HEADER CELL ADHESION 07-JUL-09 2WN3 TITLE CRYSTAL STRUCTURE OF DISCOIDIN I FROM DICTYOSTELIUM DISCOIDEUM IN TITLE 2 COMPLEX WITH THE DISACCHARIDE GALNAC BETA 1-3 GALACTOSE, AT 1.6 A TITLE 3 RESOLUTION. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DISCOIDIN-1 SUBUNIT A; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: DISCOIDIN-1 SUBUNIT ALPHA, DISCOIDIN I CHAIN A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DICTYOSTELIUM DISCOIDEUM; SOURCE 3 ORGANISM_COMMON: SLIME MOLD; SOURCE 4 ORGANISM_TAXID: 366501; SOURCE 5 STRAIN: AX2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA 2 (DE3) PLYSS; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPROEX-HTB KEYWDS TYPE-H LECTIN, CELL ADHESION, DISCOIDIN DOMAIN, LECTIN EXPDTA X-RAY DIFFRACTION AUTHOR S.MATHIEU,A.IMBERTY,A.VARROT REVDAT 4 29-JUL-20 2WN3 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 21-JUL-10 2WN3 1 JRNL ATOM REVDAT 2 07-JUL-10 2WN3 1 JRNL REVDAT 1 26-MAY-10 2WN3 0 JRNL AUTH S.MATHIEU,K.SABOIA ARAGAO,A.IMBERTY,A.VARROT JRNL TITL DISCOIDIN I FROM DICTYOSTELIUM DISCOIDEUM AND INTERACTIONS JRNL TITL 2 WITH OLIGOSACCHARIDES: SPECIFICITY, AFFINITY, CRYSTAL JRNL TITL 3 STRUCTURES AND COMPARISON WITH DISCOIDIN II. JRNL REF J.MOL.BIOL. V. 400 540 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20580724 JRNL DOI 10.1016/J.JMB.2010.05.042 REMARK 2 REMARK 2 RESOLUTION. 1.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 1.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 137.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 108859 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5754 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) : 1.59 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7888 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.08 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 437 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5967 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 131 REMARK 3 SOLVENT ATOMS : 1121 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : -0.98000 REMARK 3 B33 (A**2) : 0.89000 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): 0.074 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.075 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.046 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.325 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.957 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6295 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4050 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8603 ; 1.577 ; 1.931 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9847 ; 0.897 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 782 ; 7.095 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 314 ;35.234 ;24.331 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 947 ;11.136 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 39 ;20.231 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 981 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7088 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1326 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 3813 ; 0.872 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1555 ; 0.277 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6204 ; 1.475 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2482 ; 2.275 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2386 ; 3.451 ; 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 : NULL 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. U VALUES REFINED INDIVIDUALLY. DISORDERED REGIONS REMARK 3 WERE MODELED STEREOCHEMICALLY. REMARK 4 REMARK 4 2WN3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1290040234. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95375 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 114648 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.590 REMARK 200 RESOLUTION RANGE LOW (A) : 43.730 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.67 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.28000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2W94 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM HEPES PH7.5, LI2SO4 1.2M, 20% REMARK 280 GLYCEROL AS CRYOPROTECTANT REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z 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 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 42.88000 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 42.88000 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 36.29000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 137.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 36.29000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 137.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 42.88000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 36.29000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 137.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 42.88000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 36.29000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 137.00000 REMARK 290 SMTRY3 8 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -85.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2218 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2037 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2039 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2351 LIES ON A SPECIAL POSITION. REMARK 375 HOH C2077 LIES ON A SPECIAL POSITION. REMARK 375 HOH C2241 LIES ON A SPECIAL POSITION. 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 B 0 REMARK 465 ALA C 0 REMARK 465 MET C 1 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 38 -160.84 -124.78 REMARK 500 ALA A 49 158.63 173.64 REMARK 500 ASN A 236 -150.10 60.30 REMARK 500 ASN B 24 -169.00 -161.60 REMARK 500 ASN B 38 -157.11 -126.70 REMARK 500 ALA B 49 159.51 174.86 REMARK 500 ASP B 164 42.40 71.09 REMARK 500 ASN B 236 -145.09 57.39 REMARK 500 ASN C 24 -168.30 -163.76 REMARK 500 ASN C 38 -158.56 -128.97 REMARK 500 ALA C 49 156.17 170.84 REMARK 500 VAL C 98 -55.02 -120.55 REMARK 500 ASP C 164 42.98 70.74 REMARK 500 ASN C 236 -145.11 58.90 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 A2023 DISTANCE = 7.42 ANGSTROMS REMARK 525 HOH A2042 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH A2050 DISTANCE = 6.07 ANGSTROMS REMARK 525 HOH A2151 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH B2003 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH B2048 DISTANCE = 6.70 ANGSTROMS 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 CA A 400 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 164 OD1 REMARK 620 2 ASP A 203 OD2 88.5 REMARK 620 3 ASP A 246 OD1 78.9 89.0 REMARK 620 4 ASP A 246 OD2 129.2 97.3 51.1 REMARK 620 5 GLN B 219 OE1 81.5 88.3 160.2 148.7 REMARK 620 6 HOH B2309 O 92.0 177.3 93.7 84.4 89.1 REMARK 620 7 HOH B2310 O 154.1 82.6 125.0 76.2 74.1 95.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 400 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 219 OE1 REMARK 620 2 HOH A2351 O 89.4 REMARK 620 3 HOH A2352 O 75.0 94.6 REMARK 620 4 ASP C 164 OD1 80.1 93.2 153.8 REMARK 620 5 ASP C 203 OD2 88.5 175.8 81.4 90.0 REMARK 620 6 ASP C 246 OD2 148.6 82.5 75.4 130.5 97.4 REMARK 620 7 ASP C 246 OD1 160.2 93.5 124.1 80.2 89.7 51.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 400 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 164 OD1 REMARK 620 2 ASP B 203 OD2 88.2 REMARK 620 3 ASP B 246 OD2 131.3 98.2 REMARK 620 4 ASP B 246 OD1 80.2 90.3 51.8 REMARK 620 5 GLN C 219 OE1 79.0 88.0 148.9 159.1 REMARK 620 6 HOH C2285 O 93.2 176.5 83.4 93.1 89.0 REMARK 620 7 HOH C2287 O 152.9 82.9 75.5 125.3 75.1 94.5 REMARK 620 N 1 2 3 4 5 6 REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2W95 RELATED DB: PDB REMARK 900 STRUCTURE OF THE DISCOIDIN I FROM DICTYOSTELIUM DISCOIDEUM IN REMARK 900 COMPLEX WITH GALNAC AT 1.75 ANGSTROM RESOLUTION REMARK 900 RELATED ID: 2W94 RELATED DB: PDB REMARK 900 NATIVE STRUCTURE OF THE DISCOIDIN I FROM DICTYOSTELIUM DISCOIDEUM REMARK 900 AT 1.8 ANGSTROM RESOLUTION REMARK 900 RELATED ID: 2WN2 RELATED DB: PDB REMARK 900 STRUCTURE OF THE DISCOIDIN I FROM DICTYOSTELIUM DISCOIDEUM IN REMARK 900 COMPLEX WITH GALACTOSE BETA 1-3 GALNAC AT 1.8 A RESOLUTION. REMARK 999 REMARK 999 SEQUENCE REMARK 999 FIRST RESIDUE IS ADDED FOLLOWING THE CLEAVAGE OF THE N REMARK 999 TERMINAL HIS TAG DBREF 2WN3 A 0 0 PDB 2WN3 2WN3 0 0 DBREF 2WN3 A 1 253 UNP P02886 DIS1A_DICDI 1 253 DBREF 2WN3 B 0 0 PDB 2WN3 2WN3 0 0 DBREF 2WN3 B 1 253 UNP P02886 DIS1A_DICDI 1 253 DBREF 2WN3 C 0 0 PDB 2WN3 2WN3 0 0 DBREF 2WN3 C 1 253 UNP P02886 DIS1A_DICDI 1 253 SEQRES 1 A 254 ALA MET SER THR GLN GLY LEU VAL GLN LEU LEU ALA ASN SEQRES 2 A 254 ALA GLN CYS HIS LEU ARG THR SER THR ASN TYR ASN GLY SEQRES 3 A 254 VAL HIS THR GLN PHE ASN SER ALA LEU ASN TYR LYS ASN SEQRES 4 A 254 ASN GLY THR ASN THR ILE ASP GLY SER GLU ALA TRP CYS SEQRES 5 A 254 SER SER ILE VAL ASP THR ASN GLN TYR ILE VAL ALA GLY SEQRES 6 A 254 CYS GLU VAL PRO ARG THR PHE MET CYS VAL ALA LEU GLN SEQRES 7 A 254 GLY ARG GLY ASP ALA ASP GLN TRP VAL THR SER TYR LYS SEQRES 8 A 254 ILE ARG TYR SER LEU ASP ASN VAL SER TRP PHE GLU TYR SEQRES 9 A 254 ARG ASN GLY ALA ALA VAL THR GLY VAL THR ASP ARG ASN SEQRES 10 A 254 THR VAL VAL ASN HIS PHE PHE ASP THR PRO ILE ARG ALA SEQRES 11 A 254 ARG SER ILE ALA ILE HIS PRO LEU THR TRP ASN GLY HIS SEQRES 12 A 254 ILE SER LEU ARG CYS GLU PHE TYR THR GLN PRO VAL GLN SEQRES 13 A 254 SER SER VAL THR GLN VAL GLY ALA ASP ILE TYR THR GLY SEQRES 14 A 254 ASP ASN CYS ALA LEU ASN THR GLY SER GLY LYS ARG GLU SEQRES 15 A 254 VAL VAL VAL PRO VAL LYS PHE GLN PHE GLU PHE ALA THR SEQRES 16 A 254 LEU PRO LYS VAL ALA LEU ASN PHE ASP GLN ILE ASP CYS SEQRES 17 A 254 THR ASP ALA THR ASN GLN THR ARG ILE GLY VAL GLN PRO SEQRES 18 A 254 ARG ASN ILE THR THR LYS GLY PHE ASP CYS VAL PHE TYR SEQRES 19 A 254 THR TRP ASN GLU ASN LYS VAL TYR SER LEU ARG ALA ASP SEQRES 20 A 254 TYR ILE ALA THR ALA LEU GLU SEQRES 1 B 254 ALA MET SER THR GLN GLY LEU VAL GLN LEU LEU ALA ASN SEQRES 2 B 254 ALA GLN CYS HIS LEU ARG THR SER THR ASN TYR ASN GLY SEQRES 3 B 254 VAL HIS THR GLN PHE ASN SER ALA LEU ASN TYR LYS ASN SEQRES 4 B 254 ASN GLY THR ASN THR ILE ASP GLY SER GLU ALA TRP CYS SEQRES 5 B 254 SER SER ILE VAL ASP THR ASN GLN TYR ILE VAL ALA GLY SEQRES 6 B 254 CYS GLU VAL PRO ARG THR PHE MET CYS VAL ALA LEU GLN SEQRES 7 B 254 GLY ARG GLY ASP ALA ASP GLN TRP VAL THR SER TYR LYS SEQRES 8 B 254 ILE ARG TYR SER LEU ASP ASN VAL SER TRP PHE GLU TYR SEQRES 9 B 254 ARG ASN GLY ALA ALA VAL THR GLY VAL THR ASP ARG ASN SEQRES 10 B 254 THR VAL VAL ASN HIS PHE PHE ASP THR PRO ILE ARG ALA SEQRES 11 B 254 ARG SER ILE ALA ILE HIS PRO LEU THR TRP ASN GLY HIS SEQRES 12 B 254 ILE SER LEU ARG CYS GLU PHE TYR THR GLN PRO VAL GLN SEQRES 13 B 254 SER SER VAL THR GLN VAL GLY ALA ASP ILE TYR THR GLY SEQRES 14 B 254 ASP ASN CYS ALA LEU ASN THR GLY SER GLY LYS ARG GLU SEQRES 15 B 254 VAL VAL VAL PRO VAL LYS PHE GLN PHE GLU PHE ALA THR SEQRES 16 B 254 LEU PRO LYS VAL ALA LEU ASN PHE ASP GLN ILE ASP CYS SEQRES 17 B 254 THR ASP ALA THR ASN GLN THR ARG ILE GLY VAL GLN PRO SEQRES 18 B 254 ARG ASN ILE THR THR LYS GLY PHE ASP CYS VAL PHE TYR SEQRES 19 B 254 THR TRP ASN GLU ASN LYS VAL TYR SER LEU ARG ALA ASP SEQRES 20 B 254 TYR ILE ALA THR ALA LEU GLU SEQRES 1 C 254 ALA MET SER THR GLN GLY LEU VAL GLN LEU LEU ALA ASN SEQRES 2 C 254 ALA GLN CYS HIS LEU ARG THR SER THR ASN TYR ASN GLY SEQRES 3 C 254 VAL HIS THR GLN PHE ASN SER ALA LEU ASN TYR LYS ASN SEQRES 4 C 254 ASN GLY THR ASN THR ILE ASP GLY SER GLU ALA TRP CYS SEQRES 5 C 254 SER SER ILE VAL ASP THR ASN GLN TYR ILE VAL ALA GLY SEQRES 6 C 254 CYS GLU VAL PRO ARG THR PHE MET CYS VAL ALA LEU GLN SEQRES 7 C 254 GLY ARG GLY ASP ALA ASP GLN TRP VAL THR SER TYR LYS SEQRES 8 C 254 ILE ARG TYR SER LEU ASP ASN VAL SER TRP PHE GLU TYR SEQRES 9 C 254 ARG ASN GLY ALA ALA VAL THR GLY VAL THR ASP ARG ASN SEQRES 10 C 254 THR VAL VAL ASN HIS PHE PHE ASP THR PRO ILE ARG ALA SEQRES 11 C 254 ARG SER ILE ALA ILE HIS PRO LEU THR TRP ASN GLY HIS SEQRES 12 C 254 ILE SER LEU ARG CYS GLU PHE TYR THR GLN PRO VAL GLN SEQRES 13 C 254 SER SER VAL THR GLN VAL GLY ALA ASP ILE TYR THR GLY SEQRES 14 C 254 ASP ASN CYS ALA LEU ASN THR GLY SER GLY LYS ARG GLU SEQRES 15 C 254 VAL VAL VAL PRO VAL LYS PHE GLN PHE GLU PHE ALA THR SEQRES 16 C 254 LEU PRO LYS VAL ALA LEU ASN PHE ASP GLN ILE ASP CYS SEQRES 17 C 254 THR ASP ALA THR ASN GLN THR ARG ILE GLY VAL GLN PRO SEQRES 18 C 254 ARG ASN ILE THR THR LYS GLY PHE ASP CYS VAL PHE TYR SEQRES 19 C 254 THR TRP ASN GLU ASN LYS VAL TYR SER LEU ARG ALA ASP SEQRES 20 C 254 TYR ILE ALA THR ALA LEU GLU HET GAL D 1 12 HET NGA D 2 14 HET GAL E 1 12 HET NGA E 2 14 HET GAL F 1 12 HET NGA F 2 14 HET CA A 400 1 HET SO4 A 401 5 HET SO4 A 403 5 HET 1PG A 500 17 HET CA B 400 1 HET SO4 B 402 5 HET GOL B 500 6 HET CA C 400 1 HET GOL C 500 6 HET GOL C 501 6 HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM NGA 2-ACETAMIDO-2-DEOXY-BETA-D-GALACTOPYRANOSE HETNAM CA CALCIUM ION HETNAM SO4 SULFATE ION HETNAM 1PG 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)- HETNAM 2 1PG ETHANOL HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 GAL 3(C6 H12 O6) FORMUL 4 NGA 3(C8 H15 N O6) FORMUL 7 CA 3(CA 2+) FORMUL 8 SO4 3(O4 S 2-) FORMUL 10 1PG C11 H24 O6 FORMUL 13 GOL 3(C3 H8 O3) FORMUL 17 HOH *1121(H2 O) HELIX 1 1 LEU A 9 ASN A 12 1 4 HELIX 2 2 LEU B 9 ASN B 12 1 4 HELIX 3 3 LEU C 9 ASN C 12 1 4 SHEET 1 AA 6 HIS A 16 THR A 19 0 SHEET 2 AA 6 ILE A 61 CYS A 65 -1 O VAL A 62 N ARG A 18 SHEET 3 AA 6 ILE A 127 ASN A 140 -1 O ILE A 132 N ALA A 63 SHEET 4 AA 6 TRP A 85 SER A 94 0 SHEET 5 AA 6 TRP A 100 TYR A 103 -1 O PHE A 101 N TYR A 93 SHEET 6 AA 6 VAL A 109 GLY A 111 -1 O VAL A 109 N TYR A 89 SHEET 1 AB 3 VAL A 119 PHE A 122 0 SHEET 2 AB 3 ARG A 69 GLN A 77 0 SHEET 3 AB 3 SER A 144 THR A 151 0 SHEET 1 AC 3 SER A 157 TYR A 166 0 SHEET 2 AC 3 VAL A 240 LEU A 252 -1 O ALA A 245 N ILE A 165 SHEET 3 AC 3 LYS A 197 THR A 208 -1 O LYS A 197 N THR A 250 SHEET 1 AD 3 ARG A 180 LYS A 187 0 SHEET 2 AD 3 GLY A 227 THR A 234 -1 O PHE A 228 N VAL A 186 SHEET 3 AD 3 GLY A 217 ARG A 221 -1 O GLY A 217 N TYR A 233 SHEET 1 BA 6 HIS B 16 THR B 19 0 SHEET 2 BA 6 ILE B 61 CYS B 65 -1 O VAL B 62 N ARG B 18 SHEET 3 BA 6 ILE B 127 ASN B 140 -1 O ILE B 132 N ALA B 63 SHEET 4 BA 6 TRP B 85 SER B 94 0 SHEET 5 BA 6 TRP B 100 TYR B 103 -1 O PHE B 101 N TYR B 93 SHEET 6 BA 6 VAL B 109 GLY B 111 -1 O VAL B 109 N TYR B 89 SHEET 1 BB 3 VAL B 119 PHE B 122 0 SHEET 2 BB 3 ARG B 69 GLN B 77 0 SHEET 3 BB 3 SER B 144 THR B 151 0 SHEET 1 BC 3 SER B 157 TYR B 166 0 SHEET 2 BC 3 VAL B 240 LEU B 252 -1 O ALA B 245 N ILE B 165 SHEET 3 BC 3 LYS B 197 THR B 208 -1 O LYS B 197 N THR B 250 SHEET 1 BD 3 ARG B 180 LYS B 187 0 SHEET 2 BD 3 GLY B 227 THR B 234 -1 O PHE B 228 N VAL B 186 SHEET 3 BD 3 GLY B 217 ARG B 221 -1 O GLY B 217 N TYR B 233 SHEET 1 CA 6 HIS C 16 THR C 19 0 SHEET 2 CA 6 ILE C 61 CYS C 65 -1 O VAL C 62 N ARG C 18 SHEET 3 CA 6 ILE C 127 ASN C 140 -1 O ILE C 132 N ALA C 63 SHEET 4 CA 6 TRP C 85 SER C 94 0 SHEET 5 CA 6 TRP C 100 TYR C 103 -1 O PHE C 101 N TYR C 93 SHEET 6 CA 6 VAL C 109 GLY C 111 -1 O VAL C 109 N TYR C 89 SHEET 1 CB 3 VAL C 119 PHE C 122 0 SHEET 2 CB 3 ARG C 69 GLN C 77 0 SHEET 3 CB 3 SER C 144 THR C 151 0 SHEET 1 CC 3 SER C 157 TYR C 166 0 SHEET 2 CC 3 VAL C 240 LEU C 252 -1 O ALA C 245 N ILE C 165 SHEET 3 CC 3 LYS C 197 THR C 208 -1 O LYS C 197 N THR C 250 SHEET 1 CD 3 ARG C 180 LYS C 187 0 SHEET 2 CD 3 GLY C 227 THR C 234 -1 O PHE C 228 N VAL C 186 SHEET 3 CD 3 GLY C 217 ARG C 221 -1 O GLY C 217 N TYR C 233 LINK O3 GAL D 1 C1 NGA D 2 1555 1555 1.43 LINK O3 GAL E 1 C1 NGA E 2 1555 1555 1.44 LINK O3 GAL F 1 C1 NGA F 2 1555 1555 1.45 LINK OD1 ASP A 164 CA CA A 400 1555 1555 2.38 LINK OD2 ASP A 203 CA CA A 400 1555 1555 2.28 LINK OE1 GLN A 219 CA CA C 400 1555 1555 2.41 LINK OD1 ASP A 246 CA CA A 400 1555 1555 2.50 LINK OD2 ASP A 246 CA CA A 400 1555 1555 2.51 LINK CA CA A 400 OE1 GLN B 219 1555 1555 2.41 LINK CA CA A 400 O HOH B2309 1555 1555 2.39 LINK CA CA A 400 O HOH B2310 1555 1555 2.42 LINK O HOH A2351 CA CA C 400 1555 1555 2.43 LINK O HOH A2352 CA CA C 400 1555 1555 2.41 LINK OD1 ASP B 164 CA CA B 400 1555 1555 2.46 LINK OD2 ASP B 203 CA CA B 400 1555 1555 2.24 LINK OD2 ASP B 246 CA CA B 400 1555 1555 2.55 LINK OD1 ASP B 246 CA CA B 400 1555 1555 2.40 LINK CA CA B 400 OE1 GLN C 219 1555 1555 2.44 LINK CA CA B 400 O HOH C2285 1555 1555 2.46 LINK CA CA B 400 O HOH C2287 1555 1555 2.47 LINK OD1 ASP C 164 CA CA C 400 1555 1555 2.45 LINK OD2 ASP C 203 CA CA C 400 1555 1555 2.30 LINK OD2 ASP C 246 CA CA C 400 1555 1555 2.57 LINK OD1 ASP C 246 CA CA C 400 1555 1555 2.49 CRYST1 72.580 274.000 85.760 90.00 90.00 90.00 C 2 2 21 24 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 0.013778 0.000000 0.000000 0.00000 SCALE2 0.000000 0.003650 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011660 0.00000 MASTER 389 0 16 3 45 0 0 6 0 0 0 60 END