HEADER LECTIN 22-MAR-01 1H9W TITLE NATIVE DIOCLEA GUIANENSIS SEED LECTIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SEED LECTIN; COMPND 3 CHAIN: A, B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DIOCLEA GUIANENSIS; SOURCE 3 ORGANISM_COMMON: DUKE; SOURCE 4 ORGANISM_TAXID: 99571; SOURCE 5 VARIANT: LASIOPHYLLA; SOURCE 6 TISSUE: SEED KEYWDS LECTIN, LEGUME LECTIN OLIGOMERISATION EXPDTA X-RAY DIFFRACTION AUTHOR A.ROMERO,D.A.WAH,F.G.D.SOL,B.S.CAVADA,M.V.RAMOS,T.B.GRANGEIRO, AUTHOR 2 A.H.SAMPAIO,J.J.CALVETE REVDAT 6 13-DEC-23 1H9W 1 REMARK LINK REVDAT 5 08-MAY-19 1H9W 1 REMARK REVDAT 4 24-FEB-09 1H9W 1 VERSN REVDAT 3 16-AUG-01 1H9W 1 REMARK SHEET MASTER REVDAT 2 02-AUG-01 1H9W 1 JRNL REVDAT 1 23-MAR-01 1H9W 0 JRNL AUTH D.A.WAH,A.ROMERO,F.GALLEGO,B.S.CAVADA,M.V.RAMOS, JRNL AUTH 2 T.B.GRANGEIRO,A.H.SAMPAIO,J.J.CALVETE JRNL TITL CRYSTAL STRUCTURE OF NATIVE AND CD/CD-SUBSTITUTED DIOCLEA JRNL TITL 2 GUIANENSIS SEED LECTIN. A NOVEL MANGANESE-BINDING SITE AND JRNL TITL 3 STRUCTURAL BASIS OF DIMER-TETRAMER ASSOCIATION JRNL REF J.MOL.BIOL. V. 310 885 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11453695 JRNL DOI 10.1006/JMBI.2001.4814 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.J.CALVETE,H.H.THOLE,M.RAIDA,C.URBANKE,A.ROMERO, REMARK 1 AUTH 2 T.B.GRANGEIRO,M.V.RAMOS,I.M.ALMEIDA,F.N.GUIMARAES,B.S.CAVADA REMARK 1 TITL MOLECULAR CHARACTERIZATION AND CRYSTALLIZATION OF DIOCLEINAE REMARK 1 TITL 2 LECTINS REMARK 1 REF BIOCHIM.BIOPHYS.ACTA V.1430 367 1999 REMARK 1 REFN ISSN 0006-3002 REMARK 1 PMID 10082964 REMARK 1 DOI 10.1016/S0167-4838(99)00020-5 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.54 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2397478.650 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 87.5 REMARK 3 NUMBER OF REFLECTIONS : 26599 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 SET) : 0.228 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1827 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.13 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4258 REMARK 3 BIN R VALUE (WORKING SET) : 0.2320 REMARK 3 BIN FREE R VALUE : 0.2850 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 322 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3484 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 270 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.18000 REMARK 3 B22 (A**2) : -1.18000 REMARK 3 B33 (A**2) : 2.36000 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) : 0.24 REMARK 3 ESD FROM SIGMAA (A) : 0.10 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.17 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.770 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.520 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.390 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.440 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.550 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.44 REMARK 3 BSOL : 78.42 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 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: SIDE-CHAINS COULD NOT BE ADDED FOR REMARK 3 RESIDUES A131, A162, A204, B82, B99 AND B116, AND RESIDUES WERE REMARK 3 NOT BUILT FOR B117 AND B237 BECAUSE OF THE LACK OF DENSITY THE REMARK 3 RESIDUES 118-122 WERE LEFT OUT FOR BOTH MONOMERS BECAUSE OF POOR REMARK 3 DENSITY. THE C-TERMINAL RESIDUE ASN237 WAS NOT SEEN IN THE REMARK 3 DENSITY MAPS REMARK 4 REMARK 4 1H9W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-MAR-01. REMARK 100 THE DEPOSITION ID IS D_1290006017. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAY-00 REMARK 200 TEMPERATURE (KELVIN) : 110.0 REMARK 200 PH : 4.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : TOROIDAL MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26619 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 22.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.7 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.03700 REMARK 200 R SYM (I) : 0.03700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.08900 REMARK 200 R SYM FOR SHELL (I) : 0.08900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 8.000 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: 1CVN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN BY THE HANGING REMARK 280 DROP VAPOUR DIFFUSION METHOD USING 30% PEG 400, 0.1M ACO, PH 4.6, REMARK 280 10MM CACL2 AND MNCL2, PH 4.60, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 53.37750 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 45.08150 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 45.08150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 80.06625 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 45.08150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 45.08150 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 26.68875 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 45.08150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.08150 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 80.06625 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 45.08150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.08150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 26.68875 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 53.37750 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: BIOLOGICAL_UNIT: HE BIOLOGICALLY ACTIVE UNIT REMARK 300 IS ACANONICAL DIMERIC (BELOW PH 6) OR TETRAMER. 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: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 2410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.9 KCAL/MOL 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 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 ASN A 118 REMARK 465 SER A 119 REMARK 465 ILE A 120 REMARK 465 ALA A 121 REMARK 465 ASP A 122 REMARK 465 THR B 117 REMARK 465 ASN B 118 REMARK 465 SER B 119 REMARK 465 ILE B 120 REMARK 465 ALA B 121 REMARK 465 ASP B 122 REMARK 465 ASN B 237 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 ASN A 131 CG OD1 ND2 REMARK 470 SER A 162 OG REMARK 470 ARG A 204 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 82 CG OD1 ND2 REMARK 470 LEU B 99 CG CD1 CD2 REMARK 470 LYS B 116 CG CD CE NZ 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 TYR A 54 146.64 -170.31 REMARK 500 VAL A 79 137.00 -172.16 REMARK 500 ASN A 136 75.07 -118.70 REMARK 500 LEU A 230 19.19 50.27 REMARK 500 ASN B 14 74.84 -103.79 REMARK 500 TYR B 22 157.08 178.36 REMARK 500 SER B 34 137.85 -37.37 REMARK 500 GLN B 43 67.75 -150.60 REMARK 500 PRO B 137 87.34 -65.34 REMARK 500 SER B 201 146.04 -171.03 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 A 238 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 8 OE2 REMARK 620 2 ASP A 10 OD2 93.8 REMARK 620 3 ASP A 19 OD1 167.5 96.5 REMARK 620 4 HIS A 24 NE2 90.7 98.1 94.8 REMARK 620 5 HOH A2145 O 83.0 176.0 87.0 79.6 REMARK 620 6 HOH A2146 O 88.3 89.0 84.9 172.9 93.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 239 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 10 OD1 REMARK 620 2 ASP A 10 OD2 55.5 REMARK 620 3 TYR A 12 O 73.2 118.1 REMARK 620 4 ASN A 14 OD1 140.1 163.2 71.2 REMARK 620 5 ASP A 19 OD2 108.6 80.5 86.1 86.5 REMARK 620 6 HOH A2007 O 80.9 109.1 92.7 83.3 169.5 REMARK 620 7 HOH A2138 O 123.5 75.2 163.1 93.4 86.0 92.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 243 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 87 OE1 REMARK 620 2 GLU A 87 OE2 54.8 REMARK 620 3 GLU A 183 OE1 87.7 97.0 REMARK 620 4 GLU A 183 OE2 67.8 111.0 43.1 REMARK 620 5 GLU B 87 OE2 102.5 145.5 108.6 76.1 REMARK 620 6 GLU B 87 OE1 93.1 98.0 162.1 121.3 53.8 REMARK 620 7 GLU B 183 OE1 162.2 125.7 74.5 98.5 84.3 104.0 REMARK 620 8 GLU B 183 OE2 145.1 90.8 103.6 140.3 104.8 85.8 43.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 241 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 125 OG REMARK 620 2 HOH A2147 O 77.3 REMARK 620 3 HOH A2148 O 84.7 119.1 REMARK 620 4 HOH A2149 O 120.5 76.4 153.9 REMARK 620 5 HIS B 127 NE2 100.4 139.2 101.0 69.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 241 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 127 NE2 REMARK 620 2 SER B 125 OG 96.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 242 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 180 ND1 REMARK 620 2 HOH A2150 O 105.0 REMARK 620 3 HOH A2151 O 119.1 95.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 238 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 8 OE2 REMARK 620 2 ASP B 10 OD2 88.3 REMARK 620 3 ASP B 19 OD1 163.5 103.9 REMARK 620 4 HIS B 24 NE2 93.6 96.0 96.0 REMARK 620 5 HOH B2112 O 88.9 176.6 78.4 86.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 239 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 10 OD1 REMARK 620 2 ASP B 10 OD2 53.7 REMARK 620 3 TYR B 12 O 77.4 117.9 REMARK 620 4 ASN B 14 OD1 143.9 162.4 74.5 REMARK 620 5 ASP B 19 OD2 114.8 77.7 94.0 89.5 REMARK 620 6 HOH B2004 O 74.7 109.7 87.9 82.0 170.5 REMARK 620 7 HOH B2108 O 115.7 70.5 166.0 95.0 76.4 100.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 244 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 51 NE2 REMARK 620 2 HOH B2117 O 91.9 REMARK 620 3 HOH B2118 O 110.9 115.7 REMARK 620 4 HOH B2119 O 86.3 161.7 81.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 242 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 180 ND1 REMARK 620 2 HOH B2115 O 98.2 REMARK 620 3 HOH B2116 O 129.8 101.9 REMARK 620 N 1 2 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 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 238 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 239 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 241 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 242 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 238 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 239 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 241 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 242 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 243 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 244 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1H9P RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DIOCLEA GUIANENSIS SEED LECTIN REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE IS DESCRIBED IN CALVETE ET AL. (1999) REMARK 999 BIOCHIM. BIOPHYS. ACTA., 1430, P.367. RESIDUES REMARK 999 144 AND 190 (GLY AND SER) ARE NOT SET CORRECTLY REMARK 999 IN THE SW DATA BASE. DBREF 1H9W A 1 237 UNP P81637 LECA_DIOGU 1 237 DBREF 1H9W B 1 237 UNP P81637 LECA_DIOGU 1 237 SEQADV 1H9W GLY A 144 UNP P81637 SER 144 SEE REMARK 999 SEQADV 1H9W SER A 190 UNP P81637 GLY 190 SEE REMARK 999 SEQADV 1H9W GLY B 144 UNP P81637 SER 144 SEE REMARK 999 SEQADV 1H9W SER B 190 UNP P81637 GLY 190 SEE REMARK 999 SEQRES 1 A 237 ALA ASP THR ILE VAL ALA VAL GLU LEU ASP SER TYR PRO SEQRES 2 A 237 ASN THR ASP ILE GLY ASP PRO SER TYR PRO HIS ILE GLY SEQRES 3 A 237 ILE ASP ILE LYS SER ILE ARG SER LYS SER THR ALA ARG SEQRES 4 A 237 TRP ASN MET GLN THR GLY LYS VAL GLY THR ALA HIS ILE SEQRES 5 A 237 SER TYR ASN SER VAL ALA LYS ARG LEU SER ALA VAL VAL SEQRES 6 A 237 SER TYR THR GLY SER SER SER THR THR VAL SER TYR ASP SEQRES 7 A 237 VAL ASP LEU ASN ASN VAL LEU PRO GLU TRP VAL ARG VAL SEQRES 8 A 237 GLY LEU SER ALA THR THR GLY LEU TYR LYS GLU THR ASN SEQRES 9 A 237 THR ILE LEU SER TRP SER PHE THR SER LYS LEU LYS THR SEQRES 10 A 237 ASN SER ILE ALA ASP ALA ASN SER LEU HIS PHE SER PHE SEQRES 11 A 237 ASN GLN PHE SER GLN ASN PRO LYS ASP LEU ILE LEU GLN SEQRES 12 A 237 GLY ASP ALA THR THR ASP SER ASP GLY ASN LEU GLU LEU SEQRES 13 A 237 THR LYS VAL SER SER SER GLY ASP PRO GLN GLY SER SER SEQRES 14 A 237 VAL GLY ARG ALA LEU PHE TYR ALA PRO VAL HIS ILE TRP SEQRES 15 A 237 GLU LYS SER ALA VAL VAL ALA SER PHE ASP ALA THR PHE SEQRES 16 A 237 THR PHE LEU ILE LYS SER PRO ASP ARG ASP PRO ALA ASP SEQRES 17 A 237 GLY ILE THR PHE PHE ILE ALA ASN THR ASP THR SER ILE SEQRES 18 A 237 PRO SER GLY SER GLY GLY ARG LEU LEU GLY LEU PHE PRO SEQRES 19 A 237 ASP ALA ASN SEQRES 1 B 237 ALA ASP THR ILE VAL ALA VAL GLU LEU ASP SER TYR PRO SEQRES 2 B 237 ASN THR ASP ILE GLY ASP PRO SER TYR PRO HIS ILE GLY SEQRES 3 B 237 ILE ASP ILE LYS SER ILE ARG SER LYS SER THR ALA ARG SEQRES 4 B 237 TRP ASN MET GLN THR GLY LYS VAL GLY THR ALA HIS ILE SEQRES 5 B 237 SER TYR ASN SER VAL ALA LYS ARG LEU SER ALA VAL VAL SEQRES 6 B 237 SER TYR THR GLY SER SER SER THR THR VAL SER TYR ASP SEQRES 7 B 237 VAL ASP LEU ASN ASN VAL LEU PRO GLU TRP VAL ARG VAL SEQRES 8 B 237 GLY LEU SER ALA THR THR GLY LEU TYR LYS GLU THR ASN SEQRES 9 B 237 THR ILE LEU SER TRP SER PHE THR SER LYS LEU LYS THR SEQRES 10 B 237 ASN SER ILE ALA ASP ALA ASN SER LEU HIS PHE SER PHE SEQRES 11 B 237 ASN GLN PHE SER GLN ASN PRO LYS ASP LEU ILE LEU GLN SEQRES 12 B 237 GLY ASP ALA THR THR ASP SER ASP GLY ASN LEU GLU LEU SEQRES 13 B 237 THR LYS VAL SER SER SER GLY ASP PRO GLN GLY SER SER SEQRES 14 B 237 VAL GLY ARG ALA LEU PHE TYR ALA PRO VAL HIS ILE TRP SEQRES 15 B 237 GLU LYS SER ALA VAL VAL ALA SER PHE ASP ALA THR PHE SEQRES 16 B 237 THR PHE LEU ILE LYS SER PRO ASP ARG ASP PRO ALA ASP SEQRES 17 B 237 GLY ILE THR PHE PHE ILE ALA ASN THR ASP THR SER ILE SEQRES 18 B 237 PRO SER GLY SER GLY GLY ARG LEU LEU GLY LEU PHE PRO SEQRES 19 B 237 ASP ALA ASN HET MN A 238 1 HET CA A 239 1 HET MN A 241 1 HET MN A 242 1 HET MN B 238 1 HET CA B 239 1 HET MN B 241 1 HET MN B 242 1 HET CA B 243 1 HET MN B 244 1 HETNAM MN MANGANESE (II) ION HETNAM CA CALCIUM ION FORMUL 3 MN 7(MN 2+) FORMUL 4 CA 3(CA 2+) FORMUL 13 HOH *270(H2 O) HELIX 1 1 ASN A 14 GLY A 18 5 5 HELIX 2 2 ASP A 80 VAL A 84 5 5 HELIX 3 3 GLY A 226 LEU A 230 5 5 HELIX 4 4 ASN B 14 GLY B 18 5 5 HELIX 5 5 ASP B 80 LEU B 85 1 6 HELIX 6 6 GLY B 226 LEU B 230 5 5 SHEET 1 AA 6 SER A 36 ARG A 39 0 SHEET 2 AA 6 HIS A 24 ILE A 29 -1 O ILE A 25 N ALA A 38 SHEET 3 AA 6 ILE A 4 ASP A 10 -1 O ALA A 6 N ASP A 28 SHEET 4 AA 6 GLY A 209 ASN A 216 -1 O ILE A 210 N LEU A 9 SHEET 5 AA 6 TRP A 88 THR A 96 -1 O ARG A 90 N ALA A 215 SHEET 6 AA 6 VAL A 179 HIS A 180 -1 O VAL A 179 N VAL A 89 SHEET 1 AB 7 SER A 36 ARG A 39 0 SHEET 2 AB 7 HIS A 24 ILE A 29 -1 O ILE A 25 N ALA A 38 SHEET 3 AB 7 ILE A 4 ASP A 10 -1 O ALA A 6 N ASP A 28 SHEET 4 AB 7 GLY A 209 ASN A 216 -1 O ILE A 210 N LEU A 9 SHEET 5 AB 7 TRP A 88 THR A 96 -1 O ARG A 90 N ALA A 215 SHEET 6 AB 7 VAL A 170 PHE A 175 -1 O GLY A 171 N ALA A 95 SHEET 7 AB 7 LEU A 140 GLY A 144 -1 O ILE A 141 N LEU A 174 SHEET 1 AC 7 THR A 73 ASP A 78 0 SHEET 2 AC 7 ARG A 60 TYR A 67 -1 O LEU A 61 N TYR A 77 SHEET 3 AC 7 VAL A 47 ASN A 55 -1 O THR A 49 N SER A 66 SHEET 4 AC 7 VAL A 188 LEU A 198 -1 O PHE A 191 N TYR A 54 SHEET 5 AC 7 THR A 105 LYS A 116 -1 O THR A 105 N LEU A 198 SHEET 6 AC 7 LEU A 154 GLU A 155 -1 O LEU A 154 N ILE A 106 SHEET 7 AC 7 THR A 147 THR A 148 -1 O THR A 147 N GLU A 155 SHEET 1 AD 8 THR A 73 ASP A 78 0 SHEET 2 AD 8 ARG A 60 TYR A 67 -1 O LEU A 61 N TYR A 77 SHEET 3 AD 8 VAL A 47 ASN A 55 -1 O THR A 49 N SER A 66 SHEET 4 AD 8 VAL A 188 LEU A 198 -1 O PHE A 191 N TYR A 54 SHEET 5 AD 8 THR A 105 LYS A 116 -1 O THR A 105 N LEU A 198 SHEET 6 AD 8 ASN A 124 PHE A 130 -1 O ASN A 124 N LEU A 115 SHEET 7 AD 8 ASN B 124 PHE B 130 -1 O SER B 125 N SER A 129 SHEET 8 AD 8 THR B 105 LYS B 116 -1 O TRP B 109 N PHE B 130 SHEET 1 BA 6 SER B 36 ARG B 39 0 SHEET 2 BA 6 HIS B 24 ILE B 29 -1 O ILE B 25 N ALA B 38 SHEET 3 BA 6 ILE B 4 ASP B 10 -1 O ALA B 6 N ASP B 28 SHEET 4 BA 6 GLY B 209 ASN B 216 -1 O ILE B 210 N LEU B 9 SHEET 5 BA 6 TRP B 88 THR B 96 -1 O ARG B 90 N ALA B 215 SHEET 6 BA 6 VAL B 179 HIS B 180 -1 O VAL B 179 N VAL B 89 SHEET 1 BB 7 SER B 36 ARG B 39 0 SHEET 2 BB 7 HIS B 24 ILE B 29 -1 O ILE B 25 N ALA B 38 SHEET 3 BB 7 ILE B 4 ASP B 10 -1 O ALA B 6 N ASP B 28 SHEET 4 BB 7 GLY B 209 ASN B 216 -1 O ILE B 210 N LEU B 9 SHEET 5 BB 7 TRP B 88 THR B 96 -1 O ARG B 90 N ALA B 215 SHEET 6 BB 7 VAL B 170 PHE B 175 -1 O GLY B 171 N ALA B 95 SHEET 7 BB 7 LEU B 140 GLY B 144 -1 O ILE B 141 N LEU B 174 LINK OE2 GLU A 8 MN MN A 238 1555 1555 2.30 LINK OD2 ASP A 10 MN MN A 238 1555 1555 2.19 LINK OD1 ASP A 10 CA CA A 239 1555 1555 2.22 LINK OD2 ASP A 10 CA CA A 239 1555 1555 2.45 LINK O TYR A 12 CA CA A 239 1555 1555 2.24 LINK OD1 ASN A 14 CA CA A 239 1555 1555 2.57 LINK OD1 ASP A 19 MN MN A 238 1555 1555 2.46 LINK OD2 ASP A 19 CA CA A 239 1555 1555 2.31 LINK NE2 HIS A 24 MN MN A 238 1555 1555 2.46 LINK OE1 GLU A 87 CA CA B 243 1555 1555 2.42 LINK OE2 GLU A 87 CA CA B 243 1555 1555 2.40 LINK OG SER A 125 MN MN A 241 1555 1555 2.44 LINK NE2 HIS A 127 MN MN B 241 1555 1555 2.51 LINK ND1 HIS A 180 MN MN A 242 1555 1555 2.41 LINK OE1 GLU A 183 CA CA B 243 1555 1555 2.36 LINK OE2 GLU A 183 CA CA B 243 1555 1555 3.21 LINK MN MN A 238 O HOH A2145 1555 1555 2.30 LINK MN MN A 238 O HOH A2146 1555 1555 2.26 LINK CA CA A 239 O HOH A2007 1555 1555 2.20 LINK CA CA A 239 O HOH A2138 1555 1555 2.37 LINK MN MN A 241 O HOH A2147 1555 1555 2.57 LINK MN MN A 241 O HOH A2148 1555 1555 2.57 LINK MN MN A 241 O HOH A2149 1555 1555 2.17 LINK MN MN A 241 NE2 HIS B 127 1555 1555 2.50 LINK MN MN A 242 O HOH A2150 1555 1555 2.47 LINK MN MN A 242 O HOH A2151 1555 1555 2.36 LINK OE2 GLU B 8 MN MN B 238 1555 1555 2.28 LINK OD2 ASP B 10 MN MN B 238 1555 1555 2.11 LINK OD1 ASP B 10 CA CA B 239 1555 1555 2.17 LINK OD2 ASP B 10 CA CA B 239 1555 1555 2.62 LINK O TYR B 12 CA CA B 239 1555 1555 2.31 LINK OD1 ASN B 14 CA CA B 239 1555 1555 2.41 LINK OD1 ASP B 19 MN MN B 238 1555 1555 2.27 LINK OD2 ASP B 19 CA CA B 239 1555 1555 2.51 LINK NE2 HIS B 24 MN MN B 238 1555 1555 2.11 LINK NE2 HIS B 51 MN MN B 244 1555 1555 2.00 LINK OE2 GLU B 87 CA CA B 243 3644 1555 2.50 LINK OE1 GLU B 87 CA CA B 243 3644 1555 2.35 LINK OG SER B 125 MN MN B 241 1555 1555 2.33 LINK ND1 HIS B 180 MN MN B 242 1555 1555 2.12 LINK OE1 GLU B 183 CA CA B 243 3644 1555 2.34 LINK OE2 GLU B 183 CA CA B 243 3644 1555 3.20 LINK MN MN B 238 O HOH B2112 1555 1555 1.81 LINK CA CA B 239 O HOH B2004 1555 1555 2.21 LINK CA CA B 239 O HOH B2108 1555 1555 2.44 LINK MN MN B 242 O HOH B2115 1555 1555 2.04 LINK MN MN B 242 O HOH B2116 1555 1555 2.33 LINK MN MN B 244 O HOH B2117 1555 1555 2.54 LINK MN MN B 244 O HOH B2118 1555 1555 2.69 LINK MN MN B 244 O HOH B2119 1555 1555 1.89 CISPEP 1 ALA A 207 ASP A 208 0 11.05 CISPEP 2 ALA B 207 ASP B 208 0 5.93 SITE 1 AC1 6 GLU A 8 ASP A 10 ASP A 19 HIS A 24 SITE 2 AC1 6 HOH A2145 HOH A2146 SITE 1 AC2 6 ASP A 10 TYR A 12 ASN A 14 ASP A 19 SITE 2 AC2 6 HOH A2007 HOH A2138 SITE 1 AC3 5 SER A 125 HOH A2147 HOH A2148 HOH A2149 SITE 2 AC3 5 HIS B 127 SITE 1 AC4 3 HIS A 180 HOH A2150 HOH A2151 SITE 1 AC5 5 GLU B 8 ASP B 10 ASP B 19 HIS B 24 SITE 2 AC5 5 HOH B2112 SITE 1 AC6 6 ASP B 10 TYR B 12 ASN B 14 ASP B 19 SITE 2 AC6 6 HOH B2004 HOH B2108 SITE 1 AC7 4 HIS A 127 SER B 125 HOH B2113 HOH B2114 SITE 1 AC8 3 HIS B 180 HOH B2115 HOH B2116 SITE 1 AC9 4 GLU A 87 GLU A 183 GLU B 87 GLU B 183 SITE 1 BC1 4 HIS B 51 HOH B2117 HOH B2118 HOH B2119 CRYST1 90.163 90.163 106.755 90.00 90.00 90.00 P 43 21 2 16 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 0.011091 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011091 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009367 0.00000 MTRIX1 1 0.005230 0.997420 -0.071560 46.37861 1 MTRIX2 1 0.998020 -0.009690 -0.062190 -42.45690 1 MTRIX3 1 -0.062720 -0.071090 -0.995500 59.02104 1