HEADER TRANSPORT PROTEIN 04-JAN-05 1YGF TITLE T-TO-T(HIGH) QUATERNARY TRANSITIONS IN HUMAN HEMOGLOBIN: BETAH97A OXY TITLE 2 (2MM IHP, 20% PEG) (1 TEST SET) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEMOGLOBIN ALPHA CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: HEMOGLOBIN BETA CHAIN; COMPND 6 CHAIN: B, D; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 TISSUE: BLOOD; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_COMMON: HUMAN; SOURCE 9 ORGANISM_TAXID: 9606; SOURCE 10 GENE: HBB; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HEMOGLOBIN MUTANT, GLOBIN, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.S.KAVANAUGH,P.H.ROGERS,A.ARNONE REVDAT 4 20-OCT-21 1YGF 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 1YGF 1 VERSN REVDAT 2 10-MAY-05 1YGF 1 JRNL TITLE REVDAT 1 11-JAN-05 1YGF 0 JRNL AUTH J.S.KAVANAUGH,P.H.ROGERS,A.ARNONE JRNL TITL CRYSTALLOGRAPHIC EVIDENCE FOR A NEW ENSEMBLE OF JRNL TITL 2 LIGAND-INDUCED ALLOSTERIC TRANSITIONS IN HEMOGLOBIN: THE JRNL TITL 3 T-TO-T(HIGH) QUATERNARY TRANSITIONS. JRNL REF BIOCHEMISTRY V. 44 6101 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 15835899 JRNL DOI 10.1021/BI047813A REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.0 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 85.5 REMARK 3 NUMBER OF REFLECTIONS : 11976 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : MATCHED TO PDB ENTRY 1Y5J REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 19.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2961 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 7 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1967 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1950 REMARK 3 BIN FREE R VALUE SET COUNT : 479 REMARK 3 BIN FREE R VALUE : 0.3970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4376 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 180 REMARK 3 SOLVENT ATOMS : 192 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.96000 REMARK 3 B22 (A**2) : -0.46000 REMARK 3 B33 (A**2) : -0.50000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.521 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.540 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 26.785 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.842 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4750 ; 0.026 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4180 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6430 ; 1.730 ; 2.059 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9702 ; 1.131 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 570 ; 3.638 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 759 ;21.479 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 698 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5180 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 890 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1398 ; 0.273 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4290 ; 0.229 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 245 ; 0.278 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): 12 ; 0.251 ; 0.500 REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 20 ; 0.250 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 36 ; 0.242 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 11 ; 0.345 ; 0.500 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2858 ; 0.657 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4566 ; 1.245 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1892 ; 1.531 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1864 ; 2.553 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1YGF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000031484. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-SEP-01 REMARK 200 TEMPERATURE (KELVIN) : 169.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : OSMIC MIRRORS REMARK 200 OPTICS : OSMIC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16077 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.570 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.2 REMARK 200 DATA REDUNDANCY : 2.600 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.24100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: PDB ENTRY 1Y5J REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 6000, 10 MM POTASSIUM REMARK 280 PHOSPHATE, 100 MM POTASSIUM CHLORIDE, 3 MM SODIUM DITHIONITE, 10 REMARK 280 MG/ML DEOXYHB, PH 7.0, BATCH, TEMPERATURE 298K, 1 ATM N2. REMARK 280 EXPOSING DEOXY CRYSTAL TO LIGAND: A DEOXY CRYSTAL WAS SOAKED REMARK 280 (UNDER 1 ATM NITROGEN) IN SUBSTITUTE MOTHER LIQUOR CONTAINING 20% REMARK 280 PEG 6000, 10 MM POTASSIUM PHOSPHATE (PH 7.0), 100 MM POTASSIUM REMARK 280 CHLORIDE, AND 2.2 MM IHP. THE IHP-STABILIZED CRYSTAL WAS THEN REMARK 280 EXPOSED TO 1 ATM OF OXYGEN AT 177K AND DATA WAS COLLECTED AT REMARK 280 169K. 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 48.25000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.15000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 48.25000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.15000 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 300 REMARK: THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT IN THIS ENTRY IS AN REMARK 300 ALPHA2BETA2 TETRAMER. THE CRYSTALLOGRAPIC ASYMMETRIC UNIT AND REMARK 300 BIOLOGICAL UNIT ARE EQUIVALENT 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -105.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 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 N VAL B 20 O HOH B 385 1.63 REMARK 500 N ASP B 21 O HOH B 385 1.84 REMARK 500 O TYR A 140 O HOH A 421 1.89 REMARK 500 O SER A 35 O HOH A 382 1.90 REMARK 500 OE1 GLU B 90 O HOH B 318 1.94 REMARK 500 C ASN B 19 O HOH B 385 2.00 REMARK 500 NH2 ARG A 31 O PHE B 122 2.06 REMARK 500 O LYS A 11 O HOH A 332 2.07 REMARK 500 N LYS A 139 O HOH A 222 2.08 REMARK 500 OD2 ASP D 47 OG SER D 49 2.08 REMARK 500 ND HEM A 142 O1 OXY A 150 2.10 REMARK 500 OD2 ASP A 6 NZ LYS A 127 2.14 REMARK 500 OE2 GLU C 27 O HOH C 360 2.14 REMARK 500 OD1 ASP C 6 OG SER C 124 2.15 REMARK 500 ND1 HIS B 143 O HOH B 378 2.15 REMARK 500 OG1 THR D 87 O HOH D 392 2.15 REMARK 500 OG1 THR C 67 O HOH C 384 2.19 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 O HOH A 230 O HOH B 359 4455 1.93 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 ASP A 6 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP B 47 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP B 79 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP B 99 CB - CG - OD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 ASP C 74 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP C 126 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP D 21 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP D 99 CB - CG - OD2 ANGL. DEV. = 5.6 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 ALA A 19 35.75 -87.47 REMARK 500 ALA A 21 -76.35 -33.40 REMARK 500 ALA A 26 -75.07 -44.03 REMARK 500 VAL A 73 -14.05 -49.33 REMARK 500 ASP A 75 42.75 -145.98 REMARK 500 ARG A 92 41.71 75.22 REMARK 500 HIS B 2 66.66 -70.00 REMARK 500 PRO B 36 -26.49 -27.56 REMARK 500 HIS B 77 55.97 -147.21 REMARK 500 LYS B 120 -17.30 -44.63 REMARK 500 ALA C 19 3.28 -49.54 REMARK 500 LYS C 56 -80.18 -69.71 REMARK 500 ARG C 92 67.25 60.60 REMARK 500 PRO C 95 -5.55 -56.44 REMARK 500 GLU D 7 -78.80 -72.16 REMARK 500 LYS D 8 -45.70 -24.58 REMARK 500 TYR D 35 59.86 -119.55 REMARK 500 PHE D 42 50.08 -119.47 REMARK 500 SER D 44 26.08 -79.26 REMARK 500 ASN D 80 58.89 -157.91 REMARK 500 PHE D 122 44.19 -91.82 REMARK 500 THR D 123 153.72 -38.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A 142 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 87 NE2 REMARK 620 2 HEM A 142 NA 97.8 REMARK 620 3 HEM A 142 NB 93.2 87.6 REMARK 620 4 HEM A 142 NC 98.2 163.5 87.7 REMARK 620 5 HEM A 142 ND 104.2 96.2 161.5 83.5 REMARK 620 6 OXY A 150 O1 166.5 73.4 96.6 91.5 67.4 REMARK 620 7 OXY A 150 O2 169.3 90.1 79.9 73.5 82.0 24.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 147 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 92 NE2 REMARK 620 2 HEM B 147 NA 97.1 REMARK 620 3 HEM B 147 NB 105.7 96.0 REMARK 620 4 HEM B 147 NC 96.6 165.2 85.7 REMARK 620 5 HEM B 147 ND 88.5 78.2 165.3 96.6 REMARK 620 6 OXY B 150 O1 165.0 72.6 86.5 92.8 78.9 REMARK 620 7 OXY B 150 O2 165.5 87.1 87.5 78.2 78.8 14.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM C 142 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 87 NE2 REMARK 620 2 HEM C 142 NA 86.7 REMARK 620 3 HEM C 142 NB 95.2 89.5 REMARK 620 4 HEM C 142 NC 98.1 174.6 92.4 REMARK 620 5 HEM C 142 ND 89.8 90.7 175.0 87.0 REMARK 620 6 OXY C 150 O1 172.3 88.6 90.9 86.4 84.1 REMARK 620 7 OXY C 150 O2 155.8 115.1 95.4 59.8 80.0 26.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM D 147 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 92 NE2 REMARK 620 2 HEM D 147 NA 91.6 REMARK 620 3 HEM D 147 NB 102.8 91.6 REMARK 620 4 HEM D 147 NC 103.4 164.9 85.1 REMARK 620 5 HEM D 147 ND 94.8 89.1 162.3 89.6 REMARK 620 6 OXY D 150 O1 170.7 79.1 79.0 85.8 83.8 REMARK 620 7 OXY D 150 O2 167.8 100.2 79.8 64.7 82.7 21.2 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 142 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OXY A 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B 147 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OXY B 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM C 142 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OXY C 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM D 147 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OXY D 150 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1Y0T RELATED DB: PDB REMARK 900 BETAV1M DEOXY LOW-SALT (1 TEST SET) REMARK 900 RELATED ID: 1Y5J RELATED DB: PDB REMARK 900 BETAH97A DEOXY LOW-SALT (1 TEST SET) DBREF 1YGF A 1 141 UNP P69905 HBA_HUMAN 1 141 DBREF 1YGF C 1 141 UNP P69905 HBA_HUMAN 1 141 DBREF 1YGF B 1 146 UNP P68871 HBB_HUMAN 1 146 DBREF 1YGF D 1 146 UNP P68871 HBB_HUMAN 1 146 SEQADV 1YGF MET B 1 UNP P68871 VAL 1 ENGINEERED MUTATION SEQADV 1YGF ALA B 97 UNP P68871 HIS 97 ENGINEERED MUTATION SEQADV 1YGF MET D 1 UNP P68871 VAL 1 ENGINEERED MUTATION SEQADV 1YGF ALA D 97 UNP P68871 HIS 97 ENGINEERED MUTATION SEQRES 1 A 141 VAL LEU SER PRO ALA ASP LYS THR ASN VAL LYS ALA ALA SEQRES 2 A 141 TRP GLY LYS VAL GLY ALA HIS ALA GLY GLU TYR GLY ALA SEQRES 3 A 141 GLU ALA LEU GLU ARG MET PHE LEU SER PHE PRO THR THR SEQRES 4 A 141 LYS THR TYR PHE PRO HIS PHE ASP LEU SER HIS GLY SER SEQRES 5 A 141 ALA GLN VAL LYS GLY HIS GLY LYS LYS VAL ALA ASP ALA SEQRES 6 A 141 LEU THR ASN ALA VAL ALA HIS VAL ASP ASP MET PRO ASN SEQRES 7 A 141 ALA LEU SER ALA LEU SER ASP LEU HIS ALA HIS LYS LEU SEQRES 8 A 141 ARG VAL ASP PRO VAL ASN PHE LYS LEU LEU SER HIS CYS SEQRES 9 A 141 LEU LEU VAL THR LEU ALA ALA HIS LEU PRO ALA GLU PHE SEQRES 10 A 141 THR PRO ALA VAL HIS ALA SER LEU ASP LYS PHE LEU ALA SEQRES 11 A 141 SER VAL SER THR VAL LEU THR SER LYS TYR ARG SEQRES 1 B 146 MET HIS LEU THR PRO GLU GLU LYS SER ALA VAL THR ALA SEQRES 2 B 146 LEU TRP GLY LYS VAL ASN VAL ASP GLU VAL GLY GLY GLU SEQRES 3 B 146 ALA LEU GLY ARG LEU LEU VAL VAL TYR PRO TRP THR GLN SEQRES 4 B 146 ARG PHE PHE GLU SER PHE GLY ASP LEU SER THR PRO ASP SEQRES 5 B 146 ALA VAL MET GLY ASN PRO LYS VAL LYS ALA HIS GLY LYS SEQRES 6 B 146 LYS VAL LEU GLY ALA PHE SER ASP GLY LEU ALA HIS LEU SEQRES 7 B 146 ASP ASN LEU LYS GLY THR PHE ALA THR LEU SER GLU LEU SEQRES 8 B 146 HIS CYS ASP LYS LEU ALA VAL ASP PRO GLU ASN PHE ARG SEQRES 9 B 146 LEU LEU GLY ASN VAL LEU VAL CYS VAL LEU ALA HIS HIS SEQRES 10 B 146 PHE GLY LYS GLU PHE THR PRO PRO VAL GLN ALA ALA TYR SEQRES 11 B 146 GLN LYS VAL VAL ALA GLY VAL ALA ASN ALA LEU ALA HIS SEQRES 12 B 146 LYS TYR HIS SEQRES 1 C 141 VAL LEU SER PRO ALA ASP LYS THR ASN VAL LYS ALA ALA SEQRES 2 C 141 TRP GLY LYS VAL GLY ALA HIS ALA GLY GLU TYR GLY ALA SEQRES 3 C 141 GLU ALA LEU GLU ARG MET PHE LEU SER PHE PRO THR THR SEQRES 4 C 141 LYS THR TYR PHE PRO HIS PHE ASP LEU SER HIS GLY SER SEQRES 5 C 141 ALA GLN VAL LYS GLY HIS GLY LYS LYS VAL ALA ASP ALA SEQRES 6 C 141 LEU THR ASN ALA VAL ALA HIS VAL ASP ASP MET PRO ASN SEQRES 7 C 141 ALA LEU SER ALA LEU SER ASP LEU HIS ALA HIS LYS LEU SEQRES 8 C 141 ARG VAL ASP PRO VAL ASN PHE LYS LEU LEU SER HIS CYS SEQRES 9 C 141 LEU LEU VAL THR LEU ALA ALA HIS LEU PRO ALA GLU PHE SEQRES 10 C 141 THR PRO ALA VAL HIS ALA SER LEU ASP LYS PHE LEU ALA SEQRES 11 C 141 SER VAL SER THR VAL LEU THR SER LYS TYR ARG SEQRES 1 D 146 MET HIS LEU THR PRO GLU GLU LYS SER ALA VAL THR ALA SEQRES 2 D 146 LEU TRP GLY LYS VAL ASN VAL ASP GLU VAL GLY GLY GLU SEQRES 3 D 146 ALA LEU GLY ARG LEU LEU VAL VAL TYR PRO TRP THR GLN SEQRES 4 D 146 ARG PHE PHE GLU SER PHE GLY ASP LEU SER THR PRO ASP SEQRES 5 D 146 ALA VAL MET GLY ASN PRO LYS VAL LYS ALA HIS GLY LYS SEQRES 6 D 146 LYS VAL LEU GLY ALA PHE SER ASP GLY LEU ALA HIS LEU SEQRES 7 D 146 ASP ASN LEU LYS GLY THR PHE ALA THR LEU SER GLU LEU SEQRES 8 D 146 HIS CYS ASP LYS LEU ALA VAL ASP PRO GLU ASN PHE ARG SEQRES 9 D 146 LEU LEU GLY ASN VAL LEU VAL CYS VAL LEU ALA HIS HIS SEQRES 10 D 146 PHE GLY LYS GLU PHE THR PRO PRO VAL GLN ALA ALA TYR SEQRES 11 D 146 GLN LYS VAL VAL ALA GLY VAL ALA ASN ALA LEU ALA HIS SEQRES 12 D 146 LYS TYR HIS HET HEM A 142 43 HET OXY A 150 2 HET HEM B 147 43 HET OXY B 150 2 HET HEM C 142 43 HET OXY C 150 2 HET HEM D 147 43 HET OXY D 150 2 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM OXY OXYGEN MOLECULE HETSYN HEM HEME FORMUL 5 HEM 4(C34 H32 FE N4 O4) FORMUL 6 OXY 4(O2) FORMUL 13 HOH *192(H2 O) HELIX 1 1 SER A 3 GLY A 18 1 16 HELIX 2 2 HIS A 20 PHE A 36 1 17 HELIX 3 3 PRO A 37 PHE A 43 5 7 HELIX 4 4 SER A 52 HIS A 72 1 21 HELIX 5 5 ASP A 75 LEU A 80 1 6 HELIX 6 6 LEU A 80 LYS A 90 1 11 HELIX 7 7 PRO A 95 LEU A 113 1 19 HELIX 8 8 THR A 118 SER A 138 1 21 HELIX 9 9 THR B 4 GLY B 16 1 13 HELIX 10 10 ASN B 19 TYR B 35 1 17 HELIX 11 11 PRO B 36 GLN B 39 5 4 HELIX 12 12 THR B 50 ASN B 57 1 8 HELIX 13 13 ASN B 57 LEU B 75 1 19 HELIX 14 14 ASN B 80 PHE B 85 1 6 HELIX 15 15 PHE B 85 LYS B 95 1 11 HELIX 16 16 PRO B 100 GLY B 119 1 20 HELIX 17 17 LYS B 120 PHE B 122 5 3 HELIX 18 18 THR B 123 HIS B 143 1 21 HELIX 19 19 SER C 3 GLY C 18 1 16 HELIX 20 20 HIS C 20 PHE C 36 1 17 HELIX 21 21 PRO C 37 PHE C 43 5 7 HELIX 22 22 SER C 52 HIS C 72 1 21 HELIX 23 23 ASP C 75 LYS C 90 1 16 HELIX 24 24 VAL C 96 LEU C 113 1 18 HELIX 25 25 THR C 118 SER C 138 1 21 HELIX 26 26 THR D 4 GLY D 16 1 13 HELIX 27 27 ASN D 19 TYR D 35 1 17 HELIX 28 28 PRO D 36 GLY D 46 5 11 HELIX 29 29 THR D 50 ASN D 57 1 8 HELIX 30 30 ASN D 57 LEU D 75 1 19 HELIX 31 31 ALA D 76 ASP D 79 5 4 HELIX 32 32 ASN D 80 PHE D 85 1 6 HELIX 33 33 PHE D 85 LYS D 95 1 11 HELIX 34 34 PRO D 100 GLY D 119 1 20 HELIX 35 35 LYS D 120 PHE D 122 5 3 HELIX 36 36 THR D 123 HIS D 143 1 21 LINK NE2 HIS A 87 FE HEM A 142 1555 1555 2.22 LINK FE HEM A 142 O1 OXY A 150 1555 1555 1.74 LINK FE HEM A 142 O2 OXY A 150 1555 1555 2.55 LINK NE2 HIS B 92 FE HEM B 147 1555 1555 1.89 LINK FE HEM B 147 O1 OXY B 150 1555 1555 1.75 LINK FE HEM B 147 O2 OXY B 150 1555 1555 2.80 LINK NE2 HIS C 87 FE HEM C 142 1555 1555 2.40 LINK FE HEM C 142 O1 OXY C 150 1555 1555 1.74 LINK FE HEM C 142 O2 OXY C 150 1555 1555 2.47 LINK NE2 HIS D 92 FE HEM D 147 1555 1555 2.00 LINK FE HEM D 147 O1 OXY D 150 1555 1555 1.76 LINK FE HEM D 147 O2 OXY D 150 1555 1555 2.66 SITE 1 AC1 15 TYR A 42 PHE A 43 HIS A 45 HIS A 58 SITE 2 AC1 15 LYS A 61 LEU A 83 LEU A 86 HIS A 87 SITE 3 AC1 15 LEU A 91 VAL A 93 ASN A 97 LEU A 101 SITE 4 AC1 15 VAL A 132 OXY A 150 HOH A 399 SITE 1 AC2 3 HIS A 58 VAL A 62 HEM A 142 SITE 1 AC3 16 HIS A 72 PHE B 41 HIS B 63 VAL B 67 SITE 2 AC3 16 LEU B 91 HIS B 92 LEU B 96 VAL B 98 SITE 3 AC3 16 ASN B 102 PHE B 103 LEU B 106 LEU B 141 SITE 4 AC3 16 OXY B 150 HOH B 244 HOH B 262 HOH B 402 SITE 1 AC4 4 HIS B 63 VAL B 67 HIS B 92 HEM B 147 SITE 1 AC5 17 LYS B 17 LYS B 120 GLU B 121 HOH B 289 SITE 2 AC5 17 TYR C 42 PHE C 43 HIS C 45 HIS C 58 SITE 3 AC5 17 LYS C 61 LEU C 83 LEU C 86 HIS C 87 SITE 4 AC5 17 LEU C 91 VAL C 93 ASN C 97 LEU C 101 SITE 5 AC5 17 OXY C 150 SITE 1 AC6 3 HIS C 58 VAL C 62 HEM C 142 SITE 1 AC7 10 PHE D 41 PHE D 42 HIS D 63 HIS D 92 SITE 2 AC7 10 LEU D 96 VAL D 98 ASN D 102 VAL D 137 SITE 3 AC7 10 LEU D 141 OXY D 150 SITE 1 AC8 3 HIS D 63 VAL D 67 HEM D 147 CRYST1 96.500 98.300 66.100 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 0.010363 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010173 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015129 0.00000