HEADER LIGAND BINDING PROTEIN 04-FEB-04 1S99 TITLE THE STRUCTURE AND FUNCTION OF B. SUBTILIS YKOF GENE PRODUCT: LIGAND TITLE 2 FREE PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: YKOF; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 OTHER_DETAILS: THIAMIN BINDING PROTEIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: YKOF; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS YKOF, THIAMIN-BINDING PROTEIN, ACT-DOMAIN FAMILY, LIGAND BINDING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.DEVEDJIEV,Y.SURENDRANATH,U.DEREWENDA,Z.S.DEREWENDA REVDAT 4 27-OCT-21 1S99 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 1S99 1 VERSN REVDAT 2 14-DEC-04 1S99 1 HEADER REVDAT 1 05-OCT-04 1S99 0 JRNL AUTH Y.DEVEDJIEV,Y.SURENDRANATH,U.DEREWENDA,A.GABRYS,D.R.COOPER, JRNL AUTH 2 R.G.ZHANG,L.LEZONDRA,A.JOACHIMIAK,Z.S.DEREWENDA JRNL TITL THE STRUCTURE AND LIGAND BINDING PROPERTIES OF THE JRNL TITL 2 B.SUBTILIS YKOF GENE PRODUCT, A MEMBER OF A NOVEL FAMILY OF JRNL TITL 3 THIAMIN/HMP-BINDING PROTEINS JRNL REF J.MOL.BIOL. V. 343 395 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 15451668 JRNL DOI 10.1016/J.JMB.2004.08.037 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 47795 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.600 REMARK 3 FREE R VALUE TEST SET COUNT : 1265 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2144 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE SET COUNT : 45 REMARK 3 BIN FREE R VALUE : 0.2520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2819 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 362 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.90000 REMARK 3 B22 (A**2) : -0.89000 REMARK 3 B33 (A**2) : -2.01000 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): 0.117 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.096 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.067 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.046 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2881 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2531 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3903 ; 1.517 ; 1.927 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5884 ; 0.885 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 362 ; 6.344 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 441 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3250 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 582 ; 0.006 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 612 ; 0.234 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2873 ; 0.266 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1556 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 266 ; 0.169 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.068 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 11 ; 0.209 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 42 ; 0.316 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 24 ; 0.282 ; 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): 1816 ; 1.337 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2920 ; 2.105 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1065 ; 2.911 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 983 ; 4.166 ; 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): 2881 ; 1.691 ; 2.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 363 ; 4.894 ; 2.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2827 ; 2.748 ; 2.000 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1S99 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-FEB-04. REMARK 100 THE DEPOSITION ID IS D_1000021527. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-AUG-03 REMARK 200 TEMPERATURE (KELVIN) : 120.0 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9642, 0.9795, 0.9794 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51209 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 34.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.24000 REMARK 200 FOR THE DATA SET : 24.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 43.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.32200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 8000, 0.2 M CALCIUM ACETATE, REMARK 280 0.1 M MES, PH 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 295.0K 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 30.46500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.95000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.64000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.95000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.46500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.64000 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A HOMODIMER REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 HIS A 3 REMARK 465 ILE A 4 REMARK 465 CYS A 5 REMARK 465 GLY A 6 REMARK 465 THR A 7 REMARK 465 SER A 8 REMARK 465 SER A 97 REMARK 465 LYS A 98 REMARK 465 GLY A 99 REMARK 465 LYS A 198 REMARK 465 GLN A 199 REMARK 465 GLY A 200 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 HIS B 3 REMARK 465 ILE B 4 REMARK 465 CYS B 5 REMARK 465 GLY B 6 REMARK 465 THR B 7 REMARK 465 SER B 8 REMARK 465 LEU B 96 REMARK 465 SER B 97 REMARK 465 LYS B 98 REMARK 465 GLY B 99 REMARK 465 SER B 193 REMARK 465 ARG B 194 REMARK 465 LYS B 195 REMARK 465 ASN B 196 REMARK 465 ARG B 197 REMARK 465 LYS B 198 REMARK 465 GLN B 199 REMARK 465 GLY B 200 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 NE2 GLN B 176 O HOH B 1179 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OH TYR A 95 NZ LYS B 29 2564 1.94 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 ASP A 157 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 159 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 162 CB - CG - OD2 ANGL. DEV. = 7.7 DEGREES REMARK 500 ASP B 159 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA A 113 129.32 -170.11 REMARK 500 GLU B 73 -2.54 70.15 REMARK 500 VAL B 147 -63.99 -103.12 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 CA A 801 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 33 O REMARK 620 2 THR A 35 O 93.6 REMARK 620 3 HOH A 808 O 93.3 75.5 REMARK 620 4 HOH A 846 O 89.6 153.4 77.9 REMARK 620 5 HOH A 990 O 86.7 63.6 139.0 143.1 REMARK 620 6 ALA B 33 O 178.4 85.6 87.8 91.8 91.7 REMARK 620 7 THR B 35 O 85.1 130.6 153.9 76.0 67.0 94.3 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 801 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1LXJ RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF YBL001C NORTHEAST STRUCTURAL GENOMICS (NESG) REMARK 900 CONSORTIUM TARGET YTYST72: SHARES SIMILAR FOLD REMARK 900 RELATED ID: 1LXN RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF MTH1187 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM REMARK 900 TARGET TT272: SHARES SIMILAR FOLD DBREF 1S99 A 1 200 UNP O34911 O34911_BACSU 1 200 DBREF 1S99 B 1 200 UNP O34911 O34911_BACSU 1 200 SEQADV 1S99 MSE A 20 UNP O34911 MET 20 MODIFIED RESIDUE SEQADV 1S99 ALA A 33 UNP O34911 LYS 33 ENGINEERED MUTATION SEQADV 1S99 ALA A 34 UNP O34911 LYS 34 ENGINEERED MUTATION SEQADV 1S99 MSE A 78 UNP O34911 MET 78 MODIFIED RESIDUE SEQADV 1S99 MSE A 124 UNP O34911 MET 124 MODIFIED RESIDUE SEQADV 1S99 MSE A 130 UNP O34911 MET 130 MODIFIED RESIDUE SEQADV 1S99 MSE A 134 UNP O34911 MET 134 MODIFIED RESIDUE SEQADV 1S99 MSE A 173 UNP O34911 MET 173 MODIFIED RESIDUE SEQADV 1S99 MSE A 183 UNP O34911 MET 183 MODIFIED RESIDUE SEQADV 1S99 MSE B 20 UNP O34911 MET 20 MODIFIED RESIDUE SEQADV 1S99 ALA B 33 UNP O34911 LYS 33 ENGINEERED MUTATION SEQADV 1S99 ALA B 34 UNP O34911 LYS 34 ENGINEERED MUTATION SEQADV 1S99 MSE B 78 UNP O34911 MET 78 MODIFIED RESIDUE SEQADV 1S99 MSE B 124 UNP O34911 MET 124 MODIFIED RESIDUE SEQADV 1S99 MSE B 130 UNP O34911 MET 130 MODIFIED RESIDUE SEQADV 1S99 MSE B 134 UNP O34911 MET 134 MODIFIED RESIDUE SEQADV 1S99 MSE B 173 UNP O34911 MET 173 MODIFIED RESIDUE SEQADV 1S99 MSE B 183 UNP O34911 MET 183 MODIFIED RESIDUE SEQRES 1 A 200 MET GLU HIS ILE CYS GLY THR SER ARG ILE ALA GLY PHE SEQRES 2 A 200 ARG PHE SER LEU TYR PRO MSE THR ASP ASP PHE ILE SER SEQRES 3 A 200 VAL ILE LYS SER ALA LEU ALA ALA THR ASP THR SER LYS SEQRES 4 A 200 VAL TRP THR LYS THR ASP HIS ILE SER THR VAL LEU ARG SEQRES 5 A 200 GLY SER ILE ASP HIS VAL PHE ASP ALA ALA LYS ALA ILE SEQRES 6 A 200 TYR LEU HIS ALA ALA ASN SER GLU GLN HIS ILE VAL MSE SEQRES 7 A 200 ASN GLY THR PHE SER ILE GLY CYS PRO GLY ASP THR GLN SEQRES 8 A 200 GLY ASP THR TYR LEU SER LYS GLY ASP LYS ARG VAL ASN SEQRES 9 A 200 GLU ASP ALA VAL ARG GLY LEU LYS ALA GLU ALA PRO CYS SEQRES 10 A 200 GLN PHE ALA LEU TYR PRO MSE ASN GLU PRO ASP TYR MSE SEQRES 11 A 200 GLY LEU ILE MSE GLU ALA VAL ASP ILE ALA LYS ALA GLN SEQRES 12 A 200 GLY THR PHE VAL GLN GLY VAL HIS TYR ALA SER GLU LEU SEQRES 13 A 200 ASP GLY ASP ALA HIS ASP VAL PHE SER THR LEU GLU ALA SEQRES 14 A 200 VAL PHE ARG MSE ALA GLU GLN GLN THR ASN HIS ILE THR SEQRES 15 A 200 MSE THR VAL ASN LEU SER ALA ASN SER PRO SER ARG LYS SEQRES 16 A 200 ASN ARG LYS GLN GLY SEQRES 1 B 200 MET GLU HIS ILE CYS GLY THR SER ARG ILE ALA GLY PHE SEQRES 2 B 200 ARG PHE SER LEU TYR PRO MSE THR ASP ASP PHE ILE SER SEQRES 3 B 200 VAL ILE LYS SER ALA LEU ALA ALA THR ASP THR SER LYS SEQRES 4 B 200 VAL TRP THR LYS THR ASP HIS ILE SER THR VAL LEU ARG SEQRES 5 B 200 GLY SER ILE ASP HIS VAL PHE ASP ALA ALA LYS ALA ILE SEQRES 6 B 200 TYR LEU HIS ALA ALA ASN SER GLU GLN HIS ILE VAL MSE SEQRES 7 B 200 ASN GLY THR PHE SER ILE GLY CYS PRO GLY ASP THR GLN SEQRES 8 B 200 GLY ASP THR TYR LEU SER LYS GLY ASP LYS ARG VAL ASN SEQRES 9 B 200 GLU ASP ALA VAL ARG GLY LEU LYS ALA GLU ALA PRO CYS SEQRES 10 B 200 GLN PHE ALA LEU TYR PRO MSE ASN GLU PRO ASP TYR MSE SEQRES 11 B 200 GLY LEU ILE MSE GLU ALA VAL ASP ILE ALA LYS ALA GLN SEQRES 12 B 200 GLY THR PHE VAL GLN GLY VAL HIS TYR ALA SER GLU LEU SEQRES 13 B 200 ASP GLY ASP ALA HIS ASP VAL PHE SER THR LEU GLU ALA SEQRES 14 B 200 VAL PHE ARG MSE ALA GLU GLN GLN THR ASN HIS ILE THR SEQRES 15 B 200 MSE THR VAL ASN LEU SER ALA ASN SER PRO SER ARG LYS SEQRES 16 B 200 ASN ARG LYS GLN GLY MODRES 1S99 MSE A 20 MET SELENOMETHIONINE MODRES 1S99 MSE A 78 MET SELENOMETHIONINE MODRES 1S99 MSE A 124 MET SELENOMETHIONINE MODRES 1S99 MSE A 130 MET SELENOMETHIONINE MODRES 1S99 MSE A 134 MET SELENOMETHIONINE MODRES 1S99 MSE A 173 MET SELENOMETHIONINE MODRES 1S99 MSE A 183 MET SELENOMETHIONINE MODRES 1S99 MSE B 20 MET SELENOMETHIONINE MODRES 1S99 MSE B 78 MET SELENOMETHIONINE MODRES 1S99 MSE B 124 MET SELENOMETHIONINE MODRES 1S99 MSE B 130 MET SELENOMETHIONINE MODRES 1S99 MSE B 134 MET SELENOMETHIONINE MODRES 1S99 MSE B 173 MET SELENOMETHIONINE MODRES 1S99 MSE B 183 MET SELENOMETHIONINE HET MSE A 20 8 HET MSE A 78 8 HET MSE A 124 8 HET MSE A 130 8 HET MSE A 134 8 HET MSE A 173 8 HET MSE A 183 8 HET MSE B 20 8 HET MSE B 78 8 HET MSE B 124 8 HET MSE B 130 8 HET MSE B 134 8 HET MSE B 173 8 HET MSE B 183 8 HET ACT A 201 4 HET CA A 801 1 HET ACT B 201 4 HETNAM MSE SELENOMETHIONINE HETNAM ACT ACETATE ION HETNAM CA CALCIUM ION FORMUL 1 MSE 14(C5 H11 N O2 SE) FORMUL 3 ACT 2(C2 H3 O2 1-) FORMUL 4 CA CA 2+ FORMUL 6 HOH *362(H2 O) HELIX 1 1 ASP A 23 THR A 35 1 13 HELIX 2 2 SER A 54 ASN A 71 1 18 HELIX 3 3 ASP A 128 GLN A 143 1 16 HELIX 4 4 ASP A 159 THR A 178 1 20 HELIX 5 5 ASP B 23 THR B 35 1 13 HELIX 6 6 SER B 54 ASN B 71 1 18 HELIX 7 7 ASP B 128 GLN B 143 1 16 HELIX 8 8 ASP B 159 THR B 178 1 20 SHEET 1 A 8 TRP A 41 THR A 44 0 SHEET 2 A 8 THR A 49 GLY A 53 -1 O ARG A 52 N TRP A 41 SHEET 3 A 8 ALA A 11 PRO A 19 -1 N PHE A 15 O THR A 49 SHEET 4 A 8 ILE A 76 ILE A 84 -1 O VAL A 77 N TYR A 18 SHEET 5 A 8 ILE A 181 ALA A 189 -1 O LEU A 187 N MSE A 78 SHEET 6 A 8 CYS A 117 PRO A 123 -1 N TYR A 122 O THR A 182 SHEET 7 A 8 ALA A 153 LEU A 156 -1 O LEU A 156 N CYS A 117 SHEET 8 A 8 PHE A 146 VAL A 150 -1 N GLN A 148 O GLU A 155 SHEET 1 B 8 TRP B 41 THR B 44 0 SHEET 2 B 8 THR B 49 GLY B 53 -1 O ARG B 52 N TRP B 41 SHEET 3 B 8 ALA B 11 PRO B 19 -1 N ALA B 11 O GLY B 53 SHEET 4 B 8 ILE B 76 ILE B 84 -1 O VAL B 77 N TYR B 18 SHEET 5 B 8 ILE B 181 ALA B 189 -1 O LEU B 187 N MSE B 78 SHEET 6 B 8 CYS B 117 PRO B 123 -1 N TYR B 122 O THR B 182 SHEET 7 B 8 ALA B 153 LEU B 156 -1 O SER B 154 N PHE B 119 SHEET 8 B 8 PHE B 146 VAL B 150 -1 N VAL B 147 O GLU B 155 LINK C PRO A 19 N MSE A 20 1555 1555 1.32 LINK C MSE A 20 N THR A 21 1555 1555 1.31 LINK C VAL A 77 N MSE A 78 1555 1555 1.33 LINK C MSE A 78 N ASN A 79 1555 1555 1.33 LINK C PRO A 123 N MSE A 124 1555 1555 1.32 LINK C MSE A 124 N ASN A 125 1555 1555 1.32 LINK C TYR A 129 N MSE A 130 1555 1555 1.33 LINK C MSE A 130 N GLY A 131 1555 1555 1.34 LINK C ILE A 133 N MSE A 134 1555 1555 1.33 LINK C MSE A 134 N GLU A 135 1555 1555 1.33 LINK C ARG A 172 N MSE A 173 1555 1555 1.32 LINK C MSE A 173 N ALA A 174 1555 1555 1.34 LINK C THR A 182 N MSE A 183 1555 1555 1.32 LINK C MSE A 183 N THR A 184 1555 1555 1.33 LINK C PRO B 19 N MSE B 20 1555 1555 1.33 LINK C MSE B 20 N THR B 21 1555 1555 1.32 LINK C VAL B 77 N MSE B 78 1555 1555 1.35 LINK C MSE B 78 N ASN B 79 1555 1555 1.34 LINK C PRO B 123 N MSE B 124 1555 1555 1.33 LINK C MSE B 124 N ASN B 125 1555 1555 1.32 LINK C TYR B 129 N MSE B 130 1555 1555 1.33 LINK C MSE B 130 N GLY B 131 1555 1555 1.33 LINK C ILE B 133 N MSE B 134 1555 1555 1.33 LINK C MSE B 134 N GLU B 135 1555 1555 1.34 LINK C ARG B 172 N MSE B 173 1555 1555 1.32 LINK C MSE B 173 N ALA B 174 1555 1555 1.33 LINK C THR B 182 N MSE B 183 1555 1555 1.33 LINK C MSE B 183 N THR B 184 1555 1555 1.33 LINK O ALA A 33 CA CA A 801 1555 1555 2.44 LINK O THR A 35 CA CA A 801 1555 1555 2.35 LINK CA CA A 801 O HOH A 808 1555 1555 2.49 LINK CA CA A 801 O HOH A 846 1555 1555 2.48 LINK CA CA A 801 O HOH A 990 1555 1555 2.99 LINK CA CA A 801 O ALA B 33 1555 2564 2.50 LINK CA CA A 801 O THR B 35 1555 2564 2.34 SITE 1 AC1 5 PHE A 15 SER A 16 LEU A 17 SER A 48 SITE 2 AC1 5 THR A 49 SITE 1 AC2 5 PHE B 15 SER B 16 LEU B 17 SER B 48 SITE 2 AC2 5 THR B 49 SITE 1 AC3 7 ALA A 33 THR A 35 HOH A 808 HOH A 846 SITE 2 AC3 7 HOH A 990 ALA B 33 THR B 35 CRYST1 60.930 83.280 85.900 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.016412 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012008 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011641 0.00000