HEADER HYDROLASE 12-MAR-13 4JKX TITLE CRYSTAL STRUCTURE MISTLETOE LECTIN I FROM VISCUM ALBUM IN COMPLEX WITH TITLE 2 KINETIN AT 2.35 A RESOLUTION. COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-GALACTOSIDE-SPECIFIC LECTIN 1 A CHAIN; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.2.22; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: BETA-GALACTOSIDE-SPECIFIC LECTIN 1 B CHAIN; COMPND 7 CHAIN: B; COMPND 8 EC: 3.2.2.22 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VISCUM ALBUM; SOURCE 3 ORGANISM_COMMON: EUROPEAN MISTLETOE; SOURCE 4 ORGANISM_TAXID: 3972; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: VISCUM ALBUM; SOURCE 7 ORGANISM_COMMON: EUROPEAN MISTLETOE; SOURCE 8 ORGANISM_TAXID: 3972 KEYWDS ROSSMANN FOLD, RIBOSOME-INACTIVATING PROTEIN TYPE II, GLYCOPROTEIN, KEYWDS 2 HYDROLASE, LECTIN, PLANT DEFENSE, PROTEIN SYNTHESIS INHIBITOR, KEYWDS 3 TOXIN, GALACTOSE BINDING RECEPTOR CHAIN B, SARCIN/RICIN DOMAIN CHAIN KEYWDS 4 A EXPDTA X-RAY DIFFRACTION AUTHOR I.I.PROKOFEV,A.A.LASHKOV,A.G.GABDOULKHAKOV,A.MEYER,J.BARCISZEWSKI, AUTHOR 2 C.BETZEL,A.M.MIKHAILOV REVDAT 3 20-SEP-23 4JKX 1 HETSYN REVDAT 2 29-JUL-20 4JKX 1 COMPND REMARK HETNAM LINK REVDAT 2 2 1 SITE ATOM REVDAT 1 21-MAY-14 4JKX 0 JRNL AUTH I.I.PROKOFEV,A.A.LASHKOV,A.G.GABDOULKHAKOV,A.MEYER, JRNL AUTH 2 J.BARCISZEWSKI,C.BETZEL,A.M.MIKHAILOV JRNL TITL CRYSTAL STRUCTURE MISTLETOE LECTIN I FROM VISCUM ALBUM IN JRNL TITL 2 COMPLEX WITH KINETIN AT 2.35 A RESOLUTION. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 79.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 42857 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) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2256 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) : 2.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3100 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE SET COUNT : 163 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3945 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 234 REMARK 3 SOLVENT ATOMS : 210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.03000 REMARK 3 B22 (A**2) : 2.03000 REMARK 3 B33 (A**2) : -3.04000 REMARK 3 B12 (A**2) : 1.01000 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): 0.220 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.190 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.138 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.793 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4263 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5792 ; 1.320 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 514 ; 6.073 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 187 ;34.378 ;24.118 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 638 ;13.426 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;17.147 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 661 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3180 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2545 ; 0.584 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4121 ; 1.110 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1718 ; 1.382 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1668 ; 2.444 ; 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: AUTHORS STATED THE FOLLOWING: LOW LEVEL REMARK 3 OF THE ELECTRON DENSITY FOR KINETIN AND HIGH VALUE OF RSR (WHICH REMARK 3 HOWEVER IS NOT NECESSARY PARAMETER FOR STRUCTURAL INFORMATION) REMARK 3 ARE DUE TO THE NOT FULL OCCUPANCY, WHICH VALUE IS CONNECTED WITH REMARK 3 LOW SOLUBILITY OF KINETIN IN GLYCEROL, WHERE IT WAS SOLUTED. REMARK 3 MAXIMUM CONCENTRATION IS ABOUT 10 MM. ALSO IT IS ESSENTIAL TO REMARK 3 CONSIDER HIGH LIGAND'S MOBILITY ESPECIALLY FURAN PART, WHICH REMARK 3 FORMS A HYDROGEN BOND ONLY THROUGH WATER MOLECULE, WHICH RESULTS REMARK 3 IN BLURRING OF DENSITY MAP. LIGAND WAS INITIALLY LOCALIZED ON REMARK 3 THE ELECTRON DENSITY MAP WITH |FO|-|FC| COEFFICIENTS AS IT IS REMARK 3 USED IN PROTEIN CRYSTALLOGRAPHY PRACTICE. HOWEVER ON THE 2|FO|-| REMARK 3 FC| MAP LIGAND IS LOCALIZED WITH SIGMA LEVEL 0.6. HYDROGENS HAVE REMARK 3 BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 4JKX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000078175. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-DEC-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 2.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : OTHER REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.826 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 79.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.0900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.01300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.110 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 4EB2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0M AMMONIUM SULPHATE, 0.2M REMARK 280 GLYCINE/HCL, PH 2.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 208.28000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 104.14000 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 156.21000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 52.07000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 260.35000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 208.28000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 104.14000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 52.07000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 156.21000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 260.35000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 0.500000 0.866025 0.000000 53.50500 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -92.67338 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -52.07000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -38.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 S SO4 A 311 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 438 LIES ON A SPECIAL POSITION. 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 ND2 ASN B 61 O5 NAG B 307 1.59 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 SER A 43 40.93 -79.35 REMARK 500 ASN A 74 4.90 -150.14 REMARK 500 LEU A 75 17.52 54.94 REMARK 500 PHE A 101 73.80 48.25 REMARK 500 ALA A 223 -63.18 -26.56 REMARK 500 ASP B 2 88.19 -151.09 REMARK 500 CYS B 5 -96.29 -124.00 REMARK 500 SER B 168 27.89 48.77 REMARK 500 SER B 200 11.59 81.71 REMARK 500 ASN B 240 99.64 -166.71 REMARK 500 PRO B 241 58.62 -68.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 AUTHORS STATED THE FOLLOWING ON CARBOHYDRATE IDENTITY: OUR REMARK 600 INVESTIGATIONS PROVE THAT ALL SUGARS ARE N-ACETYL-BETA-D-GLUCOSAMINE REMARK 630 REMARK 630 MOLECULE TYPE: OLIGOSACCHARIDE INHIBITOR REMARK 630 MOLECULE NAME: 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE 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 NAG A 302 REMARK 630 NAG B 307 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: NULL REMARK 630 DETAILS: OLIGOSACCHARIDE REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1M2T RELATED DB: PDB REMARK 900 RELATED ID: 1PUM RELATED DB: PDB REMARK 900 RELATED ID: 3O5W RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS CLAIMED THAT P81446 SEQUENCE WAS USED AT THE BEGINNING OF REMARK 999 REFINEMENT. BUT SOME RESIDUES WERE CHANGED TO ACHIEVE BETTER REMARK 999 AGREEMENT OF SEQUENCE WITH THE ELECTRON DENSITY MAP. BECAUSE REMARK 999 MISTLETOE LECTIN I BELONGS TO RIPS AND RIPS HAVE INTERSPECIFIC REMARK 999 DIFFERENCES IN SEQUENCE, WHICH ARE RELATED TO THE GEOGRAPHICAL REMARK 999 LOCATION AND TIME OF PLANTS COLLECTION. DBREF 4JKX A 1 249 UNP P81446 ML1_VISAL 34 282 DBREF 4JKX B 1 263 UNP P81446 ML1_VISAL 302 564 SEQADV 4JKX ALA A 15 UNP P81446 GLU 48 SEE REMARK 999 SEQADV 4JKX SER A 19 UNP P81446 ARG 52 SEE REMARK 999 SEQADV 4JKX GLN A 36 UNP P81446 GLU 69 SEE REMARK 999 SEQADV 4JKX GLU A 49 UNP P81446 ASP 82 SEE REMARK 999 SEQADV 4JKX GLY A 50 UNP P81446 ALA 83 SEE REMARK 999 SEQADV 4JKX ALA A 61 UNP P81446 GLU 94 SEE REMARK 999 SEQADV 4JKX LYS A 90 UNP P81446 ARG 123 SEE REMARK 999 SEQADV 4JKX ALA A 94 UNP P81446 ARG 127 SEE REMARK 999 SEQADV 4JKX GLN A 99 UNP P81446 HIS 132 SEE REMARK 999 SEQADV 4JKX ASP A 100 UNP P81446 LEU 133 SEE REMARK 999 SEQADV 4JKX HIS A 208 UNP P81446 GLN 241 SEE REMARK 999 SEQADV 4JKX LEU A 222 UNP P81446 ILE 255 SEE REMARK 999 SEQADV 4JKX ALA A 223 UNP P81446 PRO 256 SEE REMARK 999 SEQADV 4JKX ALA A 225 UNP P81446 GLY 258 SEE REMARK 999 SEQADV 4JKX ILE A 227 UNP P81446 PHE 260 SEE REMARK 999 SEQADV 4JKX THR B 21 UNP P81446 CYS 322 SEE REMARK 999 SEQADV 4JKX LYS B 54 UNP P81446 ARG 355 SEE REMARK 999 SEQADV 4JKX ILE B 90 UNP P81446 LEU 391 SEE REMARK 999 SEQADV 4JKX ALA B 167 UNP P81446 ILE 468 SEE REMARK 999 SEQADV 4JKX SER B 189 UNP P81446 ASP 490 SEE REMARK 999 SEQADV 4JKX ALA B 222 UNP P81446 GLU 523 SEE REMARK 999 SEQADV 4JKX SER B 242 UNP P81446 LYS 543 SEE REMARK 999 SEQADV 4JKX GLN B 244 UNP P81446 ARG 545 SEE REMARK 999 SEQADV 4JKX ASN B 254 UNP P81446 LYS 555 SEE REMARK 999 SEQRES 1 A 249 TYR GLU ARG LEU ARG LEU ARG VAL THR HIS GLN THR THR SEQRES 2 A 249 GLY ALA GLU TYR PHE SER PHE ILE THR LEU LEU ARG ASP SEQRES 3 A 249 TYR VAL SER SER GLY SER PHE SER ASN GLN ILE PRO LEU SEQRES 4 A 249 LEU ARG GLN SER THR ILE PRO VAL SER GLU GLY GLN ARG SEQRES 5 A 249 PHE VAL LEU VAL GLU LEU THR ASN ALA GLY GLY ASP SER SEQRES 6 A 249 ILE THR ALA ALA ILE ASP VAL THR ASN LEU TYR VAL VAL SEQRES 7 A 249 ALA TYR GLN ALA GLY ASP GLN SER TYR PHE LEU LYS ASP SEQRES 8 A 249 ALA PRO ALA GLY ALA GLU THR GLN ASP PHE THR GLY THR SEQRES 9 A 249 THR ARG SER SER LEU PRO PHE ASN GLY SER TYR PRO ASP SEQRES 10 A 249 LEU GLU ARG TYR ALA GLY HIS ARG ASP GLN ILE PRO LEU SEQRES 11 A 249 GLY ILE ASP GLN LEU ILE GLN SER VAL THR ALA LEU ARG SEQRES 12 A 249 PHE PRO GLY GLY SER THR ARG THR GLN ALA ARG SER ILE SEQRES 13 A 249 LEU ILE LEU ILE GLN MET ILE SER GLU ALA ALA ARG PHE SEQRES 14 A 249 ASN PRO ILE LEU TRP ARG ALA ARG GLN TYR ILE ASN SER SEQRES 15 A 249 GLY ALA SER PHE LEU PRO ASP VAL TYR MET LEU GLU LEU SEQRES 16 A 249 GLU THR SER TRP GLY GLN GLN SER THR GLN VAL GLN HIS SEQRES 17 A 249 SER THR ASP GLY VAL PHE ASN ASN PRO ILE ARG LEU ALA SEQRES 18 A 249 LEU ALA PRO ALA ASN ILE VAL THR LEU THR ASN VAL ARG SEQRES 19 A 249 ASP VAL ILE ALA SER LEU ALA ILE MET LEU PHE VAL CYS SEQRES 20 A 249 GLY GLU SEQRES 1 B 263 ASP ASP VAL THR CYS SER ALA SER GLU PRO THR VAL ARG SEQRES 2 B 263 ILE VAL GLY ARG ASN GLY MET THR VAL ASP VAL ARG ASP SEQRES 3 B 263 ASP ASP PHE HIS ASP GLY ASN GLN ILE GLN LEU TRP PRO SEQRES 4 B 263 SER LYS SER ASN ASN ASP PRO ASN GLN LEU TRP THR ILE SEQRES 5 B 263 LYS LYS ASP GLY THR ILE ARG SER ASN GLY SER CYS LEU SEQRES 6 B 263 THR THR TYR GLY TYR THR ALA GLY VAL TYR VAL MET ILE SEQRES 7 B 263 PHE ASP CYS ASN THR ALA VAL ARG GLU ALA THR ILE TRP SEQRES 8 B 263 GLU ILE TRP GLY ASN GLY THR ILE ILE ASN PRO ARG SER SEQRES 9 B 263 ASN LEU VAL LEU ALA ALA SER SER GLY ILE LYS GLY THR SEQRES 10 B 263 THR LEU THR VAL GLN THR LEU ASP TYR THR LEU GLY GLN SEQRES 11 B 263 GLY TRP LEU ALA GLY ASN ASP THR ALA PRO ARG GLU VAL SEQRES 12 B 263 THR ILE TYR GLY PHE ARG ASP LEU CYS MET GLU SER ASN SEQRES 13 B 263 GLY GLY SER VAL TRP VAL GLU THR CYS VAL ALA SER GLN SEQRES 14 B 263 GLN ASN GLN ARG TRP ALA LEU TYR GLY ASP GLY SER ILE SEQRES 15 B 263 ARG PRO LYS GLN ASN GLN SER GLN CYS LEU THR CYS GLY SEQRES 16 B 263 ARG ASP SER VAL SER THR VAL ILE ASN ILE VAL SER CYS SEQRES 17 B 263 SER ALA GLY SER SER GLY GLN ARG TRP VAL PHE THR ASN SEQRES 18 B 263 ALA GLY ALA ILE LEU ASN LEU LYS ASN GLY LEU ALA MET SEQRES 19 B 263 ASP VAL ALA GLN ALA ASN PRO SER LEU GLN ARG ILE ILE SEQRES 20 B 263 ILE TYR PRO ALA THR GLY ASN PRO ASN GLN MET TRP LEU SEQRES 21 B 263 PRO VAL PRO MODRES 4JKX ASN B 96 ASN GLYCOSYLATION SITE MODRES 4JKX ASN B 136 ASN GLYCOSYLATION SITE MODRES 4JKX ASN B 61 ASN GLYCOSYLATION SITE MODRES 4JKX ASN A 112 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET NAG D 3 14 HET SO4 A 301 5 HET NAG A 302 14 HET GOL A 303 6 HET GOL A 304 6 HET H35 A 305 16 HET EDO A 306 4 HET DIO A 307 6 HET GOL A 308 6 HET SO4 A 309 5 HET SO4 A 310 5 HET SO4 A 311 5 HET SO4 A 312 5 HET CL A 313 1 HET AZI B 301 3 HET NAG B 307 14 HET EDO B 308 4 HET EDO B 309 4 HET EDO B 310 4 HET EDO B 311 4 HET EDO B 312 4 HET GOL B 313 6 HET GOL B 314 6 HET GOL B 315 6 HET GOL B 316 6 HET GOL B 317 6 HET GOL B 318 6 HET GOL B 319 6 HET CL B 320 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM H35 N-(FURAN-2-YLMETHYL)-7H-PURIN-6-AMINE HETNAM EDO 1,2-ETHANEDIOL HETNAM DIO 1,4-DIETHYLENE DIOXIDE HETNAM CL CHLORIDE ION HETNAM AZI AZIDE ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NAG 7(C8 H15 N O6) FORMUL 5 SO4 5(O4 S 2-) FORMUL 7 GOL 10(C3 H8 O3) FORMUL 9 H35 C10 H9 N5 O FORMUL 10 EDO 6(C2 H6 O2) FORMUL 11 DIO C4 H8 O2 FORMUL 17 CL 2(CL 1-) FORMUL 18 AZI N3 1- FORMUL 33 HOH *210(H2 O) HELIX 1 1 THR A 13 VAL A 28 1 16 HELIX 2 2 GLY A 95 ASP A 100 1 6 HELIX 3 3 PRO A 116 GLY A 123 1 8 HELIX 4 4 HIS A 124 ILE A 128 5 5 HELIX 5 5 GLY A 131 PHE A 144 1 14 HELIX 6 6 SER A 148 ILE A 163 1 16 HELIX 7 7 ILE A 163 PHE A 169 1 7 HELIX 8 8 PHE A 169 GLY A 183 1 15 HELIX 9 9 ASP A 189 SER A 209 1 21 HELIX 10 10 VAL A 233 ILE A 237 1 5 HELIX 11 11 GLY B 16 MET B 20 5 5 HELIX 12 12 ASP B 26 ASP B 28 5 3 HELIX 13 13 ASP B 45 LEU B 49 5 5 HELIX 14 14 VAL B 85 ILE B 90 5 6 HELIX 15 15 THR B 127 GLY B 131 5 5 HELIX 16 16 GLY B 147 LEU B 151 5 5 HELIX 17 17 GLN B 169 ASN B 171 5 3 HELIX 18 18 SER B 212 GLN B 215 5 4 HELIX 19 19 GLN B 238 ASN B 240 5 3 HELIX 20 20 ASN B 254 MET B 258 5 5 SHEET 1 A 6 GLU A 2 VAL A 8 0 SHEET 2 A 6 PHE A 53 ASN A 60 1 O LEU A 55 N LEU A 4 SHEET 3 A 6 SER A 65 ASP A 71 -1 O ILE A 70 N VAL A 54 SHEET 4 A 6 VAL A 77 ALA A 82 -1 O ALA A 79 N ALA A 69 SHEET 5 A 6 GLN A 85 PHE A 88 -1 O TYR A 87 N TYR A 80 SHEET 6 A 6 THR A 105 SER A 108 1 O SER A 107 N PHE A 88 SHEET 1 B 2 SER A 29 SER A 34 0 SHEET 2 B 2 ILE A 37 LEU A 40 -1 O LEU A 39 N SER A 30 SHEET 1 C 2 VAL A 213 LEU A 222 0 SHEET 2 C 2 ASN A 226 ASN A 232 -1 O ASN A 226 N LEU A 222 SHEET 1 D 5 THR B 11 VAL B 12 0 SHEET 2 D 5 TRP B 50 ILE B 52 -1 O TRP B 50 N VAL B 12 SHEET 3 D 5 ILE B 58 SER B 60 -1 O ARG B 59 N THR B 51 SHEET 4 D 5 SER B 63 THR B 67 -1 O SER B 63 N SER B 60 SHEET 5 D 5 VAL B 76 PHE B 79 -1 O MET B 77 N THR B 66 SHEET 1 E 2 ILE B 14 VAL B 15 0 SHEET 2 E 2 LEU B 133 ALA B 134 -1 O LEU B 133 N VAL B 15 SHEET 1 F 2 THR B 21 VAL B 24 0 SHEET 2 F 2 ILE B 35 TRP B 38 -1 O TRP B 38 N THR B 21 SHEET 1 G 4 GLU B 92 ILE B 93 0 SHEET 2 G 4 ILE B 99 ASN B 101 -1 O ILE B 100 N GLU B 92 SHEET 3 G 4 LEU B 106 ALA B 109 -1 O LEU B 106 N ASN B 101 SHEET 4 G 4 THR B 120 GLN B 122 -1 O GLN B 122 N VAL B 107 SHEET 1 H 4 ILE B 182 PRO B 184 0 SHEET 2 H 4 ARG B 173 LEU B 176 -1 N ALA B 175 O ARG B 183 SHEET 3 H 4 ARG B 141 TYR B 146 -1 N VAL B 143 O TRP B 174 SHEET 4 H 4 LEU B 260 VAL B 262 -1 O VAL B 262 N THR B 144 SHEET 1 I 2 CYS B 152 ASN B 156 0 SHEET 2 I 2 SER B 159 GLU B 163 -1 O SER B 159 N ASN B 156 SHEET 1 J 2 GLN B 190 THR B 193 0 SHEET 2 J 2 ASN B 204 SER B 207 -1 O ASN B 204 N THR B 193 SHEET 1 K 2 TRP B 217 PHE B 219 0 SHEET 2 K 2 ILE B 225 ASN B 227 -1 O LEU B 226 N VAL B 218 SHEET 1 L 2 ALA B 233 VAL B 236 0 SHEET 2 L 2 ILE B 246 TYR B 249 -1 O TYR B 249 N ALA B 233 SSBOND 1 CYS A 247 CYS B 5 1555 1555 2.06 SSBOND 2 CYS B 64 CYS B 81 1555 1555 2.04 SSBOND 3 CYS B 152 CYS B 165 1555 1555 2.05 SSBOND 4 CYS B 191 CYS B 208 1555 1555 2.04 LINK ND2 ASN A 112 C1 NAG A 302 1555 1555 1.45 LINK ND2 ASN B 61 C1 NAG B 307 1555 1555 1.40 LINK ND2 ASN B 96 C1 NAG C 1 1555 1555 1.44 LINK ND2 ASN B 136 C1 NAG D 1 1555 1555 1.43 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.45 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.44 LINK O4 NAG D 2 C1 NAG D 3 1555 1555 1.45 CISPEP 1 TYR A 115 PRO A 116 0 -1.28 CRYST1 107.010 107.010 312.420 90.00 90.00 120.00 P 65 2 2 12 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 0.009345 0.005395 0.000000 0.00000 SCALE2 0.000000 0.010791 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003201 0.00000