HEADER HYDROLASE (ENDOGLUCANASE) 29-JUN-95 2ENG TITLE ENDOGLUCANASE V COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDOGLUCANASE V; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.4 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMICOLA INSOLENS; SOURCE 3 ORGANISM_TAXID: 34413 KEYWDS CELLULOSE DEGRADATION, HYDROLASE (ENDOGLUCANASE), KEYWDS 2 GLYCOSIDASE EXPDTA X-RAY DIFFRACTION AUTHOR G.J.DAVIES,M.SCHULEIN REVDAT 2 24-FEB-09 2ENG 1 VERSN REVDAT 1 07-DEC-96 2ENG 0 SPRSDE 07-DEC-96 2ENG 1ENG JRNL AUTH G.J.DAVIES,S.P.TOLLEY,B.HENRISSAT,C.HJORT, JRNL AUTH 2 M.SCHULEIN JRNL TITL STRUCTURES OF OLIGOSACCHARIDE-BOUND FORMS OF THE JRNL TITL 2 ENDOGLUCANASE V FROM HUMICOLA INSOLENS AT 1.9 A JRNL TITL 3 RESOLUTION. JRNL REF BIOCHEMISTRY V. 34 16210 1995 JRNL REFN ISSN 0006-2960 JRNL PMID 8519779 JRNL DOI 10.1021/BI00049A037 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.J.DAVIES,G.G.DODSON,R.E.HUBBARD,S.P.TOLLEY, REMARK 1 AUTH 2 Z.DAUTER,K.S.WILSON,C.HJORT,J.M.MIKKELSEN, REMARK 1 AUTH 3 G.RASMUSSEN,M.SCHULEIN REMARK 1 TITL STRUCTURE AND FUNCTION OF ENDOGLUCANASE V REMARK 1 REF NATURE V. 365 362 1993 REMARK 1 REFN ISSN 0028-0836 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.105 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.154 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 28814 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1567 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 244 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : NULL REMARK 3 NUMBER OF RESTRAINTS : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 ANGLE DISTANCES (A) : 0.031 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : NULL REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE SECOND (LESSER) CONFORMATION REMARK 3 FOR THE SIDE CHAIN OF ASP 121 MAKES A STERIC CLASH WITH THE REMARK 3 SIDE CHAIN OF HIS 119. HIS 119 HAS THEREFORE BEEN REFINED WITH REMARK 3 A PARTIAL OCCUPANCY OF 0.6. THE ISOTROPIC TEMPERATURE FACTORS REMARK 3 GIVEN ARE CALCULATED BY CONVERSION FROM THE ANISOTROPIC REMARK 3 DISPLACEMENT PARAMETERS. A COORDINATE SET WITH ANISOTROPIC REMARK 3 DISPLACEMENT PARAMETERS WILL BE SUBMITTED SOON. REMARK 4 REMARK 4 2ENG COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: SHELXL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 25.84000 REMARK 290 SMTRY3 2 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 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 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 ENDOGLUCANASE V IS IN GLYCOSYL HYDROLASE FAMILY 45. 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 GLY A 113 REMARK 465 ASP A 114 REMARK 465 LEU A 115 REMARK 465 GLY A 116 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 GLY A 112 CA C O REMARK 470 SER A 117 OG 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 ASP A 2 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ARG A 146 CD - NE - CZ ANGL. DEV. = 15.7 DEGREES REMARK 500 ARG A 146 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 146 NE - CZ - NH2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A 158 CD - NE - CZ ANGL. DEV. = 11.8 DEGREES REMARK 500 ARG A 196 NH1 - CZ - NH2 ANGL. DEV. = 7.4 DEGREES REMARK 500 ARG A 196 NE - CZ - NH2 ANGL. DEV. = -4.7 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 TRP A 9 104.75 -160.07 REMARK 500 GLN A 59 57.84 -93.79 REMARK 500 SER A 80 -165.43 -114.46 REMARK 500 PHE A 139 14.08 -148.78 REMARK 500 ASP A 172 -77.75 -84.20 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 A 394 DISTANCE = 7.86 ANGSTROMS REMARK 525 HOH A 413 DISTANCE = 5.22 ANGSTROMS REMARK 525 HOH A 438 DISTANCE = 5.66 ANGSTROMS DBREF 2ENG A 1 210 UNP P43316 GUN5_HUMIN 1 210 SEQRES 1 A 210 ALA ASP GLY ARG SER THR ARG TYR TRP ASP CYS CYS LYS SEQRES 2 A 210 PRO SER CYS GLY TRP ALA LYS LYS ALA PRO VAL ASN GLN SEQRES 3 A 210 PRO VAL PHE SER CYS ASN ALA ASN PHE GLN ARG ILE THR SEQRES 4 A 210 ASP PHE ASP ALA LYS SER GLY CYS GLU PRO GLY GLY VAL SEQRES 5 A 210 ALA TYR SER CYS ALA ASP GLN THR PRO TRP ALA VAL ASN SEQRES 6 A 210 ASP ASP PHE ALA LEU GLY PHE ALA ALA THR SER ILE ALA SEQRES 7 A 210 GLY SER ASN GLU ALA GLY TRP CYS CYS ALA CYS TYR GLU SEQRES 8 A 210 LEU THR PHE THR SER GLY PRO VAL ALA GLY LYS LYS MET SEQRES 9 A 210 VAL VAL GLN SER THR SER THR GLY GLY ASP LEU GLY SER SEQRES 10 A 210 ASN HIS PHE ASP LEU ASN ILE PRO GLY GLY GLY VAL GLY SEQRES 11 A 210 ILE PHE ASP GLY CYS THR PRO GLN PHE GLY GLY LEU PRO SEQRES 12 A 210 GLY GLN ARG TYR GLY GLY ILE SER SER ARG ASN GLU CYS SEQRES 13 A 210 ASP ARG PHE PRO ASP ALA LEU LYS PRO GLY CYS TYR TRP SEQRES 14 A 210 ARG PHE ASP TRP PHE LYS ASN ALA ASP ASN PRO SER PHE SEQRES 15 A 210 SER PHE ARG GLN VAL GLN CYS PRO ALA GLU LEU VAL ALA SEQRES 16 A 210 ARG THR GLY CYS ARG ARG ASN ASP ASP GLY ASN PHE PRO SEQRES 17 A 210 ALA VAL FORMUL 2 HOH *244(H2 O) HELIX 1 1 SER A 15 GLY A 17 5 3 HELIX 2 2 GLU A 82 TRP A 85 1 4 HELIX 3 3 GLY A 97 VAL A 99 5 3 HELIX 4 4 GLY A 134 PHE A 139 1 6 HELIX 5 5 ARG A 153 ARG A 158 5 6 HELIX 6 6 ASP A 161 PHE A 171 1 11 HELIX 7 7 ALA A 191 THR A 197 1 7 HELIX 8 8 ASP A 204 ASN A 206 5 3 SHEET 1 A 7 SER A 181 SER A 183 0 SHEET 2 A 7 ASP A 2 TYR A 8 -1 N GLY A 3 O PHE A 182 SHEET 3 A 7 HIS A 119 ASN A 123 1 N PHE A 120 O ARG A 4 SHEET 4 A 7 PHE A 68 SER A 76 -1 N SER A 76 O HIS A 119 SHEET 5 A 7 LYS A 103 SER A 110 1 N LYS A 103 O ALA A 69 SHEET 6 A 7 CYS A 89 PHE A 94 -1 N LEU A 92 O MET A 104 SHEET 7 A 7 PHE A 182 VAL A 187 -1 N VAL A 187 O CYS A 89 SHEET 1 B 2 TRP A 62 ASN A 65 0 SHEET 2 B 2 PHE A 68 LEU A 70 -1 N LEU A 70 O TRP A 62 SSBOND 1 CYS A 11 CYS A 135 1555 1555 2.04 SSBOND 2 CYS A 12 CYS A 47 1555 1555 2.03 SSBOND 3 CYS A 16 CYS A 86 1555 1555 2.06 SSBOND 4 CYS A 31 CYS A 56 1555 1555 2.04 SSBOND 5 CYS A 87 CYS A 199 1555 1555 2.04 SSBOND 6 CYS A 89 CYS A 189 1555 1555 2.04 SSBOND 7 CYS A 156 CYS A 167 1555 1555 2.05 CRYST1 42.110 51.680 45.060 90.00 109.37 90.00 P 1 21 1 2 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 0.023747 0.000000 0.008349 0.00000 SCALE2 0.000000 0.019350 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023524 0.00000