HEADER SUGAR BINDING PROTEIN 15-JAN-07 2JE7 TITLE CRYSTAL STRUCTURE OF RECOMBINANT DIOCLEA GUIANENSIS LECTIN S131H TITLE 2 COMPLEXED WITH 5-BROMO-4-CHLORO-3-INDOLYL-A-D-MANNOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: LECTIN ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RDGUIA; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DIOCLEA GUIANENSIS; SOURCE 3 ORGANISM_TAXID: 99571; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET32A; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: RDGUIAS131H/PET32A KEYWDS CARBOHYDRATE BINDING PROTEIN, CONA-LIKE, METAL-BINDING, LEGUME KEYWDS 2 LECTIN, RECOMBINANT LECTIN, SUGAR-BINDING PROTEIN, SUGAR BINDING KEYWDS 3 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.S.NAGANO,L.SANZ,B.S.CAVADA,J.J.CALVETE REVDAT 4 29-JUL-20 2JE7 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 13-APR-11 2JE7 1 VERSN REVDAT 2 24-FEB-09 2JE7 1 VERSN REVDAT 1 30-OCT-07 2JE7 0 JRNL AUTH C.S.NAGANO,J.J.CALVETE,D.BARETTINO,A.PEREZ,B.S.CAVADA,L.SANZ JRNL TITL INSIGHTS INTO THE STRUCTURAL BASIS OF THE PH- DEPENDENT JRNL TITL 2 DIMER-TETRAMER EQUILIBRIUM THROUGH CRYSTALLOGRAPHIC ANALYSIS JRNL TITL 3 OF RECOMBINANT DIOCLEINAE LECTINS. JRNL REF BIOCHEM.J. V. 409 417 2008 JRNL REFN ISSN 0264-6021 JRNL PMID 17937659 JRNL DOI 10.1042/BJ20070942 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 30142 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) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1614 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2237 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2040 REMARK 3 BIN FREE R VALUE SET COUNT : 125 REMARK 3 BIN FREE R VALUE : 0.3420 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1799 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 255 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : -0.36000 REMARK 3 B33 (A**2) : 0.38000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.115 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.090 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.462 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1936 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2664 ; 1.474 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 259 ; 6.948 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 78 ;38.106 ;24.231 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 303 ;12.691 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ; 8.353 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 314 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1472 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 932 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1390 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 205 ; 0.176 ; 0.200 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): 63 ; 0.246 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.209 ; 0.200 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): 1242 ; 1.246 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1994 ; 1.963 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 798 ; 2.942 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 659 ; 3.959 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 239 REMARK 3 ORIGIN FOR THE GROUP (A): 18.5263 29.7654 10.4425 REMARK 3 T TENSOR REMARK 3 T11: -0.0004 T22: -0.0103 REMARK 3 T33: -0.0257 T12: -0.0083 REMARK 3 T13: 0.0065 T23: 0.0026 REMARK 3 L TENSOR REMARK 3 L11: 0.1489 L22: 0.4302 REMARK 3 L33: 0.3657 L12: 0.0085 REMARK 3 L13: -0.1072 L23: -0.0582 REMARK 3 S TENSOR REMARK 3 S11: 0.0152 S12: -0.0026 S13: -0.0224 REMARK 3 S21: 0.0286 S22: -0.0043 S23: 0.0539 REMARK 3 S31: -0.0166 S32: 0.0076 S33: -0.0109 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 2JE7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1290031103. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31757 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 44.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.36000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1H9W REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN WITH 0.6M NACL, REMARK 280 0.1 HEPES, PH 7.0. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+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 0.00000 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 0.00000 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 32.83050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 44.00700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 45.76800 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 32.83050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 44.00700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 45.76800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 32.83050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 44.00700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 45.76800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 32.83050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 44.00700 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 45.76800 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -148.5 KCAL/MOL 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 88.01400 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 65.66100 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 65.66100 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 88.01400 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ASN 131 TO HIS 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 ALA A 1 REMARK 465 MET A 2 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 SER A 146 CB OG 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 HOH A 2136 O HOH A 2145 1.64 REMARK 500 OD1 ASN A 126 O HOH A 2145 2.07 REMARK 500 OH TYR A 69 O HOH A 2091 2.14 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 ASN A 16 79.16 -101.58 REMARK 500 THR A 119 -102.35 -141.40 REMARK 500 ALA A 125 -18.88 -30.98 REMARK 500 SER A 146 -127.61 60.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A1240 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 10 OE2 REMARK 620 2 ASP A 12 OD2 93.9 REMARK 620 3 ASP A 21 OD1 169.8 93.9 REMARK 620 4 HIS A 26 NE2 95.0 87.6 91.9 REMARK 620 5 HOH A2252 O 87.4 90.5 85.9 177.0 REMARK 620 6 HOH A2253 O 87.1 176.3 85.6 88.8 93.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1241 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 12 OD2 REMARK 620 2 ASP A 12 OD1 52.6 REMARK 620 3 TYR A 14 O 111.1 77.4 REMARK 620 4 ASN A 16 OD1 159.2 148.2 81.8 REMARK 620 5 ASP A 21 OD2 78.2 111.0 80.3 88.6 REMARK 620 6 HOH A2221 O 108.9 71.7 92.8 85.7 171.6 REMARK 620 7 HOH A2240 O 73.8 113.6 167.5 90.4 89.9 96.3 REMARK 620 N 1 2 3 4 5 6 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1H9P RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DIOCLEA GUIANENSIS SEED LECTIN REMARK 900 RELATED ID: 1H9W RELATED DB: PDB REMARK 900 NATIVE DIOCLEA GUIANENSIS SEED LECTIN REMARK 900 RELATED ID: 2JDZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RECOMBINANT DIOCLEA GUIANENSIS LECTIN REMARK 900 COMPLEXED WITH 5-BROMO-4-CHLORO-3-INDOLYL-A-D-MANNOSE REMARK 900 RELATED ID: 2JE9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RECOMBINANT DIOCLEA GRANDIFLORA LECTIN REMARK 900 COMPLEXED WITH 5-BROMO-4-CHLORO-3-INDOLYL-A- D-MANNOSE REMARK 900 RELATED ID: 2JEC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RECOMBINANT DIOCLEA GRANDIFLORA LECTIN MUTANT REMARK 900 E123A-H131N-K132Q COMPLEXED WITH 5-BROMO -4-CHLORO-3-INDOLYL-A-D- REMARK 900 MANNOSE REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AMINOACID SEQUENCE DEDUCED FROM CDNA PRESENTS CONFLICTS REMARK 999 WITH THE AMINOACID SEQUENCE DETERMINED BY DIRECT METHOD. THE REMARK 999 DEDUCED SEQUENCE WAS CONFIRMED BY SEQUENCE OF ALL CLONES (FROM REMARK 999 CDNA AND GENOMIC DNA). THE INSERTIONS AT N-TERMINAL ARE DUE THE REMARK 999 NCOI RESTRICTION SITE OF THE PET-32A VECTOR. THE SEQUENCE FROM REMARK 999 2JDZ WAS USED AS TEMPLATE FOR SITE DIRECTED MUTAGENESIS OF REMARK 999 RESIDUE 133. DBREF 2JE7 A 3 239 UNP P81637 LECA_DIOGU 1 237 SEQADV 2JE7 ALA A 1 UNP P81637 EXPRESSION TAG SEQADV 2JE7 MET A 2 UNP P81637 EXPRESSION TAG SEQADV 2JE7 SER A 70 UNP P81637 THR 68 CONFLICT SEQADV 2JE7 THR A 72 UNP P81637 SER 70 CONFLICT SEQADV 2JE7 HIS A 133 UNP P81637 ASN 131 ENGINEERED MUTATION SEQADV 2JE7 GLN A 157 UNP P81637 GLU 155 CONFLICT SEQADV 2JE7 ARG A 160 UNP P81637 LYS 158 CONFLICT SEQADV 2JE7 ASP A 164 UNP P81637 SER 162 CONFLICT SEQADV 2JE7 SER A 166 UNP P81637 ASP 164 CONFLICT SEQADV 2JE7 SER A 192 UNP P81637 GLY 190 CONFLICT SEQRES 1 A 239 ALA MET ALA ASP THR ILE VAL ALA VAL GLU LEU ASP SER SEQRES 2 A 239 TYR PRO ASN THR ASP ILE GLY ASP PRO SER TYR PRO HIS SEQRES 3 A 239 ILE GLY ILE ASP ILE LYS SER ILE ARG SER LYS SER THR SEQRES 4 A 239 ALA ARG TRP ASN MET GLN THR GLY LYS VAL GLY THR ALA SEQRES 5 A 239 HIS ILE SER TYR ASN SER VAL ALA LYS ARG LEU SER ALA SEQRES 6 A 239 VAL VAL SER TYR SER GLY THR SER SER THR THR VAL SER SEQRES 7 A 239 TYR ASP VAL ASP LEU ASN ASN VAL LEU PRO GLU TRP VAL SEQRES 8 A 239 ARG VAL GLY LEU SER ALA THR THR GLY LEU TYR LYS GLU SEQRES 9 A 239 THR ASN THR ILE LEU SER TRP SER PHE THR SER LYS LEU SEQRES 10 A 239 LYS THR ASN SER ILE ALA ASP ALA ASN SER LEU HIS PHE SEQRES 11 A 239 SER PHE HIS GLN PHE SER GLN ASN PRO LYS ASP LEU ILE SEQRES 12 A 239 LEU GLN SER ASP ALA THR THR ASP SER ASP GLY ASN LEU SEQRES 13 A 239 GLN LEU THR ARG VAL SER SER ASP GLY SER PRO GLN GLY SEQRES 14 A 239 SER SER VAL GLY ARG ALA LEU PHE TYR ALA PRO VAL HIS SEQRES 15 A 239 ILE TRP GLU LYS SER ALA VAL VAL ALA SER PHE ASP ALA SEQRES 16 A 239 THR PHE THR PHE LEU ILE LYS SER PRO ASP ARG ASP PRO SEQRES 17 A 239 ALA ASP GLY ILE THR PHE PHE ILE ALA ASN THR ASP THR SEQRES 18 A 239 SER ILE PRO SER GLY SER GLY GLY ARG LEU LEU GLY LEU SEQRES 19 A 239 PHE PRO ASP ALA ASN HET MN A1240 1 HET CA A1241 1 HET XMM A1242 23 HETNAM MN MANGANESE (II) ION HETNAM CA CALCIUM ION HETNAM XMM 5-BROMO-4-CHLORO-1H-INDOL-3-YL ALPHA-D-MANNOPYRANOSIDE HETSYN XMM (5-BROMO-4-CHLORO-3-INDOLYL)-A-D-MANNOSE FORMUL 2 MN MN 2+ FORMUL 3 CA CA 2+ FORMUL 4 XMM C14 H15 BR CL N O6 FORMUL 5 HOH *255(H2 O) HELIX 1 1 ASN A 16 GLY A 20 5 5 HELIX 2 2 ASP A 82 LEU A 87 1 6 HELIX 3 3 GLY A 228 LEU A 232 5 5 SHEET 1 AA 6 SER A 38 ARG A 41 0 SHEET 2 AA 6 HIS A 26 ILE A 31 -1 O ILE A 27 N ALA A 40 SHEET 3 AA 6 ILE A 6 ASP A 12 -1 O ALA A 8 N ASP A 30 SHEET 4 AA 6 GLY A 211 ASN A 218 -1 O ILE A 212 N LEU A 11 SHEET 5 AA 6 TRP A 90 THR A 98 -1 O ARG A 92 N ALA A 217 SHEET 6 AA 6 VAL A 181 HIS A 182 -1 O VAL A 181 N VAL A 91 SHEET 1 AB 7 SER A 38 ARG A 41 0 SHEET 2 AB 7 HIS A 26 ILE A 31 -1 O ILE A 27 N ALA A 40 SHEET 3 AB 7 ILE A 6 ASP A 12 -1 O ALA A 8 N ASP A 30 SHEET 4 AB 7 GLY A 211 ASN A 218 -1 O ILE A 212 N LEU A 11 SHEET 5 AB 7 TRP A 90 THR A 98 -1 O ARG A 92 N ALA A 217 SHEET 6 AB 7 VAL A 172 PHE A 177 -1 O GLY A 173 N ALA A 97 SHEET 7 AB 7 LEU A 142 SER A 146 -1 O ILE A 143 N LEU A 176 SHEET 1 AC 7 SER A 73 ASP A 80 0 SHEET 2 AC 7 ARG A 62 TYR A 69 -1 O LEU A 63 N TYR A 79 SHEET 3 AC 7 VAL A 49 ASN A 57 -1 O THR A 51 N SER A 68 SHEET 4 AC 7 VAL A 190 LEU A 200 -1 O PHE A 193 N TYR A 56 SHEET 5 AC 7 THR A 107 LYS A 118 -1 O THR A 107 N LEU A 200 SHEET 6 AC 7 LEU A 156 GLN A 157 -1 O LEU A 156 N ILE A 108 SHEET 7 AC 7 THR A 149 THR A 150 -1 O THR A 149 N GLN A 157 SHEET 1 AD 6 SER A 73 ASP A 80 0 SHEET 2 AD 6 ARG A 62 TYR A 69 -1 O LEU A 63 N TYR A 79 SHEET 3 AD 6 VAL A 49 ASN A 57 -1 O THR A 51 N SER A 68 SHEET 4 AD 6 VAL A 190 LEU A 200 -1 O PHE A 193 N TYR A 56 SHEET 5 AD 6 THR A 107 LYS A 118 -1 O THR A 107 N LEU A 200 SHEET 6 AD 6 ASN A 126 PHE A 132 -1 O ASN A 126 N LEU A 117 LINK OE2 GLU A 10 MN MN A1240 1555 1555 2.14 LINK OD2 ASP A 12 MN MN A1240 1555 1555 2.14 LINK OD2 ASP A 12 CA CA A1241 1555 1555 2.49 LINK OD1 ASP A 12 CA CA A1241 1555 1555 2.47 LINK O TYR A 14 CA CA A1241 1555 1555 2.31 LINK OD1 ASN A 16 CA CA A1241 1555 1555 2.40 LINK OD1 ASP A 21 MN MN A1240 1555 1555 2.23 LINK OD2 ASP A 21 CA CA A1241 1555 1555 2.38 LINK NE2 HIS A 26 MN MN A1240 1555 1555 2.15 LINK MN MN A1240 O HOH A2252 1555 1555 2.25 LINK MN MN A1240 O HOH A2253 1555 1555 2.08 LINK CA CA A1241 O HOH A2221 1555 1555 2.35 LINK CA CA A1241 O HOH A2240 1555 1555 2.39 CISPEP 1 ALA A 209 ASP A 210 0 5.28 CRYST1 65.661 88.014 91.536 90.00 90.00 90.00 I 2 2 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 0.015230 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011362 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010925 0.00000 MASTER 390 0 3 3 26 0 0 6 0 0 0 19 END