK 3 C5 MPU 317 18.501 7.135 23.241 1.00 59.11 REMARK 3 C6 MPU 317 18.419 8.470 22.530 1.00 64.68 REMARK 3 C7 MPU 317 20.339 7.170 25.898 1.00 49.54 REMARK 3 C8 MPU 317 20.913 8.218 26.812 1.00 42.08 REMARK 3 C9 MPU 317 20.840 9.587 26.213 1.00 32.97 REMARK 3 CH MPU 317 15.457 7.163 24.306 1.00 54.00 REMARK 3 N1 MPU 317 16.724 7.163 26.458 1.00 55.05 REMARK 3 O1 MPU 317 19.289 9.333 22.797 1.00 65.91 REMARK 3 O2 MPU 317 17.479 8.660 21.719 1.00 63.89 REMARK 3 O3 MPU 317 21.913 10.194 26.071 1.00 33.28 REMARK 3 O4 MPU 317 19.729 10.043 25.874 1.00 30.65 REMARK 3 C4 MPU 317 18.012 7.163 26.924 1.00 55.19 REMARK 3 N2 MPU 317 14.560 8.204 24.757 1.00 50.26 REMARK 3 C1 MPU 318 17.611 7.981 29.348 1.00 60.97 REMARK 3 C2 MPU 318 17.362 9.319 29.304 1.00 63.79 REMARK 3 C3 MPU 318 16.609 9.638 30.459 1.00 64.74 REMARK 3 CH MPU 318 18.352 7.071 28.406 1.00 57.37 REMARK 3 N1 MPU 318 17.042 7.467 30.482 1.00 61.70 REMARK 3 C4 MPU 318 16.426 8.478 31.164 1.00 63.62 REMARK 3 C1 MPU 319 15.396 9.357 33.385 1.00 60.58 REMARK 3 C2 MPU 319 14.647 9.451 34.523 1.00 57.45 REMARK 3 C3 MPU 319 14.739 10.792 34.976 1.00 58.19 REMARK 3 CH MPU 319 15.679 8.177 32.460 1.00 61.22 REMARK 3 N1 MPU 319 15.937 10.591 33.129 1.00 59.35 REMARK 3 C4 MPU 319 15.537 11.460 34.095 1.00 57.90 REMARK 3 C1 MPU 320 17.073 13.274 35.005 1.00 60.74 REMARK 3 C2 MPU 320 17.015 13.824 36.250 1.00 61.26 REMARK 3 C3 MPU 320 18.349 13.936 36.717 1.00 64.14 REMARK 3 C4 MPU 320 19.163 13.453 35.734 1.00 63.20 REMARK 3 CH MPU 320 15.988 12.900 34.027 1.00 58.80 REMARK 3 N1 MPU 320 18.383 13.052 34.687 1.00 62.92 REMARK 3 REMARK 3 MPU 318,319,320 HAVE NO SIDE CHAINS MODELLED, DUE TO REMARK 3 DISORDER/POOR ELECTRON DENSITY. REMARK 4 REMARK 4 1YPN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000177422. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NOV-95 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 5.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID09 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : L REMARK 200 WAVELENGTH OR RANGE (A) : 0.4 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DARESBURY LAUE SUITE REMARK 200 DATA SCALING SOFTWARE : LAUENORM, CCP4 (AGROVATA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11383 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 14.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 72.9 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.11300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 69.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.26200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: PDB ENTRY 1AH5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 5.3 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 44.23500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.07500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.23500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.07500 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 LEU A 2 REMARK 465 ILE A 48 REMARK 465 LEU A 49 REMARK 465 ASP A 50 REMARK 465 THR A 51 REMARK 465 PRO A 52 REMARK 465 LEU A 53 REMARK 465 ALA A 54 REMARK 465 LYS A 55 REMARK 465 VAL A 56 REMARK 465 GLY A 57 REMARK 465 TYR A 307 REMARK 465 ASN A 308 REMARK 465 GLY A 309 REMARK 465 ASP A 310 REMARK 465 ALA A 311 REMARK 465 PRO A 312 REMARK 465 ALA A 313 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 ARG A 44 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 61 CG CD1 CD2 REMARK 470 GLN A 243 CB CG CD OE1 NE2 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 A 32 C - N - CA ANGL. DEV. = 9.1 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 GLN A 59 41.84 -84.96 REMARK 500 VAL A 63 -34.55 -135.88 REMARK 500 THR A 127 143.14 -176.08 REMARK 500 ALA A 185 121.60 -171.22 REMARK 500 PRO A 245 72.82 -69.81 REMARK 500 SER A 248 107.13 -164.34 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 DPM A 314 DBREF 1YPN A 1 313 UNP P06983 HEM3_ECOLI 1 313 SEQADV 1YPN GLN A 59 UNP P06983 LYS 59 ENGINEERED MUTATION SEQRES 1 A 313 MET LEU ASP ASN VAL LEU ARG ILE ALA THR ARG GLN SER SEQRES 2 A 313 PRO LEU ALA LEU TRP GLN ALA HIS TYR VAL LYS ASP LYS SEQRES 3 A 313 LEU MET ALA SER HIS PRO GLY LEU VAL VAL GLU LEU VAL SEQRES 4 A 313 PRO MET VAL THR ARG GLY ASP VAL ILE LEU ASP THR PRO SEQRES 5 A 313 LEU ALA LYS VAL GLY GLY GLN GLY LEU PHE VAL LYS GLU SEQRES 6 A 313 LEU GLU VAL ALA LEU LEU GLU ASN ARG ALA ASP ILE ALA SEQRES 7 A 313 VAL HIS SER MET LYS ASP VAL PRO VAL GLU PHE PRO GLN SEQRES 8 A 313 GLY LEU GLY LEU VAL THR ILE CYS GLU ARG GLU ASP PRO SEQRES 9 A 313 ARG ASP ALA PHE VAL SER ASN ASN TYR ASP SER LEU ASP SEQRES 10 A 313 ALA LEU PRO ALA GLY SER ILE VAL GLY THR SER SER LEU SEQRES 11 A 313 ARG ARG GLN CYS GLN LEU ALA GLU ARG ARG PRO ASP LEU SEQRES 12 A 313 ILE ILE ARG SER LEU ARG GLY ASN VAL GLY THR ARG LEU SEQRES 13 A 313 SER LYS LEU ASP ASN GLY GLU TYR ASP ALA ILE ILE LEU SEQRES 14 A 313 ALA VAL ALA GLY LEU LYS ARG LEU GLY LEU GLU SER ARG SEQRES 15 A 313 ILE ARG ALA ALA LEU PRO PRO GLU ILE SER LEU PRO ALA SEQRES 16 A 313 VAL GLY GLN GLY ALA VAL GLY ILE GLU CYS ARG LEU ASP SEQRES 17 A 313 ASP SER ARG THR ARG GLU LEU LEU ALA ALA LEU ASN HIS SEQRES 18 A 313 HIS GLU THR ALA LEU ARG VAL THR ALA GLU ARG ALA MET SEQRES 19 A 313 ASN THR ARG LEU GLU GLY GLY CYS GLN VAL PRO ILE GLY SEQRES 20 A 313 SER TYR ALA GLU LEU ILE ASP GLY GLU ILE TRP LEU ARG SEQRES 21 A 313 ALA LEU VAL GLY ALA PRO ASP GLY SER GLN ILE ILE ARG SEQRES 22 A 313 GLY GLU ARG ARG GLY ALA PRO GLN ASP ALA GLU GLN MET SEQRES 23 A 313 GLY ILE SER LEU ALA GLU GLU LEU LEU ASN ASN GLY ALA SEQRES 24 A 313 ARG GLU ILE LEU ALA GLU VAL TYR ASN GLY ASP ALA PRO SEQRES 25 A 313 ALA HET DPM A 314 30 HETNAM DPM 3-[5-{[3-(2-CARBOXYETHYL)-4-(CARBOXYMETHYL)-5-METHYL- HETNAM 2 DPM 1H-PYRROL-2-YL]METHYL}-4-(CARBOXYMETHYL)-1H-PYRROL-3- HETNAM 3 DPM YL]PROPANOIC ACID HETSYN DPM DIPYRROMETHANE COFACTOR FORMUL 2 DPM C20 H24 N2 O8 FORMUL 3 HOH *103(H2 O) HELIX 1 1 PRO A 14 SER A 30 1 17 HELIX 2 2 LYS A 64 LEU A 71 1 8 HELIX 3 3 MET A 82 ASP A 84 5 3 HELIX 4 4 LEU A 130 ARG A 139 1 10 HELIX 5 5 VAL A 152 ASP A 160 1 9 HELIX 6 6 VAL A 171 ARG A 176 1 6 HELIX 7 7 GLU A 180 ARG A 182 5 3 HELIX 8 8 SER A 210 LEU A 219 1 10 HELIX 9 9 HIS A 222 LEU A 238 1 17 HELIX 10 10 PRO A 280 ASN A 296 5 17 HELIX 11 11 ALA A 299 ALA A 304 1 6 SHEET 1 A 2 VAL A 5 THR A 10 0 SHEET 2 A 2 VAL A 35 PRO A 40 1 N VAL A 35 O LEU A 6 SHEET 1 B 3 ILE A 77 SER A 81 0 SHEET 2 B 3 VAL A 201 ARG A 206 -1 N GLU A 204 O ALA A 78 SHEET 3 B 3 LEU A 93 ILE A 98 -1 N THR A 97 O ILE A 203 SHEET 1 C 3 ILE A 167 ALA A 170 0 SHEET 2 C 3 ASP A 106 VAL A 109 -1 N VAL A 109 O ILE A 167 SHEET 3 C 3 ALA A 185 LEU A 187 -1 N LEU A 187 O ASP A 106 SHEET 1 D 2 ILE A 124 GLY A 126 0 SHEET 2 D 2 ILE A 144 ARG A 146 1 N ILE A 144 O VAL A 125 SHEET 1 E 3 ILE A 246 ILE A 253 0 SHEET 2 E 3 GLU A 256 GLY A 264 -1 N LEU A 262 O GLY A 247 SHEET 3 E 3 ILE A 271 ALA A 279 -1 N GLY A 278 O ILE A 257 LINK SG CYS A 242 CHA DPM A 314 1555 1555 1.82 SITE 1 AC1 17 SER A 81 LYS A 83 ASP A 84 THR A 127 SITE 2 AC1 17 SER A 128 SER A 129 ARG A 131 ARG A 132 SITE 3 AC1 17 LEU A 148 ARG A 155 LEU A 169 ALA A 170 SITE 4 AC1 17 CYS A 242 HOH A 336 HOH A 349 HOH A 376 SITE 5 AC1 17 HOH A 392 CRYST1 88.470 76.150 50.790 90.00 90.00 90.00 P 21 21 2 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 0.011303 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013132 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019689 0.00000