HEADER OXIDOREDUCTASE 29-MAR-13 4JY8 TITLE X-RAY SNAPSHOTS OF POSSIBLE INTERMEDIATES IN THE TIME COURSE OF TITLE 2 SYNTHESIS AND DEGRADATION OF PROTEIN-BOUND FE4S4 CLUSTERS COMPND MOL_ID: 1; COMPND 2 MOLECULE: FEFE-HYDROGENASE MATURASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RADICAL SAM DOMAIN PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 243274; SOURCE 4 STRAIN: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099; SOURCE 5 GENE: THEMADRAFT_0043, TM1269, TM_1269; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS RADICAL SAM PROTEIN, FEFE-HYDROGENASE ACTIVE SITE ASSEMBLY, FE4S4 KEYWDS 2 CLUSTER, S-ADENOSYL-L-METHIONINE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.NICOLET,R.ROHAC,L.MARTIN,J.C.FONTECILLA-CAMPS REVDAT 2 15-MAY-13 4JY8 1 JRNL REVDAT 1 01-MAY-13 4JY8 0 JRNL AUTH Y.NICOLET,R.ROHAC,L.MARTIN,J.C.FONTECILLA-CAMPS JRNL TITL X-RAY SNAPSHOTS OF POSSIBLE INTERMEDIATES IN THE TIME COURSE JRNL TITL 2 OF SYNTHESIS AND DEGRADATION OF PROTEIN-BOUND FE4S4 JRNL TITL 3 CLUSTERS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 7188 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 23596207 JRNL DOI 10.1073/PNAS.1302388110 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8_1069) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.24 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.640 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 18306 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.950 REMARK 3 FREE R VALUE TEST SET COUNT : 518 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 43.2405 - 5.2679 1.00 2910 147 0.1609 0.2095 REMARK 3 2 5.2679 - 4.1824 1.00 2898 157 0.1460 0.2099 REMARK 3 3 4.1824 - 3.6540 1.00 2897 152 0.1822 0.2459 REMARK 3 4 3.6540 - 3.3201 1.00 2895 145 0.2158 0.3186 REMARK 3 5 3.3201 - 3.0822 1.00 2917 153 0.2506 0.3082 REMARK 3 6 3.0822 - 2.9005 0.99 2882 153 0.2530 0.3309 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) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.390 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.014 2785 REMARK 3 ANGLE : 1.921 3802 REMARK 3 CHIRALITY : 0.118 433 REMARK 3 PLANARITY : 0.012 486 REMARK 3 DIHEDRAL : 15.309 1051 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: chain 'A' and (resid 2 through 70 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.3213 -38.6015 15.9389 REMARK 3 T TENSOR REMARK 3 T11: 0.4122 T22: 1.5576 REMARK 3 T33: 0.8773 T12: 0.1926 REMARK 3 T13: 0.0808 T23: -0.1601 REMARK 3 L TENSOR REMARK 3 L11: 1.0928 L22: 1.1577 REMARK 3 L33: 1.0389 L12: 0.5850 REMARK 3 L13: -0.1610 L23: -0.1947 REMARK 3 S TENSOR REMARK 3 S11: -0.5871 S12: -0.5138 S13: -0.3982 REMARK 3 S21: 0.1453 S22: 0.5308 S23: -0.2097 REMARK 3 S31: 0.1878 S32: 0.0528 S33: 0.0359 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: chain 'A' and (resid 71 through 129 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.8228 -23.7205 -4.0660 REMARK 3 T TENSOR REMARK 3 T11: 0.4897 T22: 1.3457 REMARK 3 T33: 0.7055 T12: -0.2003 REMARK 3 T13: -0.0408 T23: -0.1748 REMARK 3 L TENSOR REMARK 3 L11: 2.0224 L22: 2.1102 REMARK 3 L33: 1.2880 L12: -0.7334 REMARK 3 L13: 0.8555 L23: -0.2824 REMARK 3 S TENSOR REMARK 3 S11: -0.6100 S12: 0.2972 S13: 0.5646 REMARK 3 S21: -0.2446 S22: 0.5784 S23: 0.1698 REMARK 3 S31: -0.0496 S32: -0.1475 S33: 0.0250 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: chain 'A' and (resid 130 through 164 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.7228 -36.3031 -3.9890 REMARK 3 T TENSOR REMARK 3 T11: 0.4784 T22: 1.4869 REMARK 3 T33: 0.6104 T12: -0.2262 REMARK 3 T13: -0.0081 T23: -0.2487 REMARK 3 L TENSOR REMARK 3 L11: 4.3598 L22: 2.9629 REMARK 3 L33: 0.0463 L12: 1.2503 REMARK 3 L13: 0.1364 L23: -0.2908 REMARK 3 S TENSOR REMARK 3 S11: -0.4363 S12: 0.5334 S13: -0.0341 REMARK 3 S21: -0.4025 S22: 0.7115 S23: 0.1535 REMARK 3 S31: 0.3620 S32: 0.0342 S33: -0.0453 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: chain 'A' and (resid 165 through 268 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.5476 -40.1350 11.6106 REMARK 3 T TENSOR REMARK 3 T11: 0.4298 T22: 1.3661 REMARK 3 T33: 0.7006 T12: 0.0627 REMARK 3 T13: 0.0440 T23: -0.2574 REMARK 3 L TENSOR REMARK 3 L11: 1.6618 L22: 2.0787 REMARK 3 L33: 0.9512 L12: 0.5906 REMARK 3 L13: 0.3475 L23: -0.6026 REMARK 3 S TENSOR REMARK 3 S11: -0.3329 S12: -0.2016 S13: -0.2692 REMARK 3 S21: 0.0360 S22: 0.3635 S23: 0.3339 REMARK 3 S31: 0.1155 S32: -0.2113 S33: -0.0899 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: chain 'A' and (resid 269 through 347 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.5681 -22.2046 9.7716 REMARK 3 T TENSOR REMARK 3 T11: 0.4772 T22: 1.2267 REMARK 3 T33: 0.8753 T12: 0.0663 REMARK 3 T13: -0.1458 T23: -0.3554 REMARK 3 L TENSOR REMARK 3 L11: 0.1669 L22: 1.9568 REMARK 3 L33: 2.4447 L12: 0.0776 REMARK 3 L13: -0.1779 L23: -1.1191 REMARK 3 S TENSOR REMARK 3 S11: -0.2618 S12: -0.1818 S13: 0.0092 REMARK 3 S21: 0.1617 S22: 0.2123 S23: 0.1537 REMARK 3 S31: -0.3751 S32: 0.1044 S33: -0.0138 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 4JY8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-APR-13. REMARK 100 THE RCSB ID CODE IS RCSB078654. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-FEB-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18389 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.890 REMARK 200 RESOLUTION RANGE LOW (A) : 60.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.03100 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) : 2.89 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.57100 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K, PH 8 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 144.89333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 72.44667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 108.67000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 36.22333 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 181.11667 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 144.89333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 72.44667 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 36.22333 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 108.67000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 181.11667 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -177.0 KCAL/MOL 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 BIOMT1 2 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 36.22333 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 -9 REMARK 465 TRP A -8 REMARK 465 SER A -7 REMARK 465 HIS A -6 REMARK 465 PRO A -5 REMARK 465 GLN A -4 REMARK 465 PHE A -3 REMARK 465 GLU A -2 REMARK 465 LYS A -1 REMARK 465 ALA A 0 REMARK 465 SER A 1 REMARK 465 VAL A 348 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 ARG A 4 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 5 CG CD OE1 OE2 REMARK 470 LYS A 9 CE NZ REMARK 470 GLU A 14 CG CD OE1 OE2 REMARK 470 ASN A 27 CG OD1 ND2 REMARK 470 ARG A 29 CZ NH1 NH2 REMARK 470 GLU A 33 CG CD OE1 OE2 REMARK 470 LYS A 37 CD CE NZ REMARK 470 GLU A 41 CG CD OE1 OE2 REMARK 470 ARG A 44 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 77 CG CD CE NZ REMARK 470 LYS A 80 CD CE NZ REMARK 470 GLN A 98 CG CD OE1 NE2 REMARK 470 LYS A 124 CG CD CE NZ REMARK 470 LYS A 128 CE NZ REMARK 470 GLU A 143 CG CD OE1 OE2 REMARK 470 LYS A 147 CE NZ REMARK 470 LYS A 170 CG CD CE NZ REMARK 470 GLU A 178 CG CD OE1 OE2 REMARK 470 LYS A 242 CE NZ REMARK 470 LYS A 243 CD CE NZ REMARK 470 ARG A 284 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 309 CG CD CE NZ REMARK 470 LYS A 315 CD CE NZ REMARK 470 LYS A 333 CD CE NZ REMARK 470 LYS A 342 CE NZ 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 A 13 O ILE A 258 2.18 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 LEU A 305 CA - CB - CG ANGL. DEV. = 15.0 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 78 39.08 -92.62 REMARK 500 GLU A 161 -56.57 72.89 REMARK 500 THR A 175 -155.51 -151.24 REMARK 500 ALA A 196 -156.78 -118.26 REMARK 500 ASP A 235 33.92 -98.72 REMARK 500 ARG A 343 92.72 -67.62 REMARK 500 VAL A 344 -149.26 -112.02 REMARK 500 PHE A 345 -29.61 67.78 REMARK 500 GLU A 346 -155.66 -133.42 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 501 DISTANCE = 5.85 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 SF4 A 402 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 311 SG REMARK 620 2 SF4 A 402 S1 111.7 REMARK 620 3 SF4 A 402 S2 104.3 103.3 REMARK 620 4 SF4 A 402 S4 121.8 110.0 103.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 401 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 63 SG REMARK 620 2 SF4 A 401 S1 108.3 REMARK 620 3 SF4 A 401 S2 118.0 106.0 REMARK 620 4 SF4 A 401 S4 111.4 105.0 107.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 401 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 70 SG REMARK 620 2 SF4 A 401 S1 108.5 REMARK 620 3 SF4 A 401 S2 111.5 105.1 REMARK 620 4 SF4 A 401 S3 119.4 109.5 101.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 401 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 67 SG REMARK 620 2 SF4 A 401 S2 97.6 REMARK 620 3 SF4 A 401 S3 109.8 102.5 REMARK 620 4 SF4 A 401 S4 132.6 107.9 102.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 402 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 319 SG REMARK 620 2 SF4 A 402 S1 119.5 REMARK 620 3 SF4 A 402 S3 102.6 109.3 REMARK 620 4 SF4 A 402 S4 116.2 109.6 96.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 402 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 322 SG REMARK 620 2 SF4 A 402 S1 112.1 REMARK 620 3 SF4 A 402 S2 117.3 103.6 REMARK 620 4 SF4 A 402 S3 108.3 108.7 106.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 402 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 306 OH REMARK 620 2 SF4 A 402 S2 127.8 REMARK 620 3 SF4 A 402 S3 112.4 108.4 REMARK 620 4 SF4 A 402 S4 99.0 105.9 98.2 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 SF4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE H2S A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 409 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IIX RELATED DB: PDB REMARK 900 INTERMEDIATE IN THE TIME COURSE OF FES CLUSTER DEGRADATION REMARK 900 RELATED ID: 3CIW RELATED DB: PDB REMARK 900 INTERMEDIATE IN THE TIME COURSE OF FES CLUSTER DEGRADATION REMARK 900 RELATED ID: 4JXC RELATED DB: PDB REMARK 900 INTERMEDIATE IN THE TIME COURSE OF FES CLUSTER DEGRADATION REMARK 900 RELATED ID: 4JY9 RELATED DB: PDB REMARK 900 RELATED ID: 4JYD RELATED DB: PDB REMARK 900 RELATED ID: 4JYE RELATED DB: PDB REMARK 900 RELATED ID: 4JYF RELATED DB: PDB DBREF 4JY8 A 2 348 UNP Q9X0Z6 Q9X0Z6_THEMA 2 348 SEQADV 4JY8 MET A -9 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 TRP A -8 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 SER A -7 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 HIS A -6 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 PRO A -5 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 GLN A -4 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 PHE A -3 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 GLU A -2 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 LYS A -1 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 ALA A 0 UNP Q9X0Z6 EXPRESSION TAG SEQADV 4JY8 SER A 1 UNP Q9X0Z6 EXPRESSION TAG SEQRES 1 A 358 MET TRP SER HIS PRO GLN PHE GLU LYS ALA SER THR GLY SEQRES 2 A 358 ARG GLU ILE LEU GLU LYS LEU GLU ARG ARG GLU PHE THR SEQRES 3 A 358 ARG GLU VAL LEU LYS GLU ALA LEU SER ILE ASN ASP ARG SEQRES 4 A 358 GLY PHE ASN GLU ALA LEU PHE LYS LEU ALA ASP GLU ILE SEQRES 5 A 358 ARG ARG LYS TYR VAL GLY ASP GLU VAL HIS ILE ARG ALA SEQRES 6 A 358 ILE ILE GLU PHE SER ASN VAL CYS ARG LYS ASN CYS LEU SEQRES 7 A 358 TYR CYS GLY LEU ARG ARG ASP ASN LYS ASN LEU LYS ARG SEQRES 8 A 358 TYR ARG MET THR PRO GLU GLU ILE VAL GLU ARG ALA ARG SEQRES 9 A 358 LEU ALA VAL GLN PHE GLY ALA LYS THR ILE VAL LEU GLN SEQRES 10 A 358 SER GLY GLU ASP PRO TYR TYR MET PRO ASP VAL ILE SER SEQRES 11 A 358 ASP ILE VAL LYS GLU ILE LYS LYS MET GLY VAL ALA VAL SEQRES 12 A 358 THR LEU SER LEU GLY GLU TRP PRO ARG GLU TYR TYR GLU SEQRES 13 A 358 LYS TRP LYS GLU ALA GLY ALA ASP ARG TYR LEU LEU ARG SEQRES 14 A 358 HIS GLU THR ALA ASN PRO VAL LEU HIS ARG LYS LEU ARG SEQRES 15 A 358 PRO ASP THR SER PHE GLU ASN ARG LEU ASN CYS LEU LEU SEQRES 16 A 358 THR LEU LYS GLU LEU GLY TYR GLU THR GLY ALA GLY SER SEQRES 17 A 358 MET VAL GLY LEU PRO GLY GLN THR ILE ASP ASP LEU VAL SEQRES 18 A 358 ASP ASP LEU LEU PHE LEU LYS GLU HIS ASP PHE ASP MET SEQRES 19 A 358 VAL GLY ILE GLY PRO PHE ILE PRO HIS PRO ASP THR PRO SEQRES 20 A 358 LEU ALA ASN GLU LYS LYS GLY ASP PHE THR LEU THR LEU SEQRES 21 A 358 LYS MET VAL ALA LEU THR ARG ILE LEU LEU PRO ASP SER SEQRES 22 A 358 ASN ILE PRO ALA THR THR ALA MET GLY THR ILE VAL PRO SEQRES 23 A 358 GLY GLY ARG GLU ILE THR LEU ARG CYS GLY ALA ASN VAL SEQRES 24 A 358 ILE MET PRO ASN TRP THR PRO SER PRO TYR ARG GLN LEU SEQRES 25 A 358 TYR GLN LEU TYR PRO GLY LYS ILE CYS VAL PHE GLU LYS SEQRES 26 A 358 ASP THR ALA CYS ILE PRO CYS VAL MET LYS MET ILE GLU SEQRES 27 A 358 LEU LEU GLY ARG LYS PRO GLY ARG ASP TRP GLY GLY ARG SEQRES 28 A 358 LYS ARG VAL PHE GLU THR VAL HET SF4 A 401 8 HET SF4 A 402 8 HET H2S A 403 1 HET CL A 404 1 HET CL A 405 1 HET CL A 406 1 HET CL A 407 1 HET CL A 408 1 HET SO4 A 409 5 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM H2S HYDROSULFURIC ACID HETNAM CL CHLORIDE ION HETNAM SO4 SULFATE ION HETSYN H2S HYDROGEN SULFIDE FORMUL 2 SF4 2(FE4 S4) FORMUL 4 H2S H2 S FORMUL 5 CL 5(CL 1-) FORMUL 10 SO4 O4 S 2- FORMUL 11 HOH *(H2 O) HELIX 1 1 THR A 2 ARG A 12 1 11 HELIX 2 2 THR A 16 ILE A 26 1 11 HELIX 3 3 ASP A 28 GLY A 48 1 21 HELIX 4 4 THR A 85 PHE A 99 1 15 HELIX 5 5 ASP A 111 MET A 115 5 5 HELIX 6 6 PRO A 116 LYS A 128 1 13 HELIX 7 7 PRO A 141 ALA A 151 1 11 HELIX 8 8 ASN A 164 ARG A 172 1 9 HELIX 9 9 SER A 176 LEU A 190 1 15 HELIX 10 10 THR A 206 ASP A 221 1 16 HELIX 11 11 ASP A 245 LEU A 260 1 16 HELIX 12 12 THR A 268 VAL A 275 1 8 HELIX 13 13 GLY A 277 ARG A 284 1 8 HELIX 14 14 ALA A 318 LEU A 330 1 13 SHEET 1 A 8 MET A 224 VAL A 225 0 SHEET 2 A 8 GLU A 193 ALA A 196 1 N ALA A 196 O MET A 224 SHEET 3 A 8 ARG A 155 LEU A 157 1 N TYR A 156 O GLY A 195 SHEET 4 A 8 ALA A 132 SER A 136 1 N LEU A 135 O ARG A 155 SHEET 5 A 8 THR A 103 SER A 108 1 N LEU A 106 O THR A 134 SHEET 6 A 8 GLU A 50 SER A 60 1 N ALA A 55 O VAL A 105 SHEET 7 A 8 VAL A 289 ILE A 290 1 O ILE A 290 N HIS A 52 SHEET 8 A 8 PRO A 266 ALA A 267 1 N ALA A 267 O VAL A 289 SHEET 1 B 7 MET A 224 VAL A 225 0 SHEET 2 B 7 GLU A 193 ALA A 196 1 N ALA A 196 O MET A 224 SHEET 3 B 7 ARG A 155 LEU A 157 1 N TYR A 156 O GLY A 195 SHEET 4 B 7 ALA A 132 SER A 136 1 N LEU A 135 O ARG A 155 SHEET 5 B 7 THR A 103 SER A 108 1 N LEU A 106 O THR A 134 SHEET 6 B 7 GLU A 50 SER A 60 1 N ALA A 55 O VAL A 105 SHEET 7 B 7 LYS A 333 PRO A 334 1 O LYS A 333 N VAL A 51 SHEET 1 C 2 MET A 199 VAL A 200 0 SHEET 2 C 2 GLY A 228 PRO A 229 1 O GLY A 228 N VAL A 200 SHEET 1 D 2 GLN A 304 LEU A 305 0 SHEET 2 D 2 ILE A 310 CYS A 311 -1 O CYS A 311 N GLN A 304 LINK SG CYS A 311 FE3 SF4 A 402 1555 1555 2.16 LINK SG CYS A 63 FE3 SF4 A 401 1555 1555 2.17 LINK SG CYS A 70 FE4 SF4 A 401 1555 1555 2.18 LINK SG CYS A 67 FE1 SF4 A 401 1555 1555 2.21 LINK SG CYS A 319 FE2 SF4 A 402 1555 1555 2.33 LINK SG CYS A 322 FE4 SF4 A 402 1555 1555 2.34 LINK OH TYR A 306 FE1 SF4 A 402 1555 1555 1.66 CISPEP 1 MET A 115 PRO A 116 0 -3.73 CISPEP 2 SER A 297 PRO A 298 0 7.34 SITE 1 AC1 9 CYS A 63 CYS A 67 TYR A 69 CYS A 70 SITE 2 AC1 9 LEU A 72 GLY A 109 ARG A 172 H2S A 403 SITE 3 AC1 9 CL A 404 SITE 1 AC2 6 ARG A 279 GLN A 304 TYR A 306 CYS A 311 SITE 2 AC2 6 CYS A 319 CYS A 322 SITE 1 AC3 2 SF4 A 401 CL A 404 SITE 1 AC4 3 SF4 A 401 H2S A 403 CL A 407 SITE 1 AC5 2 ARG A 159 THR A 269 SITE 1 AC6 2 GLU A 58 GLN A 107 SITE 1 AC7 2 GLU A 58 CL A 404 SITE 1 AC8 3 ARG A 54 THR A 134 ARG A 155 SITE 1 AC9 6 VAL A 47 ASN A 264 GLY A 339 GLY A 340 SITE 2 AC9 6 ARG A 341 LYS A 342 CRYST1 82.430 82.430 217.340 90.00 90.00 120.00 P 65 2 2 12 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 0.012132 0.007004 0.000000 0.00000 SCALE2 0.000000 0.014008 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004601 0.00000 MASTER 549 0 9 14 19 0 13 6 0 0 0 28 END