HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 27-APR-06 2GTA TITLE CRYSTAL STRUCTURE OF THE PUTATIVE PYROPHOSPHATASE YPJD FROM BACILLUS TITLE 2 SUBTILIS. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET SR428. COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN YPJD; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 STRAIN: 168; SOURCE 5 GENE: YPJD; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)+MAGIC; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PET21 KEYWDS PYROPHOSPHATASE, YPJD, NESG, STRUCTURAL GENOMICS, PSI, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, KEYWDS 3 UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR S.M.VOROBIEV,W.ZHOU,J.SEETHARAMAN,D.WANG,L.C.MA,T.ACTON,R.XIO, AUTHOR 2 G.T.MONTELIONE,L.TONG,J.F.HUNT,NORTHEAST STRUCTURAL GENOMICS AUTHOR 3 CONSORTIUM (NESG) REVDAT 3 25-OCT-17 2GTA 1 REMARK REVDAT 2 24-FEB-09 2GTA 1 VERSN REVDAT 1 23-MAY-06 2GTA 0 JRNL AUTH S.M.VOROBIEV,W.ZHOU,J.SEETHARAMAN,D.WANG,L.C.MA,T.ACTON, JRNL AUTH 2 R.XIO,G.T.MONTELIONE,L.TONG,J.F.HUNT JRNL TITL CRYSTAL STRUCTURE OF THE PUTATIVE PYROPHOSPHATASE YPJD FROM JRNL TITL 2 BACILLUS SUBTILIS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 144717.020 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 80.1 REMARK 3 NUMBER OF REFLECTIONS : 23837 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 SET) : 0.225 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.100 REMARK 3 FREE R VALUE TEST SET COUNT : 978 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3580 REMARK 3 BIN R VALUE (WORKING SET) : 0.3230 REMARK 3 BIN FREE R VALUE : 0.3860 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 149 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.032 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2938 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 26 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 99.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -7.40000 REMARK 3 B22 (A**2) : 46.26000 REMARK 3 B33 (A**2) : -38.86000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.35 REMARK 3 ESD FROM SIGMAA (A) : 0.54 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.45 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.56 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 18.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.730 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.29 REMARK 3 BSOL : 17.73 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2GTA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-MAY-06. REMARK 100 THE DEPOSITION ID IS D_1000037522. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-APR-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97900 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 : ADSC REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24876 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 12.10 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 13.30 REMARK 200 R MERGE FOR SHELL (I) : 0.31800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 3350, 0.25 M SODIUM TARTRATE, REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 36.37350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.78400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.84700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.78400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.37350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.84700 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: TETRAMER ACCORDING TO AGGREGATION SCREEN 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -164.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 ARG A 99 REMARK 465 ASP A 100 REMARK 465 LYS A 101 REMARK 465 ASP A 102 REMARK 465 ARG A 103 REMARK 465 TRP A 104 REMARK 465 THR A 105 REMARK 465 ARG A 106 REMARK 465 LYS A 107 REMARK 465 GLU A 108 REMARK 465 GLU A 109 REMARK 465 GLY A 110 REMARK 465 LYS A 111 REMARK 465 LEU A 112 REMARK 465 GLU A 113 REMARK 465 HIS A 114 REMARK 465 HIS A 115 REMARK 465 HIS A 116 REMARK 465 HIS A 117 REMARK 465 HIS A 118 REMARK 465 HIS A 119 REMARK 465 THR B 57 REMARK 465 GLU B 58 REMARK 465 ASP B 59 REMARK 465 ASP B 60 REMARK 465 LYS B 101 REMARK 465 ASP B 102 REMARK 465 ARG B 103 REMARK 465 TRP B 104 REMARK 465 THR B 105 REMARK 465 ARG B 106 REMARK 465 LYS B 107 REMARK 465 GLU B 108 REMARK 465 GLU B 109 REMARK 465 GLY B 110 REMARK 465 LYS B 111 REMARK 465 LEU B 112 REMARK 465 GLU B 113 REMARK 465 HIS B 114 REMARK 465 HIS B 115 REMARK 465 HIS B 116 REMARK 465 HIS B 117 REMARK 465 HIS B 118 REMARK 465 HIS B 119 REMARK 465 MSE C 1 REMARK 465 GLY C 50 REMARK 465 GLU C 51 REMARK 465 LYS C 52 REMARK 465 PRO C 53 REMARK 465 LYS C 54 REMARK 465 LYS C 55 REMARK 465 ALA C 56 REMARK 465 THR C 57 REMARK 465 GLU C 58 REMARK 465 ASP C 59 REMARK 465 ASP C 60 REMARK 465 LYS C 61 REMARK 465 ASP C 100 REMARK 465 LYS C 101 REMARK 465 ASP C 102 REMARK 465 ARG C 103 REMARK 465 TRP C 104 REMARK 465 THR C 105 REMARK 465 ARG C 106 REMARK 465 LYS C 107 REMARK 465 GLU C 108 REMARK 465 GLU C 109 REMARK 465 GLY C 110 REMARK 465 LYS C 111 REMARK 465 LEU C 112 REMARK 465 GLU C 113 REMARK 465 HIS C 114 REMARK 465 HIS C 115 REMARK 465 HIS C 116 REMARK 465 HIS C 117 REMARK 465 HIS C 118 REMARK 465 HIS C 119 REMARK 465 MSE D 1 REMARK 465 LYS D 52 REMARK 465 PRO D 53 REMARK 465 LYS D 54 REMARK 465 LYS D 55 REMARK 465 ALA D 56 REMARK 465 THR D 57 REMARK 465 GLU D 58 REMARK 465 ASP D 59 REMARK 465 ASP D 60 REMARK 465 ARG D 99 REMARK 465 ASP D 100 REMARK 465 LYS D 101 REMARK 465 ASP D 102 REMARK 465 ARG D 103 REMARK 465 TRP D 104 REMARK 465 THR D 105 REMARK 465 HIS D 115 REMARK 465 HIS D 116 REMARK 465 HIS D 117 REMARK 465 HIS D 118 REMARK 465 HIS D 119 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 LYS A 7 CG CD CE NZ REMARK 470 LYS A 21 CG CD CE NZ REMARK 470 LYS A 54 CG CD CE NZ REMARK 470 THR A 57 OG1 CG2 REMARK 470 GLU A 58 CG CD OE1 OE2 REMARK 470 THR A 98 OG1 CG2 REMARK 470 SER B 2 OG REMARK 470 THR B 5 OG1 CG2 REMARK 470 LYS B 7 CG CD CE NZ REMARK 470 LYS B 55 CG CD CE NZ REMARK 470 LYS B 61 CG CD CE NZ REMARK 470 SER B 62 OG REMARK 470 GLU B 65 CG CD OE1 OE2 REMARK 470 LYS B 95 CG CD CE NZ REMARK 470 THR B 98 OG1 CG2 REMARK 470 SER C 2 OG REMARK 470 THR C 5 OG1 CG2 REMARK 470 ASP C 8 CG OD1 OD2 REMARK 470 LYS C 21 CG CD CE NZ REMARK 470 SER C 62 OG REMARK 470 GLU C 64 CG CD OE1 OE2 REMARK 470 GLU C 65 CG CD OE1 OE2 REMARK 470 LYS C 95 CG CD CE NZ REMARK 470 THR C 98 OG1 CG2 REMARK 470 ARG C 99 CG CD NE CZ NH1 NH2 REMARK 470 SER D 2 OG REMARK 470 THR D 5 OG1 CG2 REMARK 470 ASP D 8 CG OD1 OD2 REMARK 470 GLU D 51 CG CD OE1 OE2 REMARK 470 LYS D 61 CG CD CE NZ REMARK 470 ARG D 106 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 107 CG CD CE NZ REMARK 470 HIS D 114 CG ND1 CD2 CE1 NE2 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 SER A 2 149.16 -173.44 REMARK 500 ASP A 60 -145.90 -128.64 REMARK 500 MSE A 93 2.24 -68.55 REMARK 500 PHE A 96 -96.10 -82.49 REMARK 500 LYS B 55 -162.57 -103.37 REMARK 500 TYR D 49 21.05 -143.12 REMARK 500 GLU D 113 -69.28 -122.45 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 NA A 304 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 37 O REMARK 620 2 GLU A 37 OE1 93.7 REMARK 620 3 HOH A 463 O 156.5 66.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 302 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 37 OE1 REMARK 620 2 GLU B 40 OE1 60.3 REMARK 620 3 GLU B 66 OE2 121.3 69.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA C 303 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 37 OE1 REMARK 620 2 GLU C 66 OE1 112.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA D 301 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 37 OE1 REMARK 620 2 GLU D 40 OE1 75.0 REMARK 620 3 ASP D 69 OD2 78.5 114.4 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA D 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA C 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SR428 RELATED DB: TARGETDB DBREF 2GTA A 1 111 UNP P42979 YPJD_BACSU 1 111 DBREF 2GTA B 1 111 UNP P42979 YPJD_BACSU 1 111 DBREF 2GTA C 1 111 UNP P42979 YPJD_BACSU 1 111 DBREF 2GTA D 1 111 UNP P42979 YPJD_BACSU 1 111 SEQADV 2GTA MSE A 1 UNP P42979 MET 1 MODIFIED RESIDUE SEQADV 2GTA MSE A 6 UNP P42979 MET 6 MODIFIED RESIDUE SEQADV 2GTA MSE A 30 UNP P42979 MET 30 MODIFIED RESIDUE SEQADV 2GTA MSE A 31 UNP P42979 MET 31 MODIFIED RESIDUE SEQADV 2GTA MSE A 63 UNP P42979 MET 63 MODIFIED RESIDUE SEQADV 2GTA MSE A 93 UNP P42979 MET 93 MODIFIED RESIDUE SEQADV 2GTA LEU A 112 UNP P42979 EXPRESSION TAG SEQADV 2GTA GLU A 113 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS A 114 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS A 115 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS A 116 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS A 117 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS A 118 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS A 119 UNP P42979 EXPRESSION TAG SEQADV 2GTA MSE B 1 UNP P42979 MET 1 MODIFIED RESIDUE SEQADV 2GTA MSE B 6 UNP P42979 MET 6 MODIFIED RESIDUE SEQADV 2GTA MSE B 30 UNP P42979 MET 30 MODIFIED RESIDUE SEQADV 2GTA MSE B 31 UNP P42979 MET 31 MODIFIED RESIDUE SEQADV 2GTA MSE B 63 UNP P42979 MET 63 MODIFIED RESIDUE SEQADV 2GTA MSE B 93 UNP P42979 MET 93 MODIFIED RESIDUE SEQADV 2GTA LEU B 112 UNP P42979 EXPRESSION TAG SEQADV 2GTA GLU B 113 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS B 114 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS B 115 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS B 116 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS B 117 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS B 118 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS B 119 UNP P42979 EXPRESSION TAG SEQADV 2GTA MSE C 1 UNP P42979 MET 1 MODIFIED RESIDUE SEQADV 2GTA MSE C 6 UNP P42979 MET 6 MODIFIED RESIDUE SEQADV 2GTA MSE C 30 UNP P42979 MET 30 MODIFIED RESIDUE SEQADV 2GTA MSE C 31 UNP P42979 MET 31 MODIFIED RESIDUE SEQADV 2GTA MSE C 63 UNP P42979 MET 63 MODIFIED RESIDUE SEQADV 2GTA MSE C 93 UNP P42979 MET 93 MODIFIED RESIDUE SEQADV 2GTA LEU C 112 UNP P42979 EXPRESSION TAG SEQADV 2GTA GLU C 113 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS C 114 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS C 115 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS C 116 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS C 117 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS C 118 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS C 119 UNP P42979 EXPRESSION TAG SEQADV 2GTA MSE D 1 UNP P42979 MET 1 MODIFIED RESIDUE SEQADV 2GTA MSE D 6 UNP P42979 MET 6 MODIFIED RESIDUE SEQADV 2GTA MSE D 30 UNP P42979 MET 30 MODIFIED RESIDUE SEQADV 2GTA MSE D 31 UNP P42979 MET 31 MODIFIED RESIDUE SEQADV 2GTA MSE D 63 UNP P42979 MET 63 MODIFIED RESIDUE SEQADV 2GTA MSE D 93 UNP P42979 MET 93 MODIFIED RESIDUE SEQADV 2GTA LEU D 112 UNP P42979 EXPRESSION TAG SEQADV 2GTA GLU D 113 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS D 114 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS D 115 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS D 116 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS D 117 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS D 118 UNP P42979 EXPRESSION TAG SEQADV 2GTA HIS D 119 UNP P42979 EXPRESSION TAG SEQRES 1 A 119 MSE SER ASP LYS THR MSE LYS ASP ILE GLN ALA GLU VAL SEQRES 2 A 119 ASP ARG TYR ILE GLY GLN PHE LYS GLU GLY TYR PHE SER SEQRES 3 A 119 PRO LEU ALA MSE MSE ALA ARG LEU THR GLU GLU LEU GLY SEQRES 4 A 119 GLU LEU ALA ARG GLU VAL ASN HIS ARG TYR GLY GLU LYS SEQRES 5 A 119 PRO LYS LYS ALA THR GLU ASP ASP LYS SER MSE GLU GLU SEQRES 6 A 119 GLU ILE GLY ASP VAL LEU PHE VAL LEU VAL CYS LEU ALA SEQRES 7 A 119 ASN SER LEU ASP ILE SER LEU GLU GLU ALA HIS ASP ARG SEQRES 8 A 119 VAL MSE HIS LYS PHE ASN THR ARG ASP LYS ASP ARG TRP SEQRES 9 A 119 THR ARG LYS GLU GLU GLY LYS LEU GLU HIS HIS HIS HIS SEQRES 10 A 119 HIS HIS SEQRES 1 B 119 MSE SER ASP LYS THR MSE LYS ASP ILE GLN ALA GLU VAL SEQRES 2 B 119 ASP ARG TYR ILE GLY GLN PHE LYS GLU GLY TYR PHE SER SEQRES 3 B 119 PRO LEU ALA MSE MSE ALA ARG LEU THR GLU GLU LEU GLY SEQRES 4 B 119 GLU LEU ALA ARG GLU VAL ASN HIS ARG TYR GLY GLU LYS SEQRES 5 B 119 PRO LYS LYS ALA THR GLU ASP ASP LYS SER MSE GLU GLU SEQRES 6 B 119 GLU ILE GLY ASP VAL LEU PHE VAL LEU VAL CYS LEU ALA SEQRES 7 B 119 ASN SER LEU ASP ILE SER LEU GLU GLU ALA HIS ASP ARG SEQRES 8 B 119 VAL MSE HIS LYS PHE ASN THR ARG ASP LYS ASP ARG TRP SEQRES 9 B 119 THR ARG LYS GLU GLU GLY LYS LEU GLU HIS HIS HIS HIS SEQRES 10 B 119 HIS HIS SEQRES 1 C 119 MSE SER ASP LYS THR MSE LYS ASP ILE GLN ALA GLU VAL SEQRES 2 C 119 ASP ARG TYR ILE GLY GLN PHE LYS GLU GLY TYR PHE SER SEQRES 3 C 119 PRO LEU ALA MSE MSE ALA ARG LEU THR GLU GLU LEU GLY SEQRES 4 C 119 GLU LEU ALA ARG GLU VAL ASN HIS ARG TYR GLY GLU LYS SEQRES 5 C 119 PRO LYS LYS ALA THR GLU ASP ASP LYS SER MSE GLU GLU SEQRES 6 C 119 GLU ILE GLY ASP VAL LEU PHE VAL LEU VAL CYS LEU ALA SEQRES 7 C 119 ASN SER LEU ASP ILE SER LEU GLU GLU ALA HIS ASP ARG SEQRES 8 C 119 VAL MSE HIS LYS PHE ASN THR ARG ASP LYS ASP ARG TRP SEQRES 9 C 119 THR ARG LYS GLU GLU GLY LYS LEU GLU HIS HIS HIS HIS SEQRES 10 C 119 HIS HIS SEQRES 1 D 119 MSE SER ASP LYS THR MSE LYS ASP ILE GLN ALA GLU VAL SEQRES 2 D 119 ASP ARG TYR ILE GLY GLN PHE LYS GLU GLY TYR PHE SER SEQRES 3 D 119 PRO LEU ALA MSE MSE ALA ARG LEU THR GLU GLU LEU GLY SEQRES 4 D 119 GLU LEU ALA ARG GLU VAL ASN HIS ARG TYR GLY GLU LYS SEQRES 5 D 119 PRO LYS LYS ALA THR GLU ASP ASP LYS SER MSE GLU GLU SEQRES 6 D 119 GLU ILE GLY ASP VAL LEU PHE VAL LEU VAL CYS LEU ALA SEQRES 7 D 119 ASN SER LEU ASP ILE SER LEU GLU GLU ALA HIS ASP ARG SEQRES 8 D 119 VAL MSE HIS LYS PHE ASN THR ARG ASP LYS ASP ARG TRP SEQRES 9 D 119 THR ARG LYS GLU GLU GLY LYS LEU GLU HIS HIS HIS HIS SEQRES 10 D 119 HIS HIS MODRES 2GTA MSE A 1 MET SELENOMETHIONINE MODRES 2GTA MSE A 6 MET SELENOMETHIONINE MODRES 2GTA MSE A 30 MET SELENOMETHIONINE MODRES 2GTA MSE A 31 MET SELENOMETHIONINE MODRES 2GTA MSE A 63 MET SELENOMETHIONINE MODRES 2GTA MSE A 93 MET SELENOMETHIONINE MODRES 2GTA MSE B 1 MET SELENOMETHIONINE MODRES 2GTA MSE B 6 MET SELENOMETHIONINE MODRES 2GTA MSE B 30 MET SELENOMETHIONINE MODRES 2GTA MSE B 31 MET SELENOMETHIONINE MODRES 2GTA MSE B 63 MET SELENOMETHIONINE MODRES 2GTA MSE B 93 MET SELENOMETHIONINE MODRES 2GTA MSE C 6 MET SELENOMETHIONINE MODRES 2GTA MSE C 30 MET SELENOMETHIONINE MODRES 2GTA MSE C 31 MET SELENOMETHIONINE MODRES 2GTA MSE C 63 MET SELENOMETHIONINE MODRES 2GTA MSE C 93 MET SELENOMETHIONINE MODRES 2GTA MSE D 6 MET SELENOMETHIONINE MODRES 2GTA MSE D 30 MET SELENOMETHIONINE MODRES 2GTA MSE D 31 MET SELENOMETHIONINE MODRES 2GTA MSE D 63 MET SELENOMETHIONINE MODRES 2GTA MSE D 93 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 6 8 HET MSE A 30 8 HET MSE A 31 8 HET MSE A 63 8 HET MSE A 93 8 HET MSE B 1 8 HET MSE B 6 8 HET MSE B 30 8 HET MSE B 31 8 HET MSE B 63 8 HET MSE B 93 8 HET MSE C 6 8 HET MSE C 30 8 HET MSE C 31 8 HET MSE C 63 8 HET MSE C 93 8 HET MSE D 6 8 HET MSE D 30 8 HET MSE D 31 8 HET MSE D 63 8 HET MSE D 93 8 HET NA A 304 1 HET NA B 302 1 HET NA C 303 1 HET NA D 301 1 HETNAM MSE SELENOMETHIONINE HETNAM NA SODIUM ION FORMUL 1 MSE 22(C5 H11 N O2 SE) FORMUL 5 NA 4(NA 1+) FORMUL 9 HOH *26(H2 O) HELIX 1 1 THR A 5 GLY A 18 1 14 HELIX 2 2 SER A 26 TYR A 49 1 24 HELIX 3 3 LYS A 61 SER A 80 1 20 HELIX 4 4 SER A 84 PHE A 96 1 13 HELIX 5 5 MSE B 6 LYS B 21 1 16 HELIX 6 6 SER B 26 TYR B 49 1 24 HELIX 7 7 SER B 62 LEU B 81 1 20 HELIX 8 8 SER B 84 THR B 98 1 15 HELIX 9 9 THR C 5 GLN C 19 1 15 HELIX 10 10 SER C 26 TYR C 49 1 24 HELIX 11 11 SER C 62 LEU C 81 1 20 HELIX 12 12 SER C 84 THR C 98 1 15 HELIX 13 13 THR D 5 GLN D 19 1 15 HELIX 14 14 SER D 26 GLY D 50 1 25 HELIX 15 15 LYS D 61 LEU D 81 1 21 HELIX 16 16 SER D 84 THR D 98 1 15 HELIX 17 17 GLU D 109 GLU D 113 5 5 LINK C MSE A 1 N SER A 2 1555 1555 1.34 LINK C THR A 5 N MSE A 6 1555 1555 1.33 LINK C MSE A 6 N LYS A 7 1555 1555 1.34 LINK C ALA A 29 N MSE A 30 1555 1555 1.33 LINK C MSE A 30 N MSE A 31 1555 1555 1.33 LINK C MSE A 31 N ALA A 32 1555 1555 1.33 LINK C SER A 62 N MSE A 63 1555 1555 1.33 LINK C MSE A 63 N GLU A 64 1555 1555 1.33 LINK C VAL A 92 N MSE A 93 1555 1555 1.32 LINK C MSE A 93 N HIS A 94 1555 1555 1.33 LINK C MSE B 1 N SER B 2 1555 1555 1.33 LINK C THR B 5 N MSE B 6 1555 1555 1.33 LINK C MSE B 6 N LYS B 7 1555 1555 1.34 LINK C ALA B 29 N MSE B 30 1555 1555 1.33 LINK C MSE B 30 N MSE B 31 1555 1555 1.33 LINK C MSE B 31 N ALA B 32 1555 1555 1.33 LINK C SER B 62 N MSE B 63 1555 1555 1.33 LINK C MSE B 63 N GLU B 64 1555 1555 1.33 LINK C VAL B 92 N MSE B 93 1555 1555 1.33 LINK C MSE B 93 N HIS B 94 1555 1555 1.33 LINK C THR C 5 N MSE C 6 1555 1555 1.33 LINK C MSE C 6 N LYS C 7 1555 1555 1.33 LINK C ALA C 29 N MSE C 30 1555 1555 1.33 LINK C MSE C 30 N MSE C 31 1555 1555 1.33 LINK C MSE C 31 N ALA C 32 1555 1555 1.33 LINK C SER C 62 N MSE C 63 1555 1555 1.33 LINK C MSE C 63 N GLU C 64 1555 1555 1.33 LINK C VAL C 92 N MSE C 93 1555 1555 1.33 LINK C MSE C 93 N HIS C 94 1555 1555 1.33 LINK C THR D 5 N MSE D 6 1555 1555 1.33 LINK C MSE D 6 N LYS D 7 1555 1555 1.33 LINK C ALA D 29 N MSE D 30 1555 1555 1.33 LINK C MSE D 30 N MSE D 31 1555 1555 1.33 LINK C MSE D 31 N ALA D 32 1555 1555 1.32 LINK C SER D 62 N MSE D 63 1555 1555 1.33 LINK C MSE D 63 N GLU D 64 1555 1555 1.33 LINK C VAL D 92 N MSE D 93 1555 1555 1.32 LINK C MSE D 93 N HIS D 94 1555 1555 1.33 LINK O GLU A 37 NA NA A 304 1555 1555 2.92 LINK OE1 GLU A 37 NA NA A 304 1555 1555 2.79 LINK OE1 GLU B 37 NA NA B 302 1555 1555 2.72 LINK OE1 GLU B 40 NA NA B 302 1555 1555 2.79 LINK OE2 GLU B 66 NA NA B 302 1555 1555 3.00 LINK OE1 GLU C 37 NA NA C 303 1555 1555 2.91 LINK OE1 GLU C 66 NA NA C 303 1555 1555 2.99 LINK OE1 GLU D 37 NA NA D 301 1555 1555 2.78 LINK OE1 GLU D 40 NA NA D 301 1555 1555 2.74 LINK OD2 ASP D 69 NA NA D 301 1555 1555 2.97 LINK NA NA A 304 O HOH A 463 1555 1555 2.81 SITE 1 AC1 4 GLU D 37 GLU D 40 GLU D 66 ASP D 69 SITE 1 AC2 4 GLU B 37 GLU B 40 GLU B 66 ASP B 69 SITE 1 AC3 4 GLU C 37 GLU C 40 GLU C 66 ASP C 69 SITE 1 AC4 5 GLU A 37 GLU A 40 GLU A 66 ASP A 69 SITE 2 AC4 5 HOH A 463 CRYST1 72.747 79.694 119.568 90.00 90.00 90.00 P 21 21 21 16 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 0.013746 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012548 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008363 0.00000 HETATM 1 N MSE A 1 9.138 49.494 28.671 1.00 89.38 N HETATM 2 CA MSE A 1 8.258 48.310 28.445 1.00 89.68 C HETATM 3 C MSE A 1 7.711 47.778 29.786 1.00 87.82 C HETATM 4 O MSE A 1 6.511 47.503 29.912 1.00 87.12 O HETATM 5 CB MSE A 1 9.054 47.215 27.722 1.00 92.62 C HETATM 6 CG MSE A 1 8.213 46.210 26.941 1.00 96.17 C HETATM 7 SE MSE A 1 9.157 44.526 26.615 1.00 99.61 SE HETATM 8 CE MSE A 1 7.596 43.387 26.259 1.00 97.84 C