HEADER TRANSPORT PROTEIN 03-FEB-11 3QM5 TITLE BLACKFIN TUNA OXY-MYOGLOBIN, ATOMIC RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: MYOGLOBIN; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THUNNUS ATLANTICUS; SOURCE 3 ORGANISM_COMMON: BLACKFIN TUNA; SOURCE 4 ORGANISM_TAXID: 48168 KEYWDS MYOGLOBIN, OXYGEN STORAGE, HEME, IRON, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR V.S.DE SERRANO,M.M.RODRIGUEZ,E.R.SCHREITER REVDAT 2 13-SEP-23 3QM5 1 REMARK LINK REVDAT 1 08-FEB-12 3QM5 0 JRNL AUTH V.S.DE SERRANO,M.M.RODRIGUEZ,E.R.SCHREITER JRNL TITL HIGH RESOLUTION STRUCTURES OF BLACKFIN TUNA MYOGLOBIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 0.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 0.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.5 REMARK 3 NUMBER OF REFLECTIONS : 81824 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) : 0.128 REMARK 3 R VALUE (WORKING SET) : 0.127 REMARK 3 FREE R VALUE : 0.140 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4319 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) : 0.91 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 0.93 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5241 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.4320 REMARK 3 BIN FREE R VALUE SET COUNT : 296 REMARK 3 BIN FREE R VALUE : 0.4090 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1091 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 177 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 7.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.60000 REMARK 3 B22 (A**2) : -1.67000 REMARK 3 B33 (A**2) : 0.07000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 4.01000 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): 0.004 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.008 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.326 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.980 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.976 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1525 ; 0.028 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1039 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2130 ; 2.266 ; 2.163 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2600 ; 1.106 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 217 ; 5.126 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 58 ;34.244 ;25.517 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 289 ;13.314 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;14.036 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 228 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1722 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 266 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 877 ; 2.162 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 352 ; 0.816 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1442 ; 3.254 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 648 ; 4.806 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 658 ; 6.083 ; 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): 2563 ; 2.071 ; 3.000 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 3QM5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000063818. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUN-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 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 : 81828 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.910 REMARK 200 RESOLUTION RANGE LOW (A) : 15.750 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.5 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.48800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.550 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: RIGID BODY REFINEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2NRL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M POTASSIUM/SODIUM TARTRATE, 0.1 M REMARK 280 SODIUM CITRATE, 2.0 M AMMONIUM SULFATE, PH 5.6, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K 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 25.99450 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 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 HOH A 371 O HOH A 372 1.85 REMARK 500 OE2 GLU A 15 O HOH A 358 1.86 REMARK 500 OE2 GLU A 70 O HOH A 352 2.03 REMARK 500 O GLU A 70 O HOH A 409 2.16 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 LYS A 9 CB LYS A 9 CG -0.185 REMARK 500 GLU A 15 CD GLU A 15 OE1 -0.068 REMARK 500 GLU A 142 CD GLU A 142 OE2 0.086 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 17 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG A 28 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 ASP A 50 CB - CG - OD2 ANGL. DEV. = -8.8 DEGREES REMARK 500 LEU A 107 CB - CG - CD1 ANGL. DEV. = 14.6 DEGREES REMARK 500 LEU A 107 CB - CG - CD2 ANGL. DEV. = -12.6 DEGREES REMARK 500 GLU A 142 CG - CD - OE1 ANGL. DEV. = -13.5 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 ASP A 17 74.51 -156.91 REMARK 500 ASP A 17 57.34 -148.67 REMARK 500 PHE A 145 51.02 -119.53 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 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 89 NE2 REMARK 620 2 HEM A 201 NA 95.6 REMARK 620 3 HEM A 201 NB 98.2 91.4 REMARK 620 4 HEM A 201 NC 95.7 168.3 89.7 REMARK 620 5 HEM A 201 ND 93.3 89.9 168.2 86.6 REMARK 620 6 HOH A 477 O 172.9 91.5 81.0 77.3 87.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 89 NE2 REMARK 620 2 HEM A 201 NA 90.7 REMARK 620 3 HEM A 201 NB 93.2 89.0 REMARK 620 4 HEM A 201 NC 94.0 175.3 90.4 REMARK 620 5 HEM A 201 ND 91.5 90.3 175.3 89.9 REMARK 620 6 OXY A 202 O2 174.9 92.4 91.0 83.0 84.4 REMARK 620 N 1 2 3 4 5 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 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OXY A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 205 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2NRL RELATED DB: PDB REMARK 900 BLACKFIN TUNA METAQUO-MYOGLOBIN REMARK 900 RELATED ID: 2NRM RELATED DB: PDB REMARK 900 S-NITROSYLATED BLACKFIN TUNA MYOGLOBIN REMARK 900 RELATED ID: 2NX0 RELATED DB: PDB REMARK 900 FERROUS NITROSYL BLACKFIN TUNA MYOGLOBIN REMARK 900 RELATED ID: 3QM6 RELATED DB: PDB REMARK 900 RELATED ID: 3QM7 RELATED DB: PDB REMARK 900 RELATED ID: 3QM8 RELATED DB: PDB REMARK 900 RELATED ID: 3QM9 RELATED DB: PDB REMARK 900 RELATED ID: 3QMA RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AMINO ACID SEQUENCE OF BLACKFIN TUNA MYOGLOBIN IS NOT AVAILABLE REMARK 999 IN UNIPROT SEQUENCE DATABASE. HOWEVER, IT IS ALMOST IDENTICAL TO REMARK 999 BLUEFIN (P68189) AND BIGEYE TUNA (Q76G09) MYOGLOBINS, EXCEPT AN H-> REMARK 999 Q SUBSTITUTION AT RESIDUE 112. THIS SUBSTITUTION ALSO PRESENTS IN REMARK 999 OTHER TUNA SPECIES. DBREF 3QM5 A 1 146 PDB 3QM5 3QM5 1 146 SEQRES 1 A 146 ACE ALA ASP PHE ASP ALA VAL LEU LYS CYS TRP GLY PRO SEQRES 2 A 146 VAL GLU ALA ASP TYR THR THR ILE GLY GLY LEU VAL LEU SEQRES 3 A 146 THR ARG LEU PHE LYS GLU HIS PRO GLU THR GLN LYS LEU SEQRES 4 A 146 PHE PRO LYS PHE ALA GLY ILE ALA GLN ALA ASP ILE ALA SEQRES 5 A 146 GLY ASN ALA ALA VAL SER ALA HIS GLY ALA THR VAL LEU SEQRES 6 A 146 LYS LYS LEU GLY GLU LEU LEU LYS ALA LYS GLY SER HIS SEQRES 7 A 146 ALA ALA ILE LEU LYS PRO LEU ALA ASN SER HIS ALA THR SEQRES 8 A 146 LYS HIS LYS ILE PRO ILE ASN ASN PHE LYS LEU ILE SER SEQRES 9 A 146 GLU VAL LEU VAL LYS VAL MET GLN GLU LYS ALA GLY LEU SEQRES 10 A 146 ASP ALA GLY GLY GLN THR ALA LEU ARG ASN VAL MET GLY SEQRES 11 A 146 ILE ILE ILE ALA ASP LEU GLU ALA ASN TYR LYS GLU LEU SEQRES 12 A 146 GLY PHE SER HET ACE A 1 3 HET HEM A 201 86 HET OXY A 202 2 HET EDO A 203 4 HET EDO A 204 4 HET EDO A 205 4 HETNAM ACE ACETYL GROUP HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM OXY OXYGEN MOLECULE HETNAM EDO 1,2-ETHANEDIOL HETSYN HEM HEME HETSYN EDO ETHYLENE GLYCOL FORMUL 1 ACE C2 H4 O FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 OXY O2 FORMUL 4 EDO 3(C2 H6 O2) FORMUL 7 HOH *177(H2 O) HELIX 1 1 ALA A 2 LYS A 9 1 8 HELIX 2 2 TRP A 11 ALA A 16 1 6 HELIX 3 3 ASP A 17 HIS A 33 1 17 HELIX 4 4 HIS A 33 LYS A 38 1 6 HELIX 5 5 ALA A 47 ILE A 51 5 5 HELIX 6 6 ASN A 54 LYS A 73 1 20 HELIX 7 7 HIS A 78 LYS A 92 1 15 HELIX 8 8 ILE A 97 ALA A 115 1 19 HELIX 9 9 ASP A 118 LEU A 143 1 26 LINK C ACE A 1 N ALA A 2 1555 1555 1.34 LINK NE2 HIS A 89 FE BHEM A 201 1555 1555 1.97 LINK NE2 HIS A 89 FE AHEM A 201 1555 1555 2.09 LINK FE AHEM A 201 O2 AOXY A 202 1555 1555 2.02 LINK FE BHEM A 201 O BHOH A 477 1555 1555 2.06 SITE 1 AC1 21 LEU A 39 PHE A 40 LYS A 42 HIS A 60 SITE 2 AC1 21 THR A 63 VAL A 64 LEU A 68 LEU A 85 SITE 3 AC1 21 SER A 88 HIS A 89 HIS A 93 ILE A 95 SITE 4 AC1 21 ASN A 99 PHE A 100 OXY A 202 HOH A 331 SITE 5 AC1 21 HOH A 337 HOH A 388 HOH A 402 HOH A 447 SITE 6 AC1 21 HOH A 477 SITE 1 AC2 5 PHE A 40 HIS A 60 VAL A 64 HEM A 201 SITE 2 AC2 5 HOH A 477 SITE 1 AC3 2 LYS A 42 EDO A 204 SITE 1 AC4 5 LYS A 42 PHE A 43 ASN A 54 EDO A 203 SITE 2 AC4 5 HOH A 416 SITE 1 AC5 4 ALA A 47 GLN A 48 HOH A 318 HOH A 410 CRYST1 34.063 51.989 38.609 90.00 104.03 90.00 P 1 21 1 2 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 0.029357 0.000000 0.007336 0.00000 SCALE2 0.000000 0.019235 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026697 0.00000 HETATM 1 C ACE A 1 17.077 15.219 6.462 1.00 20.77 C ANISOU 1 C ACE A 1 3014 1739 3139 -353 -315 157 C HETATM 2 O ACE A 1 16.351 14.524 5.707 1.00 22.26 O ANISOU 2 O ACE A 1 2848 1737 3871 -633 -559 631 O HETATM 3 CH3 ACE A 1 16.444 16.214 7.400 1.00 22.91 C ANISOU 3 CH3 ACE A 1 3084 1691 3928 -346 40 129 C