HEADER METAL BINDING PROTEIN 06-APR-10 3AGT TITLE HEMERYTHRIN-LIKE DOMAIN OF DCRH (MET) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEMERYTHRIN-LIKE DOMAIN PROTEIN DCRH; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DESULFOVIBRIO VULGARIS; SOURCE 3 ORGANISM_TAXID: 881; SOURCE 4 STRAIN: HILDENBOROUGH; SOURCE 5 GENE: DCRH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-16B KEYWDS METAL BINDING PROTEIN, OXYGEN BINDING, DIIRON, FOUR-HELIX BUNDLE EXPDTA X-RAY DIFFRACTION AUTHOR A.ONODA,Y.OKAMOTO,H.SUGIMOTO,E.MIZOHATA,T.INOUE,Y.SHIRO,T.HAYASHI REVDAT 3 01-NOV-23 3AGT 1 REMARK LINK REVDAT 2 11-OCT-17 3AGT 1 REMARK REVDAT 1 06-APR-11 3AGT 0 JRNL AUTH A.ONODA,Y.OKAMOTO,H.SUGIMOTO,E.MIZOHATA,T.INOUE,Y.SHIRO, JRNL AUTH 2 T.HAYASHI JRNL TITL CHARACTERISTICS OF DIIRON SITE WITH LARGE CAVITY IN JRNL TITL 2 HEMERYTHRIN-LIKE DOMAIN OF DCRH JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.5.0072 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 51013 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.997 REMARK 3 FREE R VALUE TEST SET COUNT : 2549 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3140 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.2720 REMARK 3 BIN FREE R VALUE SET COUNT : 186 REMARK 3 BIN FREE R VALUE : 0.2950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2246 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 274 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.84 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 8.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.50800 REMARK 3 B22 (A**2) : 0.15400 REMARK 3 B33 (A**2) : 0.37200 REMARK 3 B12 (A**2) : 0.04500 REMARK 3 B13 (A**2) : 0.00100 REMARK 3 B23 (A**2) : 0.10000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.077 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.077 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2446 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3317 ; 1.475 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 297 ; 3.887 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 141 ;30.376 ;21.773 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 462 ;12.908 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;15.914 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 347 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1910 ; 0.010 ; 0.020 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): 1389 ; 0.781 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2254 ; 1.402 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1057 ; 2.383 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1046 ; 3.715 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 14 A 100 3 REMARK 3 1 B 14 B 100 3 REMARK 3 2 A 112 A 133 4 REMARK 3 2 B 112 B 133 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 341 ; 0.030 ; 0.050 REMARK 3 MEDIUM POSITIONAL 1 A (A): 191 ; 0.140 ; 0.500 REMARK 3 LOOSE POSITIONAL 1 A (A): 380 ; 0.440 ; 5.000 REMARK 3 TIGHT THERMAL 1 A (A**2): 341 ; 0.270 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 191 ; 0.570 ; 2.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 380 ; 0.620 ;10.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 15 A 134 REMARK 3 ORIGIN FOR THE GROUP (A): 22.6280 27.5580 14.2890 REMARK 3 T TENSOR REMARK 3 T11: 0.0427 T22: 0.0078 REMARK 3 T33: 0.0621 T12: 0.0068 REMARK 3 T13: -0.0114 T23: -0.0164 REMARK 3 L TENSOR REMARK 3 L11: 0.6577 L22: 1.1512 REMARK 3 L33: 0.2265 L12: -0.4988 REMARK 3 L13: -0.1608 L23: 0.0999 REMARK 3 S TENSOR REMARK 3 S11: 0.0109 S12: 0.0320 S13: -0.0376 REMARK 3 S21: -0.0578 S22: -0.0135 S23: 0.0605 REMARK 3 S31: 0.0202 S32: 0.0130 S33: 0.0026 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 15 B 134 REMARK 3 ORIGIN FOR THE GROUP (A): 5.9670 6.6590 31.8770 REMARK 3 T TENSOR REMARK 3 T11: 0.0474 T22: 0.0074 REMARK 3 T33: 0.0616 T12: -0.0051 REMARK 3 T13: -0.0041 T23: -0.0137 REMARK 3 L TENSOR REMARK 3 L11: 0.5712 L22: 1.4907 REMARK 3 L33: 0.2316 L12: 0.4507 REMARK 3 L13: 0.1753 L23: 0.1291 REMARK 3 S TENSOR REMARK 3 S11: -0.0015 S12: -0.0316 S13: 0.0288 REMARK 3 S21: 0.0976 S22: -0.0042 S23: 0.0370 REMARK 3 S31: -0.0179 S32: 0.0074 S33: 0.0057 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 3AGT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-APR-10. REMARK 100 THE DEPOSITION ID IS D_1000029235. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-09 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.84 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU JUPITER 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51015 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.8420 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.30000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2AWY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24 % (W/V) PEG 4000, 0.2M CACL2, 12 % REMARK 280 (V/V) ISOPROPANOL, 0.1M TRISHCL, PH 8.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 1 REMARK 465 ASP A 2 REMARK 465 ALA A 3 REMARK 465 GLY B 1 REMARK 465 ASP B 2 REMARK 465 ALA B 3 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 NH2 ARG B 25 O HOH B 190 2.06 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 142 O HOH B 183 1655 2.03 REMARK 500 O HOH A 149 O HOH B 239 1655 2.14 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 PHE B 60 CB - CG - CD2 ANGL. DEV. = -4.2 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 ASN A 15 -141.93 -148.89 REMARK 500 ASN B 15 -143.16 -147.71 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 CFO A 201 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 23 NE2 REMARK 620 2 CFO A 201 CL 88.2 REMARK 620 3 CFO A 201 O 173.7 86.8 REMARK 620 4 HIS A 59 NE2 82.2 93.8 94.4 REMARK 620 5 GLU A 63 OE2 96.5 171.8 88.0 80.2 REMARK 620 6 ASP A 123 OD2 84.8 102.6 99.9 158.7 84.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CFO A 201 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 63 OE1 REMARK 620 2 CFO A 201 O 92.0 REMARK 620 3 HIS A 78 NE2 88.5 173.2 REMARK 620 4 HIS A 82 NE2 89.3 90.2 83.0 REMARK 620 5 HIS A 118 NE2 175.6 90.7 89.2 94.2 REMARK 620 6 ASP A 123 OD1 88.5 105.3 81.5 164.4 87.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CFO B 201 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 23 NE2 REMARK 620 2 CFO B 201 CL 89.9 REMARK 620 3 CFO B 201 O 175.7 87.5 REMARK 620 4 HIS B 59 NE2 82.9 93.1 93.8 REMARK 620 5 GLU B 63 OE2 93.9 173.2 88.3 81.8 REMARK 620 6 ASP B 123 OD2 81.6 103.6 102.3 157.1 82.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CFO B 201 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 63 OE1 REMARK 620 2 CFO B 201 O 90.5 REMARK 620 3 HIS B 78 NE2 89.8 173.6 REMARK 620 4 HIS B 82 NE2 88.4 91.4 82.2 REMARK 620 5 HIS B 118 NE2 177.5 90.8 89.2 93.7 REMARK 620 6 ASP B 123 OD1 89.7 105.9 80.5 162.6 87.9 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 CFO A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CFO B 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3AGU RELATED DB: PDB DBREF 3AGT A 1 136 UNP Q9REU3 Q9REU3_DESVU 1 136 DBREF 3AGT B 1 136 UNP Q9REU3 Q9REU3_DESVU 1 136 SEQRES 1 A 136 GLY ASP ALA ASP VAL LEU VAL LYS TRP SER GLU ASP LEU SEQRES 2 A 136 ALA ASN LEU PRO SER ILE ASP THR GLN HIS LYS ARG LEU SEQRES 3 A 136 VAL ASP TYR ILE ASN ASP LEU TYR ARG ALA ALA ARG ARG SEQRES 4 A 136 ARG ASP MET ASP LYS ALA ARG GLU VAL PHE ASP ALA LEU SEQRES 5 A 136 LYS ASN TYR ALA VAL GLU HIS PHE GLY TYR GLU GLU ARG SEQRES 6 A 136 LEU PHE ALA ASP TYR ALA TYR PRO GLU ALA THR ARG HIS SEQRES 7 A 136 LYS GLU ILE HIS ARG ARG PHE VAL GLU THR VAL LEU LYS SEQRES 8 A 136 TRP GLU LYS GLN LEU ALA ALA GLY ASP PRO GLU VAL VAL SEQRES 9 A 136 MET THR THR LEU ARG GLY LEU VAL ASP TRP LEU VAL ASN SEQRES 10 A 136 HIS ILE MET LYS GLU ASP LYS LYS TYR GLU ALA TYR LEU SEQRES 11 A 136 ARG GLU ARG GLY VAL SER SEQRES 1 B 136 GLY ASP ALA ASP VAL LEU VAL LYS TRP SER GLU ASP LEU SEQRES 2 B 136 ALA ASN LEU PRO SER ILE ASP THR GLN HIS LYS ARG LEU SEQRES 3 B 136 VAL ASP TYR ILE ASN ASP LEU TYR ARG ALA ALA ARG ARG SEQRES 4 B 136 ARG ASP MET ASP LYS ALA ARG GLU VAL PHE ASP ALA LEU SEQRES 5 B 136 LYS ASN TYR ALA VAL GLU HIS PHE GLY TYR GLU GLU ARG SEQRES 6 B 136 LEU PHE ALA ASP TYR ALA TYR PRO GLU ALA THR ARG HIS SEQRES 7 B 136 LYS GLU ILE HIS ARG ARG PHE VAL GLU THR VAL LEU LYS SEQRES 8 B 136 TRP GLU LYS GLN LEU ALA ALA GLY ASP PRO GLU VAL VAL SEQRES 9 B 136 MET THR THR LEU ARG GLY LEU VAL ASP TRP LEU VAL ASN SEQRES 10 B 136 HIS ILE MET LYS GLU ASP LYS LYS TYR GLU ALA TYR LEU SEQRES 11 B 136 ARG GLU ARG GLY VAL SER HET CFO A 201 4 HET CFO B 201 4 HETNAM CFO CHLORO DIIRON-OXO MOIETY FORMUL 3 CFO 2(CL FE2 O) FORMUL 5 HOH *274(H2 O) HELIX 1 1 SER A 10 ALA A 14 5 5 HELIX 2 2 LEU A 16 ARG A 39 1 24 HELIX 3 3 ASP A 41 TYR A 70 1 30 HELIX 4 4 GLU A 74 ALA A 97 1 24 HELIX 5 5 ASP A 100 GLU A 122 1 23 HELIX 6 6 ASP A 123 LYS A 125 5 3 HELIX 7 7 TYR A 126 ARG A 133 1 8 HELIX 8 8 SER B 10 ALA B 14 5 5 HELIX 9 9 LEU B 16 ARG B 39 1 24 HELIX 10 10 ASP B 41 TYR B 70 1 30 HELIX 11 11 GLU B 74 LEU B 96 1 23 HELIX 12 12 ASP B 100 GLU B 122 1 23 HELIX 13 13 ASP B 123 LYS B 125 5 3 HELIX 14 14 TYR B 126 ARG B 133 1 8 LINK NE2 HIS A 23 FE2 CFO A 201 1555 1555 2.17 LINK NE2 HIS A 59 FE2 CFO A 201 1555 1555 2.20 LINK OE1 GLU A 63 FE1 CFO A 201 1555 1555 2.16 LINK OE2 GLU A 63 FE2 CFO A 201 1555 1555 2.51 LINK NE2 HIS A 78 FE1 CFO A 201 1555 1555 2.31 LINK NE2 HIS A 82 FE1 CFO A 201 1555 1555 2.22 LINK NE2 HIS A 118 FE1 CFO A 201 1555 1555 2.19 LINK OD2 ASP A 123 FE2 CFO A 201 1555 1555 2.05 LINK OD1 ASP A 123 FE1 CFO A 201 1555 1555 2.14 LINK NE2 HIS B 23 FE2 CFO B 201 1555 1555 2.21 LINK NE2 HIS B 59 FE2 CFO B 201 1555 1555 2.23 LINK OE1 GLU B 63 FE1 CFO B 201 1555 1555 2.14 LINK OE2 GLU B 63 FE2 CFO B 201 1555 1555 2.52 LINK NE2 HIS B 78 FE1 CFO B 201 1555 1555 2.33 LINK NE2 HIS B 82 FE1 CFO B 201 1555 1555 2.18 LINK NE2 HIS B 118 FE1 CFO B 201 1555 1555 2.18 LINK OD2 ASP B 123 FE2 CFO B 201 1555 1555 2.09 LINK OD1 ASP B 123 FE1 CFO B 201 1555 1555 2.14 SITE 1 AC1 10 HIS A 23 HIS A 59 PHE A 60 GLU A 63 SITE 2 AC1 10 HIS A 78 HIS A 82 LEU A 115 HIS A 118 SITE 3 AC1 10 ILE A 119 ASP A 123 SITE 1 AC2 9 HIS B 23 HIS B 59 PHE B 60 GLU B 63 SITE 2 AC2 9 HIS B 78 HIS B 82 LEU B 115 HIS B 118 SITE 3 AC2 9 ASP B 123 CRYST1 33.311 44.873 48.127 95.27 104.20 90.03 P 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 0.030020 0.000016 0.007633 0.00000 SCALE2 0.000000 0.022285 0.002124 0.00000 SCALE3 0.000000 0.000000 0.021531 0.00000