HEADER HYDROLASE 20-MAR-02 1L8F TITLE STRUCTURE OF 20K-ENDOGLUCANASE FROM MELANOCARPUS ALBOMYCES AT 1.8 A COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDOGLUCANASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CELLULASE; COMPND 5 EC: 3.2.1.4 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MELANOCARPUS ALBOMYCES; SOURCE 3 ORGANISM_TAXID: 204285 KEYWDS CELLULASE, THERMOPHILIC, ENDOGLUCANASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.VALJAKKA,J.ROUVINEN REVDAT 4 16-OCT-24 1L8F 1 REMARK REVDAT 3 04-APR-18 1L8F 1 REMARK REVDAT 2 24-FEB-09 1L8F 1 VERSN REVDAT 1 01-APR-03 1L8F 0 JRNL AUTH J.VALJAKKA,J.ROUVINEN JRNL TITL STRUCTURE OF 20K ENDOGLUCANASE FROM MELANOCARPUS ALBOMYCES JRNL TITL 2 AT 1.8 A RESOLUTION. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 59 765 2003 JRNL REFN ISSN 0907-4449 JRNL PMID 12657806 JRNL DOI 10.1107/S0907444903002051 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 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) (%) : 91.3 REMARK 3 NUMBER OF REFLECTIONS : 15996 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1588 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1558 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 208 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.11800 REMARK 3 B22 (A**2) : 0.11800 REMARK 3 B33 (A**2) : -0.23600 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.358 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.196 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.706 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.035 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.886 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : 0.43 REMARK 3 BSOL : 67.33 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 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1L8F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-APR-02. REMARK 100 THE DEPOSITION ID IS D_1000015735. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-98 REMARK 200 TEMPERATURE (KELVIN) : 120 REMARK 200 PH : 5.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76338 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 99.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09100 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) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.3 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, NA-ACETATE, PH 5.1, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 78.40500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 23.72000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 23.72000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 39.20250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 23.72000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 23.72000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 117.60750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 23.72000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 23.72000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 39.20250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 23.72000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 23.72000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 117.60750 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 78.40500 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 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 692 O HOH A 692 8665 1.95 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 TRP A 9 103.83 -166.69 REMARK 500 HIS A 58 44.67 -96.67 REMARK 500 PHE A 138 20.15 -148.80 REMARK 500 ASP A 171 -82.28 -81.68 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 AN APPROPRIATE SEQUENCE DATABASE REFERENCE REMARK 999 WAS NOT AVAILABLE AT THE TIME OF PROCESSING. DBREF 1L8F A 1 207 UNP Q8J0K8 Q8J0K8_9PEZI 22 228 SEQRES 1 A 207 ALA ASN GLY GLN SER THR ARG TYR TRP ASP CYS CYS LYS SEQRES 2 A 207 PRO SER CYS GLY TRP ARG GLY LYS GLY PRO VAL ASN GLN SEQRES 3 A 207 PRO VAL TYR SER CYS ASP ALA ASN PHE GLN ARG ILE HIS SEQRES 4 A 207 ASP PHE ASP ALA VAL SER GLY CYS GLU GLY GLY PRO ALA SEQRES 5 A 207 PHE SER CYS ALA ASP HIS SER PRO TRP ALA ILE ASN ASP SEQRES 6 A 207 ASN LEU SER TYR GLY PHE ALA ALA THR ALA LEU SER GLY SEQRES 7 A 207 GLN THR GLU GLU SER TRP CYS CYS ALA CYS TYR ALA LEU SEQRES 8 A 207 THR PHE THR SER GLY PRO VAL ALA GLY LYS THR MET VAL SEQRES 9 A 207 VAL GLN SER THR SER THR GLY GLY ASP LEU GLY SER ASN SEQRES 10 A 207 HIS PHE ASP LEU ASN ILE PRO GLY GLY GLY VAL GLY LEU SEQRES 11 A 207 PHE ASP GLY CYS THR PRO GLN PHE GLY GLY LEU PRO GLY SEQRES 12 A 207 ALA ARG TYR GLY GLY ILE SER SER ARG GLN GLU CYS ASP SEQRES 13 A 207 SER PHE PRO GLU PRO LEU LYS PRO GLY CYS GLN TRP ARG SEQRES 14 A 207 PHE ASP TRP PHE GLN ASN ALA ASP ASN PRO SER PHE THR SEQRES 15 A 207 PHE GLU ARG VAL GLN CYS PRO GLU GLU LEU VAL ALA ARG SEQRES 16 A 207 THR GLY CYS ARG ARG HIS ASP ASP GLY GLY PHE ALA FORMUL 2 HOH *208(H2 O) HELIX 1 1 PRO A 14 TRP A 18 5 5 HELIX 2 2 SER A 45 GLY A 49 5 5 HELIX 3 3 THR A 80 CYS A 85 1 6 HELIX 4 4 GLY A 133 GLY A 139 1 7 HELIX 5 5 SER A 151 PHE A 158 5 8 HELIX 6 6 PRO A 159 PRO A 161 5 3 HELIX 7 7 LEU A 162 ARG A 169 1 8 HELIX 8 8 PRO A 189 GLY A 197 1 9 HELIX 9 9 ASP A 202 PHE A 206 5 5 SHEET 1 A 7 TRP A 61 ALA A 62 0 SHEET 2 A 7 LEU A 67 ALA A 75 -1 N TYR A 69 O TRP A 61 SHEET 3 A 7 HIS A 118 ASN A 122 -1 N HIS A 118 O ALA A 75 SHEET 4 A 7 ASN A 2 TYR A 8 1 O GLN A 4 N PHE A 119 SHEET 5 A 7 PHE A 181 VAL A 186 -1 O PHE A 181 N GLY A 3 SHEET 6 A 7 CYS A 88 PHE A 93 -1 O CYS A 88 N VAL A 186 SHEET 7 A 7 THR A 102 THR A 110 -1 O MET A 103 N LEU A 91 SHEET 1 B 2 SER A 30 CYS A 31 0 SHEET 2 B 2 ARG A 37 ILE A 38 -1 N ILE A 38 O SER A 30 SSBOND 1 CYS A 11 CYS A 134 1555 1555 2.04 SSBOND 2 CYS A 12 CYS A 47 1555 1555 2.03 SSBOND 3 CYS A 16 CYS A 85 1555 1555 2.03 SSBOND 4 CYS A 31 CYS A 55 1555 1555 2.03 SSBOND 5 CYS A 86 CYS A 198 1555 1555 2.02 SSBOND 6 CYS A 88 CYS A 188 1555 1555 2.03 SSBOND 7 CYS A 155 CYS A 166 1555 1555 2.03 CRYST1 47.440 47.440 156.810 90.00 90.00 90.00 P 41 21 2 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 0.021079 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021079 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006377 0.00000