HEADER LECTIN 21-SEP-06 2J61 TITLE L-FICOLIN COMPLEXED TO N-ACETYLGLUCOSAMINE (FORME C) COMPND MOL_ID: 1; COMPND 2 MOLECULE: FICOLIN-2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BINDING DOMAIN, RESIDUES 97-313; COMPND 5 SYNONYM: COLLAGEN/FIBRINOGEN DOMAIN-CONTAINING PROTEIN 2, FICOLIN-B, COMPND 6 FICOLIN B, SERUM LECTIN P35, EBP-37, HUCOLIN, L-FICOLIN; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: FICOLIN-2; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: BINDING DOMAIN, RESIDUES 97-313; COMPND 12 SYNONYM: COLLAGEN/FIBRINOGEN DOMAIN-CONTAINING PROTEIN 2, FICOLIN-B, COMPND 13 FICOLIN B, SERUM LECTIN P35, EBP-37, HUCOLIN, L-FICOLIN; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 TISSUE: PLASMA; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HIGH FIVE; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 TISSUE: PLASMA; SOURCE 14 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 16 EXPRESSION_SYSTEM_CELL_LINE: HIGH FIVE KEYWDS GLYCOPROTEIN, FICRINOGEN-LIKE, INNATE IMMUNITY, PATTERN RECOGNITION KEYWDS 2 PROTEIN, LECTIN, COLLAGEN, IMMUNOLOGY, LECTIN- LIKE EXPDTA X-RAY DIFFRACTION AUTHOR V.GARLATTI,C.GABORIAUD REVDAT 5 13-DEC-23 2J61 1 HETSYN REVDAT 4 29-JUL-20 2J61 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 03-APR-19 2J61 1 SOURCE LINK REVDAT 2 24-FEB-09 2J61 1 VERSN REVDAT 1 23-JAN-07 2J61 0 JRNL AUTH V.GARLATTI,N.BELLOY,L.MARTIN,M.LACROIX,M.MATSUSHITA,Y.ENDO, JRNL AUTH 2 T.FUJITA,J.C.FONTECILLA-CAMPS,G.J.ARLAUD,N.M.THIELENS, JRNL AUTH 3 C.GABORIAUD JRNL TITL STRUCTURAL INSIGHTS INTO THE INNATE IMMUNE RECOGNITION JRNL TITL 2 SPECIFICITIES OF L- AND H-FICOLINS. JRNL REF EMBO J. V. 26 623 2007 JRNL REFN ISSN 0261-4189 JRNL PMID 17215869 JRNL DOI 10.1038/SJ.EMBOJ.7601500 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 15836 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) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.291 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.900 REMARK 3 FREE R VALUE TEST SET COUNT : 990 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 15 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1492 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2410 REMARK 3 BIN FREE R VALUE SET COUNT : 98 REMARK 3 BIN FREE R VALUE : 0.3960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3458 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 62 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.03000 REMARK 3 B22 (A**2) : 3.03000 REMARK 3 B33 (A**2) : -4.55000 REMARK 3 B12 (A**2) : 1.52000 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): 0.843 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.380 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.331 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.011 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.928 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.867 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3591 ; 0.019 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4866 ; 2.043 ; 1.914 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 430 ; 8.238 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 487 ; 0.135 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2843 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1995 ; 0.295 ; 0.300 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): 293 ; 0.274 ; 0.500 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): 37 ; 0.258 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.271 ; 0.500 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): 2122 ; 1.349 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3376 ; 2.444 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1469 ; 2.252 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1490 ; 3.400 ; 4.000 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2J61 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1290030027. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM30A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9206 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16911 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 19.390 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: PDB ENTRY 1JC9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 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,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-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 -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 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 86.02000 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 86.02000 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 86.02000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 B2013 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 ASN A 71 REMARK 465 PRO A 72 REMARK 465 ASN B 71 REMARK 465 PRO B 72 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 OD1 ASP A 169 OH TYR A 177 1.88 REMARK 500 O HIS B 259 OD1 ASN B 275 1.95 REMARK 500 OD2 ASP A 208 OG1 THR A 211 2.00 REMARK 500 O SER B 209 OG SER B 248 2.12 REMARK 500 OD1 ASP A 172 N GLU A 174 2.13 REMARK 500 O ASN B 214 NZ LYS B 243 2.13 REMARK 500 O HIS A 259 OD1 ASN A 275 2.14 REMARK 500 O GLY B 199 O HOH B 2020 2.15 REMARK 500 O LEU B 227 ND2 ASN B 244 2.15 REMARK 500 ND1 HIS A 213 O TRP A 241 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 PHE A 141 CE1 PHE A 141 CZ 0.131 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 LEU A 107 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 ASP A 109 CB - CG - OD2 ANGL. DEV. = 8.5 DEGREES REMARK 500 ASP A 113 CB - CG - OD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 ASP A 169 CB - CG - OD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 ASP A 175 CB - CG - OD2 ANGL. DEV. = 7.6 DEGREES REMARK 500 ASP B 100 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 109 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP B 125 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 129 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP B 133 CB - CG - OD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 ASP B 208 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 222 CB - CG - OD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP B 224 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP B 226 CB - CG - OD2 ANGL. DEV. = 6.7 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 LEU A 74 -39.65 73.69 REMARK 500 ASP A 100 0.48 -63.22 REMARK 500 CYS A 101 -6.41 75.78 REMARK 500 ASP A 111 -78.17 -132.99 REMARK 500 THR A 112 126.31 -39.81 REMARK 500 VAL A 124 -7.60 -166.51 REMARK 500 ASP A 125 -7.51 -169.76 REMARK 500 ALA A 188 150.20 -43.14 REMARK 500 GLU A 192 28.44 -74.71 REMARK 500 GLU A 203 -170.06 -179.47 REMARK 500 PHE A 212 -34.90 -37.50 REMARK 500 SER A 217 169.89 -43.92 REMARK 500 LYS A 221 -8.55 -52.99 REMARK 500 GLN A 237 62.75 69.13 REMARK 500 TRP A 240 175.96 178.89 REMARK 500 LYS A 243 -92.51 -82.06 REMARK 500 ASN A 244 64.82 -153.37 REMARK 500 ASN A 249 45.88 -153.55 REMARK 500 LYS A 272 18.60 -142.49 REMARK 500 ASP B 100 8.29 -67.18 REMARK 500 ASP B 111 -73.81 -110.13 REMARK 500 THR B 112 126.30 -37.15 REMARK 500 VAL B 124 -14.18 -162.77 REMARK 500 ASP B 125 -9.01 -152.65 REMARK 500 ALA B 180 59.28 -168.50 REMARK 500 LYS B 186 142.86 -176.65 REMARK 500 ALA B 188 -173.42 -49.85 REMARK 500 GLU B 192 16.08 -64.42 REMARK 500 SER B 209 39.24 -152.57 REMARK 500 LEU B 210 -32.74 -142.33 REMARK 500 ASN B 215 26.49 42.70 REMARK 500 LYS B 221 1.11 -63.76 REMARK 500 ASP B 222 27.51 -145.20 REMARK 500 GLN B 223 68.32 -151.66 REMARK 500 LEU B 227 26.41 -74.99 REMARK 500 THR B 229 -18.16 -45.57 REMARK 500 LYS B 243 -82.66 -86.74 REMARK 500 ASN B 244 68.38 -177.15 REMARK 500 CYS B 245 -83.27 -104.86 REMARK 500 ASN B 249 50.55 -142.39 REMARK 500 ARG B 256 75.63 78.43 REMARK 500 HIS B 259 133.27 -171.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PHE A 236 GLN A 237 146.52 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 CA A1289 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 224 OD2 REMARK 620 2 ASP A 224 OD1 50.8 REMARK 620 3 ASP A 226 O 120.3 75.7 REMARK 620 4 ASP A 226 OD2 134.6 92.4 59.3 REMARK 620 5 ASP A 226 OD1 97.5 71.5 87.0 39.5 REMARK 620 6 ASN A 228 O 155.6 153.3 79.6 66.1 97.5 REMARK 620 7 GLY A 230 O 102.6 126.2 132.6 76.8 67.1 66.3 REMARK 620 8 HOH A2023 O 80.6 60.6 47.6 105.5 118.9 108.4 173.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1289 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 224 OD2 REMARK 620 2 ASP B 224 OD1 40.8 REMARK 620 3 ASP B 226 OD2 68.7 59.3 REMARK 620 4 ASN B 228 O 83.4 104.6 54.4 REMARK 620 5 HOH B2024 O 51.2 91.7 88.0 56.2 REMARK 620 N 1 2 3 4 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J0G RELATED DB: PDB REMARK 900 L-FICOLIN COMPLEXED TO N-ACETYL-MANNOSAMINE REMARK 900 RELATED ID: 2J0H RELATED DB: PDB REMARK 900 L-FICOLIN COMPLEXED TO ACETYL-CHOLINE REMARK 900 RELATED ID: 2J0Y RELATED DB: PDB REMARK 900 L-FICOLIN COMPLEXED TO B-1,3-D-GLUCAN REMARK 900 RELATED ID: 2J1G RELATED DB: PDB REMARK 900 L-FICOLIN COMPLEXED TO N-ACETYL-CYSTEIN REMARK 900 RELATED ID: 2J2P RELATED DB: PDB REMARK 900 L-FICOLIN COMPLEXED TO N-ACETYL-CYSTEIN (50MM) REMARK 900 RELATED ID: 2J3F RELATED DB: PDB REMARK 900 L-FICOLIN COMPLEXED TO N-ACETYL-D- GALACTOSAMIN REMARK 900 RELATED ID: 2J3G RELATED DB: PDB REMARK 900 L-FICOLIN REMARK 900 RELATED ID: 2J3O RELATED DB: PDB REMARK 900 L-FICOLIN COMPLEXED TO N-ACETYL-D- GLUCOSAMIN REMARK 900 RELATED ID: 2J3U RELATED DB: PDB REMARK 900 L-FICOLIN COMPLEXED TO GALACTOSE REMARK 900 RELATED ID: 2J60 RELATED DB: PDB REMARK 900 H-FICOLIN COMPLEXED TO D-FUCOSE REMARK 900 RELATED ID: 2J5Z RELATED DB: PDB REMARK 900 H-FICOLIN COMPLEXED TO GALACTOSE REMARK 999 REMARK 999 SEQUENCE REMARK 999 DOMAINE C TERMINAL REMARK 999 DIFFERENCE BETWEEN UNP SEQUENCE AND THE PROTEIN CRYSTALLIZED REMARK 999 BECAUSE IT EXISTS POINTS OF POLYMORPHISME IN L FICOLIN. THE CDNA REMARK 999 USED CORRESPONDS TO ONE REPANDED ALLELE AND THE SEQUENCE IN UNP TO REMARK 999 AN OTHER DBREF 2J61 A 71 71 PDB 2J61 2J61 71 71 DBREF 2J61 A 72 288 UNP Q15485 FCN2_HUMAN 97 313 DBREF 2J61 B 71 71 PDB 2J61 2J61 71 71 DBREF 2J61 B 72 288 UNP Q15485 FCN2_HUMAN 97 313 SEQADV 2J61 THR A 168 UNP Q15485 VAL 193 CONFLICT SEQADV 2J61 ARG A 186 UNP Q15485 LYS 211 CONFLICT SEQADV 2J61 THR A 247 UNP Q15485 VAL 272 CONFLICT SEQADV 2J61 THR B 168 UNP Q15485 VAL 193 CONFLICT SEQADV 2J61 THR B 247 UNP Q15485 VAL 272 CONFLICT SEQRES 1 A 218 ASN PRO CYS LEU THR GLY PRO ARG THR CYS LYS ASP LEU SEQRES 2 A 218 LEU ASP ARG GLY HIS PHE LEU SER GLY TRP HIS THR ILE SEQRES 3 A 218 TYR LEU PRO ASP CYS ARG PRO LEU THR VAL LEU CYS ASP SEQRES 4 A 218 MET ASP THR ASP GLY GLY GLY TRP THR VAL PHE GLN ARG SEQRES 5 A 218 ARG VAL ASP GLY SER VAL ASP PHE TYR ARG ASP TRP ALA SEQRES 6 A 218 THR TYR LYS GLN GLY PHE GLY SER ARG LEU GLY GLU PHE SEQRES 7 A 218 TRP LEU GLY ASN ASP ASN ILE HIS ALA LEU THR ALA GLN SEQRES 8 A 218 GLY THR SER GLU LEU ARG THR ASP LEU VAL ASP PHE GLU SEQRES 9 A 218 ASP ASN TYR GLN PHE ALA LYS TYR ARG SER PHE ARG VAL SEQRES 10 A 218 ALA ASP GLU ALA GLU LYS TYR ASN LEU VAL LEU GLY ALA SEQRES 11 A 218 PHE VAL GLU GLY SER ALA GLY ASP SER LEU THR PHE HIS SEQRES 12 A 218 ASN ASN GLN SER PHE SER THR LYS ASP GLN ASP ASN ASP SEQRES 13 A 218 LEU ASN THR GLY ASN CYS ALA VAL MET PHE GLN GLY ALA SEQRES 14 A 218 TRP TRP TYR LYS ASN CYS HIS THR SER ASN LEU ASN GLY SEQRES 15 A 218 ARG TYR LEU ARG GLY THR HIS GLY SER PHE ALA ASN GLY SEQRES 16 A 218 ILE ASN TRP LYS SER GLY LYS GLY TYR ASN TYR SER TYR SEQRES 17 A 218 LYS VAL SER GLU MET LYS VAL ARG PRO ALA SEQRES 1 B 218 ASN PRO CYS LEU THR GLY PRO ARG THR CYS LYS ASP LEU SEQRES 2 B 218 LEU ASP ARG GLY HIS PHE LEU SER GLY TRP HIS THR ILE SEQRES 3 B 218 TYR LEU PRO ASP CYS ARG PRO LEU THR VAL LEU CYS ASP SEQRES 4 B 218 MET ASP THR ASP GLY GLY GLY TRP THR VAL PHE GLN ARG SEQRES 5 B 218 ARG VAL ASP GLY SER VAL ASP PHE TYR ARG ASP TRP ALA SEQRES 6 B 218 THR TYR LYS GLN GLY PHE GLY SER ARG LEU GLY GLU PHE SEQRES 7 B 218 TRP LEU GLY ASN ASP ASN ILE HIS ALA LEU THR ALA GLN SEQRES 8 B 218 GLY THR SER GLU LEU ARG THR ASP LEU VAL ASP PHE GLU SEQRES 9 B 218 ASP ASN TYR GLN PHE ALA LYS TYR ARG SER PHE LYS VAL SEQRES 10 B 218 ALA ASP GLU ALA GLU LYS TYR ASN LEU VAL LEU GLY ALA SEQRES 11 B 218 PHE VAL GLU GLY SER ALA GLY ASP SER LEU THR PHE HIS SEQRES 12 B 218 ASN ASN GLN SER PHE SER THR LYS ASP GLN ASP ASN ASP SEQRES 13 B 218 LEU ASN THR GLY ASN CYS ALA VAL MET PHE GLN GLY ALA SEQRES 14 B 218 TRP TRP TYR LYS ASN CYS HIS THR SER ASN LEU ASN GLY SEQRES 15 B 218 ARG TYR LEU ARG GLY THR HIS GLY SER PHE ALA ASN GLY SEQRES 16 B 218 ILE ASN TRP LYS SER GLY LYS GLY TYR ASN TYR SER TYR SEQRES 17 B 218 LYS VAL SER GLU MET LYS VAL ARG PRO ALA HET CA A1289 1 HET NAG A1290 15 HET CA B1289 1 HETNAM CA CALCIUM ION HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE 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 FORMUL 3 CA 2(CA 2+) FORMUL 4 NAG C8 H15 N O6 FORMUL 6 HOH *62(H2 O) HELIX 1 1 THR A 79 ARG A 86 1 8 HELIX 2 2 ASP A 111 GLY A 115 5 5 HELIX 3 3 ASP A 133 GLY A 140 1 8 HELIX 4 4 GLY A 151 ALA A 160 1 10 HELIX 5 5 LEU A 210 ASN A 214 5 5 HELIX 6 6 ASN A 231 GLN A 237 1 7 HELIX 7 7 LYS A 269 GLY A 273 1 5 HELIX 8 8 THR B 79 ARG B 86 1 8 HELIX 9 9 ASP B 111 GLY B 115 5 5 HELIX 10 10 ASP B 133 GLY B 140 1 8 HELIX 11 11 GLY B 151 ALA B 160 1 10 HELIX 12 12 LEU B 210 ASN B 214 5 5 HELIX 13 13 ASN B 231 PHE B 236 1 6 SHEET 1 AA 6 GLY A 92 TYR A 97 0 SHEET 2 AA 6 PRO A 103 ASP A 109 -1 O LEU A 104 N ILE A 96 SHEET 3 AA 6 TRP A 117 ARG A 123 -1 O TRP A 117 N ASP A 109 SHEET 4 AA 6 VAL A 280 PRO A 287 -1 O SER A 281 N ARG A 123 SHEET 5 AA 6 SER A 164 VAL A 171 -1 O GLU A 165 N ARG A 286 SHEET 6 AA 6 TYR A 177 VAL A 187 -1 O GLN A 178 N LEU A 170 SHEET 1 AB 5 GLY A 92 TYR A 97 0 SHEET 2 AB 5 PRO A 103 ASP A 109 -1 O LEU A 104 N ILE A 96 SHEET 3 AB 5 TRP A 117 ARG A 123 -1 O TRP A 117 N ASP A 109 SHEET 4 AB 5 PHE A 148 TRP A 149 -1 O PHE A 148 N ARG A 122 SHEET 5 AB 5 PHE A 141 GLY A 142 -1 O PHE A 141 N TRP A 149 SHEET 1 AC 2 SER A 219 THR A 220 0 SHEET 2 AC 2 ALA A 239 TRP A 240 -1 O TRP A 240 N SER A 219 SHEET 1 AD 2 SER A 248 ASN A 249 0 SHEET 2 AD 2 ASN A 267 TRP A 268 -1 O ASN A 267 N ASN A 249 SHEET 1 AE 2 GLY A 257 THR A 258 0 SHEET 2 AE 2 TYR A 276 SER A 277 -1 O SER A 277 N GLY A 257 SHEET 1 BA 6 GLY B 92 TYR B 97 0 SHEET 2 BA 6 PRO B 103 ASP B 109 -1 O LEU B 104 N ILE B 96 SHEET 3 BA 6 TRP B 117 ARG B 123 -1 O TRP B 117 N ASP B 109 SHEET 4 BA 6 VAL B 280 PRO B 287 -1 O SER B 281 N ARG B 123 SHEET 5 BA 6 SER B 164 VAL B 171 -1 O GLU B 165 N ARG B 286 SHEET 6 BA 6 TYR B 177 PHE B 179 -1 O GLN B 178 N LEU B 170 SHEET 1 BB 5 GLY B 92 TYR B 97 0 SHEET 2 BB 5 PRO B 103 ASP B 109 -1 O LEU B 104 N ILE B 96 SHEET 3 BB 5 TRP B 117 ARG B 123 -1 O TRP B 117 N ASP B 109 SHEET 4 BB 5 PHE B 148 TRP B 149 -1 O PHE B 148 N ARG B 122 SHEET 5 BB 5 PHE B 141 GLY B 142 -1 O PHE B 141 N TRP B 149 SHEET 1 BC 2 GLY B 257 THR B 258 0 SHEET 2 BC 2 TYR B 276 SER B 277 -1 O SER B 277 N GLY B 257 SSBOND 1 CYS A 73 CYS A 101 1555 1555 2.05 SSBOND 2 CYS A 80 CYS A 108 1555 1555 2.08 SSBOND 3 CYS A 232 CYS A 245 1555 1555 2.04 SSBOND 4 CYS B 73 CYS B 101 1555 1555 2.10 SSBOND 5 CYS B 80 CYS B 108 1555 1555 2.09 SSBOND 6 CYS B 232 CYS B 245 1555 1555 2.03 LINK NZ LYS A 284 O4 NAG A1290 1555 1555 2.03 LINK OD2 ASP A 224 CA CA A1289 1555 1555 2.28 LINK OD1 ASP A 224 CA CA A1289 1555 1555 2.76 LINK O ASP A 226 CA CA A1289 1555 1555 3.36 LINK OD2 ASP A 226 CA CA A1289 1555 1555 2.39 LINK OD1 ASP A 226 CA CA A1289 1555 1555 3.37 LINK O ASN A 228 CA CA A1289 1555 1555 2.63 LINK O GLY A 230 CA CA A1289 1555 1555 2.49 LINK CA CA A1289 O HOH A2023 1555 1555 3.23 LINK OD2 ASP B 224 CA CA B1289 1555 1555 3.23 LINK OD1 ASP B 224 CA CA B1289 1555 1555 2.90 LINK OD2 ASP B 226 CA CA B1289 1555 1555 2.68 LINK O ASN B 228 CA CA B1289 1555 1555 2.50 LINK CA CA B1289 O HOH B2024 1555 1555 2.46 CISPEP 1 ASN A 244 CYS A 245 0 -10.62 CISPEP 2 ASN B 244 CYS B 245 0 -5.23 CRYST1 79.591 79.591 172.040 90.00 90.00 120.00 P 63 6 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 0.012564 0.007254 0.000000 0.00000 SCALE2 0.000000 0.014508 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005813 0.00000