HEADER OXYGEN TRANSPORT 05-NOV-10 3PI4 TITLE CRYSTALLOGRAPHIC STRUCTURE OF HBII-OXY FROM LUCINA PECTINATA AT PH 4.0 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEMOGLOBIN II; COMPND 3 CHAIN: A, B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PHACOIDES PECTINATUS; SOURCE 3 ORGANISM_COMMON: LUCINA PECTINATA; SOURCE 4 ORGANISM_TAXID: 244486 KEYWDS PH BEHAVIOR, OXYGEN CARRIER, OXYGEN TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR J.A.GAVIRA,C.A.NIEVES-MARRERO,C.R.RUIZ-MARTINEZ,R.A.ESTREMERA- AUTHOR 2 ANDUJAR,J.LOPEZ-GARRIGA,J.M.GARCIA-RUIZ REVDAT 1 09-NOV-11 3PI4 0 JRNL AUTH C.A.NIEVES-MARRERO,C.R.RUIZ-MARTINEZ,R.A.ESTREMERA-ANDUJAR, JRNL AUTH 2 J.LOPEZ-GARRIGA,J.M.GARCIA-RUIZ,J.A.GAVIRA JRNL TITL PH-DEPENDENCE CRYSTALLOGRAPHIC STUDIES OF THE OXYGEN CARRIER JRNL TITL 2 HEMOGLOBIN II FROM LUCINA PECTINATA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.A.NIEVES-MARRERO,C.R.RUIZ-MARTINEZ,R.A.ESTREMERA-ANDUJAR, REMARK 1 AUTH 2 L.A.GONZALEZ-RAMIREZ,J.LOPEZ-GARRIGA,J.A.GAVIRA REMARK 1 TITL TWO-STEP COUNTERDIFFUSION PROTOCOL FOR THE CRYSTALLIZATION REMARK 1 TITL 2 OF HEAMOGLOBIN II FROM LUCINA PECTINATA IN THE PH RANGE 4-9 REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. F66 264 2010 REMARK 1 REFN ESSN 1744-3091 REMARK 2 REMARK 2 RESOLUTION. 3.17 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.17 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 3 NUMBER OF REFLECTIONS : 6277 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) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 309 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) : 3.17 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 255 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 53.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.2320 REMARK 3 BIN FREE R VALUE SET COUNT : 10 REMARK 3 BIN FREE R VALUE : 0.4980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2339 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 6 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.73000 REMARK 3 B22 (A**2) : 0.73000 REMARK 3 B33 (A**2) : -1.46000 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): 0.590 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.397 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 23.019 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.876 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2512 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3430 ; 1.563 ; 2.044 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 306 ; 5.509 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 110 ;40.262 ;24.818 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 399 ;18.769 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;13.561 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 358 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1919 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1512 ; 0.652 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2413 ; 1.253 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1000 ; 1.477 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1015 ; 2.529 ; 4.500 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 3PI4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-NOV-10. REMARK 100 THE RCSB ID CODE IS RCSB062398. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-NOV-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM16 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.90750 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6617 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.170 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.14500 REMARK 200 R SYM (I) : 0.14500 REMARK 200 FOR THE DATA SET : 8.6000 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM FORMATE, PH 4.0, CAPILLARY REMARK 280 COUNTERDIFFUSION, TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 36.11850 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 36.11850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 73.14400 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 36.11850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 36.11850 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 73.14400 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 36.11850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 36.11850 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 73.14400 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 36.11850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 36.11850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 73.14400 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -134.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22790 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -123.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 25430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 42820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -269.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 LYS A 35 CD CE NZ REMARK 470 ARG A 103 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 129 CD CE NZ REMARK 470 LYS A 141 CD CE NZ REMARK 470 LYS A 148 CG CD CE NZ REMARK 470 SER A 151 OG REMARK 470 GLU B 39 CG CD OE1 OE2 REMARK 470 LYS B 45 CD CE NZ REMARK 470 ARG B 100 NE CZ NH1 NH2 REMARK 470 LYS B 129 CG CD CE NZ REMARK 470 LYS B 141 CG CD CE NZ REMARK 470 LYS B 148 CG CD CE NZ REMARK 470 GLU B 149 CD OE1 OE2 REMARK 470 SER B 151 OG 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 B 20 -28.23 -39.26 REMARK 500 ASP B 58 -2.28 67.63 REMARK 500 ASP B 82 45.77 -75.28 REMARK 500 ARG B 100 14.73 -68.42 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 B 500 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 501 O REMARK 620 2 HEM B 500 NA 87.7 REMARK 620 3 HEM B 500 NB 87.9 82.7 REMARK 620 4 HEM B 500 NC 90.7 176.4 94.0 REMARK 620 5 HEM B 500 ND 93.0 98.5 178.5 84.9 REMARK 620 6 HIS B 97 NE2 166.9 95.2 105.1 87.1 74.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A 500 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 97 NE2 REMARK 620 2 HEM A 500 NA 93.9 REMARK 620 3 HEM A 500 NB 90.6 85.0 REMARK 620 4 HEM A 500 NC 93.7 172.1 96.9 REMARK 620 5 HEM A 500 ND 94.7 94.2 174.6 83.2 REMARK 620 6 HOH A 501 O 166.3 99.5 87.9 73.0 87.0 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 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2OLP RELATED DB: PDB REMARK 900 RELATED ID: 3PI1 RELATED DB: PDB REMARK 900 RELATED ID: 3PI2 RELATED DB: PDB REMARK 900 RELATED ID: 3PI3 RELATED DB: PDB DBREF 3PI4 A 1 151 UNP Q86G74 Q86G74_LUCPE 2 152 DBREF 3PI4 B 1 151 UNP Q86G74 Q86G74_LUCPE 2 152 SEQADV 3PI4 ACE A 0 UNP Q86G74 ACETYLATION SEQADV 3PI4 ACE B 0 UNP Q86G74 ACETYLATION SEQRES 1 A 152 ACE THR THR LEU THR ASN PRO GLN LYS ALA ALA ILE ARG SEQRES 2 A 152 SER SER TRP SER LYS PHE MET ASP ASN GLY VAL SER ASN SEQRES 3 A 152 GLY GLN GLY PHE TYR MET ASP LEU PHE LYS ALA HIS PRO SEQRES 4 A 152 GLU THR LEU THR PRO PHE LYS SER LEU PHE GLY GLY LEU SEQRES 5 A 152 THR LEU ALA GLN LEU GLN ASP ASN PRO LYS MET LYS ALA SEQRES 6 A 152 GLN SER LEU VAL PHE CYS ASN GLY MET SER SER PHE VAL SEQRES 7 A 152 ASP HIS LEU ASP ASP ASN ASP MET LEU VAL VAL LEU ILE SEQRES 8 A 152 GLN LYS MET ALA LYS LEU HIS ASN ASN ARG GLY ILE ARG SEQRES 9 A 152 ALA SER ASP LEU ARG THR ALA TYR ASP ILE LEU ILE HIS SEQRES 10 A 152 TYR MET GLU ASP HIS ASN HIS MET VAL GLY GLY ALA LYS SEQRES 11 A 152 ASP ALA TRP GLU VAL PHE VAL GLY PHE ILE CYS LYS THR SEQRES 12 A 152 LEU GLY ASP TYR MET LYS GLU LEU SER SEQRES 1 B 152 ACE THR THR LEU THR ASN PRO GLN LYS ALA ALA ILE ARG SEQRES 2 B 152 SER SER TRP SER LYS PHE MET ASP ASN GLY VAL SER ASN SEQRES 3 B 152 GLY GLN GLY PHE TYR MET ASP LEU PHE LYS ALA HIS PRO SEQRES 4 B 152 GLU THR LEU THR PRO PHE LYS SER LEU PHE GLY GLY LEU SEQRES 5 B 152 THR LEU ALA GLN LEU GLN ASP ASN PRO LYS MET LYS ALA SEQRES 6 B 152 GLN SER LEU VAL PHE CYS ASN GLY MET SER SER PHE VAL SEQRES 7 B 152 ASP HIS LEU ASP ASP ASN ASP MET LEU VAL VAL LEU ILE SEQRES 8 B 152 GLN LYS MET ALA LYS LEU HIS ASN ASN ARG GLY ILE ARG SEQRES 9 B 152 ALA SER ASP LEU ARG THR ALA TYR ASP ILE LEU ILE HIS SEQRES 10 B 152 TYR MET GLU ASP HIS ASN HIS MET VAL GLY GLY ALA LYS SEQRES 11 B 152 ASP ALA TRP GLU VAL PHE VAL GLY PHE ILE CYS LYS THR SEQRES 12 B 152 LEU GLY ASP TYR MET LYS GLU LEU SER HET ACE A 0 3 HET ACE B 0 3 HET HEM A 500 43 HET HEM B 500 43 HETNAM ACE ACETYL GROUP HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 1 ACE 2(C2 H4 O) FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 5 HOH *6(H2 O) HELIX 1 1 THR A 4 MET A 19 1 16 HELIX 2 2 ASN A 21 HIS A 37 1 17 HELIX 3 3 PRO A 38 PRO A 43 5 6 HELIX 4 4 PHE A 44 GLY A 49 1 6 HELIX 5 5 THR A 52 GLN A 57 1 6 HELIX 6 6 ASN A 59 HIS A 79 1 21 HELIX 7 7 ASP A 82 ARG A 100 1 19 HELIX 8 8 ARG A 103 HIS A 121 1 19 HELIX 9 9 GLY A 127 LYS A 148 1 22 HELIX 10 10 THR B 4 GLY B 22 1 19 HELIX 11 11 GLY B 22 HIS B 37 1 16 HELIX 12 12 PRO B 38 LEU B 47 5 10 HELIX 13 13 ASN B 59 ASP B 78 1 20 HELIX 14 14 ASP B 82 ARG B 100 1 19 HELIX 15 15 ARG B 103 HIS B 121 1 19 HELIX 16 16 GLY B 127 MET B 147 1 21 LINK FE HEM B 500 O HOH B 501 1555 1555 1.95 LINK NE2 HIS A 97 FE HEM A 500 1555 1555 1.98 LINK NE2 HIS B 97 FE HEM B 500 1555 1555 2.16 LINK FE HEM A 500 O HOH A 501 1555 1555 2.25 LINK C ACE A 0 N THR A 1 1555 1555 1.34 LINK C ACE B 0 N THR B 1 1555 1555 1.35 SITE 1 AC1 17 THR A 40 PRO A 43 PHE A 44 LEU A 47 SITE 2 AC1 17 GLN A 65 VAL A 68 PHE A 69 LEU A 96 SITE 3 AC1 17 HIS A 97 ARG A 100 LEU A 107 ALA A 110 SITE 4 AC1 17 TYR A 111 HOH A 501 LYS B 92 LYS B 95 SITE 5 AC1 17 LEU B 96 SITE 1 AC2 17 LYS A 92 LYS A 95 LEU A 96 PRO B 43 SITE 2 AC2 17 LEU B 47 GLN B 65 VAL B 68 PHE B 69 SITE 3 AC2 17 MET B 93 LEU B 96 HIS B 97 ARG B 100 SITE 4 AC2 17 ILE B 102 LEU B 107 ALA B 110 TYR B 111 SITE 5 AC2 17 HOH B 501 CRYST1 72.237 72.237 146.288 90.00 90.00 90.00 P 42 21 2 16 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 0.013843 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013843 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006836 0.00000 HETATM 1 C ACE A 0 13.935 -10.560 -21.466 1.00 47.54 C HETATM 2 O ACE A 0 13.837 -11.779 -21.402 1.00 47.66 O HETATM 3 CH3 ACE A 0 15.204 -9.825 -21.091 1.00 47.57 C