HEADER OXYGEN TRANSPORT PROTEIN 06-MAY-83 1HR3 TITLE STRUCTURE OF TRIMERIC HAEMERYTHRIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEMERYTHRIN; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SIPHONOSOMA; SOURCE 3 ORGANISM_COMMON: PEANUT WORMS; SOURCE 4 ORGANISM_TAXID: 6443 KEYWDS OXYGEN TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION MDLTYP CA ATOMS ONLY, CHAIN A, B, C AUTHOR J.L.SMITH,W.A.HENDRICKSON,A.W.ADDISON REVDAT 8 07-FEB-24 1HR3 1 REMARK REVDAT 7 29-NOV-17 1HR3 1 HELIX REVDAT 6 25-AUG-09 1HR3 1 SOURCE REVDAT 5 24-FEB-09 1HR3 1 VERSN REVDAT 4 15-OCT-89 1HR3 1 REMARK REVDAT 3 16-APR-88 1HR3 3 ATOM REVDAT 2 30-SEP-83 1HR3 1 REVDAT REVDAT 1 10-JUN-83 1HR3 0 JRNL AUTH J.L.SMITH,W.A.HENDRICKSON,A.W.ADDISON JRNL TITL STRUCTURE OF TRIMERIC HAEMERYTHRIN. JRNL REF NATURE V. 303 86 1983 JRNL REFN ISSN 0028-0836 JRNL PMID 6843663 JRNL DOI 10.1038/303086A0 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.W.ADDISON,R.E.BRUCE REMARK 1 TITL CHEMISTRY OF PHASCOLOSOMA LURCO HEMERYTHRIN REMARK 1 REF ARCH.BIOCHEM.BIOPHYS. V. 183 328 1977 REMARK 1 REFN ISSN 0003-9861 REMARK 2 REMARK 2 RESOLUTION. 5.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 5.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 354 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 0 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 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) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1HR3 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_1000173968. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 22.55500 REMARK 290 SMTRY3 2 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 300 REMARK: APPLYING THE TRANSFORMATION GIVEN ON THE MTRIX 1 RECORDS REMARK 300 BELOW TO SUBUNIT 1 (CHAIN IDENTIFIER A) WILL YIELD REMARK 300 APPROXIMATE COORDINATES FOR SUBUNIT 2 (CHAIN IDENTIFIER B). REMARK 300 FOR THIS TRANSFORMATION PHI=11.37, PSI=34.69, CHI=120.00, REMARK 300 WHERE PHI, PSI, CHI FOLLOW THE CONVENTION OF M.G.ROSSMANN REMARK 300 AND D.M.BLOW (ACTA CRYSTALLOGR., V. 15, P. 24 (1962)). REMARK 300 REMARK 300 APPLYING THE TRANSFORMATION GIVEN ON THE MTRIX 2 RECORDS REMARK 300 BELOW TO SUBUNIT 1 (CHAIN IDENTIFIER A) WILL YIELD REMARK 300 APPROXIMATE COORDINATES FOR SUBUNIT 3 (CHAIN IDENTIFIER C). REMARK 300 FOR THIS TRANSFORMATION PHI=11.37, PSI=34.69, CHI=-120.00. 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 BECAUSE THIS IS A CA COORDINATE SET, THE CONNECTIVITY OF REMARK 600 THE IRON ATOMS OF FEA CANNOT BE SPECIFIED ON CONECT REMARK 600 RECORDS. THE CONNECTIVITY IS AS FOLLOWS REMARK 600 FE1 NE2 HIS 73 REMARK 600 NE2 HIS 77 REMARK 600 NE2 HIS 106 REMARK 600 OE1 GLU 58 REMARK 600 OD1 ASP 111 REMARK 600 0 FEA 1 REMARK 600 FE2 NE2 HIS 25 REMARK 600 NE2 HIS 54 REMARK 600 OE2 GLU 58 REMARK 600 OD2 ASP 111 REMARK 600 O FEA 1 REMARK 600 N1 FEA 1 REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 FEA A 119 REMARK 610 FEA B 119 REMARK 610 FEA C 119 DBREF 1HR3 A 1 118 PDB 1HR3 1HR3 1 118 DBREF 1HR3 B 1 118 PDB 1HR3 1HR3 1 118 DBREF 1HR3 C 1 118 PDB 1HR3 1HR3 1 118 SEQRES 1 A 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 2 A 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 3 A 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 4 A 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 5 A 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 6 A 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 7 A 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 8 A 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 9 A 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 10 A 118 UNK SEQRES 1 B 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 2 B 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 3 B 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 4 B 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 5 B 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 6 B 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 7 B 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 8 B 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 9 B 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 10 B 118 UNK SEQRES 1 C 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 2 C 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 3 C 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 4 C 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 5 C 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 6 C 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 7 C 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 8 C 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 9 C 118 UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK UNK SEQRES 10 C 118 UNK HET FEA A 119 2 HET FEA B 119 2 HET FEA C 119 2 HETNAM FEA MONOAZIDO-MU-OXO-DIIRON FORMUL 4 FEA 3(FE2 N3 O) HELIX 1 AA UNK A 19 UNK A 37 1 19 HELIX 2 BA UNK A 41 UNK A 64 1 24 HELIX 3 CA UNK A 71 UNK A 84 1 14 HELIX 4 DA UNK A 93 UNK A 111 1LAST TURN MAY BE PI HELIX 19 HELIX 5 AB UNK B 19 UNK B 37 1 19 HELIX 6 BB UNK B 41 UNK B 64 1 24 HELIX 7 CB UNK B 71 UNK B 84 1 14 HELIX 8 DB UNK B 93 UNK B 111 1LAST TURN MAY BE PI HELIX 19 HELIX 9 AC UNK C 19 UNK C 37 1 19 HELIX 10 BC UNK C 41 UNK C 64 1 24 HELIX 11 CC UNK C 71 UNK C 84 1 14 HELIX 12 DC UNK C 93 UNK C 111 1LAST TURN MAY BE PI HELIX 19 CRYST1 80.310 45.110 63.580 90.00 104.80 90.00 P 1 21 1 6 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 0.012448 0.000000 0.003290 0.00000 SCALE2 0.000000 0.022168 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016268 0.00000 MTRIX1 1 -0.033090 0.590940 -0.806040 15.42000 1 MTRIX2 1 0.785320 0.514220 0.344730 -4.91000 1 MTRIX3 1 0.618210 -0.621590 -0.481090 40.70000 1 MTRIX1 2 -0.033090 0.785320 0.618210 -20.79000 1 MTRIX2 2 0.590940 0.514220 -0.621590 18.71000 1 MTRIX3 2 -0.806040 0.344760 -0.481090 33.70000 1