HEADER OXIDOREDUCTASE 17-DEC-14 4XBV TITLE R2-LIKE LIGAND-BINDING OXIDASE WITH ANAEROBICALLY RECONSTITUTED DIIRON TITLE 2 COFACTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONULEOTIDE REDUCTASE SMALL SUBUNIT; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: R2-LIKE LIGAND-BINDING OXIDASE; COMPND 5 EC: 1.17.4.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS KAUSTOPHILUS (STRAIN HTA426); SOURCE 3 ORGANISM_TAXID: 235909; SOURCE 4 GENE: GK2771; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-46 EK/LIC KEYWDS R2-LIKE LIGAND-BINDING OXIDASE, DIIRON COFACTOR, RIBONUCLEOTIDE KEYWDS 2 REDUCTASE R2 SUBUNIT FOLD, METALLOPROTEIN, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.J.GRIESE,M.HOGBOM REVDAT 3 10-JAN-24 4XBV 1 LINK REVDAT 2 28-OCT-15 4XBV 1 JRNL REVDAT 1 09-SEP-15 4XBV 0 JRNL AUTH J.J.GRIESE,R.KOSITZKI,P.SCHRAPERS,R.M.BRANCA,A.NORDSTROM, JRNL AUTH 2 J.LEHTIO,M.HAUMANN,M.HOGBOM JRNL TITL STRUCTURAL BASIS FOR OXYGEN ACTIVATION AT A HETERODINUCLEAR JRNL TITL 2 MANGANESE/IRON COFACTOR. JRNL REF J.BIOL.CHEM. V. 290 25254 2015 JRNL REFN ESSN 1083-351X JRNL PMID 26324712 JRNL DOI 10.1074/JBC.M115.675223 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: DEV_1606) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.62 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 66349 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3316 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 48.6402 - 5.1860 0.99 2821 148 0.1914 0.2172 REMARK 3 2 5.1860 - 4.1169 1.00 2721 143 0.1488 0.2026 REMARK 3 3 4.1169 - 3.5967 1.00 2681 141 0.1534 0.2117 REMARK 3 4 3.5967 - 3.2679 1.00 2670 141 0.1729 0.2056 REMARK 3 5 3.2679 - 3.0338 1.00 2662 140 0.1875 0.2199 REMARK 3 6 3.0338 - 2.8549 1.00 2640 139 0.1771 0.2273 REMARK 3 7 2.8549 - 2.7119 1.00 2636 138 0.1718 0.1880 REMARK 3 8 2.7119 - 2.5939 1.00 2637 139 0.1779 0.2187 REMARK 3 9 2.5939 - 2.4941 1.00 2631 139 0.1664 0.2269 REMARK 3 10 2.4941 - 2.4080 1.00 2612 137 0.1731 0.1978 REMARK 3 11 2.4080 - 2.3327 1.00 2618 138 0.1716 0.2193 REMARK 3 12 2.3327 - 2.2660 1.00 2627 138 0.1727 0.2067 REMARK 3 13 2.2660 - 2.2064 1.00 2628 139 0.1793 0.2540 REMARK 3 14 2.2064 - 2.1525 1.00 2590 136 0.1889 0.2149 REMARK 3 15 2.1525 - 2.1036 1.00 2632 138 0.2199 0.2596 REMARK 3 16 2.1036 - 2.0588 1.00 2592 137 0.2319 0.2532 REMARK 3 17 2.0588 - 2.0176 1.00 2607 137 0.2378 0.2714 REMARK 3 18 2.0176 - 1.9796 1.00 2606 137 0.2742 0.3148 REMARK 3 19 1.9796 - 1.9442 1.00 2579 136 0.2914 0.3238 REMARK 3 20 1.9442 - 1.9113 1.00 2621 138 0.3108 0.3471 REMARK 3 21 1.9113 - 1.8804 1.00 2584 136 0.3271 0.3438 REMARK 3 22 1.8804 - 1.8515 1.00 2596 137 0.3478 0.3459 REMARK 3 23 1.8515 - 1.8243 1.00 2619 138 0.3688 0.4123 REMARK 3 24 1.8243 - 1.7986 0.94 2423 126 0.3680 0.4233 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.930 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.08 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.018 4907 REMARK 3 ANGLE : 1.286 6577 REMARK 3 CHIRALITY : 0.055 687 REMARK 3 PLANARITY : 0.007 847 REMARK 3 DIHEDRAL : 14.706 1815 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4XBV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-DEC-14. REMARK 100 THE DEPOSITION ID IS D_1000205387. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-OCT-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000020 REMARK 200 MONOCHROMATOR : SI(111) MONOCHROMATOR AND RH REMARK 200 MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66383 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.799 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.3500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.91 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : 0.95600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.750 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4HR4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 27.5% (W/V) PEG 1500, 0.1 M HEPES-NA, REMARK 280 PH7.4, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K 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 64.29200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.03850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 64.29200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.03850 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -92.0 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 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 MET A -13 REMARK 465 ALA A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 VAL A -5 REMARK 465 ASP A -4 REMARK 465 ASP A -3 REMARK 465 ASP A -2 REMARK 465 ASP A -1 REMARK 465 LYS A 0 REMARK 465 MET A 1 REMARK 465 LYS A 287 REMARK 465 ARG A 288 REMARK 465 VAL A 289 REMARK 465 ASP A 290 REMARK 465 VAL A 291 REMARK 465 VAL A 292 REMARK 465 GLU A 293 REMARK 465 GLY A 294 REMARK 465 LEU A 295 REMARK 465 GLU A 296 REMARK 465 LYS A 297 REMARK 465 THR A 298 REMARK 465 ALA A 299 REMARK 465 ALA A 300 REMARK 465 GLU A 301 REMARK 465 SER A 302 REMARK 465 MET B -13 REMARK 465 ALA B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 HIS B -6 REMARK 465 VAL B -5 REMARK 465 ASP B -4 REMARK 465 ASP B -3 REMARK 465 ASP B -2 REMARK 465 ASP B -1 REMARK 465 LYS B 0 REMARK 465 MET B 1 REMARK 465 ARG B 288 REMARK 465 VAL B 289 REMARK 465 ASP B 290 REMARK 465 VAL B 291 REMARK 465 VAL B 292 REMARK 465 GLU B 293 REMARK 465 GLY B 294 REMARK 465 LEU B 295 REMARK 465 GLU B 296 REMARK 465 LYS B 297 REMARK 465 THR B 298 REMARK 465 ALA B 299 REMARK 465 ALA B 300 REMARK 465 GLU B 301 REMARK 465 SER B 302 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 O2 PLM A 404 O HOH A 546 2.02 REMARK 500 OE2 GLU A 167 O1 PLM A 404 2.02 REMARK 500 OE2 GLU A 225 NH2 ARG A 285 2.09 REMARK 500 OE2 GLU B 167 O2 PLM B 404 2.15 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 ARG A 88 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 88 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 LEU A 278 CA - CB - CG ANGL. DEV. = 14.9 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 12 -130.78 -152.32 REMARK 500 GLU A 137 -68.26 -126.85 REMARK 500 ILE A 165 -62.57 -93.03 REMARK 500 ASP A 220 111.39 -163.37 REMARK 500 GLU A 262 78.14 -104.94 REMARK 500 ILE A 263 101.20 -55.74 REMARK 500 ALA B 12 -125.75 -153.03 REMARK 500 GLU B 137 -69.04 -124.45 REMARK 500 ASP B 220 105.47 -161.93 REMARK 500 ILE B 263 93.29 -64.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 607 DISTANCE = 6.11 ANGSTROMS 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 FE2 A 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 69 OE1 REMARK 620 2 GLU A 102 OE1 94.9 REMARK 620 3 HIS A 105 ND1 97.7 98.9 REMARK 620 4 GLU A 202 OE2 167.0 94.3 90.0 REMARK 620 5 PLM A 404 O2 75.3 91.7 167.9 95.1 REMARK 620 6 HOH A 546 O 90.3 154.8 104.8 77.5 65.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 A 402 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 102 OE2 REMARK 620 2 GLU A 167 OE2 100.8 REMARK 620 3 GLU A 202 OE1 160.4 92.6 REMARK 620 4 GLU A 202 OE2 102.3 145.1 59.6 REMARK 620 5 HIS A 205 ND1 95.0 114.4 92.4 89.2 REMARK 620 6 PLM A 404 O1 90.2 64.5 82.6 89.6 174.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 A 403 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 130 NE2 REMARK 620 2 HOH A 582 O 86.2 REMARK 620 3 HOH A 594 O 87.3 72.9 REMARK 620 4 HOH A 595 O 94.7 171.1 98.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 B 402 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 69 OE1 REMARK 620 2 GLU B 102 OE1 94.8 REMARK 620 3 HIS B 105 ND1 97.6 92.6 REMARK 620 4 GLU B 202 OE2 169.1 93.1 89.6 REMARK 620 5 PLM B 404 O1 80.0 94.6 172.5 91.9 REMARK 620 6 HOH B 599 O 86.9 162.8 104.1 83.4 68.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 B 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 102 OE2 REMARK 620 2 GLU B 167 OE2 105.4 REMARK 620 3 GLU B 202 OE1 160.5 93.0 REMARK 620 4 GLU B 202 OE2 101.6 147.6 58.9 REMARK 620 5 HIS B 205 ND1 89.9 105.6 91.4 92.0 REMARK 620 6 PLM B 404 O2 94.4 67.1 86.7 93.4 172.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 B 403 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 130 NE2 REMARK 620 2 HOH B 578 O 87.6 REMARK 620 3 HOH B 581 O 83.5 66.0 REMARK 620 4 HOH B 592 O 86.6 148.2 82.2 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE2 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE2 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE2 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PLM A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE2 B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE2 B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE2 B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PLM B 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4HR0 RELATED DB: PDB REMARK 900 4HR0 CONTAINS THE SAME PROTEIN WITH AEROBICALLY RECONSTITUTED MN/FE REMARK 900 COFACTOR. REMARK 900 RELATED ID: 4HR4 RELATED DB: PDB REMARK 900 4HR4 CONTAINS THE SAME PROTEIN WITH ANAEROBICALLY RECONSTITUTED MN/ REMARK 900 FE COFACTOR. REMARK 900 RELATED ID: 4HR5 RELATED DB: PDB REMARK 900 4HR5 CONTAINS THE SAME PROTEIN WITHOUT METAL COFACTOR. REMARK 900 RELATED ID: 4XB9 RELATED DB: PDB REMARK 900 4XB9 CONTAINS THE SAME PROTEIN WITH AEROBICALLY RECONSTITUTED REMARK 900 DIIRON COFACTOR. REMARK 900 RELATED ID: 4XBW RELATED DB: PDB REMARK 900 4XBW CONTAINS THE SAME PROTEIN WITH AEROBICALLY RECONSTITUTED REMARK 900 DIMANGANESE COFACTOR DBREF 4XBV A 1 302 UNP Q5KW80 Q5KW80_GEOKA 1 302 DBREF 4XBV B 1 302 UNP Q5KW80 Q5KW80_GEOKA 1 302 SEQADV 4XBV MET A -13 UNP Q5KW80 INITIATING METHIONINE SEQADV 4XBV ALA A -12 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS A -11 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS A -10 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS A -9 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS A -8 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS A -7 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS A -6 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV VAL A -5 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV ASP A -4 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV ASP A -3 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV ASP A -2 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV ASP A -1 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV LYS A 0 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV MET B -13 UNP Q5KW80 INITIATING METHIONINE SEQADV 4XBV ALA B -12 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS B -11 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS B -10 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS B -9 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS B -8 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS B -7 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV HIS B -6 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV VAL B -5 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV ASP B -4 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV ASP B -3 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV ASP B -2 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV ASP B -1 UNP Q5KW80 EXPRESSION TAG SEQADV 4XBV LYS B 0 UNP Q5KW80 EXPRESSION TAG SEQRES 1 A 316 MET ALA HIS HIS HIS HIS HIS HIS VAL ASP ASP ASP ASP SEQRES 2 A 316 LYS MET VAL HIS HIS ASP GLY PHE GLN THR VAL LYS ALA SEQRES 3 A 316 THR ILE ASP TRP GLU HIS PRO MET PHE LYS LEU TYR GLU SEQRES 4 A 316 LYS ALA LYS ARG ASN GLY LYS TRP ASN PRO ALA ASP ILE SEQRES 5 A 316 ASP PHE SER GLN ASP GLN LYS ASP PHE ALA SER LEU THR SEQRES 6 A 316 SER GLU GLU LYS ILE SER ALA LEU PRO LEU VAL ALA GLY SEQRES 7 A 316 PHE SER ALA GLY GLU GLU ALA VAL THR LEU ASP ILE LEU SEQRES 8 A 316 PRO MET ALA HIS ALA LEU ALA ARG GLN GLY ARG LEU GLU SEQRES 9 A 316 ASP VAL LEU PHE LEU THR THR PHE MET HIS ASP GLU ALA SEQRES 10 A 316 LYS HIS VAL GLU MET PHE SER ARG TRP GLN GLN ALA VAL SEQRES 11 A 316 GLY ILE GLY GLN MET ASP LEU SER VAL PHE HIS ASN ASP SEQRES 12 A 316 HIS TYR LYS ARG ILE PHE TYR GLU ALA LEU PRO GLU ALA SEQRES 13 A 316 MET ASN ARG LEU TYR ALA ASP ASP SER PRO GLU ALA VAL SEQRES 14 A 316 ILE ARG ALA ALA THR VAL TYR ASN MET ILE VAL GLU GLY SEQRES 15 A 316 THR LEU ALA GLU SER GLY TYR TYR THR PHE ARG GLN ILE SEQRES 16 A 316 TYR LYS LYS ALA GLY LEU PHE PRO GLY LEU LEU GLN GLY SEQRES 17 A 316 ILE ASP TYR LEU ASN MET ASP GLU GLY ARG HIS ILE GLN SEQRES 18 A 316 PHE GLY ILE TYR THR ILE GLN ARG ILE VAL ASN GLU ASP SEQRES 19 A 316 GLU ARG TYR TYR GLU LEU PHE ILE ARG TYR MET ASP GLU SEQRES 20 A 316 LEU TRP PRO HIS VAL ILE GLY TYR VAL ASP TYR LEU THR SEQRES 21 A 316 GLU LEU GLY LYS ARG GLN GLN GLN LEU ALA ARG THR TYR SEQRES 22 A 316 ALA LEU GLU ILE ASP TYR ASP LEU LEU ARG HIS TYR VAL SEQRES 23 A 316 ILE LYS GLN PHE ASN LEU ARG LYS LYS GLN ILE SER ARG SEQRES 24 A 316 THR LYS ARG VAL ASP VAL VAL GLU GLY LEU GLU LYS THR SEQRES 25 A 316 ALA ALA GLU SER SEQRES 1 B 316 MET ALA HIS HIS HIS HIS HIS HIS VAL ASP ASP ASP ASP SEQRES 2 B 316 LYS MET VAL HIS HIS ASP GLY PHE GLN THR VAL LYS ALA SEQRES 3 B 316 THR ILE ASP TRP GLU HIS PRO MET PHE LYS LEU TYR GLU SEQRES 4 B 316 LYS ALA LYS ARG ASN GLY LYS TRP ASN PRO ALA ASP ILE SEQRES 5 B 316 ASP PHE SER GLN ASP GLN LYS ASP PHE ALA SER LEU THR SEQRES 6 B 316 SER GLU GLU LYS ILE SER ALA LEU PRO LEU VAL ALA GLY SEQRES 7 B 316 PHE SER ALA GLY GLU GLU ALA VAL THR LEU ASP ILE LEU SEQRES 8 B 316 PRO MET ALA HIS ALA LEU ALA ARG GLN GLY ARG LEU GLU SEQRES 9 B 316 ASP VAL LEU PHE LEU THR THR PHE MET HIS ASP GLU ALA SEQRES 10 B 316 LYS HIS VAL GLU MET PHE SER ARG TRP GLN GLN ALA VAL SEQRES 11 B 316 GLY ILE GLY GLN MET ASP LEU SER VAL PHE HIS ASN ASP SEQRES 12 B 316 HIS TYR LYS ARG ILE PHE TYR GLU ALA LEU PRO GLU ALA SEQRES 13 B 316 MET ASN ARG LEU TYR ALA ASP ASP SER PRO GLU ALA VAL SEQRES 14 B 316 ILE ARG ALA ALA THR VAL TYR ASN MET ILE VAL GLU GLY SEQRES 15 B 316 THR LEU ALA GLU SER GLY TYR TYR THR PHE ARG GLN ILE SEQRES 16 B 316 TYR LYS LYS ALA GLY LEU PHE PRO GLY LEU LEU GLN GLY SEQRES 17 B 316 ILE ASP TYR LEU ASN MET ASP GLU GLY ARG HIS ILE GLN SEQRES 18 B 316 PHE GLY ILE TYR THR ILE GLN ARG ILE VAL ASN GLU ASP SEQRES 19 B 316 GLU ARG TYR TYR GLU LEU PHE ILE ARG TYR MET ASP GLU SEQRES 20 B 316 LEU TRP PRO HIS VAL ILE GLY TYR VAL ASP TYR LEU THR SEQRES 21 B 316 GLU LEU GLY LYS ARG GLN GLN GLN LEU ALA ARG THR TYR SEQRES 22 B 316 ALA LEU GLU ILE ASP TYR ASP LEU LEU ARG HIS TYR VAL SEQRES 23 B 316 ILE LYS GLN PHE ASN LEU ARG LYS LYS GLN ILE SER ARG SEQRES 24 B 316 THR LYS ARG VAL ASP VAL VAL GLU GLY LEU GLU LYS THR SEQRES 25 B 316 ALA ALA GLU SER HET FE2 A 401 1 HET FE2 A 402 1 HET FE2 A 403 1 HET PLM A 404 49 HET FE2 B 401 1 HET FE2 B 402 1 HET FE2 B 403 1 HET PLM B 404 49 HETNAM FE2 FE (II) ION HETNAM PLM PALMITIC ACID FORMUL 3 FE2 6(FE 2+) FORMUL 6 PLM 2(C16 H32 O2) FORMUL 11 HOH *218(H2 O) HELIX 1 AA1 PHE A 7 ALA A 12 1 6 HELIX 2 AA2 HIS A 18 GLY A 31 1 14 HELIX 3 AA3 ASN A 34 ILE A 38 5 5 HELIX 4 AA4 PHE A 40 LEU A 50 1 11 HELIX 5 AA5 THR A 51 ILE A 76 1 26 HELIX 6 AA6 ILE A 76 GLN A 86 1 11 HELIX 7 AA7 ARG A 88 GLY A 117 1 30 HELIX 8 AA8 ASP A 122 HIS A 127 5 6 HELIX 9 AA9 ASN A 128 TYR A 136 1 9 HELIX 10 AB1 GLU A 137 ARG A 145 1 9 HELIX 11 AB2 LEU A 146 ALA A 148 5 3 HELIX 12 AB3 SER A 151 MET A 164 1 14 HELIX 13 AB4 THR A 169 LYS A 183 1 15 HELIX 14 AB5 PHE A 188 ASN A 218 1 31 HELIX 15 AB6 GLU A 221 GLN A 252 1 32 HELIX 16 AB7 GLN A 253 TYR A 259 1 7 HELIX 17 AB8 ASP A 264 GLN A 282 1 19 HELIX 18 AB9 PHE B 7 ALA B 12 1 6 HELIX 19 AC1 HIS B 18 GLY B 31 1 14 HELIX 20 AC2 ASN B 34 ILE B 38 5 5 HELIX 21 AC3 PHE B 40 LEU B 50 1 11 HELIX 22 AC4 THR B 51 ILE B 76 1 26 HELIX 23 AC5 ILE B 76 GLN B 86 1 11 HELIX 24 AC6 ARG B 88 VAL B 116 1 29 HELIX 25 AC7 ASP B 122 HIS B 127 5 6 HELIX 26 AC8 ASN B 128 TYR B 136 1 9 HELIX 27 AC9 GLU B 137 ARG B 145 1 9 HELIX 28 AD1 LEU B 146 ALA B 148 5 3 HELIX 29 AD2 SER B 151 ASN B 163 1 13 HELIX 30 AD3 THR B 169 GLY B 186 1 18 HELIX 31 AD4 PHE B 188 ASN B 218 1 31 HELIX 32 AD5 GLU B 221 ARG B 251 1 31 HELIX 33 AD6 GLN B 253 TYR B 259 1 7 HELIX 34 AD7 ASP B 264 GLN B 282 1 19 LINK OE1 GLU A 69 FE FE2 A 401 1555 1555 2.11 LINK OE1 GLU A 102 FE FE2 A 401 1555 1555 1.95 LINK OE2 GLU A 102 FE FE2 A 402 1555 1555 2.00 LINK ND1 HIS A 105 FE FE2 A 401 1555 1555 2.08 LINK NE2 HIS A 130 FE FE2 A 403 1555 1555 2.19 LINK OE2 GLU A 167 FE FE2 A 402 1555 1555 1.88 LINK OE2 GLU A 202 FE FE2 A 401 1555 1555 2.32 LINK OE1 GLU A 202 FE FE2 A 402 1555 1555 2.15 LINK OE2 GLU A 202 FE FE2 A 402 1555 1555 2.30 LINK ND1 HIS A 205 FE FE2 A 402 1555 1555 2.01 LINK FE FE2 A 401 O2 PLM A 404 1555 1555 1.79 LINK FE FE2 A 401 O HOH A 546 1555 1555 1.92 LINK FE FE2 A 402 O1 PLM A 404 1555 1555 1.91 LINK FE FE2 A 403 O HOH A 582 1555 1555 2.15 LINK FE FE2 A 403 O HOH A 594 1555 1555 2.13 LINK FE FE2 A 403 O HOH A 595 1555 1555 2.07 LINK OE1 GLU B 69 FE FE2 B 402 1555 1555 2.09 LINK OE2 GLU B 102 FE FE2 B 401 1555 1555 2.03 LINK OE1 GLU B 102 FE FE2 B 402 1555 1555 2.02 LINK ND1 HIS B 105 FE FE2 B 402 1555 1555 2.09 LINK NE2 HIS B 130 FE FE2 B 403 1555 1555 2.26 LINK OE2 GLU B 167 FE FE2 B 401 1555 1555 1.96 LINK OE1 GLU B 202 FE FE2 B 401 1555 1555 2.21 LINK OE2 GLU B 202 FE FE2 B 401 1555 1555 2.35 LINK OE2 GLU B 202 FE FE2 B 402 1555 1555 2.27 LINK ND1 HIS B 205 FE FE2 B 401 1555 1555 1.94 LINK FE FE2 B 401 O2 PLM B 404 1555 1555 1.94 LINK FE FE2 B 402 O1 PLM B 404 1555 1555 1.77 LINK FE FE2 B 402 O HOH B 599 1555 1555 2.27 LINK FE FE2 B 403 O HOH B 578 1555 1555 2.12 LINK FE FE2 B 403 O HOH B 581 1555 1555 1.92 LINK FE FE2 B 403 O HOH B 592 1555 1555 2.18 SITE 1 AC1 7 GLU A 69 GLU A 102 HIS A 105 GLU A 202 SITE 2 AC1 7 FE2 A 402 PLM A 404 HOH A 546 SITE 1 AC2 6 GLU A 102 GLU A 167 GLU A 202 HIS A 205 SITE 2 AC2 6 FE2 A 401 PLM A 404 SITE 1 AC3 4 HIS A 130 HOH A 582 HOH A 594 HOH A 595 SITE 1 AC4 13 GLY A 64 GLU A 69 VAL A 72 GLU A 102 SITE 2 AC4 13 PHE A 135 GLU A 167 LEU A 170 THR A 177 SITE 3 AC4 13 GLU A 202 TYR A 241 FE2 A 401 FE2 A 402 SITE 4 AC4 13 HOH A 546 SITE 1 AC5 6 GLU B 102 GLU B 167 GLU B 202 HIS B 205 SITE 2 AC5 6 FE2 B 402 PLM B 404 SITE 1 AC6 7 GLU B 69 GLU B 102 HIS B 105 GLU B 202 SITE 2 AC6 7 FE2 B 401 PLM B 404 HOH B 599 SITE 1 AC7 4 HIS B 130 HOH B 578 HOH B 581 HOH B 592 SITE 1 AC8 14 GLY B 64 PHE B 65 GLU B 69 GLU B 102 SITE 2 AC8 14 PHE B 135 VAL B 166 GLU B 167 LEU B 170 SITE 3 AC8 14 ALA B 171 THR B 177 GLU B 202 FE2 B 401 SITE 4 AC8 14 FE2 B 402 HOH B 599 CRYST1 128.584 98.077 55.987 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 0.007777 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010196 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017861 0.00000