HEADER SUGAR BINDING PROTEIN 11-JUL-00 1F9K TITLE WINGED BEAN ACIDIC LECTIN COMPLEXED WITH METHYL-ALPHA-D-GALACTOSE CAVEAT 1F9K MAN C 3 HAS WRONG CHIRALITY AT ATOM C1 NAG D 1 HAS WRONG CAVEAT 2 1F9K CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACIDIC LECTIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ACIDIC AGGLUTININ SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSOPHOCARPUS TETRAGONOLOBUS; SOURCE 3 ORGANISM_COMMON: WINGED BEAN; SOURCE 4 ORGANISM_TAXID: 3891; SOURCE 5 ORGAN: LEGUMINOUS SEEDS KEYWDS LEGUME LECTIN, GLYCOSYLATED PROTEIN, H-ANTIGENIC SPECIFICITY, KEYWDS 2 AGGLUTININ, SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR N.MANOJ,V.R.SRINIVAS,A.SUROLIA,M.VIJAYAN,K.SUGUNA REVDAT 7 03-APR-24 1F9K 1 REMARK REVDAT 6 03-NOV-21 1F9K 1 SEQADV HETSYN REVDAT 5 29-JUL-20 1F9K 1 CAVEAT COMPND REMARK SEQADV REVDAT 5 2 1 HETNAM LINK SITE ATOM REVDAT 4 13-JUL-11 1F9K 1 VERSN REVDAT 3 24-FEB-09 1F9K 1 VERSN REVDAT 2 01-APR-03 1F9K 1 JRNL REVDAT 1 11-JUL-01 1F9K 0 JRNL AUTH N.MANOJ,V.R.SRINIVAS,A.SUROLIA,M.VIJAYAN,K.SUGUNA JRNL TITL CARBOHYDRATE SPECIFICITY AND SALT-BRIDGE MEDIATED JRNL TITL 2 CONFORMATIONAL CHANGE IN ACIDIC WINGED BEAN AGGLUTININ. JRNL REF J.MOL.BIOL. V. 302 1129 2000 JRNL REFN ISSN 0022-2836 JRNL PMID 11183779 JRNL DOI 10.1006/JMBI.2000.4111 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH N.MANOJ,V.R.SRINIVAS,B.SATISH,N.C.SINGHA,K.SUGUNA REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY CRYSTALLOGRAPHIC ANALYSIS OF REMARK 1 TITL 2 WINGED BEAN ACIDIC LECTIN REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 55 564 1999 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444998013018 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.4 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 224886.480 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 10646 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) : 0.195 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.200 REMARK 3 FREE R VALUE TEST SET COUNT : 868 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.19 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1565 REMARK 3 BIN R VALUE (WORKING SET) : 0.2850 REMARK 3 BIN FREE R VALUE : 0.3320 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 133 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.029 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3430 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 95 REMARK 3 SOLVENT ATOMS : 41 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.60000 REMARK 3 B22 (A**2) : 5.60000 REMARK 3 B33 (A**2) : -11.19000 REMARK 3 B12 (A**2) : 2.03000 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) : 0.32 REMARK 3 ESD FROM SIGMAA (A) : 0.43 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) : 0.43 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.58 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 27.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : GROUP REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.25 REMARK 3 BSOL : 31.83 REMARK 3 REMARK 3 NCS MODEL : CONSTR 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 : HOHER_REP.PARAM REMARK 3 PARAMETER FILE 3 : CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : CIS.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : HOHER.TOP REMARK 3 TOPOLOGY FILE 3 : CARBOHYDRATE.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1F9K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUL-00. REMARK 100 THE DEPOSITION ID IS D_1000011411. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-NOV-98 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11152 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 28.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.44000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: WINGED BEAN BASIC LECTIN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN BY BATCH METHOD BY REMARK 280 MIXING 35 MICROLITERS OF A SOLUTION CONTAINING 25 MG/ML PROTEIN REMARK 280 SOLUTION IN 0.02 M PHOSPHATE BUFFER AT PH 7.2, CONTAINING 0.15 M REMARK 280 SODIUM CHLORIDE, 0.025 (W/V) SODIUM NITRITE, 20 TIMES MOLAR REMARK 280 EXCESS OF METHYL-ALPHA-D-GALACTOSE WITH 23 MICROLITRES OF 30% REMARK 280 PEG4000 SOLUTION IN THE SAME BUFFER. PEG4000, SODIUM PHOSPHATE, REMARK 280 SODIUM CHLORIDE, SODIUM AZIDE, LIQUID DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 91.05500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 52.57063 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 14.99667 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 91.05500 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 52.57063 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 14.99667 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 91.05500 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 52.57063 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 14.99667 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 105.14126 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 29.99333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 105.14126 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 29.99333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 105.14126 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 29.99333 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: DIMERIC 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 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 GLN A 235 REMARK 465 GLU A 236 REMARK 465 THR A 237 REMARK 465 ASN A 238 REMARK 465 GLN B 235 REMARK 465 GLU B 236 REMARK 465 THR B 237 REMARK 465 ASN B 238 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 GLU A 1 CB CG CD OE1 OE2 REMARK 470 ASP A 8 CG OD1 OD2 REMARK 470 HIS A 9 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 11 CB CG CD OE1 OE2 REMARK 470 ASN A 13 CB CG OD1 ND2 REMARK 470 SER A 14 CB OG REMARK 470 LYS A 15 CG CD CE NZ REMARK 470 LEU A 17 CG CD1 CD2 REMARK 470 LYS A 26 CG CD CE NZ REMARK 470 SER A 27 OG REMARK 470 ASN A 28 CG OD1 ND2 REMARK 470 ASN A 39 CB CG OD1 ND2 REMARK 470 VAL A 41 CG1 CG2 REMARK 470 ILE A 56 CD1 REMARK 470 LYS A 57 CG CD CE NZ REMARK 470 ILE A 58 CD1 REMARK 470 SER A 61 CB OG REMARK 470 THR A 62 CB OG1 CG2 REMARK 470 THR A 63 CB OG1 CG2 REMARK 470 ASN A 65 CG OD1 ND2 REMARK 470 SER A 68 OG REMARK 470 TYR A 83 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 THR A 91 OG1 CG2 REMARK 470 ASN A 98 CG OD1 ND2 REMARK 470 SER A 99 OG REMARK 470 GLN A 101 CG CD OE1 NE2 REMARK 470 LYS A 112 CG CD CE NZ REMARK 470 PRO A 114 CG CD REMARK 470 GLU A 115 CB CG CD OE1 OE2 REMARK 470 ASP A 117 CG OD1 OD2 REMARK 470 ILE A 145 CD1 REMARK 470 SER A 169 OG REMARK 470 LYS A 196 CG CD CE NZ REMARK 470 GLN A 197 CG CD OE1 NE2 REMARK 470 SER A 202 OG REMARK 470 LYS A 217 CG CD CE NZ REMARK 470 GLU B 1 CB CG CD OE1 OE2 REMARK 470 SER B 14 OG REMARK 470 LYS B 15 CG CD CE NZ REMARK 470 ASN B 18 CG OD1 ND2 REMARK 470 LYS B 26 CG CD CE NZ REMARK 470 SER B 27 OG REMARK 470 LYS B 35 CG CD CE NZ REMARK 470 LYS B 38 CB CG CD CE NZ REMARK 470 ASN B 39 CB CG OD1 ND2 REMARK 470 VAL B 41 CG1 CG2 REMARK 470 TRP B 44 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 44 CZ3 CH2 REMARK 470 LYS B 45 CG CD CE NZ REMARK 470 ILE B 56 CD1 REMARK 470 ILE B 58 CD1 REMARK 470 THR B 78 OG1 CG2 REMARK 470 TYR B 83 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 PRO B 84 CB CG CD REMARK 470 GLU B 85 CG CD OE1 OE2 REMARK 470 THR B 91 OG1 CG2 REMARK 470 ASN B 98 CG OD1 ND2 REMARK 470 GLU B 103 CG CD OE1 OE2 REMARK 470 ASP B 104 CG OD1 OD2 REMARK 470 LEU B 108 CG CD1 CD2 REMARK 470 LYS B 112 CG CD CE NZ REMARK 470 PRO B 113 CG CD REMARK 470 PRO B 114 CB CG CD REMARK 470 GLU B 115 CB CG CD OE1 OE2 REMARK 470 ASP B 117 CG OD1 OD2 REMARK 470 ASN B 118 CG OD1 ND2 REMARK 470 GLN B 134 CG CD OE1 NE2 REMARK 470 ILE B 145 CG1 CG2 CD1 REMARK 470 GLN B 154 CG CD OE1 NE2 REMARK 470 SER B 169 OG REMARK 470 SER B 202 OG REMARK 470 TYR B 215 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN B 216 CG CD OE1 NE2 REMARK 470 LYS B 217 CB CG CD CE NZ REMARK 470 VAL B 220 CG1 CG2 REMARK 470 SER B 233 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 O4 NAG C 2 O5 MAN C 3 2.04 REMARK 500 O4 NAG C 1 O5 NAG C 2 2.14 REMARK 500 O4 NAG D 1 O5 NAG D 2 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 72 CD - NE - CZ ANGL. DEV. = 9.9 DEGREES REMARK 500 ARG A 72 NE - CZ - NH1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ARG A 72 NE - CZ - NH2 ANGL. DEV. = -6.5 DEGREES REMARK 500 PRO A 100 C - N - CA ANGL. DEV. = 9.7 DEGREES REMARK 500 PRO A 114 N - CA - CB ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG B 72 CD - NE - CZ ANGL. DEV. = 10.2 DEGREES REMARK 500 ARG B 72 NE - CZ - NH1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ARG B 72 NE - CZ - NH2 ANGL. DEV. = -7.4 DEGREES 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 GLU A 12 170.83 -52.69 REMARK 500 ASN A 13 -51.53 63.93 REMARK 500 SER A 14 89.25 -21.13 REMARK 500 LYS A 15 21.37 -56.01 REMARK 500 ARG A 21 -133.44 60.78 REMARK 500 ASN A 39 8.74 88.45 REMARK 500 THR A 62 -71.71 -49.26 REMARK 500 ALA A 82 -69.99 -95.88 REMARK 500 PRO A 84 -81.05 -52.85 REMARK 500 GLU A 85 107.71 167.72 REMARK 500 PRO A 86 151.02 -46.17 REMARK 500 ASP A 104 -167.54 -79.99 REMARK 500 LEU A 108 26.48 41.47 REMARK 500 GLU A 115 90.52 -35.99 REMARK 500 SER A 144 147.46 -179.97 REMARK 500 LYS B 15 21.73 -69.38 REMARK 500 ARG B 21 -133.10 60.88 REMARK 500 THR B 37 71.59 -165.03 REMARK 500 GLU B 85 144.31 162.19 REMARK 500 ASP B 104 -171.92 -57.17 REMARK 500 LEU B 108 24.48 40.81 REMARK 500 GLU B 115 88.92 -7.23 REMARK 500 SER B 144 147.04 179.18 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 300 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 123 OE2 REMARK 620 2 ASP A 125 OD2 84.4 REMARK 620 3 ASP A 132 OD1 151.5 87.8 REMARK 620 4 HIS A 137 NE2 97.1 100.1 111.2 REMARK 620 5 HOH A 523 O 70.2 70.3 81.3 164.4 REMARK 620 6 HOH A 526 O 104.8 156.1 73.5 100.6 91.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 125 OD1 REMARK 620 2 ASP A 125 OD2 51.6 REMARK 620 3 PHE A 127 O 70.7 100.7 REMARK 620 4 ASN A 129 OD1 151.7 156.2 96.5 REMARK 620 5 ASP A 132 OD2 112.3 77.6 80.3 89.2 REMARK 620 6 HOH A 524 O 68.5 109.8 89.3 86.7 168.3 REMARK 620 7 HOH A 527 O 97.3 75.1 166.5 91.6 110.7 80.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 301 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 123 OE2 REMARK 620 2 ASP B 125 OD2 84.5 REMARK 620 3 ASP B 132 OD1 151.2 87.3 REMARK 620 4 HIS B 137 NE2 97.1 99.8 111.5 REMARK 620 5 HOH B 517 O 93.2 154.1 82.3 106.1 REMARK 620 6 HOH B 518 O 70.0 85.3 81.8 165.8 69.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 125 OD2 REMARK 620 2 ASP B 125 OD1 51.4 REMARK 620 3 PHE B 127 O 98.5 69.9 REMARK 620 4 ASN B 129 OD1 158.5 150.1 94.3 REMARK 620 5 ASP B 132 OD2 77.1 110.6 76.9 89.2 REMARK 620 6 HOH B 519 O 131.9 86.0 83.5 66.5 147.5 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FAY RELATED DB: PDB REMARK 900 WINGED BEAN ACIDIC LECTIN COMPLEXED WITH METHYL-ALPHA-D-GALACTOSE REMARK 900 (MONOCLINIC FORM) DBREF 1F9K A 1 238 GB 6018681 CAB57877 1 240 DBREF 1F9K B 1 238 GB 6018681 CAB57877 1 240 SEQADV 1F9K ASN A 28 GB 6018681 SER 28 ENGINEERED MUTATION SEQADV 1F9K GLN A 101 GB 6018681 GLY 101 ENGINEERED MUTATION SEQADV 1F9K A GB 6018681 SER 114 DELETION SEQADV 1F9K A GB 6018681 ASN 115 DELETION SEQADV 1F9K PHE A 120 GB 6018681 LEU 122 ENGINEERED MUTATION SEQADV 1F9K ASN B 28 GB 6018681 SER 28 ENGINEERED MUTATION SEQADV 1F9K GLN B 101 GB 6018681 GLY 101 ENGINEERED MUTATION SEQADV 1F9K B GB 6018681 SER 114 DELETION SEQADV 1F9K B GB 6018681 ASN 115 DELETION SEQADV 1F9K PHE B 120 GB 6018681 LEU 122 ENGINEERED MUTATION SEQRES 1 A 238 GLU THR GLN SER PHE ASN PHE ASP HIS PHE GLU GLU ASN SEQRES 2 A 238 SER LYS GLU LEU ASN LEU GLN ARG GLN ALA SER ILE LYS SEQRES 3 A 238 SER ASN GLY VAL LEU GLU LEU THR LYS LEU THR LYS ASN SEQRES 4 A 238 GLY VAL PRO VAL TRP LYS SER THR GLY ARG ALA LEU TYR SEQRES 5 A 238 ALA GLU PRO ILE LYS ILE TRP ASP SER THR THR GLY ASN SEQRES 6 A 238 VAL ALA SER PHE GLU THR ARG PHE SER PHE ASN ILE THR SEQRES 7 A 238 GLN PRO TYR ALA TYR PRO GLU PRO ALA ASP GLY LEU THR SEQRES 8 A 238 PHE PHE MET VAL PRO PRO ASN SER PRO GLN GLY GLU ASP SEQRES 9 A 238 GLY GLY ASN LEU GLY VAL PHE LYS PRO PRO GLU GLY ASP SEQRES 10 A 238 ASN ALA PHE ALA VAL GLU PHE ASP THR PHE GLN ASN THR SEQRES 11 A 238 TRP ASP PRO GLN VAL PRO HIS ILE GLY ILE ASP VAL ASN SEQRES 12 A 238 SER ILE VAL SER SER LYS THR LEU HIS PHE GLN LEU GLU SEQRES 13 A 238 ASN GLY GLY VAL ALA ASN VAL VAL ILE LYS TYR ASP SER SEQRES 14 A 238 PRO THR LYS ILE LEU ASN VAL VAL LEU ALA PHE HIS SER SEQRES 15 A 238 VAL GLY THR VAL TYR THR LEU SER ASN ILE VAL ASP LEU SEQRES 16 A 238 LYS GLN GLU PHE PRO ASN SER GLU TRP VAL ASN VAL GLY SEQRES 17 A 238 LEU SER ALA THR THR GLY TYR GLN LYS ASN ALA VAL GLU SEQRES 18 A 238 THR HIS GLU ILE ILE SER TRP SER PHE THR SER SER LEU SEQRES 19 A 238 GLN GLU THR ASN SEQRES 1 B 238 GLU THR GLN SER PHE ASN PHE ASP HIS PHE GLU GLU ASN SEQRES 2 B 238 SER LYS GLU LEU ASN LEU GLN ARG GLN ALA SER ILE LYS SEQRES 3 B 238 SER ASN GLY VAL LEU GLU LEU THR LYS LEU THR LYS ASN SEQRES 4 B 238 GLY VAL PRO VAL TRP LYS SER THR GLY ARG ALA LEU TYR SEQRES 5 B 238 ALA GLU PRO ILE LYS ILE TRP ASP SER THR THR GLY ASN SEQRES 6 B 238 VAL ALA SER PHE GLU THR ARG PHE SER PHE ASN ILE THR SEQRES 7 B 238 GLN PRO TYR ALA TYR PRO GLU PRO ALA ASP GLY LEU THR SEQRES 8 B 238 PHE PHE MET VAL PRO PRO ASN SER PRO GLN GLY GLU ASP SEQRES 9 B 238 GLY GLY ASN LEU GLY VAL PHE LYS PRO PRO GLU GLY ASP SEQRES 10 B 238 ASN ALA PHE ALA VAL GLU PHE ASP THR PHE GLN ASN THR SEQRES 11 B 238 TRP ASP PRO GLN VAL PRO HIS ILE GLY ILE ASP VAL ASN SEQRES 12 B 238 SER ILE VAL SER SER LYS THR LEU HIS PHE GLN LEU GLU SEQRES 13 B 238 ASN GLY GLY VAL ALA ASN VAL VAL ILE LYS TYR ASP SER SEQRES 14 B 238 PRO THR LYS ILE LEU ASN VAL VAL LEU ALA PHE HIS SER SEQRES 15 B 238 VAL GLY THR VAL TYR THR LEU SER ASN ILE VAL ASP LEU SEQRES 16 B 238 LYS GLN GLU PHE PRO ASN SER GLU TRP VAL ASN VAL GLY SEQRES 17 B 238 LEU SER ALA THR THR GLY TYR GLN LYS ASN ALA VAL GLU SEQRES 18 B 238 THR HIS GLU ILE ILE SER TRP SER PHE THR SER SER LEU SEQRES 19 B 238 GLN GLU THR ASN MODRES 1F9K ASN A 76 ASN GLYCOSYLATION SITE MODRES 1F9K ASN B 76 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET MAN C 3 11 HET NAG D 1 14 HET NAG D 2 14 HET MAN D 3 11 HET AMG A 400 13 HET MN A 300 1 HET CA A 302 1 HET MN B 301 1 HET CA B 303 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM AMG METHYL ALPHA-D-GALACTOPYRANOSIDE HETNAM MN MANGANESE (II) ION HETNAM CA CALCIUM 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 MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN AMG ALPHA-METHYL-D-GALACTOSIDE; METHYL ALPHA-D-GALACTOSIDE; HETSYN 2 AMG METHYL D-GALACTOSIDE; METHYL GALACTOSIDE FORMUL 3 NAG 4(C8 H15 N O6) FORMUL 3 MAN 2(C6 H12 O6) FORMUL 5 AMG C7 H14 O6 FORMUL 6 MN 2(MN 2+) FORMUL 7 CA 2(CA 2+) FORMUL 10 HOH *41(H2 O) HELIX 1 1 ASP A 104 LEU A 108 5 5 HELIX 2 2 ASP A 194 PHE A 199 1 6 HELIX 3 3 THR B 37 VAL B 41 5 5 HELIX 4 4 ASP B 104 LEU B 108 5 5 HELIX 5 5 ASP B 194 PHE B 199 1 6 SHEET 1 A 6 THR A 185 ILE A 192 0 SHEET 2 A 6 ILE A 173 PHE A 180 -1 N LEU A 174 O ASN A 191 SHEET 3 A 6 ALA A 161 ASP A 168 -1 O ASN A 162 N ALA A 179 SHEET 4 A 6 SER A 68 THR A 78 -1 O PHE A 69 N TYR A 167 SHEET 5 A 6 THR A 222 SER A 233 -1 N THR A 222 O THR A 78 SHEET 6 A 6 THR A 2 PHE A 7 -1 O GLN A 3 N SER A 232 SHEET 1 B 7 THR A 185 ILE A 192 0 SHEET 2 B 7 ILE A 173 PHE A 180 -1 N LEU A 174 O ASN A 191 SHEET 3 B 7 ALA A 161 ASP A 168 -1 O ASN A 162 N ALA A 179 SHEET 4 B 7 SER A 68 THR A 78 -1 O PHE A 69 N TYR A 167 SHEET 5 B 7 THR A 222 SER A 233 -1 N THR A 222 O THR A 78 SHEET 6 B 7 LEU A 31 GLU A 32 -1 O LEU A 31 N ILE A 225 SHEET 7 B 7 SER A 24 ILE A 25 -1 O SER A 24 N GLU A 32 SHEET 1 C 7 THR A 150 HIS A 152 0 SHEET 2 C 7 HIS A 137 VAL A 142 -1 N ILE A 138 O LEU A 151 SHEET 3 C 7 PHE A 120 ASP A 125 -1 O ALA A 121 N ASP A 141 SHEET 4 C 7 ASP A 88 VAL A 95 -1 O LEU A 90 N PHE A 124 SHEET 5 C 7 TRP A 204 THR A 213 -1 N ASN A 206 O VAL A 95 SHEET 6 C 7 THR A 47 TYR A 52 -1 N GLY A 48 O ALA A 211 SHEET 7 C 7 LEU A 17 ARG A 21 -1 N ASN A 18 O LEU A 51 SHEET 1 D 6 THR A 150 HIS A 152 0 SHEET 2 D 6 HIS A 137 VAL A 142 -1 N ILE A 138 O LEU A 151 SHEET 3 D 6 PHE A 120 ASP A 125 -1 O ALA A 121 N ASP A 141 SHEET 4 D 6 ASP A 88 VAL A 95 -1 O LEU A 90 N PHE A 124 SHEET 5 D 6 TRP A 204 THR A 213 -1 N ASN A 206 O VAL A 95 SHEET 6 D 6 ILE A 56 LYS A 57 -1 N ILE A 56 O VAL A 205 SHEET 1 E 2 THR A 37 LYS A 38 0 SHEET 2 E 2 VAL A 41 PRO A 42 -1 O VAL A 41 N LYS A 38 SHEET 1 F 6 THR B 185 ILE B 192 0 SHEET 2 F 6 ILE B 173 PHE B 180 -1 N LEU B 174 O ASN B 191 SHEET 3 F 6 VAL B 160 ASP B 168 -1 O ASN B 162 N ALA B 179 SHEET 4 F 6 SER B 68 ASN B 76 -1 O PHE B 69 N TYR B 167 SHEET 5 F 6 GLU B 224 SER B 233 -1 O GLU B 224 N ASN B 76 SHEET 6 F 6 THR B 2 PHE B 7 -1 O GLN B 3 N SER B 232 SHEET 1 G 7 THR B 185 ILE B 192 0 SHEET 2 G 7 ILE B 173 PHE B 180 -1 N LEU B 174 O ASN B 191 SHEET 3 G 7 VAL B 160 ASP B 168 -1 O ASN B 162 N ALA B 179 SHEET 4 G 7 SER B 68 ASN B 76 -1 O PHE B 69 N TYR B 167 SHEET 5 G 7 GLU B 224 SER B 233 -1 O GLU B 224 N ASN B 76 SHEET 6 G 7 LEU B 31 GLU B 32 -1 O LEU B 31 N ILE B 225 SHEET 7 G 7 SER B 24 ILE B 25 -1 O SER B 24 N GLU B 32 SHEET 1 H 7 THR B 150 HIS B 152 0 SHEET 2 H 7 HIS B 137 VAL B 142 -1 N ILE B 138 O LEU B 151 SHEET 3 H 7 PHE B 120 ASP B 125 -1 N ALA B 121 O ASP B 141 SHEET 4 H 7 ASP B 88 VAL B 95 -1 O LEU B 90 N PHE B 124 SHEET 5 H 7 TRP B 204 THR B 213 -1 N ASN B 206 O VAL B 95 SHEET 6 H 7 THR B 47 TYR B 52 -1 N GLY B 48 O ALA B 211 SHEET 7 H 7 LEU B 17 ARG B 21 -1 N ASN B 18 O LEU B 51 SHEET 1 I 6 THR B 150 HIS B 152 0 SHEET 2 I 6 HIS B 137 VAL B 142 -1 N ILE B 138 O LEU B 151 SHEET 3 I 6 PHE B 120 ASP B 125 -1 N ALA B 121 O ASP B 141 SHEET 4 I 6 ASP B 88 VAL B 95 -1 O LEU B 90 N PHE B 124 SHEET 5 I 6 TRP B 204 THR B 213 -1 N ASN B 206 O VAL B 95 SHEET 6 I 6 ILE B 56 LYS B 57 -1 N ILE B 56 O VAL B 205 LINK ND2 ASN A 76 C1 NAG C 1 1555 1555 1.45 LINK ND2 ASN A 76 O5 NAG C 1 1555 1555 2.00 LINK ND2 ASN B 76 C1 NAG D 1 1555 1555 1.46 LINK ND2 ASN B 76 O5 NAG D 1 1555 1555 1.70 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.38 LINK O4 NAG C 2 C1 MAN C 3 1555 1555 1.39 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.39 LINK O4 NAG D 2 C1 MAN D 3 1555 1555 1.39 LINK OE2 GLU A 123 MN MN A 300 1555 1555 2.33 LINK OD2 ASP A 125 MN MN A 300 1555 1555 2.30 LINK OD1 ASP A 125 CA CA A 302 1555 1555 2.45 LINK OD2 ASP A 125 CA CA A 302 1555 1555 2.55 LINK O PHE A 127 CA CA A 302 1555 1555 2.36 LINK OD1 ASN A 129 CA CA A 302 1555 1555 2.40 LINK OD1 ASP A 132 MN MN A 300 1555 1555 2.26 LINK OD2 ASP A 132 CA CA A 302 1555 1555 2.34 LINK NE2 HIS A 137 MN MN A 300 1555 1555 2.25 LINK MN MN A 300 O HOH A 523 1555 1555 2.18 LINK MN MN A 300 O HOH A 526 1555 1555 2.36 LINK CA CA A 302 O HOH A 524 1555 1555 2.27 LINK CA CA A 302 O HOH A 527 1555 1555 2.23 LINK OE2 GLU B 123 MN MN B 301 1555 1555 2.31 LINK OD2 ASP B 125 MN MN B 301 1555 1555 2.30 LINK OD2 ASP B 125 CA CA B 303 1555 1555 2.58 LINK OD1 ASP B 125 CA CA B 303 1555 1555 2.53 LINK O PHE B 127 CA CA B 303 1555 1555 2.43 LINK OD1 ASN B 129 CA CA B 303 1555 1555 2.41 LINK OD1 ASP B 132 MN MN B 301 1555 1555 2.29 LINK OD2 ASP B 132 CA CA B 303 1555 1555 2.38 LINK NE2 HIS B 137 MN MN B 301 1555 1555 2.25 LINK MN MN B 301 O HOH B 517 1555 1555 2.49 LINK MN MN B 301 O HOH B 518 1555 1555 2.58 LINK CA CA B 303 O HOH B 519 1555 1555 2.18 CISPEP 1 TYR A 83 PRO A 84 0 -0.33 CISPEP 2 ALA A 87 ASP A 88 0 -0.29 CISPEP 3 VAL A 135 PRO A 136 0 -0.67 CISPEP 4 TYR B 83 PRO B 84 0 0.43 CISPEP 5 ALA B 87 ASP B 88 0 -0.62 CISPEP 6 VAL B 135 PRO B 136 0 -0.97 CRYST1 182.110 182.110 44.990 90.00 90.00 120.00 H 3 18 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 0.005491 0.003170 0.000000 0.00000 SCALE2 0.000000 0.006341 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022227 0.00000 MTRIX1 1 -0.919856 -0.075705 -0.384881 2.42069 1 MTRIX2 1 -0.144848 -0.846292 -0.512649 129.49827 1 MTRIX3 1 0.364532 -0.527313 0.767501 37.55949 1