HEADER HYDROLASE 08-NOV-95 1LLO TITLE HEVAMINE A (A PLANT ENDOCHITINASE/LYSOZYME) COMPLEXED WITH ALLOSAMIDIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEVAMINE-A; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.14,3.2.1.17 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HEVEA BRASILIENSIS; SOURCE 3 ORGANISM_COMMON: RUBBER TREE; SOURCE 4 ORGANISM_TAXID: 3981; SOURCE 5 TISSUE: LATEX KEYWDS CHITINASE, LYSOZYME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.C.TERWISSCHA VAN SCHELTINGA,S.ARMAND,K.H.KALK,A.ISOGAI,B.HENRISSAT, AUTHOR 2 B.W.DIJKSTRA REVDAT 6 01-JUN-22 1LLO 1 COMPND SOURCE DBREF LINK REVDAT 6 2 1 ATOM REVDAT 5 09-MAR-22 1LLO 1 HETSYN LINK ATOM REVDAT 4 29-JUL-20 1LLO 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 24-FEB-09 1LLO 1 VERSN REVDAT 2 01-APR-03 1LLO 1 JRNL REVDAT 1 08-MAR-96 1LLO 0 JRNL AUTH A.C.TERWISSCHA VAN SCHELTINGA,S.ARMAND,K.H.KALK,A.ISOGAI, JRNL AUTH 2 B.HENRISSAT,B.W.DIJKSTRA JRNL TITL STEREOCHEMISTRY OF CHITIN HYDROLYSIS BY A PLANT JRNL TITL 2 CHITINASE/LYSOZYME AND X-RAY STRUCTURE OF A COMPLEX WITH JRNL TITL 3 ALLOSAMIDIN: EVIDENCE FOR SUBSTRATE ASSISTED CATALYSIS. JRNL REF BIOCHEMISTRY V. 34 15619 1995 JRNL REFN ISSN 0006-2960 JRNL PMID 7495789 JRNL DOI 10.1021/BI00048A003 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.C.TERWISSCHA VAN SCHELTINGA,K.H.KALK,J.J.BEINTEMA, REMARK 1 AUTH 2 B.W.DIJKSTRA REMARK 1 TITL CRYSTAL STRUCTURES OF HEVAMINE, A PLANT DEFENCE PROTEIN WITH REMARK 1 TITL 2 CHITINASE AND LYSOZYME ACTIVITY, AND ITS COMPLEX WITH AN REMARK 1 TITL 3 INHIBITOR REMARK 1 REF STRUCTURE V. 2 1181 1994 REMARK 1 REFN ISSN 0969-2126 REMARK 1 REFERENCE 2 REMARK 1 AUTH H.J.ROZEBOOM,A.BUDIANI,J.J.BEINTEMA,B.W.DIJKSTRA REMARK 1 TITL CRYSTALLIZATION OF HEVAMINE, AN ENZYME WITH REMARK 1 TITL 2 LYSOZYME(SLASH)CHITINASE ACTIVITY FROM HEVEA BRASILIENSIS REMARK 1 TITL 3 LATEX REMARK 1 REF J.MOL.BIOL. V. 212 441 1990 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 21425 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.146 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL 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) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2087 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 189 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : NULL ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TORSION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES (A) : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : NULL ; NULL ; NULL REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : 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 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : NULL REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1LLO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000174755. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JUL-95 REMARK 200 TEMPERATURE (KELVIN) : 277 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X31 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO 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 : 6.400 REMARK 200 R MERGE (I) : 0.03900 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 4.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 26.16500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.12500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.99500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 41.12500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.16500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.99500 REMARK 290 SMTRY3 4 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, B 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: 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 47 -128.42 44.95 REMARK 500 LEU A 105 -148.29 -109.58 REMARK 500 ASP A 125 66.22 -119.43 REMARK 500 TYR A 133 -6.16 76.32 REMARK 500 SER A 192 117.03 -38.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 630 REMARK 630 MOLECULE TYPE: OLIGOSACCHARIDE INHIBITOR REMARK 630 MOLECULE NAME: ALLOSAMIZOLINE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 AMI B 3 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: NULL REMARK 630 DETAILS: NULL DBREF 1LLO A 1 273 UNP P23472 CHLY_HEVBR 27 299 SEQRES 1 A 273 GLY GLY ILE ALA ILE TYR TRP GLY GLN ASN GLY ASN GLU SEQRES 2 A 273 GLY THR LEU THR GLN THR CYS SER THR ARG LYS TYR SER SEQRES 3 A 273 TYR VAL ASN ILE ALA PHE LEU ASN LYS PHE GLY ASN GLY SEQRES 4 A 273 GLN THR PRO GLN ILE ASN LEU ALA GLY HIS CYS ASN PRO SEQRES 5 A 273 ALA ALA GLY GLY CYS THR ILE VAL SER ASN GLY ILE ARG SEQRES 6 A 273 SER CYS GLN ILE GLN GLY ILE LYS VAL MET LEU SER LEU SEQRES 7 A 273 GLY GLY GLY ILE GLY SER TYR THR LEU ALA SER GLN ALA SEQRES 8 A 273 ASP ALA LYS ASN VAL ALA ASP TYR LEU TRP ASN ASN PHE SEQRES 9 A 273 LEU GLY GLY LYS SER SER SER ARG PRO LEU GLY ASP ALA SEQRES 10 A 273 VAL LEU ASP GLY ILE ASP PHE ASP ILE GLU HIS GLY SER SEQRES 11 A 273 THR LEU TYR TRP ASP ASP LEU ALA ARG TYR LEU SER ALA SEQRES 12 A 273 TYR SER LYS GLN GLY LYS LYS VAL TYR LEU THR ALA ALA SEQRES 13 A 273 PRO GLN CYS PRO PHE PRO ASP ARG TYR LEU GLY THR ALA SEQRES 14 A 273 LEU ASN THR GLY LEU PHE ASP TYR VAL TRP VAL GLN PHE SEQRES 15 A 273 TYR ASN ASN PRO PRO CYS GLN TYR SER SER GLY ASN ILE SEQRES 16 A 273 ASN ASN ILE ILE ASN SER TRP ASN ARG TRP THR THR SER SEQRES 17 A 273 ILE ASN ALA GLY LYS ILE PHE LEU GLY LEU PRO ALA ALA SEQRES 18 A 273 PRO GLU ALA ALA GLY SER GLY TYR VAL PRO PRO ASP VAL SEQRES 19 A 273 LEU ILE SER ARG ILE LEU PRO GLU ILE LYS LYS SER PRO SEQRES 20 A 273 LYS TYR GLY GLY VAL MET LEU TRP SER LYS PHE TYR ASP SEQRES 21 A 273 ASP LYS ASN GLY TYR SER SER SER ILE LEU ASP SER VAL HET NAA B 1 14 HET NAA B 2 14 HET AMI B 3 15 HETNAM NAA 2-ACETAMIDO-2-DEOXY-BETA-D-ALLOPYRANOSE HETNAM AMI ALLOSAMIZOLINE HETSYN NAA N-ACETYL-BETA-D-ALLOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA-D- HETSYN 2 NAA ALLOSE; 2-ACETAMIDO-2-DEOXY-D-ALLOSE; 2-ACETAMIDO-2- HETSYN 3 NAA DEOXY-ALLOSE; N-ACETYL-D-ALLOSAMINE FORMUL 2 NAA 2(C8 H15 N O6) FORMUL 3 AMI C9 H16 N2 O4 FORMUL 4 HOH *189(H2 O) HELIX 1 1 GLY A 11 GLU A 13 5 3 HELIX 2 2 LEU A 16 THR A 22 1 7 HELIX 3 3 ALA A 47 HIS A 49 5 3 HELIX 4 4 ALA A 53 GLY A 55 5 3 HELIX 5 5 THR A 58 GLN A 70 5 13 HELIX 6 6 GLN A 90 PHE A 104 1 15 HELIX 7 7 TRP A 134 GLN A 147 1 14 HELIX 8 8 GLY A 167 THR A 172 1 6 HELIX 9 9 PRO A 186 CYS A 188 5 3 HELIX 10 10 ASN A 196 SER A 208 1 13 HELIX 11 11 PRO A 222 ALA A 224 5 3 HELIX 12 12 PRO A 232 SER A 237 1 6 HELIX 13 13 LEU A 240 LYS A 245 1 6 HELIX 14 14 LYS A 257 ASN A 263 1 7 HELIX 15 15 TYR A 265 ILE A 269 1 5 SHEET 1 A 8 TYR A 152 ALA A 155 0 SHEET 2 A 8 GLY A 121 ASP A 125 1 N ILE A 122 O TYR A 152 SHEET 3 A 8 LYS A 73 GLY A 79 1 N LEU A 76 O GLY A 121 SHEET 4 A 8 TYR A 27 ILE A 30 1 N VAL A 28 O LYS A 73 SHEET 5 A 8 GLY A 2 TRP A 7 1 N ILE A 5 O TYR A 27 SHEET 6 A 8 TYR A 249 TRP A 255 1 N VAL A 252 O GLY A 2 SHEET 7 A 8 LYS A 213 PRO A 219 1 N ILE A 214 O GLY A 250 SHEET 8 A 8 TYR A 177 GLN A 181 1 N VAL A 178 O LYS A 213 SSBOND 1 CYS A 20 CYS A 67 1555 1555 2.02 SSBOND 2 CYS A 50 CYS A 57 1555 1555 2.03 SSBOND 3 CYS A 159 CYS A 188 1555 1555 2.03 LINK O4 NAA B 1 C1 NAA B 2 1555 1555 1.42 LINK C1 NAA B 1 O4 AMI B 3 1555 1555 1.43 CISPEP 1 ALA A 31 PHE A 32 0 8.53 CISPEP 2 PHE A 161 PRO A 162 0 -0.45 CISPEP 3 TRP A 255 SER A 256 0 4.28 CRYST1 52.330 57.990 82.250 90.00 90.00 90.00 P 21 21 21 4 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 0.019109 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017244 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012158 0.00000