HEADER TRANSPORT PROTEIN/OXYGEN BINDING 13-NOV-07 3BCQ TITLE CRYSTAL STRUCTURE OF OXY-HEMOGLOBIN FROM BRYCON CEPHALUS CAVEAT 3BCQ CHIRALITY ERROR AT THE CA CENTER OF ASP A 48 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-CHAIN HEMOGLOBIN; COMPND 3 CHAIN: A, C; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: BETA-CHAIN HEMOGLOBIN; COMPND 6 CHAIN: B, D SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BRYCON CEPHALUS; SOURCE 3 ORGANISM_TAXID: 126311; SOURCE 4 TISSUE: BLOOD; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: BRYCON CEPHALUS; SOURCE 7 ORGANISM_TAXID: 126311; SOURCE 8 TISSUE: BLOOD KEYWDS HEMOGLOBIN, FISH, BRYCON CEPHALUS, HEME, IRON, METAL-BINDING, OXYGEN KEYWDS 2 TRANSPORT, TRANSPORT, TRANSPORT PROTEIN-OXYGEN BINDING COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.D.POY,A.M.LEOPOLDINO,P.RAHAL,W.F.DE AZEVEDO,G.O.B.RODRIGUEZ, AUTHOR 2 M.T.MURAKAMI REVDAT 5 01-NOV-23 3BCQ 1 REMARK LINK REVDAT 4 25-OCT-17 3BCQ 1 REMARK REVDAT 3 08-SEP-09 3BCQ 1 CAVEAT REVDAT 2 24-FEB-09 3BCQ 1 VERSN REVDAT 1 07-OCT-08 3BCQ 0 JRNL AUTH C.D.POY,A.M.LEOPOLDINO,P.RAHAL,W.F.DE AZEVEDO, JRNL AUTH 2 G.O.B.RODRIGUEZ,M.T.MURAKAMI JRNL TITL CRYSTAL STRUCTURE OF OXY-HEMOGLOBIN FROM BRYCON CEPHALUS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 86.9 REMARK 3 NUMBER OF REFLECTIONS : 19316 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 + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1042 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1433 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.1760 REMARK 3 BIN FREE R VALUE SET COUNT : 79 REMARK 3 BIN FREE R VALUE : 0.3420 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4485 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 180 REMARK 3 SOLVENT ATOMS : 90 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.03000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.04000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.948 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.356 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.213 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.924 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.895 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4821 ; 0.029 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6600 ; 2.713 ; 2.062 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 578 ; 9.657 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 185 ;42.272 ;24.054 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 785 ;22.082 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;20.269 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 708 ; 0.217 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3616 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2618 ; 0.283 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3268 ; 0.331 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 215 ; 0.181 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.348 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 35 ; 0.355 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.378 ; 0.200 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): 2964 ; 1.298 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4655 ; 2.264 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2183 ; 3.687 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1934 ; 5.383 ; 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 : 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 3BCQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000045358. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUN-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : D03B-MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.437 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 : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20385 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 19.890 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1XQ5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 5.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 59.68300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.01950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.68300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.01950 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -102.0 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 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 SER C 134 OG 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 O ILE A 17 CB SER A 18 1.51 REMARK 500 O ASP A 4 OD2 ASP A 8 1.67 REMARK 500 O LEU A 110 CB ALA A 111 1.80 REMARK 500 O LEU A 106 CD1 LEU A 110 2.05 REMARK 500 O HOH A 169 O HOH A 172 2.17 REMARK 500 NB HEM A 143 O1 OXY A 144 2.17 REMARK 500 O ASN D 47 ND2 ASN D 57 2.18 REMARK 500 OD1 ASP B 21 CE LYS B 65 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 22 CG GLU A 22 CD -0.099 REMARK 500 ASP A 27 CB ASP A 27 CG 0.140 REMARK 500 CYS B 109 CB CYS B 109 SG -0.100 REMARK 500 ASP C 4 CB ASP C 4 CG 0.143 REMARK 500 GLU C 22 CG GLU C 22 CD -0.104 REMARK 500 ASP C 27 CB ASP C 27 CG 0.145 REMARK 500 ALA C 30 CA ALA C 30 CB -0.182 REMARK 500 SER C 136 CA SER C 136 CB 0.092 REMARK 500 SER C 136 CB SER C 136 OG 0.085 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 SER A 18 C - N - CA ANGL. DEV. = -18.3 DEGREES REMARK 500 ASP A 23 CB - CG - OD1 ANGL. DEV. = -5.5 DEGREES REMARK 500 LEU A 29 CB - CG - CD2 ANGL. DEV. = -17.0 DEGREES REMARK 500 ASP A 48 N - CA - C ANGL. DEV. = 18.0 DEGREES REMARK 500 ARG A 93 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ARG A 93 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 LEU A 106 CB - CG - CD2 ANGL. DEV. = -30.9 DEGREES REMARK 500 LEU A 107 CB - CG - CD1 ANGL. DEV. = 13.6 DEGREES REMARK 500 LEU A 110 CA - CB - CG ANGL. DEV. = -18.0 DEGREES REMARK 500 ALA A 111 C - N - CA ANGL. DEV. = -19.0 DEGREES REMARK 500 LEU A 130 CA - CB - CG ANGL. DEV. = 14.8 DEGREES REMARK 500 LEU B 106 CB - CG - CD2 ANGL. DEV. = 10.7 DEGREES REMARK 500 ASP C 27 CB - CG - OD1 ANGL. DEV. = 8.7 DEGREES REMARK 500 PRO C 37 C - N - CA ANGL. DEV. = 9.1 DEGREES REMARK 500 LEU C 106 CB - CG - CD2 ANGL. DEV. = -18.4 DEGREES REMARK 500 LEU C 110 CB - CG - CD1 ANGL. DEV. = 10.6 DEGREES REMARK 500 LEU C 132 CA - CB - CG ANGL. DEV. = -16.0 DEGREES REMARK 500 LEU C 133 CB - CG - CD2 ANGL. DEV. = -12.9 DEGREES REMARK 500 ALA D 122 C - N - CA ANGL. DEV. = 17.5 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 SER A 18 -36.69 119.27 REMARK 500 ASP A 48 61.37 122.60 REMARK 500 LYS A 73 40.01 -107.12 REMARK 500 ALA A 111 -55.75 89.21 REMARK 500 ASN A 116 -80.53 9.82 REMARK 500 PHE A 118 61.33 -108.13 REMARK 500 TYR B 35 73.80 -116.66 REMARK 500 SER B 93 -83.91 -70.68 REMARK 500 PHE B 123 71.49 -104.92 REMARK 500 SER B 143 113.18 47.95 REMARK 500 ASN C 116 -54.20 -22.56 REMARK 500 SER D 4 174.10 -53.58 REMARK 500 GLU D 22 -76.79 87.30 REMARK 500 LEU D 48 -26.05 127.73 REMARK 500 ALA D 122 -105.61 114.92 REMARK 500 PHE D 123 70.47 -103.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 18 PRO A 19 138.76 REMARK 500 LYS A 47 ASP A 48 -53.62 REMARK 500 PRO A 115 ASN A 116 130.17 REMARK 500 GLY B 46 ASN B 47 58.92 REMARK 500 LEU B 142 SER B 143 80.02 REMARK 500 ASN D 47 LEU D 48 -56.64 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 143 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 88 NE2 REMARK 620 2 HEM A 143 NA 87.4 REMARK 620 3 HEM A 143 NB 85.8 82.8 REMARK 620 4 HEM A 143 NC 95.9 176.1 95.4 REMARK 620 5 HEM A 143 ND 100.4 99.5 173.4 82.0 REMARK 620 6 OXY A 144 O1 159.9 86.9 74.3 89.3 99.6 REMARK 620 7 OXY A 144 O2 178.8 93.6 93.6 83.1 80.1 19.8 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 92.4 REMARK 620 3 HEM B 147 NB 98.1 85.4 REMARK 620 4 HEM B 147 NC 87.4 176.7 91.4 REMARK 620 5 HEM B 147 ND 82.0 91.0 176.3 92.3 REMARK 620 6 OXY B 148 O1 171.2 87.4 90.6 93.3 89.2 REMARK 620 7 OXY B 148 O2 159.4 108.2 84.2 72.0 96.9 22.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM C 143 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 88 NE2 REMARK 620 2 HEM C 143 NA 94.6 REMARK 620 3 HEM C 143 NB 90.2 77.9 REMARK 620 4 HEM C 143 NC 86.9 169.6 91.9 REMARK 620 5 HEM C 143 ND 90.2 104.2 177.8 86.0 REMARK 620 6 OXY C 144 O1 154.9 110.5 93.1 68.2 85.6 REMARK 620 7 OXY C 144 O2 179.3 85.7 89.2 92.8 90.4 24.8 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 82.1 REMARK 620 3 HEM D 147 NB 86.2 89.4 REMARK 620 4 HEM D 147 NC 96.8 177.0 87.8 REMARK 620 5 HEM D 147 ND 90.5 89.4 176.6 93.4 REMARK 620 6 OXY D 148 O1 155.1 73.3 89.9 107.6 92.8 REMARK 620 7 OXY D 148 O2 171.8 105.0 89.8 75.9 93.6 31.8 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 143 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OXY A 144 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 148 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM C 143 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OXY C 144 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 148 REMARK 999 REMARK 999 SEQUENCE REMARK 999 ACCORDING TO THE AUTHOR, THESE DIFFERENCES IN ALPHA CHAIN, REMARK 999 BETWEEN THE DATABASE AND SEQRES, CAME FROM SOME MISTAKES REMARK 999 IN THE PREVIOUS DNA SEQUENCING. THE SEQUENCE PRESENTED IN REMARK 999 THE SEQRES WAS CONFIRMED BY A NEW DNA SEQUENCING (N=3), REMARK 999 HOWEVER THESE DATA WAS NOT REFRESHED YET. REMARK 999 THERE IS NO UNP REFERENCE SEQUENCE DATABASE FOR BETA-CHAIN REMARK 999 HEMOGLOBIN AT THE TIME OF PROCESSING. DBREF 3BCQ A 1 142 UNP A1YZP4 A1YZP4_9TELE 2 143 DBREF 3BCQ B 1 146 PDB 3BCQ 3BCQ 1 146 DBREF 3BCQ C 1 142 UNP A1YZP4 A1YZP4_9TELE 2 143 DBREF 3BCQ D 1 146 PDB 3BCQ 3BCQ 1 146 SEQADV 3BCQ SER A 9 UNP A1YZP4 ALA 10 SEE REMARK 999 SEQADV 3BCQ MET A 32 UNP A1YZP4 THR 33 SEE REMARK 999 SEQADV 3BCQ GLY A 65 UNP A1YZP4 SER 66 SEE REMARK 999 SEQADV 3BCQ SER A 66 UNP A1YZP4 GLY 67 SEE REMARK 999 SEQADV 3BCQ GLN A 112 UNP A1YZP4 ILE 113 SEE REMARK 999 SEQADV 3BCQ LEU A 132 UNP A1YZP4 ALA 133 SEE REMARK 999 SEQADV 3BCQ SER A 134 UNP A1YZP4 ALA 135 SEE REMARK 999 SEQADV 3BCQ TRP A 135 UNP A1YZP4 LEU 136 SEE REMARK 999 SEQADV 3BCQ SER A 136 UNP A1YZP4 ALA 137 SEE REMARK 999 SEQADV 3BCQ SER C 9 UNP A1YZP4 ALA 10 SEE REMARK 999 SEQADV 3BCQ MET C 32 UNP A1YZP4 THR 33 SEE REMARK 999 SEQADV 3BCQ GLY C 65 UNP A1YZP4 SER 66 SEE REMARK 999 SEQADV 3BCQ SER C 66 UNP A1YZP4 GLY 67 SEE REMARK 999 SEQADV 3BCQ GLN C 112 UNP A1YZP4 ILE 113 SEE REMARK 999 SEQADV 3BCQ LEU C 132 UNP A1YZP4 ALA 133 SEE REMARK 999 SEQADV 3BCQ SER C 134 UNP A1YZP4 ALA 135 SEE REMARK 999 SEQADV 3BCQ TRP C 135 UNP A1YZP4 LEU 136 SEE REMARK 999 SEQADV 3BCQ SER C 136 UNP A1YZP4 ALA 137 SEE REMARK 999 SEQRES 1 A 142 SER LEU SER ASP LYS ASP LYS ASP SER ILE LYS ALA PHE SEQRES 2 A 142 TRP ALA LYS ILE SER PRO LYS ALA GLU ASP ILE GLY ALA SEQRES 3 A 142 ASP ALA LEU ALA ARG MET LEU THR VAL TYR PRO GLN THR SEQRES 4 A 142 LYS THR TYR PHE SER HIS TRP LYS ASP LEU SER PRO GLY SEQRES 5 A 142 SER ALA PRO VAL LYS LYS HIS GLY LYS THR VAL MET GLY SEQRES 6 A 142 SER VAL ALA GLU ALA VAL SER LYS ILE ASP ASP LEU THR SEQRES 7 A 142 ASN GLY LEU LEU THR LEU SER GLU LEU HIS ALA PHE GLN SEQRES 8 A 142 LEU ARG VAL ASP PRO ALA ASN PHE LYS ILE LEU SER HIS SEQRES 9 A 142 ASN LEU LEU VAL VAL LEU ALA GLN GLN PHE PRO ASN ASP SEQRES 10 A 142 PHE THR PRO GLU VAL HIS VAL SER MET ASP LYS PHE LEU SEQRES 11 A 142 SER LEU LEU SER TRP SER LEU SER GLU LYS TYR ARG SEQRES 1 B 146 VAL GLU TRP SER THR ALA GLU ARG SER ALA ILE ALA GLY SEQRES 2 B 146 LEU TRP GLY LYS ILE SER VAL ASP GLU ILE GLY PRO GLN SEQRES 3 B 146 ALA LEU SER ARG LEU LEU ILE VAL TYR PRO TRP THR GLN SEQRES 4 B 146 ARG HIS PHE ALA ALA PHE GLY ASN LEU SER SER PRO ALA SEQRES 5 B 146 ALA ILE ASN GLY ASN PRO LYS VAL ALA HIS HIS GLY LYS SEQRES 6 B 146 VAL VAL MET GLY GLY LEU GLU ARG ALA ILE LYS ASN MET SEQRES 7 B 146 ASP ASN ILE LYS ALA ALA TYR SER SER LEU SER VAL MET SEQRES 8 B 146 HIS SER GLU LYS LEU HIS VAL ASP PRO ASP ASN PHE ARG SEQRES 9 B 146 LEU LEU ALA ASP CYS ILE THR VAL CYS VAL ALA MET LYS SEQRES 10 B 146 PHE GLY PRO SER ALA PHE THR PRO ASP VAL GLN GLU ALA SEQRES 11 B 146 TRP GLN LYS PHE LEU ALA VAL VAL VAL ALA ALA LEU SER SEQRES 12 B 146 ARG TYR HIS SEQRES 1 C 142 SER LEU SER ASP LYS ASP LYS ASP SER ILE LYS ALA PHE SEQRES 2 C 142 TRP ALA LYS ILE SER PRO LYS ALA GLU ASP ILE GLY ALA SEQRES 3 C 142 ASP ALA LEU ALA ARG MET LEU THR VAL TYR PRO GLN THR SEQRES 4 C 142 LYS THR TYR PHE SER HIS TRP LYS ASP LEU SER PRO GLY SEQRES 5 C 142 SER ALA PRO VAL LYS LYS HIS GLY LYS THR VAL MET GLY SEQRES 6 C 142 SER VAL ALA GLU ALA VAL SER LYS ILE ASP ASP LEU THR SEQRES 7 C 142 ASN GLY LEU LEU THR LEU SER GLU LEU HIS ALA PHE GLN SEQRES 8 C 142 LEU ARG VAL ASP PRO ALA ASN PHE LYS ILE LEU SER HIS SEQRES 9 C 142 ASN LEU LEU VAL VAL LEU ALA GLN GLN PHE PRO ASN ASP SEQRES 10 C 142 PHE THR PRO GLU VAL HIS VAL SER MET ASP LYS PHE LEU SEQRES 11 C 142 SER LEU LEU SER TRP SER LEU SER GLU LYS TYR ARG SEQRES 1 D 146 VAL GLU TRP SER THR ALA GLU ARG SER ALA ILE ALA GLY SEQRES 2 D 146 LEU TRP GLY LYS ILE SER VAL ASP GLU ILE GLY PRO GLN SEQRES 3 D 146 ALA LEU SER ARG LEU LEU ILE VAL TYR PRO TRP THR GLN SEQRES 4 D 146 ARG HIS PHE ALA ALA PHE GLY ASN LEU SER SER PRO ALA SEQRES 5 D 146 ALA ILE ASN GLY ASN PRO LYS VAL ALA HIS HIS GLY LYS SEQRES 6 D 146 VAL VAL MET GLY GLY LEU GLU ARG ALA ILE LYS ASN MET SEQRES 7 D 146 ASP ASN ILE LYS ALA ALA TYR SER SER LEU SER VAL MET SEQRES 8 D 146 HIS SER GLU LYS LEU HIS VAL ASP PRO ASP ASN PHE ARG SEQRES 9 D 146 LEU LEU ALA ASP CYS ILE THR VAL CYS VAL ALA MET LYS SEQRES 10 D 146 PHE GLY PRO SER ALA PHE THR PRO ASP VAL GLN GLU ALA SEQRES 11 D 146 TRP GLN LYS PHE LEU ALA VAL VAL VAL ALA ALA LEU SER SEQRES 12 D 146 ARG TYR HIS HET HEM A 143 43 HET OXY A 144 2 HET HEM B 147 43 HET OXY B 148 2 HET HEM C 143 43 HET OXY C 144 2 HET HEM D 147 43 HET OXY D 148 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 *90(H2 O) HELIX 1 1 SER A 3 ILE A 17 1 15 HELIX 2 2 LYS A 20 TYR A 36 1 17 HELIX 3 3 PRO A 37 PHE A 43 5 7 HELIX 4 4 SER A 53 LYS A 73 1 21 HELIX 5 5 ASP A 76 LEU A 81 1 6 HELIX 6 6 LEU A 81 GLN A 91 1 11 HELIX 7 7 PRO A 96 GLN A 113 1 18 HELIX 8 8 PHE A 114 PHE A 118 5 5 HELIX 9 9 THR A 119 SER A 138 1 20 HELIX 10 10 GLU A 139 TYR A 141 5 3 HELIX 11 11 SER B 4 ILE B 18 1 15 HELIX 12 12 SER B 19 TYR B 35 1 17 HELIX 13 13 PRO B 36 ALA B 43 5 8 HELIX 14 14 SER B 50 ASN B 57 1 8 HELIX 15 15 ASN B 57 ASN B 77 1 21 HELIX 16 16 ASN B 80 TYR B 85 1 6 HELIX 17 17 TYR B 85 SER B 93 1 9 HELIX 18 18 PRO B 100 PHE B 123 1 24 HELIX 19 19 THR B 124 SER B 143 1 20 HELIX 20 20 SER C 3 SER C 18 1 16 HELIX 21 21 LYS C 20 TYR C 36 1 17 HELIX 22 22 PRO C 37 PHE C 43 5 7 HELIX 23 23 SER C 53 LYS C 73 1 21 HELIX 24 24 LEU C 77 PHE C 90 1 14 HELIX 25 25 ASP C 95 PHE C 114 1 20 HELIX 26 26 PRO C 115 PHE C 118 5 4 HELIX 27 27 THR C 119 SER C 138 1 20 HELIX 28 28 GLU C 139 ARG C 142 5 4 HELIX 29 29 SER D 4 ILE D 18 1 15 HELIX 30 30 SER D 19 TYR D 35 1 17 HELIX 31 31 PRO D 36 GLY D 46 5 11 HELIX 32 32 SER D 50 GLY D 56 1 7 HELIX 33 33 ASN D 57 ASN D 77 1 21 HELIX 34 34 ASN D 80 LYS D 95 1 16 HELIX 35 35 PRO D 100 GLY D 119 1 20 HELIX 36 36 THR D 124 SER D 143 1 20 LINK NE2 HIS A 88 FE HEM A 143 1555 1555 2.08 LINK FE HEM A 143 O1 OXY A 144 1555 1555 1.50 LINK FE HEM A 143 O2 OXY A 144 1555 1555 2.50 LINK NE2 HIS B 92 FE HEM B 147 1555 1555 2.19 LINK FE HEM B 147 O1 OXY B 148 1555 1555 1.61 LINK FE HEM B 147 O2 OXY B 148 1555 1555 2.53 LINK NE2 HIS C 88 FE HEM C 143 1555 1555 2.09 LINK FE HEM C 143 O1 OXY C 144 1555 1555 2.56 LINK FE HEM C 143 O2 OXY C 144 1555 1555 1.80 LINK NE2 HIS D 92 FE HEM D 147 1555 1555 2.28 LINK FE HEM D 147 O1 OXY D 148 1555 1555 2.10 LINK FE HEM D 147 O2 OXY D 148 1555 1555 2.25 CISPEP 1 SER D 121 ALA D 122 0 -15.04 SITE 1 AC1 17 MET A 32 TYR A 42 PHE A 43 HIS A 45 SITE 2 AC1 17 HIS A 59 THR A 62 SER A 66 HIS A 88 SITE 3 AC1 17 LEU A 92 VAL A 94 ASN A 98 LEU A 102 SITE 4 AC1 17 LEU A 133 LEU A 137 OXY A 144 HOH A 160 SITE 5 AC1 17 SER D 50 SITE 1 AC2 4 HIS A 59 VAL A 63 HIS A 88 HEM A 143 SITE 1 AC3 14 THR B 38 HIS B 41 PHE B 42 HIS B 63 SITE 2 AC3 14 VAL B 66 MET B 91 HIS B 92 LEU B 96 SITE 3 AC3 14 VAL B 98 ASN B 102 PHE B 103 LEU B 106 SITE 4 AC3 14 LEU B 142 OXY B 148 SITE 1 AC4 3 HIS B 63 VAL B 67 HEM B 147 SITE 1 AC5 15 TYR C 42 PHE C 43 HIS C 45 TRP C 46 SITE 2 AC5 15 HIS C 59 THR C 62 SER C 66 LEU C 87 SITE 3 AC5 15 HIS C 88 LEU C 92 ASN C 98 PHE C 99 SITE 4 AC5 15 LEU C 102 LEU C 133 OXY C 144 SITE 1 AC6 2 HIS C 59 HEM C 143 SITE 1 AC7 11 HIS D 41 PHE D 42 HIS D 63 VAL D 66 SITE 2 AC7 11 TYR D 85 MET D 91 HIS D 92 ASN D 102 SITE 3 AC7 11 LEU D 106 LEU D 142 OXY D 148 SITE 1 AC8 3 HIS D 63 VAL D 67 HEM D 147 CRYST1 119.366 54.039 101.906 90.00 113.89 90.00 C 1 2 1 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 0.008378 0.000000 0.003711 0.00000 SCALE2 0.000000 0.018505 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010733 0.00000