HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 10-FEB-06 2DEG TITLE CRYSTAL STRUCTURE OF TT0972 PROTEIN FORM THERMUS THERMOPHILUS WITH TITLE 2 MN2(+) IONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: TT0972 PROTEIN; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: DE3; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS DODECAMER, FLAVIN, MANGANESE ION, STRUCTURAL GENOMICS, NPPSFA, KEYWDS 2 NATIONAL PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, KEYWDS 3 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, UNKNOWN KEYWDS 4 FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR E.INAGAKI,N.NAKANO,A.SHINKAI,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 4 25-OCT-23 2DEG 1 REMARK LINK REVDAT 3 13-JUL-11 2DEG 1 VERSN REVDAT 2 24-FEB-09 2DEG 1 VERSN REVDAT 1 01-MAY-07 2DEG 0 JRNL AUTH E.INAGAKI,N.NAKANO,A.SHINKAI,S.YOKOYAMA JRNL TITL CRYSTAL STRUCTURE OF TT0972 PROTEIN FORM THERMUS JRNL TITL 2 THERMOPHILUS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 46428 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) : 0.238 REMARK 3 R VALUE (WORKING SET) : 0.236 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2478 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3321 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 166 REMARK 3 BIN FREE R VALUE : 0.3320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3185 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 182 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.45000 REMARK 3 B22 (A**2) : 0.45000 REMARK 3 B33 (A**2) : -0.90000 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): 0.132 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.810 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3243 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4343 ; 1.542 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 398 ; 5.652 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 150 ;27.633 ;23.467 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 626 ;13.550 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;18.991 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 493 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2359 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1207 ; 0.205 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2221 ; 0.310 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 182 ; 0.129 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.189 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 57 ; 0.153 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 29 ; 0.133 ; 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): 1975 ; 1.087 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3136 ; 1.946 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1310 ; 3.089 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1207 ; 5.164 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2DEG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-FEB-06. REMARK 100 THE DEPOSITION ID IS D_1000025320. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS V REMARK 200 INTENSITY-INTEGRATION SOFTWARE : BSS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49302 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 33.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.39900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2CZ8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% MPD, 200MM AMMONIUM ACETATE, 100MM REMARK 280 LITHIUM CHLORIDE, 10MM MANGANESE CHLORIDE, 100MM CITRATE, PH 5.6, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 101.18300 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 32.66200 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 32.66200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 50.59150 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 32.66200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 32.66200 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 151.77450 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 32.66200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 32.66200 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 50.59150 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 32.66200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 32.66200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 151.77450 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 101.18300 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A DODECAMER GENERATED FROM THE REMARK 300 TWO TRIMERS IN THE ASYMMETRIC UNIT BY THE OPERATIONS: -X, -Y, -Z+1/2 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: DODECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 28170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -116.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 101.18300 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 MET B 1 REMARK 465 MET C 1 REMARK 465 THR C 69 REMARK 465 MET D 1 REMARK 465 THR D 69 REMARK 465 MET E 1 REMARK 465 THR E 69 REMARK 465 MET F 1 REMARK 465 THR F 69 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 GLU B 68 CG CD OE1 OE2 REMARK 470 THR B 69 OG1 CG2 REMARK 470 GLU F 68 CG CD OE1 OE2 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 LYS A 54 -75.95 -85.28 REMARK 500 LYS E 54 -64.18 -94.73 REMARK 500 LYS F 54 -75.23 -92.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B1003 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 19 OE2 REMARK 620 2 GLU A 19 OE1 47.6 REMARK 620 3 HOH A 98 O 127.0 83.0 REMARK 620 4 HOH B2024 O 71.7 79.4 123.6 REMARK 620 5 GLU C 19 OE1 84.5 131.2 145.2 76.4 REMARK 620 6 GLU D 68 OE1 133.5 126.4 57.3 151.3 91.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B1003 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 19 OE1 REMARK 620 2 HOH A 98 O 96.9 REMARK 620 3 GLU B 19 OE1 139.1 113.8 REMARK 620 4 GLU B 19 OE2 90.7 113.9 53.0 REMARK 620 5 HOH B2024 O 74.8 171.6 73.1 65.8 REMARK 620 6 GLU D 68 OE1 109.5 61.6 108.7 159.4 121.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1001 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 9 OE1 REMARK 620 2 GLU C 61 OE2 81.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B1003 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 19 OE1 REMARK 620 2 HOH B2024 O 84.7 REMARK 620 3 GLU C 19 OE2 101.0 104.1 REMARK 620 4 GLU C 19 OE1 162.7 96.6 61.9 REMARK 620 5 GLU D 68 OE1 104.1 126.9 124.3 88.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN F1002 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 19 OE2 REMARK 620 2 GLU D 19 OE1 54.5 REMARK 620 3 HOH E 83 O 95.9 84.4 REMARK 620 4 GLU F 19 OE1 116.0 168.7 90.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN F1002 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU E 19 OE1 REMARK 620 2 HOH E 83 O 85.6 REMARK 620 3 GLU F 19 OE1 170.0 87.5 REMARK 620 4 GLU F 19 OE2 114.3 100.0 60.0 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 NA B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN F 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 2001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2CZ8 RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH PHOSPHATE IONS, POTASSIUM IONS AND REMARK 900 FLAVIN COMPAUNDS REMARK 900 RELATED ID: 2DEH RELATED DB: PDB REMARK 900 TT0972 PROTEIN FORM THERMUS THERMOPHILUS WITH CL(-) IONS REMARK 900 RELATED ID: TTK003000972.2 RELATED DB: TARGETDB DBREF 2DEG A 1 69 GB 55772813 BAD71254 1 69 DBREF 2DEG B 1 69 GB 55772813 BAD71254 1 69 DBREF 2DEG C 1 69 GB 55772813 BAD71254 1 69 DBREF 2DEG D 1 69 GB 55772813 BAD71254 1 69 DBREF 2DEG E 1 69 GB 55772813 BAD71254 1 69 DBREF 2DEG F 1 69 GB 55772813 BAD71254 1 69 SEQRES 1 A 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 A 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 A 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 A 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 A 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 A 69 LEU GLU GLU THR SEQRES 1 B 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 B 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 B 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 B 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 B 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 B 69 LEU GLU GLU THR SEQRES 1 C 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 C 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 C 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 C 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 C 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 C 69 LEU GLU GLU THR SEQRES 1 D 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 D 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 D 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 D 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 D 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 D 69 LEU GLU GLU THR SEQRES 1 E 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 E 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 E 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 E 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 E 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 E 69 LEU GLU GLU THR SEQRES 1 F 69 MET GLY LYS VAL TYR LYS LYS VAL GLU LEU VAL GLY THR SEQRES 2 F 69 SER GLU GLU GLY LEU GLU ALA ALA ILE GLN ALA ALA LEU SEQRES 3 F 69 ALA ARG ALA ARG LYS THR LEU ARG HIS LEU ASP TRP PHE SEQRES 4 F 69 GLU VAL LYS GLU ILE ARG GLY THR ILE GLY GLU ALA GLY SEQRES 5 F 69 VAL LYS GLU TYR GLN VAL VAL LEU GLU VAL GLY PHE ARG SEQRES 6 F 69 LEU GLU GLU THR HET NA B1001 1 HET MN B1003 3 HET GOL B2001 6 HET GOL D2002 6 HET MN F1002 2 HETNAM NA SODIUM ION HETNAM MN MANGANESE (II) ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 7 NA NA 1+ FORMUL 8 MN 2(MN 2+) FORMUL 9 GOL 2(C3 H8 O3) FORMUL 12 HOH *182(H2 O) HELIX 1 1 GLY A 17 LEU A 33 1 17 HELIX 2 2 GLY B 17 ARG B 30 1 14 HELIX 3 3 GLY C 17 LEU C 33 1 17 HELIX 4 4 GLY D 17 LEU D 33 1 17 HELIX 5 5 GLY E 17 LEU E 33 1 17 HELIX 6 6 GLY F 17 LEU F 33 1 17 SHEET 1 A18 LEU A 36 ILE A 48 0 SHEET 2 A18 VAL A 53 ARG A 65 -1 O VAL A 59 N LYS A 42 SHEET 3 A18 TYR A 5 SER A 14 -1 N SER A 14 O TYR A 56 SHEET 4 A18 VAL F 4 SER F 14 -1 O LYS F 7 N GLU A 9 SHEET 5 A18 GLY F 52 ARG F 65 -1 O TYR F 56 N SER F 14 SHEET 6 A18 LEU F 36 GLY F 49 -1 N GLY F 49 O GLY F 52 SHEET 7 A18 LEU E 36 GLY E 49 -1 N ILE E 44 O VAL F 41 SHEET 8 A18 GLY E 52 ARG E 65 -1 O GLY E 52 N GLY E 49 SHEET 9 A18 TYR E 5 SER E 14 -1 N SER E 14 O TYR E 56 SHEET 10 A18 VAL B 4 SER B 14 -1 N TYR B 5 O VAL E 11 SHEET 11 A18 GLY B 52 ARG B 65 -1 O TYR B 56 N SER B 14 SHEET 12 A18 LEU B 36 GLY B 49 -1 N GLY B 49 O GLY B 52 SHEET 13 A18 LEU C 36 ILE C 48 -1 O VAL C 41 N ILE B 44 SHEET 14 A18 LEU A 36 ILE A 48 -1 N VAL A 41 O ILE C 44 SHEET 15 A18 LEU B 36 GLY B 49 -1 O VAL B 41 N ILE A 44 SHEET 16 A18 LEU C 36 ILE C 48 -1 O VAL C 41 N ILE B 44 SHEET 17 A18 VAL C 53 ARG C 65 -1 O GLN C 57 N ARG C 45 SHEET 18 A18 TYR C 5 SER C 14 -1 N VAL C 8 O VAL C 62 SHEET 1 B 6 LEU A 36 ILE A 48 0 SHEET 2 B 6 VAL A 53 ARG A 65 -1 O VAL A 59 N LYS A 42 SHEET 3 B 6 TYR A 5 SER A 14 -1 N SER A 14 O TYR A 56 SHEET 4 B 6 VAL F 4 SER F 14 -1 O LYS F 7 N GLU A 9 SHEET 5 B 6 GLY F 52 ARG F 65 -1 O TYR F 56 N SER F 14 SHEET 6 B 6 LEU D 36 GLY D 49 0 SHEET 1 C15 TYR D 5 SER D 14 0 SHEET 2 C15 GLY D 52 ARG D 65 -1 O TYR D 56 N SER D 14 SHEET 3 C15 LEU D 36 GLY D 49 -1 N LYS D 42 O VAL D 59 SHEET 4 C15 LEU E 36 GLY E 49 -1 O VAL E 41 N ILE D 44 SHEET 5 C15 GLY E 52 ARG E 65 -1 O GLY E 52 N GLY E 49 SHEET 6 C15 TYR E 5 SER E 14 -1 N SER E 14 O TYR E 56 SHEET 7 C15 VAL B 4 SER B 14 -1 N TYR B 5 O VAL E 11 SHEET 8 C15 GLY B 52 ARG B 65 -1 O TYR B 56 N SER B 14 SHEET 9 C15 LEU B 36 GLY B 49 -1 N GLY B 49 O GLY B 52 SHEET 10 C15 LEU C 36 ILE C 48 -1 O VAL C 41 N ILE B 44 SHEET 11 C15 LEU A 36 ILE A 48 -1 N VAL A 41 O ILE C 44 SHEET 12 C15 LEU B 36 GLY B 49 -1 O VAL B 41 N ILE A 44 SHEET 13 C15 LEU C 36 ILE C 48 -1 O VAL C 41 N ILE B 44 SHEET 14 C15 VAL C 53 ARG C 65 -1 O GLN C 57 N ARG C 45 SHEET 15 C15 TYR C 5 SER C 14 -1 N VAL C 8 O VAL C 62 LINK OE2 GLU A 19 MN A MN B1003 1555 1555 2.74 LINK OE1 GLU A 19 MN A MN B1003 1555 1555 2.63 LINK OE1 GLU A 19 MN C MN B1003 1555 1555 2.74 LINK O HOH A 98 MN C MN B1003 1555 1555 2.12 LINK O HOH A 98 MN A MN B1003 1555 1555 2.89 LINK OE1 GLU B 9 NA NA B1001 1555 1555 2.22 LINK OE1 GLU B 19 MN B MN B1003 1555 1555 2.32 LINK OE1 GLU B 19 MN C MN B1003 1555 1555 2.48 LINK OE2 GLU B 19 MN C MN B1003 1555 1555 2.44 LINK NA NA B1001 OE2 GLU C 61 1555 8555 2.50 LINK MN A MN B1003 O HOH B2024 1555 1555 2.39 LINK MN B MN B1003 O HOH B2024 1555 1555 2.12 LINK MN C MN B1003 O HOH B2024 1555 1555 2.55 LINK MN A MN B1003 OE1 GLU C 19 1555 1555 2.85 LINK MN B MN B1003 OE2 GLU C 19 1555 1555 1.98 LINK MN B MN B1003 OE1 GLU C 19 1555 1555 2.25 LINK MN A MN B1003 OE1 GLU D 68 1555 1655 2.43 LINK MN B MN B1003 OE1 GLU D 68 1555 1655 3.08 LINK MN C MN B1003 OE1 GLU D 68 1555 1655 2.79 LINK OE2 GLU D 19 MN A MN F1002 1555 1555 2.09 LINK OE1 GLU D 19 MN A MN F1002 1555 1555 2.55 LINK OE1 GLU E 19 MN B MN F1002 1555 1555 2.23 LINK O HOH E 83 MN A MN F1002 1555 1555 2.22 LINK O HOH E 83 MN B MN F1002 1555 1555 2.18 LINK OE1 GLU F 19 MN A MN F1002 1555 1555 2.23 LINK OE1 GLU F 19 MN B MN F1002 1555 1555 2.40 LINK OE2 GLU F 19 MN B MN F1002 1555 1555 1.99 CISPEP 1 GLY A 49 GLU A 50 0 -26.67 SITE 1 AC1 2 GLU B 9 GLU C 61 SITE 1 AC2 4 GLU D 19 GLU E 19 HOH E 83 GLU F 19 SITE 1 AC3 6 GLU A 19 HOH A 98 GLU B 19 HOH B2024 SITE 2 AC3 6 GLU C 19 GLU D 68 SITE 1 AC4 2 ILE A 44 HOH B2015 CRYST1 65.324 65.324 202.366 90.00 90.00 90.00 P 41 21 2 48 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 0.015308 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015308 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004942 0.00000