HEADER ISOMERASE 29-SEP-10 3P12 TITLE CRYSTAL STRUCTURE OF D-RIBOSE PYRANASE SA240 COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-RIBOSE PYRANASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 5.5.1.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 93061; SOURCE 4 STRAIN: NCTC 8325; SOURCE 5 GENE: RBSD, SAOUHSC_00240; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-28A KEYWDS RBSD, D-RIBOSE PYRANASE, SA240, CARBOHYDRATE METABOLISM, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.WU,L.WANG,J.ZANG REVDAT 2 20-MAR-24 3P12 1 REMARK SEQADV REVDAT 1 25-MAY-11 3P12 0 JRNL AUTH L.WANG,M.WU,J.ZANG JRNL TITL CRYSTAL STRUCTURE OF SA240: A RIBOSE PYRANASE HOMOLOG WITH JRNL TITL 2 PARTIAL ACTIVE SITE FROM STAPHYLOCOCCUS AUREUS JRNL REF J.STRUCT.BIOL. V. 174 413 2011 JRNL REFN ISSN 1047-8477 JRNL PMID 21276853 JRNL DOI 10.1016/J.JSB.2011.01.007 REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 31215 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) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1670 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) : 2.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2247 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.2840 REMARK 3 BIN FREE R VALUE SET COUNT : 115 REMARK 3 BIN FREE R VALUE : 0.3130 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4106 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 218 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 43.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.94000 REMARK 3 B22 (A**2) : -0.94000 REMARK 3 B33 (A**2) : 1.42000 REMARK 3 B12 (A**2) : -0.47000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.226 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4254 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5785 ; 1.171 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 531 ; 3.508 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 198 ;43.339 ;26.010 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 792 ;17.114 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;27.325 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 694 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3133 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2618 ; 1.126 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4310 ; 2.331 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1636 ; 2.705 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1465 ; 4.544 ; 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 : 1.40 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 3P12 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1000061823. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-FEB-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794, 0.9795, 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32949 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 14.00 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : 0.08800 REMARK 200 FOR THE DATA SET : 30.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.39 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 14.10 REMARK 200 R MERGE FOR SHELL (I) : 0.48500 REMARK 200 R SYM FOR SHELL (I) : 0.33400 REMARK 200 FOR SHELL : 5.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.88 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE PH 4.6, 2.0M REMARK 280 SODIUM FORMATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 281K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 117.24067 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 58.62033 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 87.93050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 29.31017 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 146.55083 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 117.24067 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 58.62033 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 29.31017 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 87.93050 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 146.55083 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 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: 1550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 GLY A 2 REMARK 465 MET A 3 REMARK 465 LYS A 4 REMARK 465 LYS A 5 REMARK 465 SER A 6 REMARK 465 ALA A 7 REMARK 465 LEU A 137 REMARK 465 GLU A 138 REMARK 465 HIS A 139 REMARK 465 HIS A 140 REMARK 465 HIS A 141 REMARK 465 HIS A 142 REMARK 465 HIS A 143 REMARK 465 HIS A 144 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 MET B 3 REMARK 465 LYS B 4 REMARK 465 LYS B 5 REMARK 465 SER B 6 REMARK 465 ALA B 7 REMARK 465 LEU B 137 REMARK 465 GLU B 138 REMARK 465 HIS B 139 REMARK 465 HIS B 140 REMARK 465 HIS B 141 REMARK 465 HIS B 142 REMARK 465 HIS B 143 REMARK 465 HIS B 144 REMARK 465 MET C 1 REMARK 465 GLY C 2 REMARK 465 MET C 3 REMARK 465 LYS C 4 REMARK 465 LYS C 5 REMARK 465 SER C 6 REMARK 465 LEU C 137 REMARK 465 GLU C 138 REMARK 465 HIS C 139 REMARK 465 HIS C 140 REMARK 465 HIS C 141 REMARK 465 HIS C 142 REMARK 465 HIS C 143 REMARK 465 HIS C 144 REMARK 465 MET D 1 REMARK 465 GLY D 2 REMARK 465 MET D 3 REMARK 465 LYS D 4 REMARK 465 LYS D 5 REMARK 465 SER D 6 REMARK 465 ALA D 7 REMARK 465 PHE D 136 REMARK 465 LEU D 137 REMARK 465 GLU D 138 REMARK 465 HIS D 139 REMARK 465 HIS D 140 REMARK 465 HIS D 141 REMARK 465 HIS D 142 REMARK 465 HIS D 143 REMARK 465 HIS D 144 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU B 93 CG GLU B 93 CD -0.149 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 PHE A 23 -12.97 76.90 REMARK 500 ASN A 79 61.87 -157.86 REMARK 500 PHE B 23 -12.47 76.92 REMARK 500 ASN B 79 62.58 -150.63 REMARK 500 PHE C 23 -13.04 81.56 REMARK 500 ASN C 79 59.15 -157.74 REMARK 500 PHE D 23 -13.83 80.51 REMARK 500 ASN D 79 61.62 -155.76 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 GOL A 145 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 145 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 145 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL D 145 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3P13 RELATED DB: PDB DBREF 3P12 A 3 136 UNP Q2G1A5 RBSD_STAA8 1 134 DBREF 3P12 B 3 136 UNP Q2G1A5 RBSD_STAA8 1 134 DBREF 3P12 C 3 136 UNP Q2G1A5 RBSD_STAA8 1 134 DBREF 3P12 D 3 136 UNP Q2G1A5 RBSD_STAA8 1 134 SEQADV 3P12 MET A 1 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 GLY A 2 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 LEU A 137 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 GLU A 138 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS A 139 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS A 140 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS A 141 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS A 142 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS A 143 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS A 144 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 MET B 1 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 GLY B 2 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 LEU B 137 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 GLU B 138 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS B 139 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS B 140 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS B 141 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS B 142 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS B 143 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS B 144 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 MET C 1 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 GLY C 2 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 LEU C 137 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 GLU C 138 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS C 139 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS C 140 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS C 141 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS C 142 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS C 143 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS C 144 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 MET D 1 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 GLY D 2 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 LEU D 137 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 GLU D 138 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS D 139 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS D 140 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS D 141 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS D 142 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS D 143 UNP Q2G1A5 EXPRESSION TAG SEQADV 3P12 HIS D 144 UNP Q2G1A5 EXPRESSION TAG SEQRES 1 A 144 MET GLY MET LYS LYS SER ALA VAL LEU ASN GLU HIS ILE SEQRES 2 A 144 SER LYS ALA ILE ALA THR ILE GLY HIS PHE ASP LEU LEU SEQRES 3 A 144 THR ILE ASN ASP ALA GLY MET PRO ILE PRO ASN ASP HIS SEQRES 4 A 144 ARG ARG ILE ASP LEU ALA VAL THR LYS ASN LEU PRO ARG SEQRES 5 A 144 PHE ILE ASP VAL LEU ALA THR VAL LEU GLU GLU MET GLU SEQRES 6 A 144 ILE GLN LYS ILE TYR LEU ALA GLU GLU ILE LYS GLU HIS SEQRES 7 A 144 ASN PRO THR GLN LEU GLN GLN ILE LYS GLN LEU ILE SER SEQRES 8 A 144 SER GLU ILE GLU ILE ILE PHE ILE PRO HIS GLU GLU MET SEQRES 9 A 144 LYS SER ASN LEU ALA HIS PRO LEU ASN LYS GLY ASN ILE SEQRES 10 A 144 ARG THR GLY GLU THR THR PRO TYR SER ASN ILE ALA LEU SEQRES 11 A 144 GLU SER ASN VAL THR PHE LEU GLU HIS HIS HIS HIS HIS SEQRES 12 A 144 HIS SEQRES 1 B 144 MET GLY MET LYS LYS SER ALA VAL LEU ASN GLU HIS ILE SEQRES 2 B 144 SER LYS ALA ILE ALA THR ILE GLY HIS PHE ASP LEU LEU SEQRES 3 B 144 THR ILE ASN ASP ALA GLY MET PRO ILE PRO ASN ASP HIS SEQRES 4 B 144 ARG ARG ILE ASP LEU ALA VAL THR LYS ASN LEU PRO ARG SEQRES 5 B 144 PHE ILE ASP VAL LEU ALA THR VAL LEU GLU GLU MET GLU SEQRES 6 B 144 ILE GLN LYS ILE TYR LEU ALA GLU GLU ILE LYS GLU HIS SEQRES 7 B 144 ASN PRO THR GLN LEU GLN GLN ILE LYS GLN LEU ILE SER SEQRES 8 B 144 SER GLU ILE GLU ILE ILE PHE ILE PRO HIS GLU GLU MET SEQRES 9 B 144 LYS SER ASN LEU ALA HIS PRO LEU ASN LYS GLY ASN ILE SEQRES 10 B 144 ARG THR GLY GLU THR THR PRO TYR SER ASN ILE ALA LEU SEQRES 11 B 144 GLU SER ASN VAL THR PHE LEU GLU HIS HIS HIS HIS HIS SEQRES 12 B 144 HIS SEQRES 1 C 144 MET GLY MET LYS LYS SER ALA VAL LEU ASN GLU HIS ILE SEQRES 2 C 144 SER LYS ALA ILE ALA THR ILE GLY HIS PHE ASP LEU LEU SEQRES 3 C 144 THR ILE ASN ASP ALA GLY MET PRO ILE PRO ASN ASP HIS SEQRES 4 C 144 ARG ARG ILE ASP LEU ALA VAL THR LYS ASN LEU PRO ARG SEQRES 5 C 144 PHE ILE ASP VAL LEU ALA THR VAL LEU GLU GLU MET GLU SEQRES 6 C 144 ILE GLN LYS ILE TYR LEU ALA GLU GLU ILE LYS GLU HIS SEQRES 7 C 144 ASN PRO THR GLN LEU GLN GLN ILE LYS GLN LEU ILE SER SEQRES 8 C 144 SER GLU ILE GLU ILE ILE PHE ILE PRO HIS GLU GLU MET SEQRES 9 C 144 LYS SER ASN LEU ALA HIS PRO LEU ASN LYS GLY ASN ILE SEQRES 10 C 144 ARG THR GLY GLU THR THR PRO TYR SER ASN ILE ALA LEU SEQRES 11 C 144 GLU SER ASN VAL THR PHE LEU GLU HIS HIS HIS HIS HIS SEQRES 12 C 144 HIS SEQRES 1 D 144 MET GLY MET LYS LYS SER ALA VAL LEU ASN GLU HIS ILE SEQRES 2 D 144 SER LYS ALA ILE ALA THR ILE GLY HIS PHE ASP LEU LEU SEQRES 3 D 144 THR ILE ASN ASP ALA GLY MET PRO ILE PRO ASN ASP HIS SEQRES 4 D 144 ARG ARG ILE ASP LEU ALA VAL THR LYS ASN LEU PRO ARG SEQRES 5 D 144 PHE ILE ASP VAL LEU ALA THR VAL LEU GLU GLU MET GLU SEQRES 6 D 144 ILE GLN LYS ILE TYR LEU ALA GLU GLU ILE LYS GLU HIS SEQRES 7 D 144 ASN PRO THR GLN LEU GLN GLN ILE LYS GLN LEU ILE SER SEQRES 8 D 144 SER GLU ILE GLU ILE ILE PHE ILE PRO HIS GLU GLU MET SEQRES 9 D 144 LYS SER ASN LEU ALA HIS PRO LEU ASN LYS GLY ASN ILE SEQRES 10 D 144 ARG THR GLY GLU THR THR PRO TYR SER ASN ILE ALA LEU SEQRES 11 D 144 GLU SER ASN VAL THR PHE LEU GLU HIS HIS HIS HIS HIS SEQRES 12 D 144 HIS HET GOL A 145 6 HET GOL B 145 6 HET GOL C 145 6 HET GOL D 145 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 GOL 4(C3 H8 O3) FORMUL 9 HOH *218(H2 O) HELIX 1 1 ASN A 10 THR A 19 1 10 HELIX 2 2 ARG A 52 GLU A 62 1 11 HELIX 3 3 GLU A 74 ASN A 79 1 6 HELIX 4 4 ASN A 79 ILE A 90 1 12 HELIX 5 5 PRO A 100 ASN A 107 1 8 HELIX 6 6 LEU A 108 HIS A 110 5 3 HELIX 7 7 ASN B 10 THR B 19 1 10 HELIX 8 8 ARG B 52 GLU B 62 1 11 HELIX 9 9 GLU B 74 ASN B 79 1 6 HELIX 10 10 ASN B 79 ILE B 90 1 12 HELIX 11 11 PRO B 100 LEU B 108 1 9 HELIX 12 12 ASN C 10 THR C 19 1 10 HELIX 13 13 ARG C 52 GLU C 62 1 11 HELIX 14 14 GLU C 74 ASN C 79 1 6 HELIX 15 15 ASN C 79 ILE C 90 1 12 HELIX 16 16 PRO C 100 ASN C 107 1 8 HELIX 17 17 LEU C 108 HIS C 110 5 3 HELIX 18 18 ASN D 10 THR D 19 1 10 HELIX 19 19 ARG D 52 GLU D 62 1 11 HELIX 20 20 GLU D 74 ASN D 79 1 6 HELIX 21 21 ASN D 79 ILE D 90 1 12 HELIX 22 22 PRO D 100 LEU D 108 1 9 SHEET 1 A 6 ARG A 41 ASP A 43 0 SHEET 2 A 6 ASN A 113 ARG A 118 1 O ARG A 118 N ILE A 42 SHEET 3 A 6 LEU A 25 ASN A 29 1 N LEU A 25 O LYS A 114 SHEET 4 A 6 ILE A 128 SER A 132 -1 O LEU A 130 N LEU A 26 SHEET 5 A 6 ILE A 66 ALA A 72 -1 N GLN A 67 O GLU A 131 SHEET 6 A 6 GLU A 95 ILE A 99 1 O ILE A 97 N ILE A 69 SHEET 1 B 6 ARG B 41 ASP B 43 0 SHEET 2 B 6 ASN B 113 ARG B 118 1 O ARG B 118 N ILE B 42 SHEET 3 B 6 LEU B 25 ASN B 29 1 N LEU B 25 O LYS B 114 SHEET 4 B 6 ILE B 128 SER B 132 -1 O LEU B 130 N LEU B 26 SHEET 5 B 6 ILE B 66 ALA B 72 -1 N GLN B 67 O GLU B 131 SHEET 6 B 6 GLU B 95 ILE B 99 1 O ILE B 97 N ILE B 69 SHEET 1 C 6 ARG C 41 ASP C 43 0 SHEET 2 C 6 ASN C 113 ARG C 118 1 O ASN C 116 N ILE C 42 SHEET 3 C 6 LEU C 25 ASN C 29 1 N ASN C 29 O ILE C 117 SHEET 4 C 6 ILE C 128 SER C 132 -1 O LEU C 130 N LEU C 26 SHEET 5 C 6 ILE C 66 ALA C 72 -1 N GLN C 67 O GLU C 131 SHEET 6 C 6 GLU C 95 ILE C 99 1 O ILE C 97 N ILE C 69 SHEET 1 D 6 ARG D 41 ASP D 43 0 SHEET 2 D 6 ASN D 113 ARG D 118 1 O ARG D 118 N ILE D 42 SHEET 3 D 6 LEU D 25 ASN D 29 1 N LEU D 25 O LYS D 114 SHEET 4 D 6 ILE D 128 SER D 132 -1 O LEU D 130 N LEU D 26 SHEET 5 D 6 ILE D 66 ALA D 72 -1 N LYS D 68 O GLU D 131 SHEET 6 D 6 GLU D 95 ILE D 99 1 O ILE D 99 N LEU D 71 CISPEP 1 LEU A 50 PRO A 51 0 -3.21 CISPEP 2 LEU B 50 PRO B 51 0 -4.15 CISPEP 3 LEU C 50 PRO C 51 0 -2.25 CISPEP 4 LEU D 50 PRO D 51 0 -4.86 SITE 1 AC1 5 ASP A 30 MET A 33 TYR A 125 ASN A 127 SITE 2 AC1 5 HOH A 180 SITE 1 AC2 5 ASP B 30 TYR B 125 ASN B 127 HOH B 170 SITE 2 AC2 5 HOH B 207 SITE 1 AC3 6 ASP C 30 HIS C 101 PRO C 124 TYR C 125 SITE 2 AC3 6 ASN C 127 HOH C 164 SITE 1 AC4 6 ASP D 30 MET D 33 PRO D 124 TYR D 125 SITE 2 AC4 6 ASN D 127 HOH D 163 CRYST1 122.126 122.126 175.861 90.00 90.00 120.00 P 65 2 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 0.008188 0.004727 0.000000 0.00000 SCALE2 0.000000 0.009455 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005686 0.00000