HEADER STRUCTURAL PROTEIN 07-SEP-15 2N7A TITLE SOLUTION STRUCTURE OF THE HUMAN SIGLEC-8 LECTIN DOMAIN 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 GENE: SAF2, SIGLEC8; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA-GAMI B (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 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, 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 14-JUN-23 2N7A 1 REMARK SEQADV REVDAT 4 12-OCT-16 2N7A 1 TITLE REVDAT 3 03-AUG-16 2N7A 1 JRNL REVDAT 2 27-JUL-16 2N7A 1 JRNL REVDAT 1 06-JUL-16 2N7A 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 2N7A 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_1000104511. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 0.085 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3-1.2 MM [U-100% 15N] SIGLEC, REMARK 210 20 MM POTASSIUM PHOSPHATE, 40 MM REMARK 210 SODIUM CHLORIDE, 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 95% H2O/5% D2O; 0.3 MM [U-10% REMARK 210 13C; U-100% 15N] SIGLEC, 20 MM REMARK 210 POTASSIUM PHOSPHATE, 40 MM REMARK 210 SODIUM CHLORIDE, 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 210 100% D2O; 0.3-1.2 MM [U-100% REMARK 210 15N] SIGLEC, 20 MM POTASSIUM REMARK 210 PHOSPHATE, 40 MM SODIUM CHLORIDE, REMARK 210 100% 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 1H- REMARK 210 13C CONSTANT-TIME HSQC TO OBTAIN REMARK 210 STEREOSPECIFIC ASSIGNMENTS OF REMARK 210 VAL/LEU METHYLS 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 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 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 -1.38 -155.38 REMARK 500 1 HIS A 139 0.94 -151.01 REMARK 500 1 VAL A 143 85.47 44.74 REMARK 500 2 GLN A 59 -31.18 -134.60 REMARK 500 2 ASN A 124 -30.44 -141.30 REMARK 500 2 HIS A 139 30.26 -150.46 REMARK 500 2 VAL A 143 134.22 59.56 REMARK 500 3 THR A 138 -19.13 -145.30 REMARK 500 3 VAL A 143 132.80 60.05 REMARK 500 4 GLN A 59 -30.89 -134.39 REMARK 500 4 THR A 138 -0.26 -147.49 REMARK 500 4 HIS A 139 -11.65 -151.05 REMARK 500 4 VAL A 143 128.72 63.79 REMARK 500 5 THR A 138 -18.81 -145.61 REMARK 500 5 VAL A 143 128.78 58.73 REMARK 500 6 THR A 138 -20.93 -146.56 REMARK 500 6 VAL A 143 127.79 58.14 REMARK 500 7 THR A 138 -19.62 -147.30 REMARK 500 7 VAL A 143 83.97 42.63 REMARK 500 8 THR A 138 -18.30 -145.27 REMARK 500 8 VAL A 143 99.00 47.30 REMARK 500 9 ASN A 124 -15.84 -151.16 REMARK 500 9 THR A 138 -16.93 -145.03 REMARK 500 9 VAL A 143 83.86 48.45 REMARK 500 10 THR A 138 11.42 -150.09 REMARK 500 10 VAL A 143 79.06 49.15 REMARK 500 11 ARG A 79 -41.18 -131.45 REMARK 500 11 THR A 138 -25.53 -147.74 REMARK 500 11 VAL A 143 127.75 59.81 REMARK 500 12 ASN A 124 -25.95 -154.20 REMARK 500 12 THR A 138 -20.57 -145.23 REMARK 500 12 VAL A 143 99.95 49.81 REMARK 500 13 ASN A 124 -21.28 -151.45 REMARK 500 13 THR A 138 -19.85 -146.61 REMARK 500 13 VAL A 143 86.62 48.32 REMARK 500 14 ASN A 124 -29.50 -140.84 REMARK 500 14 THR A 138 11.21 -148.23 REMARK 500 14 VAL A 143 122.70 59.81 REMARK 500 15 ASN A 124 -22.32 -152.25 REMARK 500 15 HIS A 139 29.06 -150.15 REMARK 500 15 VAL A 143 78.35 51.29 REMARK 500 16 ASN A 124 -23.34 -152.98 REMARK 500 16 THR A 138 11.44 -147.32 REMARK 500 16 VAL A 143 86.04 49.29 REMARK 500 17 THR A 138 -16.23 -144.07 REMARK 500 17 VAL A 143 128.75 58.97 REMARK 500 18 ASN A 124 -27.81 -154.61 REMARK 500 18 THR A 138 5.24 -150.80 REMARK 500 18 VAL A 143 131.19 59.67 REMARK 500 19 THR A 138 -1.20 -154.97 REMARK 500 REMARK 500 THIS ENTRY HAS 55 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25798 RELATED DB: BMRB REMARK 900 RELATED ID: 2N7B RELATED DB: PDB DBREF 2N7A A 1 139 UNP Q9NYZ4 SIGL8_HUMAN 17 155 SEQADV 2N7A SER A 26 UNP Q9NYZ4 CYS 42 ENGINEERED MUTATION SEQADV 2N7A GLY A 140 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7A SER A 141 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7A LEU A 142 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7A VAL A 143 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7A PRO A 144 UNP Q9NYZ4 EXPRESSION TAG SEQADV 2N7A 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 HELIX 1 1 MET A 1 ARG A 5 5 5 HELIX 2 2 ASP A 85 ASN A 89 5 5 HELIX 3 3 ARG A 99 LYS A 103 5 5 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 34 N LEU A 12 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 GLY A 104 O VAL A 132 SHEET 4 B 5 VAL A 46 ARG A 52 -1 N PHE A 51 O PHE A 107 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 GLY A 104 O VAL A 132 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 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