HEADER TRANSFERASE 30-SEP-08 3EQ1 TITLE THE CRYSTAL STRUCTURE OF HUMAN PORPHOBILINOGEN DEAMINASE AT 2.8A TITLE 2 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PORPHOBILINOGEN DEAMINASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 19-356; COMPND 5 SYNONYM: PBG-D, PRE-UROPORPHYRINOGEN SYNTHASE, HYDROXYMETHYLBILANE COMPND 6 SYNTHASE, HMBS; COMPND 7 EC: 2.5.1.61; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS ALPHA AND BETA PROTEIN, ALTERNATIVE SPLICING, CYTOPLASM, DISEASE KEYWDS 2 MUTATION, HEME BIOSYNTHESIS, PORPHYRIN BIOSYNTHESIS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.E.KOLSTOE,R.GILL,F.MOHAMMED,S.P.WOOD REVDAT 4 01-NOV-23 3EQ1 1 REMARK REVDAT 3 10-NOV-21 3EQ1 1 REMARK SEQADV REVDAT 2 09-JUN-09 3EQ1 1 JRNL REVDAT 1 03-MAR-09 3EQ1 0 JRNL AUTH R.GILL,S.E.KOLSTOE,F.MOHAMMED,A.AL D-BASS,J.E.MOSELY, JRNL AUTH 2 M.SARWAR,J.B.COOPER,S.P.WOOD,P.M.SHOOLINGIN-JORDAN JRNL TITL STRUCTURE OF HUMAN PORPHOBILINOGEN DEAMINASE AT 2.8 A: THE JRNL TITL 2 MOLECULAR BASIS OF ACUTE INTERMITTENT PORPHYRIA JRNL REF BIOCHEM.J. V. 420 17 2009 JRNL REFN ISSN 0264-6021 JRNL PMID 19207107 JRNL DOI 10.1042/BJ20082077 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 22175 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.262 REMARK 3 R VALUE (WORKING SET) : 0.259 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.720 REMARK 3 FREE R VALUE TEST SET COUNT : 1711 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 43.9068 - 6.4046 0.88 1723 150 0.2330 0.2690 REMARK 3 2 6.4046 - 5.0860 0.92 1707 141 0.2453 0.2564 REMARK 3 3 5.0860 - 4.4438 0.93 1708 145 0.2037 0.2311 REMARK 3 4 4.4438 - 4.0378 0.94 1703 145 0.2147 0.2273 REMARK 3 5 4.0378 - 3.7485 0.94 1703 144 0.2393 0.2700 REMARK 3 6 3.7485 - 3.5276 0.95 1706 137 0.2460 0.2785 REMARK 3 7 3.5276 - 3.3510 0.94 1704 137 0.2748 0.3136 REMARK 3 8 3.3510 - 3.2052 0.95 1708 139 0.2935 0.3401 REMARK 3 9 3.2052 - 3.0818 0.95 1684 146 0.2993 0.3828 REMARK 3 10 3.0818 - 2.9755 0.96 1723 139 0.3112 0.3715 REMARK 3 11 2.9755 - 2.8825 0.95 1694 151 0.3380 0.3822 REMARK 3 12 2.8825 - 2.8001 0.96 1701 137 0.3539 0.4183 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 : 0.34 REMARK 3 B_SOL : 49.60 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.450 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.120 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -35.62100 REMARK 3 B22 (A**2) : 60.93200 REMARK 3 B33 (A**2) : -25.31100 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 : 0.003 4998 REMARK 3 ANGLE : 0.658 6768 REMARK 3 CHIRALITY : 0.044 776 REMARK 3 PLANARITY : 0.002 876 REMARK 3 DIHEDRAL : 14.879 1860 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 2 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: chain A and (resseq 20:55 or resseq REMARK 3 88:299 or resseq 312:355 ) REMARK 3 SELECTION : chain B and (resseq 20:55 or resseq REMARK 3 88:299 or resseq 312:355 or resseq 20:55 REMARK 3 or resseq 88:299 or resseq 312:355 ) REMARK 3 ATOM PAIRS NUMBER : 2241 REMARK 3 RMSD : 0.019 REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: chain A 400 REMARK 3 SELECTION : chain B 401 REMARK 3 ATOM PAIRS NUMBER : 30 REMARK 3 RMSD : 0.014 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3EQ1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-OCT-08. REMARK 100 THE DEPOSITION ID IS D_1000049632. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAY-99 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 : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25917 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 46.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.10300 REMARK 200 R SYM (I) : 0.10300 REMARK 200 FOR THE DATA SET : 11.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.65700 REMARK 200 R SYM FOR SHELL (I) : 0.65700 REMARK 200 FOR SHELL : 2.900 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 1PDA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.6M AMMONIUM SULPHATE, 1.2M LITHIUM REMARK 280 SULPHATE, 5% (V/V) ETHYLENE GLYCOL, 50MM SODIUM CITRATE, 50MM REMARK 280 DTT, PH 5.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 40.54150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.21750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 40.54150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.21750 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: PISA 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: PISA 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 MET A 1 REMARK 465 SER A 2 REMARK 465 GLY A 3 REMARK 465 ASN A 4 REMARK 465 GLY A 5 REMARK 465 ASN A 6 REMARK 465 ALA A 7 REMARK 465 ALA A 8 REMARK 465 ALA A 9 REMARK 465 THR A 10 REMARK 465 ALA A 11 REMARK 465 GLU A 12 REMARK 465 GLU A 13 REMARK 465 ASN A 14 REMARK 465 SER A 15 REMARK 465 PRO A 16 REMARK 465 LYS A 17 REMARK 465 MET A 18 REMARK 465 MET A 56 REMARK 465 SER A 57 REMARK 465 THR A 58 REMARK 465 THR A 59 REMARK 465 GLY A 60 REMARK 465 ASP A 61 REMARK 465 LYS A 62 REMARK 465 ILE A 63 REMARK 465 LEU A 64 REMARK 465 ASP A 65 REMARK 465 THR A 66 REMARK 465 ALA A 67 REMARK 465 LEU A 68 REMARK 465 SER A 69 REMARK 465 LYS A 70 REMARK 465 ILE A 71 REMARK 465 GLY A 72 REMARK 465 GLU A 73 REMARK 465 LYS A 74 REMARK 465 SER A 75 REMARK 465 LEU A 76 REMARK 465 ALA A 303 REMARK 465 ASP A 307 REMARK 465 GLY A 308 REMARK 465 PRO A 309 REMARK 465 GLU A 310 REMARK 465 LEU A 357 REMARK 465 ASN A 358 REMARK 465 ASP A 359 REMARK 465 ALA A 360 REMARK 465 HIS A 361 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 GLY B 3 REMARK 465 ASN B 4 REMARK 465 GLY B 5 REMARK 465 ASN B 6 REMARK 465 ALA B 7 REMARK 465 ALA B 8 REMARK 465 ALA B 9 REMARK 465 THR B 10 REMARK 465 ALA B 11 REMARK 465 GLU B 12 REMARK 465 GLU B 13 REMARK 465 ASN B 14 REMARK 465 SER B 15 REMARK 465 PRO B 16 REMARK 465 LYS B 17 REMARK 465 MET B 18 REMARK 465 MET B 56 REMARK 465 SER B 57 REMARK 465 THR B 58 REMARK 465 THR B 59 REMARK 465 GLY B 60 REMARK 465 ASP B 61 REMARK 465 LYS B 62 REMARK 465 ILE B 63 REMARK 465 LEU B 64 REMARK 465 ASP B 65 REMARK 465 THR B 66 REMARK 465 ALA B 67 REMARK 465 LEU B 68 REMARK 465 SER B 69 REMARK 465 LYS B 70 REMARK 465 ILE B 71 REMARK 465 GLY B 72 REMARK 465 GLU B 73 REMARK 465 LYS B 74 REMARK 465 SER B 75 REMARK 465 LEU B 76 REMARK 465 ALA B 303 REMARK 465 ASP B 307 REMARK 465 GLY B 308 REMARK 465 PRO B 309 REMARK 465 GLU B 310 REMARK 465 LEU B 357 REMARK 465 ASN B 358 REMARK 465 ASP B 359 REMARK 465 ALA B 360 REMARK 465 HIS B 361 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 LEU A 81 CG CD1 CD2 REMARK 480 LEU B 81 CG CD1 CD2 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 GLU A 117 -150.77 -87.19 REMARK 500 THR A 145 128.79 -179.98 REMARK 500 SER A 146 42.18 -103.52 REMARK 500 GLU A 179 -73.39 -74.26 REMARK 500 GLN A 181 74.80 -107.18 REMARK 500 GLU A 182 -48.37 -135.15 REMARK 500 CYS A 211 117.01 -163.67 REMARK 500 SER A 262 60.97 -112.68 REMARK 500 PRO A 264 58.21 -66.09 REMARK 500 VAL A 316 45.12 33.70 REMARK 500 ALA A 320 61.82 -152.62 REMARK 500 ARG A 355 80.45 -65.89 REMARK 500 LYS B 87 3.26 -68.55 REMARK 500 GLU B 117 -150.68 -86.68 REMARK 500 THR B 145 128.64 -179.91 REMARK 500 SER B 146 43.05 -102.99 REMARK 500 ASN B 169 -179.96 -62.11 REMARK 500 GLU B 179 -73.57 -73.94 REMARK 500 GLN B 181 74.93 -107.72 REMARK 500 GLU B 182 -47.83 -135.48 REMARK 500 CYS B 211 117.64 -162.07 REMARK 500 SER B 262 60.68 -112.82 REMARK 500 PRO B 264 57.80 -64.85 REMARK 500 VAL B 316 44.80 34.51 REMARK 500 ALA B 320 61.75 -152.37 REMARK 500 ARG B 355 80.46 -67.30 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 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DPM B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 363 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 364 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 363 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 364 DBREF 3EQ1 A 1 361 UNP P08397 HEM3_HUMAN 1 361 DBREF 3EQ1 B 1 361 UNP P08397 HEM3_HUMAN 1 361 SEQADV 3EQ1 GLN A 167 UNP P08397 ARG 167 ENGINEERED MUTATION SEQADV 3EQ1 GLN B 167 UNP P08397 ARG 167 ENGINEERED MUTATION SEQRES 1 A 361 MET SER GLY ASN GLY ASN ALA ALA ALA THR ALA GLU GLU SEQRES 2 A 361 ASN SER PRO LYS MET ARG VAL ILE ARG VAL GLY THR ARG SEQRES 3 A 361 LYS SER GLN LEU ALA ARG ILE GLN THR ASP SER VAL VAL SEQRES 4 A 361 ALA THR LEU LYS ALA SER TYR PRO GLY LEU GLN PHE GLU SEQRES 5 A 361 ILE ILE ALA MET SER THR THR GLY ASP LYS ILE LEU ASP SEQRES 6 A 361 THR ALA LEU SER LYS ILE GLY GLU LYS SER LEU PHE THR SEQRES 7 A 361 LYS GLU LEU GLU HIS ALA LEU GLU LYS ASN GLU VAL ASP SEQRES 8 A 361 LEU VAL VAL HIS SER LEU LYS ASP LEU PRO THR VAL LEU SEQRES 9 A 361 PRO PRO GLY PHE THR ILE GLY ALA ILE CYS LYS ARG GLU SEQRES 10 A 361 ASN PRO HIS ASP ALA VAL VAL PHE HIS PRO LYS PHE VAL SEQRES 11 A 361 GLY LYS THR LEU GLU THR LEU PRO GLU LYS SER VAL VAL SEQRES 12 A 361 GLY THR SER SER LEU ARG ARG ALA ALA GLN LEU GLN ARG SEQRES 13 A 361 LYS PHE PRO HIS LEU GLU PHE ARG SER ILE GLN GLY ASN SEQRES 14 A 361 LEU ASN THR ARG LEU ARG LYS LEU ASP GLU GLN GLN GLU SEQRES 15 A 361 PHE SER ALA ILE ILE LEU ALA THR ALA GLY LEU GLN ARG SEQRES 16 A 361 MET GLY TRP HIS ASN ARG VAL GLY GLN ILE LEU HIS PRO SEQRES 17 A 361 GLU GLU CYS MET TYR ALA VAL GLY GLN GLY ALA LEU GLY SEQRES 18 A 361 VAL GLU VAL ARG ALA LYS ASP GLN ASP ILE LEU ASP LEU SEQRES 19 A 361 VAL GLY VAL LEU HIS ASP PRO GLU THR LEU LEU ARG CYS SEQRES 20 A 361 ILE ALA GLU ARG ALA PHE LEU ARG HIS LEU GLU GLY GLY SEQRES 21 A 361 CYS SER VAL PRO VAL ALA VAL HIS THR ALA MET LYS ASP SEQRES 22 A 361 GLY GLN LEU TYR LEU THR GLY GLY VAL TRP SER LEU ASP SEQRES 23 A 361 GLY SER ASP SER ILE GLN GLU THR MET GLN ALA THR ILE SEQRES 24 A 361 HIS VAL PRO ALA GLN HIS GLU ASP GLY PRO GLU ASP ASP SEQRES 25 A 361 PRO GLN LEU VAL GLY ILE THR ALA ARG ASN ILE PRO ARG SEQRES 26 A 361 GLY PRO GLN LEU ALA ALA GLN ASN LEU GLY ILE SER LEU SEQRES 27 A 361 ALA ASN LEU LEU LEU SER LYS GLY ALA LYS ASN ILE LEU SEQRES 28 A 361 ASP VAL ALA ARG GLN LEU ASN ASP ALA HIS SEQRES 1 B 361 MET SER GLY ASN GLY ASN ALA ALA ALA THR ALA GLU GLU SEQRES 2 B 361 ASN SER PRO LYS MET ARG VAL ILE ARG VAL GLY THR ARG SEQRES 3 B 361 LYS SER GLN LEU ALA ARG ILE GLN THR ASP SER VAL VAL SEQRES 4 B 361 ALA THR LEU LYS ALA SER TYR PRO GLY LEU GLN PHE GLU SEQRES 5 B 361 ILE ILE ALA MET SER THR THR GLY ASP LYS ILE LEU ASP SEQRES 6 B 361 THR ALA LEU SER LYS ILE GLY GLU LYS SER LEU PHE THR SEQRES 7 B 361 LYS GLU LEU GLU HIS ALA LEU GLU LYS ASN GLU VAL ASP SEQRES 8 B 361 LEU VAL VAL HIS SER LEU LYS ASP LEU PRO THR VAL LEU SEQRES 9 B 361 PRO PRO GLY PHE THR ILE GLY ALA ILE CYS LYS ARG GLU SEQRES 10 B 361 ASN PRO HIS ASP ALA VAL VAL PHE HIS PRO LYS PHE VAL SEQRES 11 B 361 GLY LYS THR LEU GLU THR LEU PRO GLU LYS SER VAL VAL SEQRES 12 B 361 GLY THR SER SER LEU ARG ARG ALA ALA GLN LEU GLN ARG SEQRES 13 B 361 LYS PHE PRO HIS LEU GLU PHE ARG SER ILE GLN GLY ASN SEQRES 14 B 361 LEU ASN THR ARG LEU ARG LYS LEU ASP GLU GLN GLN GLU SEQRES 15 B 361 PHE SER ALA ILE ILE LEU ALA THR ALA GLY LEU GLN ARG SEQRES 16 B 361 MET GLY TRP HIS ASN ARG VAL GLY GLN ILE LEU HIS PRO SEQRES 17 B 361 GLU GLU CYS MET TYR ALA VAL GLY GLN GLY ALA LEU GLY SEQRES 18 B 361 VAL GLU VAL ARG ALA LYS ASP GLN ASP ILE LEU ASP LEU SEQRES 19 B 361 VAL GLY VAL LEU HIS ASP PRO GLU THR LEU LEU ARG CYS SEQRES 20 B 361 ILE ALA GLU ARG ALA PHE LEU ARG HIS LEU GLU GLY GLY SEQRES 21 B 361 CYS SER VAL PRO VAL ALA VAL HIS THR ALA MET LYS ASP SEQRES 22 B 361 GLY GLN LEU TYR LEU THR GLY GLY VAL TRP SER LEU ASP SEQRES 23 B 361 GLY SER ASP SER ILE GLN GLU THR MET GLN ALA THR ILE SEQRES 24 B 361 HIS VAL PRO ALA GLN HIS GLU ASP GLY PRO GLU ASP ASP SEQRES 25 B 361 PRO GLN LEU VAL GLY ILE THR ALA ARG ASN ILE PRO ARG SEQRES 26 B 361 GLY PRO GLN LEU ALA ALA GLN ASN LEU GLY ILE SER LEU SEQRES 27 B 361 ALA ASN LEU LEU LEU SER LYS GLY ALA LYS ASN ILE LEU SEQRES 28 B 361 ASP VAL ALA ARG GLN LEU ASN ASP ALA HIS HET DPM A 400 30 HET SO4 A 362 5 HET SO4 A 363 5 HET SO4 A 364 5 HET DPM B 401 30 HET SO4 B 362 5 HET SO4 B 363 5 HET SO4 B 364 5 HET SO4 B 365 5 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 HETNAM SO4 SULFATE ION HETSYN DPM DIPYRROMETHANE COFACTOR FORMUL 3 DPM 2(C20 H24 N2 O8) FORMUL 4 SO4 7(O4 S 2-) HELIX 1 1 SER A 28 TYR A 46 1 19 HELIX 2 2 THR A 78 LYS A 87 1 10 HELIX 3 3 LYS A 98 LEU A 100 5 3 HELIX 4 4 PRO A 127 VAL A 130 5 4 HELIX 5 5 THR A 133 LEU A 137 5 5 HELIX 6 6 SER A 147 PHE A 158 1 12 HELIX 7 7 ASN A 169 GLU A 179 1 11 HELIX 8 8 THR A 190 GLY A 197 1 8 HELIX 9 9 TRP A 198 VAL A 202 5 5 HELIX 10 10 ASP A 228 GLY A 236 1 9 HELIX 11 11 VAL A 237 HIS A 239 5 3 HELIX 12 12 ASP A 240 LEU A 257 1 18 HELIX 13 13 PRO A 324 SER A 344 1 21 HELIX 14 14 GLY A 346 ARG A 355 1 10 HELIX 15 15 SER B 28 TYR B 46 1 19 HELIX 16 16 THR B 78 LYS B 87 1 10 HELIX 17 17 LYS B 98 LEU B 100 5 3 HELIX 18 18 PRO B 127 VAL B 130 5 4 HELIX 19 19 THR B 133 LEU B 137 5 5 HELIX 20 20 SER B 147 PHE B 158 1 12 HELIX 21 21 ASN B 169 GLU B 179 1 11 HELIX 22 22 THR B 190 GLY B 197 1 8 HELIX 23 23 TRP B 198 VAL B 202 5 5 HELIX 24 24 ASP B 228 GLY B 236 1 9 HELIX 25 25 VAL B 237 HIS B 239 5 3 HELIX 26 26 ASP B 240 LEU B 257 1 18 HELIX 27 27 PRO B 324 SER B 344 1 21 HELIX 28 28 GLY B 346 ARG B 355 1 10 SHEET 1 A 5 PHE A 51 ILE A 54 0 SHEET 2 A 5 ILE A 21 GLY A 24 1 N VAL A 23 O GLU A 52 SHEET 3 A 5 LEU A 92 SER A 96 1 O LEU A 92 N GLY A 24 SHEET 4 A 5 LEU A 220 ARG A 225 -1 O GLY A 221 N HIS A 95 SHEET 5 A 5 PHE A 108 ILE A 113 -1 N THR A 109 O VAL A 224 SHEET 1 B 5 GLU A 162 ARG A 164 0 SHEET 2 B 5 VAL A 142 GLY A 144 1 N VAL A 143 O GLU A 162 SHEET 3 B 5 ALA A 185 ALA A 189 1 O ALA A 185 N GLY A 144 SHEET 4 B 5 ASP A 121 PHE A 125 -1 N ALA A 122 O LEU A 188 SHEET 5 B 5 GLN A 204 ILE A 205 -1 O GLN A 204 N VAL A 123 SHEET 1 C 3 VAL A 265 LYS A 272 0 SHEET 2 C 3 GLN A 275 TRP A 283 -1 O TYR A 277 N ALA A 270 SHEET 3 C 3 SER A 290 THR A 298 -1 O ALA A 297 N LEU A 276 SHEET 1 D 5 PHE B 51 ILE B 54 0 SHEET 2 D 5 ILE B 21 GLY B 24 1 N VAL B 23 O GLU B 52 SHEET 3 D 5 LEU B 92 SER B 96 1 O LEU B 92 N GLY B 24 SHEET 4 D 5 LEU B 220 ARG B 225 -1 O GLY B 221 N HIS B 95 SHEET 5 D 5 PHE B 108 ILE B 113 -1 N THR B 109 O VAL B 224 SHEET 1 E 5 GLU B 162 ARG B 164 0 SHEET 2 E 5 VAL B 142 GLY B 144 1 N VAL B 143 O GLU B 162 SHEET 3 E 5 ALA B 185 ALA B 189 1 O ALA B 185 N GLY B 144 SHEET 4 E 5 ASP B 121 PHE B 125 -1 N ALA B 122 O LEU B 188 SHEET 5 E 5 GLN B 204 ILE B 205 -1 O GLN B 204 N VAL B 123 SHEET 1 F 3 VAL B 265 LYS B 272 0 SHEET 2 F 3 GLN B 275 TRP B 283 -1 O TYR B 277 N ALA B 270 SHEET 3 F 3 SER B 290 THR B 298 -1 O ALA B 297 N LEU B 276 SITE 1 AC1 14 SER A 96 LYS A 98 ASP A 99 SER A 146 SITE 2 AC1 14 SER A 147 ARG A 149 ARG A 150 ARG A 173 SITE 3 AC1 14 LEU A 188 ALA A 189 ARG A 195 ALA A 214 SITE 4 AC1 14 GLY A 218 CYS A 261 SITE 1 AC2 13 SER B 96 LYS B 98 ASP B 99 SER B 146 SITE 2 AC2 13 SER B 147 ARG B 149 ARG B 150 ARG B 173 SITE 3 AC2 13 LEU B 188 ALA B 189 ARG B 195 GLY B 218 SITE 4 AC2 13 CYS B 261 SITE 1 AC3 5 ARG A 26 SER A 28 LEU A 30 ALA A 31 SITE 2 AC3 5 ASN A 169 SITE 1 AC4 3 HIS A 120 PRO A 208 HIS A 268 SITE 1 AC5 2 PRO A 119 ARG A 246 SITE 1 AC6 3 ARG B 26 SER B 28 ASN B 169 SITE 1 AC7 4 HIS B 120 HIS B 207 PRO B 208 HIS B 268 SITE 1 AC8 2 PRO B 119 ARG B 246 CRYST1 81.083 104.435 109.732 90.00 90.00 90.00 P 21 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 0.012333 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009575 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009113 0.00000