HEADER ADOMET BINDING PROTEIN 03-AUG-09 3IIX TITLE X-RAY STRUCTURE OF THE FEFE-HYDROGENASE MATURASE HYDE FROM T. MARITIMA TITLE 2 IN COMPLEX WITH METHIONINE AND 5'DEOXYADENOSINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: [FEFE] HYDROGENASE MATURASE SUBUNIT HYDE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.8.-.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA MSB8; SOURCE 3 ORGANISM_TAXID: 243274; SOURCE 4 GENE: TM_1269, THEMA_07990, TMARI_1274; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS ADOMET RADICAL, SAM RADICAL, ADOMET CLEAVAGE, FE4S4 CLUSTER, HYDE, KEYWDS 2 HYDROGENASE, MATURATION, BETA BARREL, DEOXYADENOSINE, ADOMET BINDING KEYWDS 3 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.NICOLET,P.AMARA,J.M.MOUESCA,J.C.FONTECILLA-CAMPS REVDAT 4 22-NOV-23 3IIX 1 REMARK REVDAT 3 08-NOV-23 3IIX 1 REMARK REVDAT 2 12-APR-23 3IIX 1 COMPND SOURCE REMARK DBREF REVDAT 2 2 1 SEQADV SEQRES HET HETNAM REVDAT 2 3 1 HETSYN FORMUL LINK SITE REVDAT 2 4 1 ATOM REVDAT 1 22-SEP-09 3IIX 0 JRNL AUTH Y.NICOLET,P.AMARA,J.-M.MOUESCA,J.C.FONTECILLA-CAMPS JRNL TITL UNEXPECTED ELECTRON TRANSFER MECHANISM UPON ADOMET CLEAVAGE JRNL TITL 2 IN RADICAL SAM PROTEINS JRNL REF PROC.NATL.ACAD.SCI.USA 2009 JRNL REFN ESSN 1091-6490 JRNL PMID 19706452 JRNL DOI 10.1073/PNAS.0904385106 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.22 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 88534 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) : 0.140 REMARK 3 R VALUE (WORKING SET) : 0.139 REMARK 3 FREE R VALUE : 0.166 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4675 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) : 1.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4903 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.02 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 250 REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2739 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 198 REMARK 3 SOLVENT ATOMS : 466 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.78000 REMARK 3 B22 (A**2) : -0.04000 REMARK 3 B33 (A**2) : -0.74000 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): 0.045 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.043 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.027 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.439 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.970 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3167 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2260 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4364 ; 1.675 ; 2.068 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5557 ; 1.256 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 394 ;18.802 ; 5.152 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 130 ;33.744 ;23.385 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 558 ;12.431 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;15.557 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 519 ; 0.146 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3302 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 595 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 657 ; 0.254 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2675 ; 0.205 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1581 ; 0.179 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1630 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 358 ; 0.184 ; 0.200 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): 9 ; 0.087 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 82 ; 0.243 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 41 ; 0.164 ; 0.200 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): 1857 ; 1.234 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 722 ; 0.498 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2964 ; 1.730 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1456 ; 2.366 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1366 ; 3.156 ; 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): 5925 ; 1.365 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 475 ; 5.033 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 5330 ; 2.594 ; 3.000 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 : BABINET MODEL WITH 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. THE FRIEDEL MATES HAVE BEEN SEPARATED REMARK 3 DURING DATA PROCESSING TO EXTRACT THE ANOMALOUS SIGNAL. REMARK 4 REMARK 4 3IIX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-AUG-09. REMARK 100 THE DEPOSITION ID IS D_1000054468. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAY-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 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 : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 88534 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 58.220 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.8700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.8 REMARK 200 DATA REDUNDANCY IN SHELL : 1.46 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.40700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 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 3CIW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, LISO4, TRIS PH 8.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 25.52700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.09600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.46250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.09600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.52700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.46250 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: 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 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 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 MET A 1 CG SD CE REMARK 470 ARG A 4 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 5 CD OE1 OE2 REMARK 470 GLU A 8 CD OE1 OE2 REMARK 470 LYS A 9 CE NZ REMARK 470 ARG A 12 NE CZ NH1 NH2 REMARK 470 GLU A 14 CG CD OE1 OE2 REMARK 470 ARG A 29 CZ NH1 NH2 REMARK 470 LYS A 37 CE NZ REMARK 470 GLU A 143 CD OE1 OE2 REMARK 470 LYS A 188 CD CE NZ REMARK 470 LYS A 242 CE NZ REMARK 470 LYS A 243 CE NZ REMARK 470 LYS A 315 CE NZ REMARK 470 LYS A 333 CD CE NZ REMARK 470 ARG A 336 CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 615 O HOH A 750 2.01 REMARK 500 OE1 GLU A 150 O HOH A 754 2.08 REMARK 500 O HOH A 715 O HOH A 717 2.11 REMARK 500 O HOH A 358 O HOH A 622 2.14 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 48.62 -88.28 REMARK 500 ASN A 78 48.19 -88.20 REMARK 500 GLU A 161 -58.67 77.88 REMARK 500 THR A 175 -155.27 -151.98 REMARK 500 ALA A 196 -154.80 -120.92 REMARK 500 ASP A 235 30.45 -98.69 REMARK 500 ASN A 288 13.49 -141.43 REMARK 500 TYR A 303 79.29 -115.34 REMARK 500 LYS A 309 119.91 -39.51 REMARK 500 ASP A 337 -161.20 -128.38 REMARK 500 GLU A 346 -156.76 -140.60 REMARK 500 GLU A 346 -158.05 -139.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 CPS A 1702 REMARK 610 CPS A 1703 REMARK 610 CPS A 1704 REMARK 610 CPS A 1705 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 A2460 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 63 SG REMARK 620 2 SF4 A2460 S1 114.0 REMARK 620 3 SF4 A2460 S2 119.5 105.6 REMARK 620 4 SF4 A2460 S4 106.5 104.1 105.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A2460 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 67 SG REMARK 620 2 SF4 A2460 S2 106.7 REMARK 620 3 SF4 A2460 S3 116.8 105.8 REMARK 620 4 SF4 A2460 S4 118.8 104.5 102.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A2460 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 70 SG REMARK 620 2 SF4 A2460 S1 120.3 REMARK 620 3 SF4 A2460 S2 110.8 105.2 REMARK 620 4 SF4 A2460 S3 108.6 105.1 105.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A2460 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A1401 N REMARK 620 2 SF4 A2460 S1 93.0 REMARK 620 3 SF4 A2460 S3 162.8 99.8 REMARK 620 4 SF4 A2460 S4 92.3 97.2 97.5 REMARK 620 5 MET A1401 SD 80.8 87.7 88.2 171.8 REMARK 620 6 MET A1401 OXT 72.0 162.6 93.3 92.4 81.3 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 SF4 A 2460 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MET A 1401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5AD A 1501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1705 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE H2S A 1801 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE H2S A 1802 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE H2S A 1803 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 351 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO3 A 352 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HOH A 353 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HOH A 354 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3CIW RELATED DB: PDB REMARK 900 RELATED ID: 3CIX RELATED DB: PDB REMARK 900 RELATED ID: 3IIZ RELATED DB: PDB DBREF 3IIX A 1 348 UNP Q9X0Z6 HYDE_THEMA 1 348 SEQADV 3IIX OTY A 114 UNP Q9X0Z6 TYR 114 MODIFIED RESIDUE SEQRES 1 A 348 MET THR GLY ARG GLU ILE LEU GLU LYS LEU GLU ARG ARG SEQRES 2 A 348 GLU PHE THR ARG GLU VAL LEU LYS GLU ALA LEU SER ILE SEQRES 3 A 348 ASN ASP ARG GLY PHE ASN GLU ALA LEU PHE LYS LEU ALA SEQRES 4 A 348 ASP GLU ILE ARG ARG LYS TYR VAL GLY ASP GLU VAL HIS SEQRES 5 A 348 ILE ARG ALA ILE ILE GLU PHE SER ASN VAL CYS ARG LYS SEQRES 6 A 348 ASN CYS LEU TYR CYS GLY LEU ARG ARG ASP ASN LYS ASN SEQRES 7 A 348 LEU LYS ARG TYR ARG MET THR PRO GLU GLU ILE VAL GLU SEQRES 8 A 348 ARG ALA ARG LEU ALA VAL GLN PHE GLY ALA LYS THR ILE SEQRES 9 A 348 VAL LEU GLN SER GLY GLU ASP PRO TYR OTY MET PRO ASP SEQRES 10 A 348 VAL ILE SER ASP ILE VAL LYS GLU ILE LYS LYS MET GLY SEQRES 11 A 348 VAL ALA VAL THR LEU SER LEU GLY GLU TRP PRO ARG GLU SEQRES 12 A 348 TYR TYR GLU LYS TRP LYS GLU ALA GLY ALA ASP ARG TYR SEQRES 13 A 348 LEU LEU ARG HIS GLU THR ALA ASN PRO VAL LEU HIS ARG SEQRES 14 A 348 LYS LEU ARG PRO ASP THR SER PHE GLU ASN ARG LEU ASN SEQRES 15 A 348 CSO LEU LEU THR LEU LYS GLU LEU GLY TYR GLU THR GLY SEQRES 16 A 348 ALA GLY SER MET VAL GLY LEU PRO GLY GLN THR ILE ASP SEQRES 17 A 348 ASP LEU VAL ASP ASP LEU LEU PHE LEU LYS GLU HIS ASP SEQRES 18 A 348 PHE ASP MET VAL GLY ILE GLY PRO PHE ILE PRO HIS PRO SEQRES 19 A 348 ASP THR PRO LEU ALA ASN GLU LYS LYS GLY ASP PHE THR SEQRES 20 A 348 LEU THR LEU LYS MET VAL ALA LEU THR ARG ILE LEU LEU SEQRES 21 A 348 PRO ASP SER ASN ILE PRO ALA THR THR ALA MET GLY THR SEQRES 22 A 348 ILE VAL PRO GLY GLY ARG GLU ILE THR LEU ARG CYS GLY SEQRES 23 A 348 ALA ASN VAL ILE MET PRO ASN TRP THR PRO SER PRO TYR SEQRES 24 A 348 ARG GLN LEU TYR GLN LEU TYR PRO GLY LYS ILE CSS VAL SEQRES 25 A 348 PHE GLU LYS ASP THR ALA CYS ILE PRO CSO VAL MET LYS SEQRES 26 A 348 MET ILE GLU LEU LEU GLY ARG LYS PRO GLY ARG ASP TRP SEQRES 27 A 348 GLY GLY ARG LYS ARG VAL PHE GLU THR VAL MODRES 3IIX CSO A 183 CYS MODIFIED RESIDUE MODRES 3IIX CSS A 311 CYS MODIFIED RESIDUE MODRES 3IIX CSO A 322 CYS MODIFIED RESIDUE HET OTY A 114 13 HET CSO A 183 7 HET CSS A 311 7 HET CSO A 322 10 HET SF4 A2460 8 HET MET A1401 9 HET 5AD A1501 18 HET CPS A1701 42 HET CPS A1702 35 HET CPS A1703 29 HET CPS A1704 25 HET CPS A1705 22 HET S3H A1801 3 HET CL A 349 1 HET CL A 350 1 HET CL A 351 2 HET CO3 A 352 4 HETNAM OTY 2-HYDROXY-L-TYROSINE HETNAM CSO S-HYDROXYCYSTEINE HETNAM CSS S-MERCAPTOCYSTEINE HETNAM SF4 IRON/SULFUR CLUSTER HETNAM MET METHIONINE HETNAM 5AD 5'-DEOXYADENOSINE HETNAM CPS 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1- HETNAM 2 CPS PROPANESULFONATE HETNAM S3H TRISULFANE HETNAM CL CHLORIDE ION HETNAM CO3 CARBONATE ION HETSYN CPS CHAPS FORMUL 1 OTY C9 H11 N O4 FORMUL 1 CSO 2(C3 H7 N O3 S) FORMUL 1 CSS C3 H7 N O2 S2 FORMUL 2 SF4 FE4 S4 FORMUL 3 MET C5 H11 N O2 S FORMUL 4 5AD C10 H13 N5 O3 FORMUL 5 CPS 5(C32 H58 N2 O7 S) FORMUL 10 S3H H2 S3 FORMUL 11 CL 3(CL 1-) FORMUL 14 CO3 C O3 2- FORMUL 15 HOH *466(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 GLY A 152 1 12 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 TYR A 299 TYR A 303 5 5 HELIX 15 15 ALA A 318 LEU A 330 1 13 SHEET 1 A 7 MET A 224 VAL A 225 0 SHEET 2 A 7 GLU A 193 ALA A 196 1 N ALA A 196 O MET A 224 SHEET 3 A 7 ARG A 155 LEU A 157 1 N TYR A 156 O GLY A 195 SHEET 4 A 7 ALA A 132 SER A 136 1 N LEU A 135 O LEU A 157 SHEET 5 A 7 THR A 103 SER A 108 1 N ILE A 104 O THR A 134 SHEET 6 A 7 GLU A 50 SER A 60 1 N ALA A 55 O VAL A 105 SHEET 7 A 7 VAL A 289 ILE A 290 1 O ILE A 290 N HIS A 52 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 LEU A 157 SHEET 5 B 7 THR A 103 SER A 108 1 N ILE A 104 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 LINK C TYR A 113 N OTY A 114 1555 1555 1.33 LINK C OTY A 114 N MET A 115 1555 1555 1.34 LINK C ASN A 182 N CSO A 183 1555 1555 1.34 LINK C CSO A 183 N LEU A 184 1555 1555 1.33 LINK C ILE A 310 N CSS A 311 1555 1555 1.32 LINK C CSS A 311 N VAL A 312 1555 1555 1.33 LINK SG CYS A 319 S3 S3H A1801 1555 1555 1.96 LINK C PRO A 321 N CSO A 322 1555 1555 1.32 LINK C CSO A 322 N VAL A 323 1555 1555 1.34 LINK SG CYS A 63 FE3 SF4 A2460 1555 1555 2.27 LINK SG CYS A 67 FE1 SF4 A2460 1555 1555 2.32 LINK SG CYS A 70 FE4 SF4 A2460 1555 1555 2.29 LINK N MET A1401 FE2 SF4 A2460 1555 1555 2.24 LINK SD MET A1401 FE2 SF4 A2460 1555 1555 2.67 LINK OXT MET A1401 FE2 SF4 A2460 1555 1555 2.27 CISPEP 1 MET A 115 PRO A 116 0 -5.99 CISPEP 2 SER A 297 PRO A 298 0 5.95 SITE 1 AC1 5 CYS A 63 CYS A 67 CYS A 70 GLY A 109 SITE 2 AC1 5 MET A1401 SITE 1 AC2 11 SER A 108 SER A 136 GLY A 138 ARG A 180 SITE 2 AC2 11 TYR A 303 HOH A 474 HOH A 480 HOH A 483 SITE 3 AC2 11 HOH A 493 5AD A1501 SF4 A2460 SITE 1 AC3 13 TYR A 69 GLN A 107 ARG A 159 GLU A 161 SITE 2 AC3 13 MET A 199 PRO A 229 ILE A 231 LEU A 305 SITE 3 AC3 13 TYR A 306 HOH A 480 HOH A 501 HOH A 587 SITE 4 AC3 13 MET A1401 SITE 1 AC4 19 GLN A 98 PHE A 99 GLY A 100 PRO A 276 SITE 2 AC4 19 GLY A 277 GLU A 280 ARG A 284 MET A 324 SITE 3 AC4 19 LEU A 330 HOH A 392 HOH A 421 HOH A 477 SITE 4 AC4 19 HOH A 504 HOH A 512 HOH A 513 HOH A 663 SITE 5 AC4 19 HOH A 694 CPS A1704 CPS A1705 SITE 1 AC5 15 LYS A 37 ASP A 40 LYS A 170 ARG A 284 SITE 2 AC5 15 SER A 297 LYS A 315 ASP A 316 THR A 317 SITE 3 AC5 15 HOH A 362 HOH A 543 HOH A 577 HOH A 664 SITE 4 AC5 15 HOH A 721 HOH A 723 HOH A 792 SITE 1 AC6 11 ARG A 29 GLU A 33 THR A 247 LEU A 250 SITE 2 AC6 11 HOH A 354 HOH A 403 HOH A 566 HOH A 570 SITE 3 AC6 11 HOH A 583 HOH A 809 CPS A1704 SITE 1 AC7 10 THR A 317 ALA A 318 HOH A 449 HOH A 466 SITE 2 AC7 10 HOH A 583 HOH A 731 HOH A 735 HOH A 759 SITE 3 AC7 10 CPS A1701 CPS A1703 SITE 1 AC8 11 LYS A 128 MET A 324 LYS A 325 GLU A 328 SITE 2 AC8 11 HOH A 361 HOH A 457 HOH A 612 HOH A 694 SITE 3 AC8 11 HOH A 705 HOH A 804 CPS A1701 SITE 1 AC9 1 CYS A 319 SITE 1 BC1 2 CYS A 319 HOH A 538 SITE 1 BC2 3 ARG A 279 CYS A 319 CSO A 322 SITE 1 BC4 5 THR A 268 ALA A 270 TYR A 306 HOH A 572 SITE 2 BC4 5 HOH A 587 SITE 1 BC5 3 ARG A 54 THR A 134 ARG A 155 SITE 1 BC6 6 ARG A 159 PRO A 266 MET A 291 HOH A 544 SITE 2 BC6 6 HOH A 714 HOH A 752 SITE 1 BC7 5 PHE A 246 HOH A 460 HOH A 529 HOH A 687 SITE 2 BC7 5 CPS A1703 CRYST1 51.054 78.925 86.192 90.00 90.00 90.00 P 21 21 21 4 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 0.019587 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012670 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011602 0.00000