HEADER TRANSFERASE 30-JUN-23 8PND TITLE THE ES3 INTERMEDIATE OF HYDROXYMETHYLBILANE SYNTHASE R167Q VARIANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PORPHOBILINOGEN DEAMINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PBG-D,HYDROXYMETHYLBILANE SYNTHASE,HMBS,PRE-UROPORPHYRINOGEN COMPND 5 SYNTHASE; COMPND 6 EC: 2.5.1.61; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: MGSSHHHHHHSSG = HIS-TAG AND LINKER GENLYFQG = TEV COMPND 10 CLEAVAGE SITE MGSSHHHHHHSSGGENLYFQG CAN BE ANNOTATED EXPRESSION TAG COMPND 11 NUMBERING ON STRUCTURE STARTS FROM MET18 THAT IS CORRESPONDING TO COMPND 12 REFERENCE SEQUENCE P08397 R167Q MUTATION ON THE SEQUENCE P08397 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HMBS, PBGD, UPS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROXYMETHYLBILANE SYNTHASE, HMBS, PORPHOBILINOGEN DEAMINASE, PBGD, KEYWDS 2 HYDROXYMETHYLBILANE, PORPHOBILINOGEN, HAEM BIOSYNTHESIS, PORPHYRIA, KEYWDS 3 ACUTE INTERMITTENT PORPHYRIA, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.C.SAETER,H.J.BUSTAD,M.LAITAOJA,J.JANIS,A.MARTINEZ,A.K.AARSAND, AUTHOR 2 J.P.KALLIO REVDAT 2 14-FEB-24 8PND 1 JRNL REVDAT 1 01-NOV-23 8PND 0 JRNL AUTH H.J.BUSTAD,M.S.CHRISTIE,M.LAITAOJA,A.K.AARSAND,A.MARTINEZ, JRNL AUTH 2 J.JANIS,J.P.KALLIO JRNL TITL ONE RING CLOSER TO A CLOSURE: THE CRYSTAL STRUCTURE OF THE JRNL TITL 2 ES 3 HYDROXYMETHYLBILANE SYNTHASE INTERMEDIATE. JRNL REF FEBS J. V. 291 510 2024 JRNL REFN ISSN 1742-464X JRNL PMID 37863644 JRNL DOI 10.1111/FEBS.16982 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.56 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 66985 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 3421 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 43.5600 - 5.4800 0.99 2841 177 0.1745 0.1896 REMARK 3 2 5.4800 - 4.3500 1.00 2749 148 0.1439 0.1748 REMARK 3 3 4.3500 - 3.8000 1.00 2710 135 0.1456 0.1874 REMARK 3 4 3.8000 - 3.4500 1.00 2693 143 0.1702 0.2035 REMARK 3 5 3.4500 - 3.2000 0.99 2621 170 0.1925 0.2000 REMARK 3 6 3.2000 - 3.0200 1.00 2645 160 0.1923 0.2202 REMARK 3 7 3.0200 - 2.8600 1.00 2641 159 0.1968 0.2604 REMARK 3 8 2.8600 - 2.7400 1.00 2643 161 0.2265 0.2840 REMARK 3 9 2.7400 - 2.6300 1.00 2621 158 0.2144 0.2643 REMARK 3 10 2.6300 - 2.5400 1.00 2633 130 0.2113 0.2551 REMARK 3 11 2.5400 - 2.4600 1.00 2675 111 0.2127 0.2715 REMARK 3 12 2.4600 - 2.3900 1.00 2662 128 0.2053 0.2673 REMARK 3 13 2.3900 - 2.3300 1.00 2610 142 0.2002 0.2386 REMARK 3 14 2.3300 - 2.2700 0.99 2641 130 0.2061 0.2575 REMARK 3 15 2.2700 - 2.2200 1.00 2627 124 0.2192 0.2488 REMARK 3 16 2.2200 - 2.1800 1.00 2623 146 0.2362 0.3023 REMARK 3 17 2.1700 - 2.1300 1.00 2596 134 0.2514 0.2700 REMARK 3 18 2.1300 - 2.0900 1.00 2643 131 0.2464 0.2546 REMARK 3 19 2.0900 - 2.0500 1.00 2630 134 0.2534 0.2824 REMARK 3 20 2.0500 - 2.0200 1.00 2622 145 0.2574 0.2813 REMARK 3 21 2.0200 - 1.9900 1.00 2567 137 0.2621 0.2716 REMARK 3 22 1.9900 - 1.9600 1.00 2644 142 0.2898 0.2767 REMARK 3 23 1.9600 - 1.9300 1.00 2617 139 0.3191 0.3303 REMARK 3 24 1.9300 - 1.9000 1.00 2610 137 0.3626 0.4090 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) : 0.236 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.922 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.91 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 69.79 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 : 0.007 5359 REMARK 3 ANGLE : 0.817 7258 REMARK 3 CHIRALITY : 0.054 816 REMARK 3 PLANARITY : 0.007 948 REMARK 3 DIHEDRAL : 13.846 2086 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 18 THROUGH 45 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.4483 17.9255 239.1998 REMARK 3 T TENSOR REMARK 3 T11: 0.4125 T22: 0.2471 REMARK 3 T33: 0.4647 T12: 0.0833 REMARK 3 T13: -0.0284 T23: -0.0894 REMARK 3 L TENSOR REMARK 3 L11: 5.7402 L22: 3.5622 REMARK 3 L33: 3.6932 L12: -0.0369 REMARK 3 L13: -1.0391 L23: -1.1681 REMARK 3 S TENSOR REMARK 3 S11: -0.3322 S12: 0.1978 S13: -0.2423 REMARK 3 S21: -0.1805 S22: 0.2269 S23: -0.0372 REMARK 3 S31: 0.4767 S32: 0.3202 S33: 0.0049 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 46 THROUGH 86 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.5772 24.6340 231.9423 REMARK 3 T TENSOR REMARK 3 T11: 0.3831 T22: 0.4794 REMARK 3 T33: 0.4584 T12: 0.1037 REMARK 3 T13: 0.0267 T23: -0.0728 REMARK 3 L TENSOR REMARK 3 L11: 8.2423 L22: 3.2281 REMARK 3 L33: 6.7565 L12: 1.6403 REMARK 3 L13: -2.0553 L23: -1.2948 REMARK 3 S TENSOR REMARK 3 S11: 0.2594 S12: 0.3366 S13: 0.4437 REMARK 3 S21: -0.2834 S22: -0.1907 S23: -0.3041 REMARK 3 S31: -0.0431 S32: 1.0006 S33: 0.0781 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 87 THROUGH 228 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.5267 36.4954 249.2072 REMARK 3 T TENSOR REMARK 3 T11: 0.3367 T22: 0.4989 REMARK 3 T33: 0.3942 T12: 0.0861 REMARK 3 T13: 0.0107 T23: -0.0485 REMARK 3 L TENSOR REMARK 3 L11: 1.3843 L22: 1.2561 REMARK 3 L33: 3.4982 L12: 1.0806 REMARK 3 L13: 0.3871 L23: 1.2324 REMARK 3 S TENSOR REMARK 3 S11: -0.0148 S12: -0.1227 S13: -0.0960 REMARK 3 S21: 0.0998 S22: 0.1203 S23: -0.0012 REMARK 3 S31: 0.2078 S32: 0.8302 S33: -0.1596 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 229 THROUGH 357 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0979 40.7323 241.2235 REMARK 3 T TENSOR REMARK 3 T11: 0.2859 T22: 0.2172 REMARK 3 T33: 0.3824 T12: 0.0232 REMARK 3 T13: 0.0285 T23: 0.0310 REMARK 3 L TENSOR REMARK 3 L11: 2.0024 L22: 6.1635 REMARK 3 L33: 1.9114 L12: 1.3772 REMARK 3 L13: 0.2572 L23: 1.0768 REMARK 3 S TENSOR REMARK 3 S11: -0.0582 S12: 0.0699 S13: 0.1096 REMARK 3 S21: 0.0840 S22: 0.1067 S23: 0.4999 REMARK 3 S31: -0.1328 S32: 0.0663 S33: -0.0375 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 18 THROUGH 99 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.3762 22.4038 179.6494 REMARK 3 T TENSOR REMARK 3 T11: 1.2004 T22: 0.5101 REMARK 3 T33: 0.5651 T12: 0.0443 REMARK 3 T13: 0.0682 T23: 0.1092 REMARK 3 L TENSOR REMARK 3 L11: 4.0242 L22: 2.5931 REMARK 3 L33: 1.1161 L12: -0.6865 REMARK 3 L13: -0.0301 L23: -1.4696 REMARK 3 S TENSOR REMARK 3 S11: -0.0784 S12: 0.0878 S13: 0.7654 REMARK 3 S21: -0.4594 S22: 0.3352 S23: 0.0009 REMARK 3 S31: -2.0922 S32: 0.3517 S33: -0.1730 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 100 THROUGH 228 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.5249 16.8113 202.2933 REMARK 3 T TENSOR REMARK 3 T11: 0.4731 T22: 0.4721 REMARK 3 T33: 0.4841 T12: 0.0892 REMARK 3 T13: 0.1104 T23: 0.1514 REMARK 3 L TENSOR REMARK 3 L11: 1.0859 L22: 2.0847 REMARK 3 L33: 8.2608 L12: -0.6771 REMARK 3 L13: 1.7159 L23: -0.2351 REMARK 3 S TENSOR REMARK 3 S11: 0.1806 S12: 0.1617 S13: 0.1957 REMARK 3 S21: -0.2927 S22: -0.0091 S23: -0.2075 REMARK 3 S31: -0.8691 S32: -0.0490 S33: -0.0728 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 229 THROUGH 295 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.9445 17.3934 196.4186 REMARK 3 T TENSOR REMARK 3 T11: 0.5954 T22: 1.1065 REMARK 3 T33: 0.5944 T12: 0.3727 REMARK 3 T13: 0.0694 T23: 0.2242 REMARK 3 L TENSOR REMARK 3 L11: 0.8872 L22: 1.6305 REMARK 3 L33: 7.8144 L12: -0.0234 REMARK 3 L13: 1.1870 L23: 1.0036 REMARK 3 S TENSOR REMARK 3 S11: 0.1716 S12: -0.2253 S13: 0.1186 REMARK 3 S21: -0.0626 S22: -0.1134 S23: 0.3354 REMARK 3 S31: -0.7512 S32: -1.8516 S33: -0.0798 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 296 THROUGH 357 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.8920 19.9446 192.5251 REMARK 3 T TENSOR REMARK 3 T11: 0.6898 T22: 1.7137 REMARK 3 T33: 0.7475 T12: 0.6449 REMARK 3 T13: -0.0280 T23: 0.2558 REMARK 3 L TENSOR REMARK 3 L11: 2.5391 L22: 4.1357 REMARK 3 L33: 1.8071 L12: -0.2124 REMARK 3 L13: -0.8895 L23: -0.6413 REMARK 3 S TENSOR REMARK 3 S11: -0.1167 S12: 0.1847 S13: -0.0467 REMARK 3 S21: -0.6396 S22: -0.0200 S23: 0.7383 REMARK 3 S31: -0.6050 S32: -2.3406 S33: -0.0307 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 8PND COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1292131542. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-NOV-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, DESY REMARK 200 BEAMLINE : P11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03323 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 S 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66997 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 43.560 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.04154 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.49200 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 (%): 52.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, AMMONIUM CITRATE, PH 5.5, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.56800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 96.17350 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.56800 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 96.17350 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 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 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 -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 SER A 1 REMARK 465 HIS A 2 REMARK 465 HIS A 3 REMARK 465 HIS A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 SER A 8 REMARK 465 SER A 9 REMARK 465 GLY A 10 REMARK 465 GLU A 11 REMARK 465 ASN A 12 REMARK 465 LEU A 13 REMARK 465 TYR A 14 REMARK 465 PHE A 15 REMARK 465 GLN A 16 REMARK 465 GLY A 17 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 ASP A 359 REMARK 465 ALA A 360 REMARK 465 HIS A 361 REMARK 465 MET B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 SER B 1 REMARK 465 HIS B 2 REMARK 465 HIS B 3 REMARK 465 HIS B 4 REMARK 465 HIS B 5 REMARK 465 HIS B 6 REMARK 465 HIS B 7 REMARK 465 SER B 8 REMARK 465 SER B 9 REMARK 465 GLY B 10 REMARK 465 GLU B 11 REMARK 465 ASN B 12 REMARK 465 LEU B 13 REMARK 465 TYR B 14 REMARK 465 PHE B 15 REMARK 465 GLN B 16 REMARK 465 GLY B 17 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 ASN B 358 REMARK 465 ASP B 359 REMARK 465 ALA B 360 REMARK 465 HIS B 361 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 SG CYS A 261 C1 ZWW A 401 1.69 REMARK 500 SG CYS B 261 C1 ZWW B 401 1.69 REMARK 500 O HOH A 504 O HOH A 674 1.97 REMARK 500 OG SER B 75 OG1 THR B 78 2.01 REMARK 500 N GLY A 107 O HOH A 501 2.02 REMARK 500 O HOH A 621 O HOH A 659 2.04 REMARK 500 OG1 THR A 58 O HOH A 502 2.11 REMARK 500 O HOH B 532 O HOH B 549 2.15 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 ARG A 19 -44.71 70.60 REMARK 500 GLU A 179 -70.02 -121.64 REMARK 500 GLN A 180 9.47 -61.05 REMARK 500 GLN A 181 10.34 55.18 REMARK 500 TRP A 198 40.09 -108.30 REMARK 500 VAL A 202 99.88 -65.65 REMARK 500 CYS A 211 109.28 -163.89 REMARK 500 ASP A 307 74.13 -115.19 REMARK 500 LYS B 74 -80.99 77.55 REMARK 500 PHE B 129 31.41 -84.88 REMARK 500 CYS B 211 108.84 -166.84 REMARK 500 ASP B 273 -125.24 59.37 REMARK 500 GLN B 304 107.25 -52.12 REMARK 500 GLU B 306 -135.93 -129.47 REMARK 500 ASP B 312 101.19 -57.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7AAJ RELATED DB: PDB REMARK 900 WT HMBS IN EHOLO FORM REMARK 900 RELATED ID: 7AAK RELATED DB: PDB REMARK 900 R173W HMBS IN ES2 FORM DBREF 8PND A 18 361 UNP P08397 HEM3_HUMAN 18 361 DBREF 8PND B 18 361 UNP P08397 HEM3_HUMAN 18 361 SEQADV 8PND MET A -2 UNP P08397 INITIATING METHIONINE SEQADV 8PND GLY A -1 UNP P08397 EXPRESSION TAG SEQADV 8PND SER A 0 UNP P08397 EXPRESSION TAG SEQADV 8PND SER A 1 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS A 2 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS A 3 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS A 4 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS A 5 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS A 6 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS A 7 UNP P08397 EXPRESSION TAG SEQADV 8PND SER A 8 UNP P08397 EXPRESSION TAG SEQADV 8PND SER A 9 UNP P08397 EXPRESSION TAG SEQADV 8PND GLY A 10 UNP P08397 EXPRESSION TAG SEQADV 8PND GLU A 11 UNP P08397 EXPRESSION TAG SEQADV 8PND ASN A 12 UNP P08397 EXPRESSION TAG SEQADV 8PND LEU A 13 UNP P08397 EXPRESSION TAG SEQADV 8PND TYR A 14 UNP P08397 EXPRESSION TAG SEQADV 8PND PHE A 15 UNP P08397 EXPRESSION TAG SEQADV 8PND GLN A 16 UNP P08397 EXPRESSION TAG SEQADV 8PND GLY A 17 UNP P08397 EXPRESSION TAG SEQADV 8PND GLN A 167 UNP P08397 ARG 167 ENGINEERED MUTATION SEQADV 8PND MET B -2 UNP P08397 INITIATING METHIONINE SEQADV 8PND GLY B -1 UNP P08397 EXPRESSION TAG SEQADV 8PND SER B 0 UNP P08397 EXPRESSION TAG SEQADV 8PND SER B 1 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS B 2 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS B 3 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS B 4 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS B 5 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS B 6 UNP P08397 EXPRESSION TAG SEQADV 8PND HIS B 7 UNP P08397 EXPRESSION TAG SEQADV 8PND SER B 8 UNP P08397 EXPRESSION TAG SEQADV 8PND SER B 9 UNP P08397 EXPRESSION TAG SEQADV 8PND GLY B 10 UNP P08397 EXPRESSION TAG SEQADV 8PND GLU B 11 UNP P08397 EXPRESSION TAG SEQADV 8PND ASN B 12 UNP P08397 EXPRESSION TAG SEQADV 8PND LEU B 13 UNP P08397 EXPRESSION TAG SEQADV 8PND TYR B 14 UNP P08397 EXPRESSION TAG SEQADV 8PND PHE B 15 UNP P08397 EXPRESSION TAG SEQADV 8PND GLN B 16 UNP P08397 EXPRESSION TAG SEQADV 8PND GLY B 17 UNP P08397 EXPRESSION TAG SEQADV 8PND GLN B 167 UNP P08397 ARG 167 ENGINEERED MUTATION SEQRES 1 A 364 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 364 GLU ASN LEU TYR PHE GLN GLY MET ARG VAL ILE ARG VAL SEQRES 3 A 364 GLY THR ARG LYS SER GLN LEU ALA ARG ILE GLN THR ASP SEQRES 4 A 364 SER VAL VAL ALA THR LEU LYS ALA SER TYR PRO GLY LEU SEQRES 5 A 364 GLN PHE GLU ILE ILE ALA MET SER THR THR GLY ASP LYS SEQRES 6 A 364 ILE LEU ASP THR ALA LEU SER LYS ILE GLY GLU LYS SER SEQRES 7 A 364 LEU PHE THR LYS GLU LEU GLU HIS ALA LEU GLU LYS ASN SEQRES 8 A 364 GLU VAL ASP LEU VAL VAL HIS SER LEU LYS ASP LEU PRO SEQRES 9 A 364 THR VAL LEU PRO PRO GLY PHE THR ILE GLY ALA ILE CYS SEQRES 10 A 364 LYS ARG GLU ASN PRO HIS ASP ALA VAL VAL PHE HIS PRO SEQRES 11 A 364 LYS PHE VAL GLY LYS THR LEU GLU THR LEU PRO GLU LYS SEQRES 12 A 364 SER VAL VAL GLY THR SER SER LEU ARG ARG ALA ALA GLN SEQRES 13 A 364 LEU GLN ARG LYS PHE PRO HIS LEU GLU PHE ARG SER ILE SEQRES 14 A 364 GLN GLY ASN LEU ASN THR ARG LEU ARG LYS LEU ASP GLU SEQRES 15 A 364 GLN GLN GLU PHE SER ALA ILE ILE LEU ALA THR ALA GLY SEQRES 16 A 364 LEU GLN ARG MET GLY TRP HIS ASN ARG VAL GLY GLN ILE SEQRES 17 A 364 LEU HIS PRO GLU GLU CYS MET TYR ALA VAL GLY GLN GLY SEQRES 18 A 364 ALA LEU GLY VAL GLU VAL ARG ALA LYS ASP GLN ASP ILE SEQRES 19 A 364 LEU ASP LEU VAL GLY VAL LEU HIS ASP PRO GLU THR LEU SEQRES 20 A 364 LEU ARG CYS ILE ALA GLU ARG ALA PHE LEU ARG HIS LEU SEQRES 21 A 364 GLU GLY GLY CYS SER VAL PRO VAL ALA VAL HIS THR ALA SEQRES 22 A 364 MET LYS ASP GLY GLN LEU TYR LEU THR GLY GLY VAL TRP SEQRES 23 A 364 SER LEU ASP GLY SER ASP SER ILE GLN GLU THR MET GLN SEQRES 24 A 364 ALA THR ILE HIS VAL PRO ALA GLN HIS GLU ASP GLY PRO SEQRES 25 A 364 GLU ASP ASP PRO GLN LEU VAL GLY ILE THR ALA ARG ASN SEQRES 26 A 364 ILE PRO ARG GLY PRO GLN LEU ALA ALA GLN ASN LEU GLY SEQRES 27 A 364 ILE SER LEU ALA ASN LEU LEU LEU SER LYS GLY ALA LYS SEQRES 28 A 364 ASN ILE LEU ASP VAL ALA ARG GLN LEU ASN ASP ALA HIS SEQRES 1 B 364 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 364 GLU ASN LEU TYR PHE GLN GLY MET ARG VAL ILE ARG VAL SEQRES 3 B 364 GLY THR ARG LYS SER GLN LEU ALA ARG ILE GLN THR ASP SEQRES 4 B 364 SER VAL VAL ALA THR LEU LYS ALA SER TYR PRO GLY LEU SEQRES 5 B 364 GLN PHE GLU ILE ILE ALA MET SER THR THR GLY ASP LYS SEQRES 6 B 364 ILE LEU ASP THR ALA LEU SER LYS ILE GLY GLU LYS SER SEQRES 7 B 364 LEU PHE THR LYS GLU LEU GLU HIS ALA LEU GLU LYS ASN SEQRES 8 B 364 GLU VAL ASP LEU VAL VAL HIS SER LEU LYS ASP LEU PRO SEQRES 9 B 364 THR VAL LEU PRO PRO GLY PHE THR ILE GLY ALA ILE CYS SEQRES 10 B 364 LYS ARG GLU ASN PRO HIS ASP ALA VAL VAL PHE HIS PRO SEQRES 11 B 364 LYS PHE VAL GLY LYS THR LEU GLU THR LEU PRO GLU LYS SEQRES 12 B 364 SER VAL VAL GLY THR SER SER LEU ARG ARG ALA ALA GLN SEQRES 13 B 364 LEU GLN ARG LYS PHE PRO HIS LEU GLU PHE ARG SER ILE SEQRES 14 B 364 GLN GLY ASN LEU ASN THR ARG LEU ARG LYS LEU ASP GLU SEQRES 15 B 364 GLN GLN GLU PHE SER ALA ILE ILE LEU ALA THR ALA GLY SEQRES 16 B 364 LEU GLN ARG MET GLY TRP HIS ASN ARG VAL GLY GLN ILE SEQRES 17 B 364 LEU HIS PRO GLU GLU CYS MET TYR ALA VAL GLY GLN GLY SEQRES 18 B 364 ALA LEU GLY VAL GLU VAL ARG ALA LYS ASP GLN ASP ILE SEQRES 19 B 364 LEU ASP LEU VAL GLY VAL LEU HIS ASP PRO GLU THR LEU SEQRES 20 B 364 LEU ARG CYS ILE ALA GLU ARG ALA PHE LEU ARG HIS LEU SEQRES 21 B 364 GLU GLY GLY CYS SER VAL PRO VAL ALA VAL HIS THR ALA SEQRES 22 B 364 MET LYS ASP GLY GLN LEU TYR LEU THR GLY GLY VAL TRP SEQRES 23 B 364 SER LEU ASP GLY SER ASP SER ILE GLN GLU THR MET GLN SEQRES 24 B 364 ALA THR ILE HIS VAL PRO ALA GLN HIS GLU ASP GLY PRO SEQRES 25 B 364 GLU ASP ASP PRO GLN LEU VAL GLY ILE THR ALA ARG ASN SEQRES 26 B 364 ILE PRO ARG GLY PRO GLN LEU ALA ALA GLN ASN LEU GLY SEQRES 27 B 364 ILE SER LEU ALA ASN LEU LEU LEU SER LYS GLY ALA LYS SEQRES 28 B 364 ASN ILE LEU ASP VAL ALA ARG GLN LEU ASN ASP ALA HIS HET ZWW A 401 75 HET GOL A 402 6 HET GOL A 403 6 HET GOL A 404 6 HET ZWW B 401 75 HET GOL B 402 6 HET EDO B 403 4 HET EDO B 404 10 HETNAM ZWW 3-[4-(2-HYDROXY-2-OXOETHYL)-5-[[4-(2-HYDROXY-2- HETNAM 2 ZWW OXOETHYL)-5-[[4-(2-HYDROXY-2-OXOETHYL)-5-[[4-(2- HETNAM 3 ZWW HYDROXY-2-OXOETHYL)-5-[[4-(2-HYDROXY-2-OXOETHYL)-3-(3- HETNAM 4 ZWW HYDROXY-3-OXOPROPYL)-5-METHYL-1~{H}-PYRROL-2- HETNAM 5 ZWW YL]METHYL]-3-(3-HYDROXY-3-OXOPROPYL)-1~{H}-PYRROL-2- HETNAM 6 ZWW YL]METHYL]-3-(3-HYDROXY-3-OXOPROPYL)-1~{H}-PYRROL-2- HETNAM 7 ZWW YL]METHYL]-3-(3-HYDROXY-3-OXOPROPYL)-1~{H}-PYRROL-2- HETNAM 8 ZWW YL]METHYL]-1~{H}-PYRROL-3-YL]PROPANOIC ACID HETNAM GOL GLYCEROL HETNAM EDO 1,2-ETHANEDIOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ZWW 2(C50 H57 N5 O20) FORMUL 4 GOL 4(C3 H8 O3) FORMUL 9 EDO 2(C2 H6 O2) FORMUL 11 HOH *269(H2 O) HELIX 1 AA1 SER A 28 TYR A 46 1 19 HELIX 2 AA2 THR A 78 LYS A 87 1 10 HELIX 3 AA3 LYS A 98 LEU A 100 5 3 HELIX 4 AA4 PRO A 127 VAL A 130 5 4 HELIX 5 AA5 THR A 133 LEU A 137 5 5 HELIX 6 AA6 SER A 147 PHE A 158 1 12 HELIX 7 AA7 ASN A 169 GLU A 179 1 11 HELIX 8 AA8 THR A 190 MET A 196 1 7 HELIX 9 AA9 TRP A 198 VAL A 202 5 5 HELIX 10 AB1 ASP A 228 GLY A 236 1 9 HELIX 11 AB2 VAL A 237 HIS A 239 5 3 HELIX 12 AB3 ASP A 240 GLU A 258 1 19 HELIX 13 AB4 PRO A 324 LYS A 345 1 22 HELIX 14 AB5 GLY A 346 LEU A 357 1 12 HELIX 15 AB6 SER B 28 TYR B 46 1 19 HELIX 16 AB7 THR B 78 LYS B 87 1 10 HELIX 17 AB8 LYS B 98 LEU B 100 5 3 HELIX 18 AB9 PRO B 127 VAL B 130 5 4 HELIX 19 AC1 THR B 133 LEU B 137 5 5 HELIX 20 AC2 SER B 147 PHE B 158 1 12 HELIX 21 AC3 ASN B 169 GLN B 180 1 12 HELIX 22 AC4 THR B 190 GLY B 197 1 8 HELIX 23 AC5 TRP B 198 VAL B 202 5 5 HELIX 24 AC6 ASP B 228 VAL B 237 1 10 HELIX 25 AC7 ASP B 240 GLU B 258 1 19 HELIX 26 AC8 PRO B 324 LYS B 345 1 22 HELIX 27 AC9 GLY B 346 GLN B 356 1 11 SHEET 1 AA1 5 PHE A 51 MET A 56 0 SHEET 2 AA1 5 ILE A 21 ARG A 26 1 N VAL A 23 O ILE A 54 SHEET 3 AA1 5 LEU A 92 SER A 96 1 O LEU A 92 N GLY A 24 SHEET 4 AA1 5 LEU A 220 ARG A 225 -1 O GLY A 221 N HIS A 95 SHEET 5 AA1 5 PHE A 108 ILE A 113 -1 N ALA A 112 O VAL A 222 SHEET 1 AA2 5 GLU A 162 ARG A 164 0 SHEET 2 AA2 5 VAL A 142 GLY A 144 1 N VAL A 143 O GLU A 162 SHEET 3 AA2 5 ALA A 185 ALA A 189 1 O ALA A 185 N GLY A 144 SHEET 4 AA2 5 ASP A 121 PHE A 125 -1 N ALA A 122 O LEU A 188 SHEET 5 AA2 5 GLN A 204 ILE A 205 -1 O GLN A 204 N VAL A 123 SHEET 1 AA3 3 VAL A 265 LYS A 272 0 SHEET 2 AA3 3 GLN A 275 TRP A 283 -1 O TYR A 277 N ALA A 270 SHEET 3 AA3 3 SER A 290 THR A 298 -1 O MET A 295 N LEU A 278 SHEET 1 AA4 5 GLN B 50 MET B 56 0 SHEET 2 AA4 5 VAL B 20 ARG B 26 1 N VAL B 23 O ILE B 54 SHEET 3 AA4 5 LEU B 92 SER B 96 1 O LEU B 92 N GLY B 24 SHEET 4 AA4 5 LEU B 220 ARG B 225 -1 O GLY B 221 N HIS B 95 SHEET 5 AA4 5 PHE B 108 ILE B 113 -1 N THR B 109 O VAL B 224 SHEET 1 AA5 5 GLU B 162 ARG B 164 0 SHEET 2 AA5 5 VAL B 142 GLY B 144 1 N VAL B 143 O GLU B 162 SHEET 3 AA5 5 ALA B 185 ALA B 189 1 O ALA B 185 N GLY B 144 SHEET 4 AA5 5 ASP B 121 PHE B 125 -1 N VAL B 124 O ILE B 186 SHEET 5 AA5 5 GLN B 204 ILE B 205 -1 O GLN B 204 N VAL B 123 SHEET 1 AA6 3 VAL B 265 LYS B 272 0 SHEET 2 AA6 3 GLN B 275 TRP B 283 -1 O THR B 279 N HIS B 268 SHEET 3 AA6 3 SER B 290 THR B 298 -1 O GLU B 293 N GLY B 280 CRYST1 53.600 81.136 192.347 90.00 90.00 90.00 P 2 21 21 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 0.018657 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012325 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005199 0.00000