10 20 30 40 50 60 70 80 3IIZ - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER ADOMET BINDING PROTEIN 03-AUG-09 3IIZ
TITLE X-RAY STRUCTURE OF THE FEFE-HYDROGENASE MATURASE HYDE FROM TITLE 2 T. MARITIMA IN COMPLEX WITH S-ADENOSYL-L-METHIONINE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIOTIN SYNTHETASE, PUTATIVE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FEFE-HYDROGENASE MATURASE HYDE; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 STRAIN: MSB8; SOURCE 5 GENE: TM_1269; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-DE3
KEYWDS ADOMET RADICAL, SAM RADICAL, HYDE, HYDROGENASE, FE4S4 KEYWDS 2 CLUSTER, ADOMET CLEAVAGE, MATURATION, ADENOSYLMETHIONINE, KEYWDS 3 ADOMET BINDING PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR Y.NICOLET,P.AMARA,J.M.MOUESCA,J.C.FONTECILLA-CAMPS
REVDAT 1 22-SEP-09 3IIZ 0
JRNL AUTH Y.NICOLET,P.AMARA,J.-M.MOUESCA,J.C.FONTECILLA-CAMPS JRNL TITL UNEXPECTED ELECTRON TRANSFER MECHANISM UPON ADOMET JRNL TITL 2 CLEAVAGE 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 1
REMARK 2 REMARK 2 RESOLUTION. 1.62 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 41143 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) : 0.138 REMARK 3 FREE R VALUE : 0.184 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2204 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) : 1.62 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.66 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2510 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 81.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.1920 REMARK 3 BIN FREE R VALUE SET COUNT : 132 REMARK 3 BIN FREE R VALUE : 0.2450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2822 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 198 REMARK 3 SOLVENT ATOMS : 446 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.62000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : -0.67000 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): 0.135 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.089 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.057 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.665 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3108 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2201 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4269 ; 1.749 ; 2.070 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5398 ; 0.954 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 373 ;11.920 ; 5.054 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 127 ;33.806 ;23.228 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 536 ;12.335 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;15.901 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 504 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3239 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 589 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 736 ; 0.251 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2712 ; 0.211 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1563 ; 0.179 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1583 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 367 ; 0.205 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.016 ; 0.200 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): 19 ; 0.098 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 83 ; 0.243 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 42 ; 0.208 ; 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): 1837 ; 1.175 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 717 ; 0.424 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2900 ; 1.616 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1421 ; 2.496 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1345 ; 3.374 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 3258 ; 1.598 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 451 ; 5.306 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3021 ; 2.430 ; 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 3IIZ COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-SEP-09. REMARK 100 THE RCSB ID CODE IS RCSB054470.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-05 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 : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41143 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.620 REMARK 200 RESOLUTION RANGE LOW (A) : 43.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 200 DATA REDUNDANCY : 2.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.3900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.9 REMARK 200 DATA REDUNDANCY IN SHELL : 1.45 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.36900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.380 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC 5.2.0019 REMARK 200 STARTING MODEL: PDB ENTRY 3CIW 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: 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 25.31400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.97150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.39000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.97150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.31400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.39000 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 MET 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 CD OE1 OE2 REMARK 470 GLU A 8 CG 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 GLU A 143 CD OE1 OE2 REMARK 470 LYS A 242 CE NZ REMARK 470 LYS A 309 CD CE NZ REMARK 470 LYS A 315 NZ REMARK 470 LYS A 333 CD CE NZ REMARK 470 ARG A 336 CG 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 444 O HOH A 538 1.76 REMARK 500 CE MET A 324 O HOH A 387 1.97 REMARK 500 O HOH A 363 O HOH A 539 2.06 REMARK 500 O HOH A 431 O HOH A 668 2.10 REMARK 500 O HOH A 412 O HOH A 582 2.17 REMARK 500 O HOH A 562 O HOH A 660 2.17 REMARK 500 O HOH A 673 O HOH A 780 2.19 REMARK 500 OH TYR A 113 O HOH A 393 2.19 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 49.01 -91.35 REMARK 500 GLU A 161 -58.95 75.84 REMARK 500 THR A 175 -159.21 -155.10 REMARK 500 ALA A 196 -150.79 -122.12 REMARK 500 GLN A 304 72.64 -104.77 REMARK 500 CYS A 311 -16.02 81.02 REMARK 500 ASP A 337 -163.22 -123.69 REMARK 500 GLU A 346 -155.18 -143.66 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 394 DISTANCE = 5.62 ANGSTROMS REMARK 525 HOH A 579 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH A 715 DISTANCE = 5.71 ANGSTROMS REMARK 525 HOH A 724 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH A 779 DISTANCE = 5.70 ANGSTROMS REMARK 525 HOH A 796 DISTANCE = 5.98 ANGSTROMS
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 FES A2648 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 279 NH2 REMARK 620 2 H2S A2650 S 99.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FES A2648 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 311 SG REMARK 620 2 H2S A2649 S 107.4 REMARK 620 N 1 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 SAM A1501 O REMARK 620 2 SAM A1501 N 71.0 REMARK 620 N 1
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 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM A 1501 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1701 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1702 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1703 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1704 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPS A 1705 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FES A 2648 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE H2S A 2649 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE H2S A 2650 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 349 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 350 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO3 A 351
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: 3IIX RELATED DB: PDB
DBREF 3IIZ A 1 348 UNP Q9X0Z6 Q9X0Z6_THEMA 1 348
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 CYS VAL SEQRES 25 A 348 PHE GLU LYS ASP THR ALA CYS ILE PRO CYS 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 3IIZ OTY A 114 TYR MODRES 3IIZ CSO A 183 CYS S-HYDROXYCYSTEINE
HET OTY A 114 13 HET CSO A 183 7 HET SF4 A2460 8 HET SAM A1501 27 HET CPS A1701 42 HET CPS A1702 35 HET CPS A1703 26 HET CPS A1704 25 HET CPS A1705 22 HET FES A2648 4 HET H2S A2649 1 HET H2S A2650 1 HET CL A 349 1 HET CL A 350 2 HET CO3 A 351 4
HETNAM OTY 2-AMINO-3-(4-HYDROXY-6-OXOCYCLOHEXA-1,4-DIENYL) HETNAM 2 OTY PROPANOIC ACID HETNAM CSO S-HYDROXYCYSTEINE HETNAM SF4 IRON/SULFUR CLUSTER HETNAM SAM S-ADENOSYLMETHIONINE HETNAM CPS 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1- HETNAM 2 CPS PROPANESULFONATE HETNAM FES FE2/S2 (INORGANIC) CLUSTER HETNAM H2S HYDROSULFURIC ACID HETNAM CL CHLORIDE ION HETNAM CO3 CARBONATE ION
HETSYN CPS CHAPS HETSYN H2S HYDROGEN SULFIDE
FORMUL 1 OTY C9 H11 N O4 FORMUL 1 CSO C3 H7 N O3 S FORMUL 2 SF4 FE4 S4 FORMUL 3 SAM C15 H22 N6 O5 S FORMUL 4 CPS 5(C32 H58 N2 O7 S) FORMUL 9 FES FE2 S2 FORMUL 10 H2S 2(H2 S) FORMUL 12 CL 2(CL 1-) FORMUL 14 CO3 C O3 2- FORMUL 15 HOH *446(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 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 ARG A 54 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 1.32 LINK C OTY A 114 N MET A 115 1555 1555 1.33 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 SG CYS A 63 FE3 SF4 A2460 1555 1555 2.28 LINK SG CYS A 67 FE1 SF4 A2460 1555 1555 2.34 LINK SG CYS A 70 FE4 SF4 A2460 1555 1555 2.26 LINK NH2 ARG A 279 FE2 FES A2648 1555 1555 2.24 LINK SG CYS A 311 FE1 FES A2648 1555 1555 2.06 LINK FE2 SF4 A2460 O SAM A1501 1555 1555 2.25 LINK FE2 SF4 A2460 N SAM A1501 1555 1555 2.33 LINK FE1 FES A2648 S H2S A2649 1555 1555 2.11 LINK FE2 FES A2648 S H2S A2650 1555 1555 2.27 LINK SG CYS A 319 S H2S A2649 1555 1555 2.00 LINK SG ACYS A 322 S H2S A2650 1555 1555 2.08
CISPEP 1 MET A 115 PRO A 116 0 -8.94 CISPEP 2 SER A 297 PRO A 298 0 4.75
SITE 1 AC1 4 CYS A 63 CYS A 67 CYS A 70 SAM A1501 SITE 1 AC2 20 TYR A 69 SER A 108 SER A 136 GLY A 138 SITE 2 AC2 20 ARG A 159 GLU A 161 ARG A 180 MET A 199 SITE 3 AC2 20 PRO A 229 ILE A 231 TYR A 303 LEU A 305 SITE 4 AC2 20 TYR A 306 HOH A 458 HOH A 464 HOH A 466 SITE 5 AC2 20 HOH A 475 HOH A 514 HOH A 780 SF4 A2460 SITE 1 AC3 21 GLN A 98 PHE A 99 GLY A 100 LYS A 102 SITE 2 AC3 21 GLU A 280 ARG A 284 MET A 324 LYS A 325 SITE 3 AC3 21 LEU A 329 LEU A 330 HOH A 455 HOH A 491 SITE 4 AC3 21 HOH A 517 HOH A 541 HOH A 553 HOH A 672 SITE 5 AC3 21 HOH A 754 HOH A 777 CPS A1703 CPS A1704 SITE 6 AC3 21 CPS A1705 SITE 1 AC4 16 LYS A 37 ASP A 40 LYS A 170 ARG A 284 SITE 2 AC4 16 SER A 297 LYS A 315 ASP A 316 THR A 317 SITE 3 AC4 16 HOH A 353 HOH A 382 HOH A 414 HOH A 545 SITE 4 AC4 16 HOH A 595 HOH A 623 HOH A 648 HOH A 762 SITE 1 AC5 11 ARG A 29 GLU A 33 THR A 247 LEU A 250 SITE 2 AC5 11 HOH A 540 HOH A 544 HOH A 550 HOH A 739 SITE 3 AC5 11 HOH A 782 CPS A1701 CPS A1704 SITE 1 AC6 12 ARG A 29 LYS A 315 THR A 317 ALA A 318 SITE 2 AC6 12 HOH A 376 HOH A 406 HOH A 418 HOH A 440 SITE 3 AC6 12 HOH A 579 HOH A 675 CPS A1701 CPS A1703 SITE 1 AC7 9 LYS A 128 MET A 324 LYS A 325 GLU A 328 SITE 2 AC7 9 HOH A 656 HOH A 690 HOH A 723 HOH A 724 SITE 3 AC7 9 CPS A1701 SITE 1 AC8 8 ARG A 279 CYS A 311 CYS A 319 CYS A 322 SITE 2 AC8 8 VAL A 323 HOH A 569 H2S A2649 H2S A2650 SITE 1 AC9 3 CYS A 311 CYS A 319 FES A2648 SITE 1 BC1 4 ARG A 279 CYS A 322 MET A 326 FES A2648 SITE 1 BC2 3 ARG A 54 THR A 134 ARG A 155 SITE 1 BC3 6 ARG A 159 THR A 269 ALA A 270 TYR A 306 SITE 2 BC3 6 HOH A 435 HOH A 710 SITE 1 BC4 3 PHE A 246 HOH A 499 HOH A 530
CRYST1 50.628 78.780 85.943 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 0.019752 0.000000 0.000000 0.00000
SCALE2 0.000000 0.012694 0.000000 0.00000
SCALE3 0.000000 0.000000 0.011636 0.00000