HEADER IMMUNE SYSTEM 25-AUG-03 1Q9Q OBSLTE 03-AUG-11 1Q9Q 3SY0 TITLE S25-2- A(2-8)-A(2-4)KDO TRISACCHARIDE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: S25-2 FAB (IGG1K) LIGHT CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: FAB LIGHT CHAIN KAPPA; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: S25-2 FAB (IGG1K) HEAVY CHAIN; COMPND 7 CHAIN: B; COMPND 8 FRAGMENT: FAB HEAVY CHAIN G1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 7 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 8 ORGANISM_TAXID: 10090 KEYWDS ANTIGEN-BINDING FRAGMENT, FAB, ANTI-CARBOHYDRATE, ANTI-LPS, ANTIBODY, KEYWDS 2 IMMUNOGLOBULIN, KDO, COMPLEX, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR H.P.NGUYEN,N.O.SETO,C.R.MACKENZIE,L.BRADE,P.KOSMA,H.BRADE,S.V.EVANS REVDAT 3 03-AUG-11 1Q9Q 1 OBSLTE REVDAT 2 24-FEB-09 1Q9Q 1 VERSN REVDAT 1 27-JAN-04 1Q9Q 0 JRNL AUTH H.P.NGUYEN,N.O.SETO,C.R.MACKENZIE,L.BRADE,P.KOSMA,H.BRADE, JRNL AUTH 2 S.V.EVANS JRNL TITL GERMLINE ANTIBODY RECOGNITION OF DISTINCT CARBOHYDRATE JRNL TITL 2 EPITOPES. JRNL REF NAT.STRUCT.BIOL. V. 10 1019 2003 JRNL REFN ISSN 1072-8368 JRNL PMID 14625588 JRNL DOI 10.1038/NSB1014 REMARK 2 REMARK 2 RESOLUTION. 1.49 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 1.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 92.3 REMARK 3 NUMBER OF REFLECTIONS : 73625 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) : 0.200 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 7421 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.003 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.49 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 74.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5329 REMARK 3 BIN R VALUE (WORKING SET) : 0.2830 REMARK 3 BIN FREE R VALUE : 0.3010 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 586 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.012 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3399 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 54 REMARK 3 SOLVENT ATOMS : 468 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.93000 REMARK 3 B22 (A**2) : -1.89000 REMARK 3 B33 (A**2) : -2.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.16 REMARK 3 ESD FROM SIGMAA (A) : 0.15 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) : 0.19 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.16 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.70 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL 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 : CNS BULK SOLVENT MODEL USED REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 41.44 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : KDO6.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : CARBOHYDRATE.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : WATER.TOP REMARK 3 TOPOLOGY FILE 5 : KDO6.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1Q9Q COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-SEP-03. REMARK 100 THE RCSB ID CODE IS RCSB020093. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X8C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.15 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 73625 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.490 REMARK 200 RESOLUTION RANGE LOW (A) : 19.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : 1.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.9 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 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: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1Q9O, S45-18 FAB UNLIGANDED REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: KDO TRISACCHARIDE, MAGNESIUM CHLORIDE, REMARK 280 ZINC CHLORIDE, ETHYLENE GLYCOL, GLYCEROL, PEG 4000, TRIS, PH 8.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 22.80000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.30000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.45000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.30000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.80000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.45000 REMARK 290 SMTRY3 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -67.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 O8 KDO B 302 O6 KDO B 303 2.12 REMARK 500 O4 KDA B 301 O6 KDO B 302 2.14 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 MET A 21 CB - CG - SD ANGL. DEV. = -19.8 DEGREES REMARK 500 LEU A 33 CA - CB - CG ANGL. DEV. = -17.5 DEGREES REMARK 500 ARG A 187 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 CYS B 138 CA - CB - SG ANGL. DEV. = 15.4 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 ALA A 51 -39.25 66.73 REMARK 500 ALA A 84 171.29 174.45 REMARK 500 LEU A 94 -142.34 55.39 REMARK 500 ALA B 88 169.74 179.52 REMARK 500 ASP B 95 -147.35 -114.88 REMARK 500 TYR B 99 -66.73 -127.72 REMARK 500 SER B 126 78.67 -112.63 REMARK 500 ALA B 127 95.13 -164.27 REMARK 500 SER B 132 -45.47 68.24 REMARK 500 SER B 154 29.39 48.72 REMARK 500 PRO B 210 -154.49 -78.61 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 MG A 214 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE A 97 N REMARK 620 2 HOH B 433 O 102.8 REMARK 620 3 TRP B 47 N 117.3 117.6 REMARK 620 4 HOH B 344 O 138.8 105.5 74.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 215 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 101 OG1 REMARK 620 2 GLN A 6 NE2 87.3 REMARK 620 3 SER A 22 O 121.0 109.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 216 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 150 OD2 REMARK 620 2 HIS A 188 ND1 93.4 REMARK 620 3 HOH B 424 O 105.1 127.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 217 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 162 NE2 REMARK 620 2 ASN A 137 ND2 154.7 REMARK 620 3 ASN A 137 OD1 110.4 48.5 REMARK 620 4 HOH A 458 O 123.8 77.9 125.6 REMARK 620 5 HOH A 459 O 94.9 97.9 88.7 90.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 218 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 184 OE2 REMARK 620 2 HOH A 334 O 99.0 REMARK 620 3 HIS A 188 NE2 101.3 108.3 REMARK 620 4 GLU B 56 OE2 120.5 97.9 126.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KDA B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KDO B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KDO B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 216 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 217 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 218 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1Q9K RELATED DB: PDB REMARK 900 SAME PROTEIN, BUT LIGANDED WITH A(2-8)-A(2-4) KDO REMARK 900 TRISACCHARIDE REMARK 900 RELATED ID: 1Q9L RELATED DB: PDB REMARK 900 SAME PROTEIN, BUT LIGANDED WITH A(2-8)-A(2-4) KDO REMARK 900 TRISACCHARIDE REMARK 900 RELATED ID: 1Q9O RELATED DB: PDB REMARK 900 S45-18 FAB, UNLIGANDED REMARK 900 RELATED ID: 1Q9R RELATED DB: PDB REMARK 900 AB S25-2 LIGANDED WITH A(2-8) KDO DISACCHARIDE REMARK 900 RELATED ID: 1Q9T RELATED DB: PDB REMARK 900 AB S25-2 LIGANDED WITH A(2-4) KDO DISACCHARIDE REMARK 900 RELATED ID: 1Q9V RELATED DB: PDB REMARK 900 AB S25-2 LIGANDED WITH KDO MONOSACCHARIDE REMARK 900 RELATED ID: 1Q9W RELATED DB: PDB REMARK 900 S45-18 FAB PENTASACCHARIDE BISPHOSPHATE COMPLEX REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE OF THE PROTEIN WAS NOT DEPOSITED REMARK 999 INTO ANY SEQUENCE DATABASE. DBREF 1Q9Q A 1 213 PDB 1Q9Q 1Q9Q 1 213 DBREF 1Q9Q B 1 211 PDB 1Q9Q 1Q9Q 1 211 SEQRES 1 A 219 ASP ILE VAL MET SER GLN SER PRO SER SER LEU ALA VAL SEQRES 2 A 219 SER ALA GLY GLU LYS VAL THR MET SER CYS LYS SER SER SEQRES 3 A 219 GLN SER LEU LEU ASN SER ARG THR ARG LYS ASN TYR LEU SEQRES 4 A 219 ALA TRP TYR GLN GLN LYS PRO GLY GLN SER PRO LYS LEU SEQRES 5 A 219 LEU ILE TYR TRP ALA SER THR ARG GLU SER GLY VAL PRO SEQRES 6 A 219 ASP ARG PHE THR GLY SER GLY SER GLY THR ASP PHE THR SEQRES 7 A 219 LEU THR ILE THR SER VAL GLN ALA GLU ASP LEU ALA VAL SEQRES 8 A 219 TYR TYR CYS LYS GLN SER TYR ASN LEU ARG THR PHE GLY SEQRES 9 A 219 GLY GLY THR LYS LEU GLU ILE LYS ARG ALA ASP ALA ALA SEQRES 10 A 219 PRO THR VAL SER ILE PHE PRO PRO SER SER GLU GLN LEU SEQRES 11 A 219 THR SER GLY GLY ALA SER VAL VAL CYS PHE LEU ASN ASN SEQRES 12 A 219 PHE TYR PRO LYS ASP ILE ASN VAL LYS TRP LYS ILE ASP SEQRES 13 A 219 GLY SER GLU ARG GLN ASN GLY VAL LEU ASN SER TRP THR SEQRES 14 A 219 ASP GLN ASP SER LYS ASP SER THR TYR SER MET SER SER SEQRES 15 A 219 THR LEU THR LEU THR LYS ASP GLU TYR GLU ARG HIS ASN SEQRES 16 A 219 SER TYR THR CYS GLU ALA THR HIS LYS THR SER THR SER SEQRES 17 A 219 PRO ILE VAL LYS SER PHE ASN ARG ASN GLU CYS SEQRES 1 B 222 GLU VAL LYS LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 222 SER GLY GLY SER LEU ARG LEU SER CYS ALA THR SER GLY SEQRES 3 B 222 PHE THR PHE THR ASP TYR TYR MET SER TRP VAL ARG GLN SEQRES 4 B 222 PRO PRO GLY LYS ALA LEU GLU TRP LEU GLY PHE ILE ARG SEQRES 5 B 222 ASN LYS ALA ASN GLY TYR THR THR GLU TYR SER PRO SER SEQRES 6 B 222 VAL LYS GLY ARG PHE THR ILE SER ARG ASP ASN SER GLN SEQRES 7 B 222 SER ILE LEU TYR LEU GLN MET ASN THR LEU ARG ALA GLU SEQRES 8 B 222 ASP SER ALA THR TYR TYR CYS ALA ARG ASP HIS ASP GLY SEQRES 9 B 222 TYR TYR GLU ARG PHE SER TYR TRP GLY GLN GLY THR LEU SEQRES 10 B 222 VAL THR VAL SER ALA ALA LYS THR THR PRO PRO SER VAL SEQRES 11 B 222 TYR PRO LEU ALA PRO GLY SER ALA ALA GLN THR ASN SER SEQRES 12 B 222 MET VAL THR LEU GLY CYS LEU VAL LYS GLY TYR PHE PRO SEQRES 13 B 222 GLU PRO VAL THR VAL THR TRP ASN SER GLY SER LEU SER SEQRES 14 B 222 SER GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER ASP SEQRES 15 B 222 LEU TYR THR LEU SER SER SER VAL THR VAL PRO SER SER SEQRES 16 B 222 THR TRP PRO SER GLU THR VAL THR CYS ASN VAL ALA HIS SEQRES 17 B 222 PRO ALA SER SER THR LYS VAL ASP LYS LYS ILE VAL PRO SEQRES 18 B 222 ARG HET KDA B 301 19 HET KDO B 302 15 HET KDO B 303 15 HET MG A 214 1 HET MG A 215 1 HET MG A 216 1 HET MG A 217 1 HET ZN A 218 1 HETNAM KDA (3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACID)-2-O-ALLYL HETNAM KDO 3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACID HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION FORMUL 3 KDA C11 H18 O8 FORMUL 3 KDO 2(C8 H14 O8) FORMUL 4 MG 4(MG 2+) FORMUL 8 ZN ZN 2+ FORMUL 9 HOH *468(H2 O) HELIX 1 1 GLN A 79 LEU A 83 5 5 HELIX 2 2 SER A 120 SER A 126 1 7 HELIX 3 3 LYS A 182 GLU A 186 1 5 HELIX 4 4 ASN A 211 CYS A 213 5 3 HELIX 5 5 THR B 28 TYR B 32 5 5 HELIX 6 6 ASN B 52A GLY B 52E 5 5 HELIX 7 7 ARG B 83 SER B 87 5 5 HELIX 8 8 SER B 154 SER B 156 5 3 HELIX 9 9 PRO B 198 SER B 201 5 4 SHEET 1 A 4 MET A 4 SER A 7 0 SHEET 2 A 4 VAL A 19 SER A 25 -1 O SER A 22 N SER A 7 SHEET 3 A 4 ASP A 70 ILE A 75 -1 O PHE A 71 N CYS A 23 SHEET 4 A 4 PHE A 62 SER A 67 -1 N THR A 63 O THR A 74 SHEET 1 B 6 SER A 10 SER A 14 0 SHEET 2 B 6 THR A 101 LYS A 106 1 O GLU A 104 N LEU A 11 SHEET 3 B 6 ALA A 84 GLN A 90 -1 N ALA A 84 O LEU A 103 SHEET 4 B 6 LEU A 33 GLN A 38 -1 N TYR A 36 O TYR A 87 SHEET 5 B 6 LYS A 45 TYR A 49 -1 O LEU A 47 N TRP A 35 SHEET 6 B 6 THR A 53 ARG A 54 -1 O THR A 53 N TYR A 49 SHEET 1 C 4 SER A 10 SER A 14 0 SHEET 2 C 4 THR A 101 LYS A 106 1 O GLU A 104 N LEU A 11 SHEET 3 C 4 ALA A 84 GLN A 90 -1 N ALA A 84 O LEU A 103 SHEET 4 C 4 THR A 96 PHE A 97 -1 O THR A 96 N GLN A 90 SHEET 1 D 2 LEU A 30 ASN A 30A 0 SHEET 2 D 2 LYS A 30F ASN A 31 -1 O LYS A 30F N ASN A 30A SHEET 1 E 4 THR A 113 PHE A 117 0 SHEET 2 E 4 GLY A 128 PHE A 138 -1 O ASN A 136 N THR A 113 SHEET 3 E 4 TYR A 172 THR A 181 -1 O LEU A 178 N VAL A 131 SHEET 4 E 4 VAL A 158 TRP A 162 -1 N LEU A 159 O THR A 177 SHEET 1 F 4 SER A 152 ARG A 154 0 SHEET 2 F 4 ASN A 144 ILE A 149 -1 N ILE A 149 O SER A 152 SHEET 3 F 4 SER A 190 THR A 196 -1 O THR A 192 N LYS A 148 SHEET 4 F 4 ILE A 204 ASN A 209 -1 O ILE A 204 N ALA A 195 SHEET 1 G 4 LYS B 3 SER B 7 0 SHEET 2 G 4 LEU B 18 SER B 25 -1 O SER B 25 N LYS B 3 SHEET 3 G 4 ILE B 75 MET B 80 -1 O LEU B 78 N LEU B 20 SHEET 4 G 4 PHE B 65 ASP B 70 -1 N THR B 66 O GLN B 79 SHEET 1 H 6 LEU B 11 VAL B 12 0 SHEET 2 H 6 THR B 105 VAL B 109 1 O THR B 108 N VAL B 12 SHEET 3 H 6 ALA B 88 ARG B 94 -1 N ALA B 88 O VAL B 107 SHEET 4 H 6 MET B 34 GLN B 39 -1 N VAL B 37 O TYR B 91 SHEET 5 H 6 GLU B 46 ILE B 51 -1 O LEU B 48 N TRP B 36 SHEET 6 H 6 THR B 55 TYR B 57 -1 O GLU B 56 N PHE B 50 SHEET 1 I 4 SER B 118 LEU B 122 0 SHEET 2 I 4 MET B 133 TYR B 143 -1 O LEU B 139 N TYR B 120 SHEET 3 I 4 LEU B 172 PRO B 182 -1 O TYR B 173 N TYR B 143 SHEET 4 I 4 VAL B 161 THR B 163 -1 N HIS B 162 O SER B 178 SHEET 1 J 4 SER B 118 LEU B 122 0 SHEET 2 J 4 MET B 133 TYR B 143 -1 O LEU B 139 N TYR B 120 SHEET 3 J 4 LEU B 172 PRO B 182 -1 O TYR B 173 N TYR B 143 SHEET 4 J 4 VAL B 167 GLN B 169 -1 N GLN B 169 O LEU B 172 SHEET 1 K 3 THR B 149 TRP B 152 0 SHEET 2 K 3 THR B 192 HIS B 197 -1 O ASN B 194 N THR B 151 SHEET 3 K 3 THR B 202 LYS B 207 -1 O VAL B 204 N VAL B 195 SSBOND 1 CYS A 23 CYS A 88 1555 1555 2.07 SSBOND 2 CYS A 133 CYS A 193 1555 1555 2.02 SSBOND 3 CYS B 22 CYS B 92 1555 1555 2.04 SSBOND 4 CYS B 138 CYS B 193 1555 1555 2.06 LINK O4 KDA B 301 C2 KDO B 302 1555 1555 1.47 LINK O8 KDO B 302 C2 KDO B 303 1555 1555 1.45 LINK MG MG A 214 N PHE A 97 1555 1555 3.10 LINK MG MG A 214 O HOH B 433 1555 1555 2.78 LINK MG MG A 214 N TRP B 47 1555 1555 3.11 LINK MG MG A 214 O HOH B 344 1555 1555 2.91 LINK MG MG A 215 OG1 THR A 101 1555 1555 2.72 LINK MG MG A 215 NE2 GLN A 6 1555 1555 2.85 LINK MG MG A 215 O SER A 22 1555 1555 2.76 LINK MG MG A 216 OD2 ASP A 150 1555 1555 1.94 LINK MG MG A 216 ND1 HIS A 188 1555 1555 2.02 LINK MG MG A 217 NE2 HIS B 162 1555 1555 1.80 LINK MG MG A 217 ND2 ASN A 137 1555 1555 2.99 LINK MG MG A 217 OD1 ASN A 137 1555 1555 1.88 LINK MG MG A 217 O HOH A 458 1555 1555 1.93 LINK MG MG A 217 O HOH A 459 1555 1555 1.54 LINK ZN ZN A 218 OE2 GLU A 184 1555 1555 1.89 LINK ZN ZN A 218 O HOH A 334 1555 1555 2.26 LINK ZN ZN A 218 NE2 HIS A 188 1555 1555 1.93 LINK MG MG A 216 O HOH B 424 1555 2564 2.02 LINK ZN ZN A 218 OE2 GLU B 56 1555 2564 1.94 CISPEP 1 SER A 7 PRO A 8 0 -0.78 CISPEP 2 TYR A 139 PRO A 140 0 0.17 CISPEP 3 PHE B 144 PRO B 145 0 -0.30 CISPEP 4 GLU B 146 PRO B 147 0 -0.07 CISPEP 5 TRP B 186 PRO B 187 0 0.39 SITE 1 AC1 6 ARG A 30C THR A 181 KDO B 302 HOH B 311 SITE 2 AC1 6 HOH B 476 HOH B 527 SITE 1 AC2 13 ARG A 30C TYR B 33 ASN B 52D HIS B 96 SITE 2 AC2 13 GLY B 98 THR B 130 KDA B 301 KDO B 303 SITE 3 AC2 13 HOH B 307 HOH B 308 HOH B 309 HOH B 310 SITE 4 AC2 13 HOH B 311 SITE 1 AC3 17 ASN A 30A TYR A 32 SER A 91 TYR A 92 SITE 2 AC3 17 ARG A 95 ARG A 187 HOH A 219 HOH A 220 SITE 3 AC3 17 TYR B 33 ARG B 52 HIS B 96 GLU B 100A SITE 4 AC3 17 KDO B 302 HOH B 304 HOH B 305 HOH B 407 SITE 5 AC3 17 HOH B 527 SITE 1 AC4 6 THR A 96 PHE A 97 GLU B 46 TRP B 47 SITE 2 AC4 6 HOH B 344 HOH B 433 SITE 1 AC5 6 GLN A 6 SER A 7 MET A 21 SER A 22 SITE 2 AC5 6 TRP A 35 THR A 101 SITE 1 AC6 4 ASP A 150 ARG A 187 HIS A 188 HOH B 424 SITE 1 AC7 4 ASN A 137 HOH A 458 HOH A 459 HIS B 162 SITE 1 AC8 4 GLU A 184 HIS A 188 HOH A 334 GLU B 56 CRYST1 45.600 80.900 130.600 90.00 90.00 90.00 P 21 21 21 4 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 0.021930 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012361 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007657 0.00000