HEADER STRUCTURAL PROTEIN 07-SEP-15 2N7B TITLE SOLUTION STRUCTURE OF THE HUMAN SIGLEC-8 LECTIN DOMAIN IN COMPLEX WITH TITLE 2 6'SULFO SIALYL LEWISX COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIALIC ACID-BINDING IG-LIKE LECTIN 8; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL LECTIN DOMAIN (UNP RESIDUES 17-155); COMPND 5 SYNONYM: SIGLEC-8, SIALOADHESIN FAMILY MEMBER 2, SAF-2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 VARIANT: SIGLEC8; SOURCE 6 GENE: SIGLEC8, SAF2; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: ROSETTA-GAMI B (DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET-43.1A KEYWDS SIALIC ACID-BINDING IMMUNOGLOBULIN-LIKE LECTIN 8, SIGLEC8, SAF-2, I- KEYWDS 2 TYPE LECTIN, CARBOHYDRATE-BINDING RECEPTOR, CARBOHYDRATE KEYWDS 3 RECOGNITION, PROTEIN-GLYCAN COMPLEX, SULFATED SIALYL LEWIS X, KEYWDS 4 STRUCTURAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.M.PROEPSTER,F.YANG,S.RABBANI,B.ERNST,F.H.-T.ALLAIN,M.SCHUBERT REVDAT 5 29-JUL-20 2N7B 1 COMPND REMARK SEQADV HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 12-OCT-16 2N7B 1 TITLE REVDAT 3 03-AUG-16 2N7B 1 JRNL REVDAT 2 27-JUL-16 2N7B 1 JRNL REVDAT 1 06-JUL-16 2N7B 0 JRNL AUTH J.M.PROPSTER,F.YANG,S.RABBANI,B.ERNST,F.H.ALLAIN,M.SCHUBERT JRNL TITL STRUCTURAL BASIS FOR SULFATION-DEPENDENT SELF-GLYCAN JRNL TITL 2 RECOGNITION BY THE HUMAN IMMUNE-INHIBITORY RECEPTOR JRNL TITL 3 SIGLEC-8. JRNL REF PROC.NATL.ACAD.SCI.USA V. 113 E4170 2016 JRNL REFN ISSN 0027-8424 JRNL PMID 27357658 JRNL DOI 10.1073/PNAS.1602214113 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 3.0, AMBER 12 REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), CASE, D.A. ET AL. REMARK 3 (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2N7B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000104512. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293; 303 REMARK 210 PH : 7.4; 7.4 REMARK 210 IONIC STRENGTH : 0.092; 0.092 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.7-1.2 MM [U-100% 15N] SIGLEC, REMARK 210 20 MM POTASSIUM PHOSPHATE, 40 MM REMARK 210 SODIUM CHLORIDE, 0.7-2.4 MM REMARK 210 SUGAR (5-MER), 95% H2O/5% D2O; REMARK 210 0.3-1.2 MM [U-100% 13C; U-100% REMARK 210 15N] SIGLEC, 20 MM POTASSIUM REMARK 210 PHOSPHATE, 40 MM SODIUM CHLORIDE, REMARK 210 0.7-2.4 MM SUGAR (5-MER), 95% REMARK 210 H2O/5% D2O; 0.3-1.2 MM [U-100% REMARK 210 13C; U-100% 15N] SIGLEC, 20 MM REMARK 210 POTASSIUM PHOSPHATE, 40 MM REMARK 210 SODIUM CHLORIDE, 0.7-2.4 MM REMARK 210 SUGAR (5-MER), 100% D2O; 0.3-1.2 REMARK 210 MM [U-100% 15N] SIGLEC, 20 MM REMARK 210 POTASSIUM PHOSPHATE, 40 MM REMARK 210 SODIUM CHLORIDE, 0.7-2.4 MM REMARK 210 SUGAR (5-MER), 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D HNCA; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D HNCO; 3D HN(CO)CA; REMARK 210 3D HCCH-TOCSY; 3D 1H-15N NOESY; REMARK 210 2D 1H-1H NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 2D 1H-1H TOCSY; 2D 13C REMARK 210 F2-FILTERED NOESY; 2D 13C F1- REMARK 210 FILTERED TOCSY; 2D 13C F1- REMARK 210 FILTERED F2-FILTERED NOESY; 3D REMARK 210 13C F1-EDITED F3-FILTERED NOESY; REMARK 210 2D 13C/15N F2-FILTERED NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 700 MHZ; 750 REMARK 210 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.0, SPARKY 3.114, REMARK 210 ATNOS/CANDID 2.1, CYANA 3.0, REMARK 210 TALOS+, PROCHECKNMR V.3.5.4 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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: 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 1 THR A 138 11.87 54.32 REMARK 500 1 HIS A 139 19.10 -144.33 REMARK 500 1 LEU A 142 13.83 59.59 REMARK 500 2 ASP A 4 169.51 60.54 REMARK 500 2 GLN A 37 35.99 -90.26 REMARK 500 2 GLN A 59 -22.01 -153.39 REMARK 500 2 THR A 138 18.12 53.94 REMARK 500 3 GLN A 37 35.94 -89.63 REMARK 500 3 GLN A 59 -20.97 -152.97 REMARK 500 3 THR A 138 12.63 54.45 REMARK 500 3 LEU A 142 2.87 -67.71 REMARK 500 4 GLN A 37 35.88 -89.58 REMARK 500 4 GLN A 59 -32.17 -132.91 REMARK 500 4 THR A 138 -9.50 56.57 REMARK 500 5 GLN A 59 -33.97 -135.59 REMARK 500 5 THR A 138 15.16 54.43 REMARK 500 5 VAL A 143 130.10 61.58 REMARK 500 6 GLN A 37 36.11 -89.83 REMARK 500 6 GLN A 59 -34.65 -134.02 REMARK 500 6 THR A 138 11.40 53.73 REMARK 500 6 HIS A 139 15.10 -144.15 REMARK 500 7 GLN A 59 -23.67 -152.57 REMARK 500 7 THR A 138 18.02 53.89 REMARK 500 7 VAL A 143 133.52 62.76 REMARK 500 8 GLN A 59 -21.60 -151.43 REMARK 500 8 GLN A 122 -158.44 -144.71 REMARK 500 8 THR A 138 14.53 54.07 REMARK 500 8 HIS A 139 19.84 -143.05 REMARK 500 9 GLN A 37 36.07 -90.24 REMARK 500 9 GLN A 59 -32.54 -135.35 REMARK 500 9 THR A 138 13.78 54.43 REMARK 500 10 GLN A 37 36.12 -87.99 REMARK 500 10 GLN A 59 -21.67 -153.18 REMARK 500 10 THR A 138 11.99 54.93 REMARK 500 10 VAL A 143 139.30 65.56 REMARK 500 11 GLN A 59 -35.74 -130.07 REMARK 500 11 THR A 138 13.26 54.59 REMARK 500 12 THR A 138 2.92 55.54 REMARK 500 13 GLN A 122 -156.37 -142.40 REMARK 500 13 THR A 138 11.54 55.08 REMARK 500 14 GLN A 59 -21.79 -151.80 REMARK 500 14 THR A 138 12.24 53.69 REMARK 500 14 HIS A 139 22.02 -148.02 REMARK 500 15 THR A 138 12.41 54.35 REMARK 500 16 GLN A 37 35.81 -88.45 REMARK 500 16 GLN A 59 -22.66 -151.48 REMARK 500 16 GLN A 122 -159.75 -141.71 REMARK 500 16 THR A 138 12.64 54.71 REMARK 500 17 ASP A 4 166.66 60.56 REMARK 500 17 GLN A 37 35.90 -90.21 REMARK 500 REMARK 500 THIS ENTRY HAS 68 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25799 RELATED DB: BMRB REMARK 900 RELATED ID: 2N7A RELATED DB: PDB DBREF 2N7B A 1 139 UNP Q9NYZ4 SIGL8_HUMAN 17 155 SEQADV 2N7B SER A 26 UNP Q9NYZ4 CYS 42 ENGINEERED MUTATION SEQADV 2N7B GLY A 140 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7B SER A 141 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7B LEU A 142 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7B VAL A 143 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7B PRO A 144 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7B ARG A 145 UNP Q9NYZ4 EXPRESSION TAG SEQRES 1 A 145 MET GLU GLY ASP ARG GLN TYR GLY ASP GLY TYR LEU LEU SEQRES 2 A 145 GLN VAL GLN GLU LEU VAL THR VAL GLN GLU GLY LEU SER SEQRES 3 A 145 VAL HIS VAL PRO CYS SER PHE SER TYR PRO GLN ASP GLY SEQRES 4 A 145 TRP THR ASP SER ASP PRO VAL HIS GLY TYR TRP PHE ARG SEQRES 5 A 145 ALA GLY ASP ARG PRO TYR GLN ASP ALA PRO VAL ALA THR SEQRES 6 A 145 ASN ASN PRO ASP ARG GLU VAL GLN ALA GLU THR GLN GLY SEQRES 7 A 145 ARG PHE GLN LEU LEU GLY ASP ILE TRP SER ASN ASP CYS SEQRES 8 A 145 SER LEU SER ILE ARG ASP ALA ARG LYS ARG ASP LYS GLY SEQRES 9 A 145 SER TYR PHE PHE ARG LEU GLU ARG GLY SER MET LYS TRP SEQRES 10 A 145 SER TYR LYS SER GLN LEU ASN TYR LYS THR LYS GLN LEU SEQRES 11 A 145 SER VAL PHE VAL THR ALA LEU THR HIS GLY SER LEU VAL SEQRES 12 A 145 PRO ARG HET NAG B 1 26 HET G6S B 2 24 HET SIA B 3 37 HET FUC B 4 21 HET 0D8 A 201 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM G6S 6-O-SULFO-BETA-D-GALACTOPYRANOSE HETNAM SIA N-ACETYL-ALPHA-NEURAMINIC ACID HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM 0D8 3-AMINOPROPAN-1-OL FORMUL 2 NAG C8 H15 N O6 FORMUL 2 G6S C6 H12 O9 S FORMUL 2 SIA C11 H19 N O9 FORMUL 2 FUC C6 H12 O5 FORMUL 3 0D8 C3 H9 N O SHEET 1 A 2 LEU A 12 VAL A 15 0 SHEET 2 A 2 CYS A 31 SER A 34 -1 O SER A 32 N GLN A 14 SHEET 1 B 5 LEU A 18 GLN A 22 0 SHEET 2 B 5 LEU A 130 THR A 135 1 O SER A 131 N VAL A 19 SHEET 3 B 5 GLY A 104 ARG A 112 -1 N TYR A 106 O LEU A 130 SHEET 4 B 5 HIS A 47 ARG A 52 -1 N TYR A 49 O ARG A 109 SHEET 5 B 5 ALA A 64 THR A 65 -1 O ALA A 64 N TRP A 50 SHEET 1 C 4 LEU A 18 GLN A 22 0 SHEET 2 C 4 LEU A 130 THR A 135 1 O SER A 131 N VAL A 19 SHEET 3 C 4 GLY A 104 ARG A 112 -1 N TYR A 106 O LEU A 130 SHEET 4 C 4 MET A 115 SER A 118 -1 O TRP A 117 N LEU A 110 SHEET 1 D 3 VAL A 27 VAL A 29 0 SHEET 2 D 3 LEU A 93 ILE A 95 -1 O LEU A 93 N VAL A 29 SHEET 3 D 3 PHE A 80 LEU A 82 -1 N GLN A 81 O SER A 94 SSBOND 1 CYS A 31 CYS A 91 1555 1555 2.04 LINK OH 0D8 A 201 C1 NAG B 1 1555 1555 1.46 LINK O4 NAG B 1 C1 G6S B 2 1555 1555 1.46 LINK O3 NAG B 1 C1 FUC B 4 1555 1555 1.47 LINK O3 G6S B 2 C2 SIA B 3 1555 1555 1.42 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1