HEADER TRANSFERASE 08-OCT-09 3K5W TITLE CRYSTAL STRUCTURE OF A CARBOHYDRATE KINASE (YJEF FAMILY)FROM TITLE 2 HELICOBACTER PYLORI COMPND MOL_ID: 1; COMPND 2 MOLECULE: CARBOHYDRATE KINASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_TAXID: 210; SOURCE 4 GENE: 900323; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) CODON + RIL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PSGX3 (BC) KEYWDS TRANSFERASE, KINASE, SAD, PFKB FAMILY, CARBOHYDRATE KINASE, 11206B, KEYWDS 2 HELICOBACTER PYLORI, PSI-II, NYSGXRC, STRUCTURAL GENOMICS, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL KEYWDS 4 GENOMICS EXPDTA X-RAY DIFFRACTION AUTHOR L.SATYANARAYANA,S.K.BURLEY,S.SWAMINATHAN,NEW YORK SGX RESEARCH CENTER AUTHOR 2 FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 3 10-FEB-21 3K5W 1 AUTHOR JRNL REMARK REVDAT 2 13-NOV-19 3K5W 1 KEYWDS LINK REVDAT 1 08-DEC-09 3K5W 0 JRNL AUTH L.SATYANARAYANA,S.K.BURLEY,S.SWAMINATHAN JRNL TITL CRYSTAL STRUCTURE OF A CARBOHYDRATE KINASE (YJEF FAMILY)FROM JRNL TITL 2 HELICOBACTER PYLORI JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.60 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 25164 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) : 0.233 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1302 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.76 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3230 REMARK 3 BIN FREE R VALUE : 0.3670 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 206 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.026 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3535 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 79 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.75000 REMARK 3 B22 (A**2) : -1.75000 REMARK 3 B33 (A**2) : 3.49000 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) : 0.39 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) : 0.41 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.44 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : 1.800 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC 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 : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: AUTHORS STATE THAT THE NUMBER OF REMARK 3 REFLECTIONS ARE CORRECT. AUTHORS HAVE USED ANOMALOUS PAIRS AS REMARK 3 INDEPENDENT REFLECTIONS IN REFINEMENT. REMARK 4 REMARK 4 3K5W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000055585. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-SEP-09 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 : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25967 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.320 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 28.10 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08900 REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 27.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.65000 REMARK 200 FOR SHELL : 7.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXS & SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M KH2PO4, 0.2M AMMONIUM CITRATE PH REMARK 280 7.0 8% ACETONITRILE 15% PEG 3,350., VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-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 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 59.97750 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 59.97750 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 81.11300 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 59.97750 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 59.97750 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 81.11300 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 59.97750 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 59.97750 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 81.11300 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 59.97750 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 59.97750 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 81.11300 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 59.97750 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 59.97750 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 81.11300 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 59.97750 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 59.97750 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 81.11300 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 59.97750 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 59.97750 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 81.11300 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 59.97750 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 59.97750 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 81.11300 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 72430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 31270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 136630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -148.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 6 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 7 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 8 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 MSE A -2 REMARK 465 ALA A 108 REMARK 465 LEU A 109 REMARK 465 ASN A 110 REMARK 465 GLN A 111 REMARK 465 GLU A 368 REMARK 465 ILE A 369 REMARK 465 GLY A 468 REMARK 465 HIS A 469 REMARK 465 HIS A 470 REMARK 465 HIS A 471 REMARK 465 HIS A 472 REMARK 465 HIS A 473 REMARK 465 HIS A 474 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 LEU A 44 87.11 -64.40 REMARK 500 LYS A 83 -61.28 -123.37 REMARK 500 LEU A 113 20.01 -77.08 REMARK 500 LEU A 135 51.22 -102.01 REMARK 500 ASP A 151 -58.70 76.46 REMARK 500 LEU A 222 152.77 -49.53 REMARK 500 PRO A 223 48.68 -79.39 REMARK 500 GLN A 267 119.72 -160.37 REMARK 500 LEU A 269 -80.69 -107.69 REMARK 500 GLU A 272 45.36 -91.29 REMARK 500 THR A 274 -152.46 -135.35 REMARK 500 ASN A 276 -107.76 -43.64 REMARK 500 ASN A 277 -101.22 -84.56 REMARK 500 LYS A 278 131.02 60.54 REMARK 500 ASP A 307 17.40 -64.73 REMARK 500 ALA A 321 -87.97 10.31 REMARK 500 LYS A 327 -35.97 -36.54 REMARK 500 ILE A 329 2.91 -68.11 REMARK 500 THR A 340 57.76 -117.95 REMARK 500 ASN A 351 -50.72 160.65 REMARK 500 SER A 358 -160.41 -103.93 REMARK 500 ASP A 364 19.93 -142.89 REMARK 500 GLN A 394 -119.50 48.49 REMARK 500 LYS A 409 132.15 -8.84 REMARK 500 ALA A 442 -65.48 93.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11206B RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS STATE THAT THE REFERENCE TO UNP P56176 IS CORRECT AND THE REMARK 999 DIFFERENCES ARE DUE TO NATURAL VARIANT STRAIN. THEY ARE NATURAL REMARK 999 VARIANT AND NOT ENGINEERED. DBREF 3K5W A 2 466 UNP P56176 Y1363_HELPY 2 466 SEQADV 3K5W MSE A -2 UNP P56176 EXPRESSION TAG SEQADV 3K5W SER A -1 UNP P56176 EXPRESSION TAG SEQADV 3K5W ARG A 73 UNP P56176 LYS 73 SEE REMARK 999 SEQADV 3K5W VAL A 74 UNP P56176 THR 74 SEE REMARK 999 SEQADV 3K5W THR A 82 UNP P56176 ALA 82 SEE REMARK 999 SEQADV 3K5W LYS A 91 UNP P56176 GLN 91 SEE REMARK 999 SEQADV 3K5W THR A 103 UNP P56176 ALA 103 SEE REMARK 999 SEQADV 3K5W ARG A 165 UNP P56176 GLY 165 SEE REMARK 999 SEQADV 3K5W PRO A 204 UNP P56176 GLN 204 SEE REMARK 999 SEQADV 3K5W LYS A 227 UNP P56176 ARG 227 SEE REMARK 999 SEQADV 3K5W ARG A 310 UNP P56176 LYS 310 SEE REMARK 999 SEQADV 3K5W ILE A 329 UNP P56176 VAL 329 SEE REMARK 999 SEQADV 3K5W ALA A 337 UNP P56176 VAL 337 SEE REMARK 999 SEQADV 3K5W VAL A 338 UNP P56176 ILE 338 SEE REMARK 999 SEQADV 3K5W ASN A 351 UNP P56176 LYS 351 SEE REMARK 999 SEQADV 3K5W LEU A 439 UNP P56176 SER 439 SEE REMARK 999 SEQADV 3K5W GLU A 467 UNP P56176 EXPRESSION TAG SEQADV 3K5W GLY A 468 UNP P56176 EXPRESSION TAG SEQADV 3K5W HIS A 469 UNP P56176 EXPRESSION TAG SEQADV 3K5W HIS A 470 UNP P56176 EXPRESSION TAG SEQADV 3K5W HIS A 471 UNP P56176 EXPRESSION TAG SEQADV 3K5W HIS A 472 UNP P56176 EXPRESSION TAG SEQADV 3K5W HIS A 473 UNP P56176 EXPRESSION TAG SEQADV 3K5W HIS A 474 UNP P56176 EXPRESSION TAG SEQRES 1 A 475 MSE SER LEU SER VAL TYR GLU LYS VAL ASN ALA LEU ASP SEQRES 2 A 475 LYS ARG ALA ILE GLU GLU LEU PHE LEU SER GLU ASP ILE SEQRES 3 A 475 LEU MSE GLU ASN ALA ALA MSE ALA LEU GLU ARG ALA VAL SEQRES 4 A 475 LEU GLN ASN ALA SER LEU GLY ALA LYS VAL ILE ILE LEU SEQRES 5 A 475 CYS GLY SER GLY ASP ASN GLY GLY ASP GLY TYR ALA LEU SEQRES 6 A 475 ALA ARG ARG LEU VAL GLY ARG PHE ARG VAL LEU VAL PHE SEQRES 7 A 475 GLU MSE LYS LEU THR LYS SER PRO MSE CYS GLN LEU GLN SEQRES 8 A 475 LYS GLU ARG ALA LYS LYS ALA GLY VAL VAL ILE LYS THR SEQRES 9 A 475 TYR GLU GLU ASN ALA LEU ASN GLN ASN LEU GLU CYS ASP SEQRES 10 A 475 VAL LEU ILE ASP CYS VAL ILE GLY SER HIS PHE LYS GLY SEQRES 11 A 475 LYS LEU GLU PRO PHE LEU ASN PHE GLU SER LEU SER GLN SEQRES 12 A 475 LYS ALA ARG PHE LYS ILE ALA CYS ASP ILE PRO SER GLY SEQRES 13 A 475 ILE ASP SER LYS GLY ARG VAL ASP LYS ARG ALA PHE LYS SEQRES 14 A 475 ALA ASP LEU THR ILE SER MSE GLY ALA ILE LYS SER CYS SEQRES 15 A 475 LEU LEU SER ASP ARG ALA LYS ASP TYR VAL GLY GLU LEU SEQRES 16 A 475 LYS VAL GLY HIS LEU GLY VAL PHE ASN PRO ILE TYR GLU SEQRES 17 A 475 ILE PRO THR ASP THR PHE LEU LEU GLU LYS SER ASP LEU SEQRES 18 A 475 LYS LEU PRO LEU ARG ASP LYS LYS ASN ALA HIS LYS GLY SEQRES 19 A 475 ASP TYR GLY HIS ALA HIS VAL LEU LEU GLY LYS HIS SER SEQRES 20 A 475 GLY ALA GLY LEU LEU SER ALA LEU SER ALA LEU SER PHE SEQRES 21 A 475 GLY SER GLY VAL VAL SER VAL GLN ALA LEU GLU CYS GLU SEQRES 22 A 475 ILE THR SER ASN ASN LYS PRO LEU GLU LEU VAL PHE CYS SEQRES 23 A 475 GLU ASN PHE PRO ASN LEU LEU SER ALA PHE ALA LEU GLY SEQRES 24 A 475 MSE GLY LEU GLU ASN ILE PRO LYS ASP PHE ASN ARG TRP SEQRES 25 A 475 LEU GLU LEU ALA PRO CYS VAL LEU ASP ALA GLY VAL PHE SEQRES 26 A 475 TYR HIS LYS GLU ILE LEU GLN ALA LEU GLU LYS GLU ALA SEQRES 27 A 475 VAL LEU THR PRO HIS PRO LYS GLU PHE LEU SER LEU LEU SEQRES 28 A 475 ASN LEU VAL GLY ILE ASN ILE SER MSE LEU GLU LEU LEU SEQRES 29 A 475 ASP ASN LYS LEU GLU ILE ALA ARG ASP PHE SER GLN LYS SEQRES 30 A 475 TYR PRO LYS VAL VAL LEU LEU LEU LYS GLY ALA ASN THR SEQRES 31 A 475 LEU ILE ALA HIS GLN GLY GLN VAL PHE ILE ASN ILE LEU SEQRES 32 A 475 GLY SER VAL ALA LEU ALA LYS ALA GLY SER GLY ASP VAL SEQRES 33 A 475 LEU ALA GLY LEU ILE LEU SER LEU LEU SER GLN ASN TYR SEQRES 34 A 475 THR PRO LEU ASP ALA ALA ILE ASN ALA SER LEU ALA HIS SEQRES 35 A 475 ALA LEU ALA SER LEU GLU PHE LYS ASN ASN TYR ALA LEU SEQRES 36 A 475 THR PRO LEU ASP LEU ILE GLU LYS ILE LYS GLN LEU GLU SEQRES 37 A 475 GLY HIS HIS HIS HIS HIS HIS MODRES 3K5W MSE A 27 MET SELENOMETHIONINE MODRES 3K5W MSE A 32 MET SELENOMETHIONINE MODRES 3K5W MSE A 79 MET SELENOMETHIONINE MODRES 3K5W MSE A 86 MET SELENOMETHIONINE MODRES 3K5W MSE A 175 MET SELENOMETHIONINE MODRES 3K5W MSE A 299 MET SELENOMETHIONINE MODRES 3K5W MSE A 359 MET SELENOMETHIONINE HET MSE A 27 8 HET MSE A 32 8 HET MSE A 79 8 HET MSE A 86 8 HET MSE A 175 8 HET MSE A 299 8 HET MSE A 359 8 HET PO4 A 501 5 HETNAM MSE SELENOMETHIONINE HETNAM PO4 PHOSPHATE ION FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 2 PO4 O4 P 3- FORMUL 3 HOH *79(H2 O) HELIX 1 1 VAL A 8 GLU A 18 1 11 HELIX 2 2 SER A 22 GLN A 40 1 19 HELIX 3 3 GLY A 55 VAL A 69 1 15 HELIX 4 4 SER A 84 ALA A 97 1 14 HELIX 5 5 ASN A 136 SER A 141 1 6 HELIX 6 6 CYS A 181 ARG A 186 5 6 HELIX 7 7 ALA A 187 GLY A 192 1 6 HELIX 8 8 PHE A 202 GLU A 207 1 6 HELIX 9 9 GLU A 216 LEU A 220 5 5 HELIX 10 10 HIS A 231 TYR A 235 5 5 HELIX 11 11 HIS A 245 PHE A 259 1 15 HELIX 12 12 ASP A 307 ALA A 315 1 9 HELIX 13 13 GLY A 322 GLN A 331 5 10 HELIX 14 14 HIS A 342 LEU A 350 1 9 HELIX 15 15 GLU A 361 ASN A 365 5 5 HELIX 16 16 LYS A 366 LEU A 367 5 2 HELIX 17 17 ALA A 370 TYR A 377 1 8 HELIX 18 18 SER A 404 ALA A 408 5 5 HELIX 19 19 GLY A 411 GLN A 426 1 16 HELIX 20 20 THR A 429 ALA A 444 1 16 HELIX 21 21 SER A 445 PHE A 448 5 4 HELIX 22 22 THR A 455 GLN A 465 1 11 SHEET 1 A12 ILE A 178 LYS A 179 0 SHEET 2 A12 LEU A 2 TYR A 5 1 N TYR A 5 O ILE A 178 SHEET 3 A12 THR A 212 LEU A 214 -1 O LEU A 214 N LEU A 2 SHEET 4 A12 GLN A 396 ASN A 400 1 O ILE A 399 N PHE A 213 SHEET 5 A12 THR A 389 HIS A 393 -1 N THR A 389 O ASN A 400 SHEET 6 A12 VAL A 380 LEU A 384 -1 N LEU A 382 O ALA A 392 SHEET 7 A12 ALA A 337 THR A 340 1 N LEU A 339 O VAL A 381 SHEET 8 A12 CYS A 317 ASP A 320 1 N LEU A 319 O THR A 340 SHEET 9 A12 ALA A 294 LEU A 297 1 N LEU A 297 O ASP A 320 SHEET 10 A12 HIS A 237 LEU A 242 1 N HIS A 239 O ALA A 296 SHEET 11 A12 VAL A 263 ALA A 268 1 O SER A 265 N VAL A 240 SHEET 12 A12 VAL A 283 CYS A 285 1 O VAL A 283 N VAL A 266 SHEET 1 B 7 VAL A 100 THR A 103 0 SHEET 2 B 7 ARG A 73 GLU A 78 1 N VAL A 76 O LYS A 102 SHEET 3 B 7 LYS A 47 CYS A 52 1 N VAL A 48 O ARG A 73 SHEET 4 B 7 CYS A 115 CYS A 121 1 O ILE A 119 N ILE A 49 SHEET 5 B 7 ALA A 144 CYS A 150 1 O PHE A 146 N LEU A 118 SHEET 6 B 7 LEU A 171 MSE A 175 1 O LEU A 171 N ALA A 149 SHEET 7 B 7 GLU A 193 GLY A 197 1 O GLU A 193 N THR A 172 LINK C MSE A 27 N GLU A 28 1555 1555 1.33 LINK C MSE A 32 N ALA A 33 1555 1555 1.33 LINK C MSE A 79 N LYS A 80 1555 1555 1.33 LINK C MSE A 86 N CYS A 87 1555 1555 1.32 LINK C MSE A 175 N GLY A 176 1555 1555 1.33 LINK C MSE A 299 N GLY A 300 1555 1555 1.33 LINK C MSE A 359 N LEU A 360 1555 1555 1.33 SITE 1 AC1 6 ASP A 56 ASN A 57 ILE A 123 GLY A 124 SITE 2 AC1 6 HIS A 126 HOH A 548 CRYST1 119.955 119.955 162.226 90.00 90.00 90.00 I 4 2 2 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 0.008336 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008336 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006164 0.00000