HEADER HYDROLASE 12-JUN-03 1UG6 TITLE STRUCTURE OF BETA-GLUCOSIDASE AT ATOMIC RESOLUTION FROM THERMUS TITLE 2 THERMOPHILUS HB8 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-GLYCOSIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BETA-GLUCOSIDASE PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-11A KEYWDS GLUCOSIDASE, ATOMIC RESOLUTION, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 2 INITIATIVE, RSGI, STRUCTURAL GENOMICS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR N.K.LOKANATH,I.SHIROMIZU,M.MIYANO,S.YOKOYAMA,S.KURAMITSU,N.KUNISHIMA, AUTHOR 2 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 13-JUL-11 1UG6 1 VERSN REVDAT 2 24-FEB-09 1UG6 1 VERSN REVDAT 1 24-JUN-03 1UG6 0 SPRSDE 24-JUN-03 1UG6 1UAH JRNL AUTH N.K.LOKANATH,I.SHIROMIZU,M.MIYANO,S.YOKOYAMA,S.KURAMITSU, JRNL AUTH 2 N.KUNISHIMA JRNL TITL STRUCTURE OF BETA-GLUCOSIDASE AT ATOMIC RESOLUTION FROM JRNL TITL 2 THERMUS THERMOPHILUS HB8 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 0.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.27 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 305837 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) : 0.122 REMARK 3 R VALUE (WORKING SET) : 0.121 REMARK 3 FREE R VALUE : 0.130 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 15443 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3413 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 531 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 5.68 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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): NULL 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 : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; 0.007 ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; 1.200 ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED 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 : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1UG6 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-JUN-03. REMARK 100 THE RCSB ID CODE IS RCSB005793. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-FEB-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.40 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.80 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS V REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 305837 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.990 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.04800 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) : 0.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1E4I REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, HEPES, CALCIUM CHLORIDE, PH REMARK 280 7.40, MICROBATCH, TEMPERATURE 295.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.68100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.68100 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 54.54600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 58.23150 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 54.54600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 58.23150 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 43.68100 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 54.54600 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 58.23150 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 43.68100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 54.54600 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 58.23150 REMARK 290 SMTRY3 8 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: ONLY ONE MOLECULE IN THE ASYMMETRIC UNIT AND ALSO IN REMARK 300 SOLUTION, WHICH WAS CONFIRMED BY DLS EXPERIMENT 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1434 LIES ON A SPECIAL POSITION. 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 THR A 2 REMARK 465 GLU A 3 REMARK 465 GLN A 430 REMARK 465 THR A 431 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 O PRO A 261 O HOH A 1415 2.17 REMARK 500 O HIS A 238 O HOH A 1321 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 MET A 66 SD MET A 66 CE -0.343 REMARK 500 TRP A 385 NE1 TRP A 385 CE2 0.113 REMARK 500 TRP A 421 NE1 TRP A 421 CE2 0.113 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 PHE A 114 CB - CG - CD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 PHE A 114 CB - CG - CD1 ANGL. DEV. = -8.1 DEGREES REMARK 500 ARG A 236 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 236 NE - CZ - NH2 ANGL. DEV. = -4.2 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 52 -129.51 56.95 REMARK 500 TRP A 120 -6.60 91.97 REMARK 500 ASP A 121 59.22 -94.91 REMARK 500 ARG A 267 -0.40 71.84 REMARK 500 GLU A 392 59.35 -91.43 REMARK 500 TRP A 393 -129.02 55.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 75 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1102 DISTANCE = 5.43 ANGSTROMS REMARK 525 HOH A1203 DISTANCE = 5.08 ANGSTROMS REMARK 525 HOH A1231 DISTANCE = 5.34 ANGSTROMS REMARK 525 HOH A1294 DISTANCE = 6.76 ANGSTROMS REMARK 525 HOH A1302 DISTANCE = 5.10 ANGSTROMS REMARK 525 HOH A1355 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH A1391 DISTANCE = 5.13 ANGSTROMS REMARK 525 HOH A1408 DISTANCE = 5.07 ANGSTROMS 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 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 904 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: TTK003000499.1 RELATED DB: TARGETDB DBREF 1UG6 A 1 431 UNP Q8GEB3 Q8GEB3_THETH 1 431 SEQRES 1 A 431 MET THR GLU ASN ALA GLU LYS PHE LEU TRP GLY VAL ALA SEQRES 2 A 431 THR SER ALA TYR GLN ILE GLU GLY ALA THR GLN GLU ASP SEQRES 3 A 431 GLY ARG GLY PRO SER ILE TRP ASP ALA PHE ALA GLN ARG SEQRES 4 A 431 PRO GLY ALA ILE ARG ASP GLY SER THR GLY GLU PRO ALA SEQRES 5 A 431 CYS ASP HIS TYR ARG ARG TYR GLU GLU ASP ILE ALA LEU SEQRES 6 A 431 MET GLN SER LEU GLY VAL ARG ALA TYR ARG PHE SER VAL SEQRES 7 A 431 ALA TRP PRO ARG ILE LEU PRO GLU GLY ARG GLY ARG ILE SEQRES 8 A 431 ASN PRO LYS GLY LEU ALA PHE TYR ASP ARG LEU VAL ASP SEQRES 9 A 431 ARG LEU LEU ALA SER GLY ILE THR PRO PHE LEU THR LEU SEQRES 10 A 431 TYR HIS TRP ASP LEU PRO LEU ALA LEU GLU GLU ARG GLY SEQRES 11 A 431 GLY TRP ARG SER ARG GLU THR ALA PHE ALA PHE ALA GLU SEQRES 12 A 431 TYR ALA GLU ALA VAL ALA ARG ALA LEU ALA ASP ARG VAL SEQRES 13 A 431 PRO PHE PHE ALA THR LEU ASN GLU PRO TRP CYS SER ALA SEQRES 14 A 431 PHE LEU GLY HIS TRP THR GLY GLU HIS ALA PRO GLY LEU SEQRES 15 A 431 ARG ASN LEU GLU ALA ALA LEU ARG ALA ALA HIS HIS LEU SEQRES 16 A 431 LEU LEU GLY HIS GLY LEU ALA VAL GLU ALA LEU ARG ALA SEQRES 17 A 431 ALA GLY ALA ARG ARG VAL GLY ILE VAL LEU ASN PHE ALA SEQRES 18 A 431 PRO ALA TYR GLY GLU ASP PRO GLU ALA VAL ASP VAL ALA SEQRES 19 A 431 ASP ARG TYR HIS ASN ARG PHE PHE LEU ASP PRO ILE LEU SEQRES 20 A 431 GLY LYS GLY TYR PRO GLU SER PRO PHE ARG ASP PRO PRO SEQRES 21 A 431 PRO VAL PRO ILE LEU SER ARG ASP LEU GLU LEU VAL ALA SEQRES 22 A 431 ARG PRO LEU ASP PHE LEU GLY VAL ASN TYR TYR ALA PRO SEQRES 23 A 431 VAL ARG VAL ALA PRO GLY THR GLY THR LEU PRO VAL ARG SEQRES 24 A 431 TYR LEU PRO PRO GLU GLY PRO ALA THR ALA MET GLY TRP SEQRES 25 A 431 GLU VAL TYR PRO GLU GLY LEU TYR HIS LEU LEU LYS ARG SEQRES 26 A 431 LEU GLY ARG GLU VAL PRO TRP PRO LEU TYR VAL THR GLU SEQRES 27 A 431 ASN GLY ALA ALA TYR PRO ASP LEU TRP THR GLY GLU ALA SEQRES 28 A 431 VAL VAL GLU ASP PRO GLU ARG VAL ALA TYR LEU GLU ALA SEQRES 29 A 431 HIS VAL GLU ALA ALA LEU ARG ALA ARG GLU GLU GLY VAL SEQRES 30 A 431 ASP LEU ARG GLY TYR PHE VAL TRP SER LEU MET ASP ASN SEQRES 31 A 431 PHE GLU TRP ALA PHE GLY TYR THR ARG ARG PHE GLY LEU SEQRES 32 A 431 TYR TYR VAL ASP PHE PRO SER GLN ARG ARG ILE PRO LYS SEQRES 33 A 431 ARG SER ALA LEU TRP TYR ARG GLU ARG ILE ALA ARG ALA SEQRES 34 A 431 GLN THR HET GOL A 901 6 HET GOL A 902 6 HET GOL A 903 6 HET GOL A 904 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 4(C3 H8 O3) FORMUL 6 HOH *531(H2 O) HELIX 1 1 SER A 15 GLU A 20 1 6 HELIX 2 2 SER A 31 ALA A 37 1 7 HELIX 3 3 ASP A 54 GLY A 70 1 17 HELIX 4 4 ALA A 79 LEU A 84 1 6 HELIX 5 5 ASN A 92 SER A 109 1 18 HELIX 6 6 PRO A 123 GLU A 128 1 6 HELIX 7 7 ARG A 129 ARG A 133 5 5 HELIX 8 8 SER A 134 ALA A 153 1 20 HELIX 9 9 GLU A 164 TRP A 174 1 11 HELIX 10 10 ASN A 184 ALA A 209 1 26 HELIX 11 11 ASP A 227 ASN A 239 1 13 HELIX 12 12 ASN A 239 LEU A 247 1 9 HELIX 13 13 ARG A 267 ALA A 273 1 7 HELIX 14 14 TYR A 315 VAL A 330 1 16 HELIX 15 15 ASP A 355 GLY A 376 1 22 HELIX 16 16 GLU A 392 ARG A 399 5 8 HELIX 17 17 LYS A 416 ARG A 428 1 13 SHEET 1 A 9 LEU A 9 ALA A 13 0 SHEET 2 A 9 ALA A 73 SER A 77 1 O ARG A 75 N VAL A 12 SHEET 3 A 9 THR A 112 TYR A 118 1 O THR A 116 N PHE A 76 SHEET 4 A 9 PHE A 158 ASN A 163 1 O ALA A 160 N LEU A 115 SHEET 5 A 9 ARG A 213 ASN A 219 1 O ARG A 213 N PHE A 159 SHEET 6 A 9 PHE A 278 ASN A 282 1 O GLY A 280 N ILE A 216 SHEET 7 A 9 LEU A 334 ASN A 339 1 O TYR A 335 N VAL A 281 SHEET 8 A 9 LEU A 379 TRP A 385 1 O ARG A 380 N LEU A 334 SHEET 9 A 9 LEU A 9 ALA A 13 1 N GLY A 11 O TYR A 382 SHEET 1 B 3 ALA A 223 TYR A 224 0 SHEET 2 B 3 VAL A 287 PRO A 291 1 O VAL A 289 N TYR A 224 SHEET 3 B 3 VAL A 298 TYR A 300 -1 O ARG A 299 N ALA A 290 SHEET 1 C 2 TYR A 404 VAL A 406 0 SHEET 2 C 2 ARG A 413 PRO A 415 -1 O ILE A 414 N TYR A 405 CISPEP 1 GLU A 50 PRO A 51 0 -1.32 CISPEP 2 ALA A 179 PRO A 180 0 6.06 CISPEP 3 TRP A 385 SER A 386 0 12.72 SITE 1 AC1 6 ARG A 39 GLY A 181 ARG A 183 VAL A 330 SITE 2 AC1 6 PRO A 333 ASP A 378 SITE 1 AC2 7 HIS A 178 TRP A 312 GLU A 392 PHE A 395 SITE 2 AC2 7 HOH A 924 HOH A1334 HOH A1420 SITE 1 AC3 8 GLN A 18 HIS A 119 ASN A 163 GLU A 164 SITE 2 AC3 8 GLU A 338 TRP A 385 GLU A 392 TRP A 393 SITE 1 AC4 10 LEU A 182 ASN A 184 ARG A 373 GLY A 376 SITE 2 AC4 10 VAL A 377 ASP A 378 HOH A 933 HOH A 945 SITE 3 AC4 10 HOH A1090 HOH A1266 CRYST1 109.092 116.463 87.362 90.00 90.00 90.00 C 2 2 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 0.009170 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008590 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011450 0.00000