0.019478 0.000000 0.001570 0.000000 0.016485 0.000000 0.000000 0.000000 0.016512 0.00000 0.00000 0.00000 Hsiao, C.D. Sun, Y.J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 2 90.00 94.61 90.00 51.340 60.660 60.760 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C6 H13 N O5 179.171 2-amino-2-deoxy-beta-D-glucopyranose 2-AMINO-2-DEOXY-D-GLUCOSE D-saccharide, beta linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking US J.Biol.Chem. JBCHA3 0071 0021-9258 276 17507 10.1074/JBC.M010416200 11278670 The Crystal Structure of a Novel Mammalian Lectin, Ym1, Suggests a Saccharide Binding Site 2001 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 290.0 1 MIRRORS IMAGE PLATE 1997-01-15 RIGAKU IMAGE PLATE NI FILTER SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE RIGAKU RU300 42365.516 YM1 SECRETORY PROTEIN 1 nat polymer 179.171 2-amino-2-deoxy-beta-D-glucopyranose 1 man non-polymer 18.015 water 214 nat water no no YQLMCYYTSWAKDRPIEGSFKPGNIDPCLCTHLIYAFAGMQNNEITYTHEQDLRDYEALNGLKDKNTELKTLLAIGGWKF GPAPFSAMVSTPQNRQIFIQSVIRFLRQYNFDGLNLDWQYPGSRGSPPKDKHLFSVLVKEMRKAFEEESVEKDIPRLLLT STGAGIIDVIKSGYKIPELSQSLDYIQVMTYDLHDPKDGYTGENSPLYKSPYDIGKSADLNVDSIISYWKDHGAASEKLI VGFPAYGHTFILSDPSKTGIGAPTISTGPPGKYTDESGLLAYYEVCTFLNEGATEVWDAPQEVPYAYQGNEWVGYDNVRS FKLKAQWLKDNNLGGAVVWPLDMDDFSGSFCHQRHFPLTSTLKGDLNIHSASCKGPY YQLMCYYTSWAKDRPIEGSFKPGNIDPCLCTHLIYAFAGMQNNEITYTHEQDLRDYEALNGLKDKNTELKTLLAIGGWKF GPAPFSAMVSTPQNRQIFIQSVIRFLRQYNFDGLNLDWQYPGSRGSPPKDKHLFSVLVKEMRKAFEEESVEKDIPRLLLT STGAGIIDVIKSGYKIPELSQSLDYIQVMTYDLHDPKDGYTGENSPLYKSPYDIGKSADLNVDSIISYWKDHGAASEKLI VGFPAYGHTFILSDPSKTGIGAPTISTGPPGKYTDESGLLAYYEVCTFLNEGATEVWDAPQEVPYAYQGNEWVGYDNVRS FKLKAQWLKDNNLGGAVVWPLDMDDFSGSFCHQRHFPLTSTLKGDLNIHSASCKGPY A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n HOUSE MOUSE ORAL INFECTIONS OF MICE WITH TRICHINELLA SPIRALIS INDUCE PERITONEAL EXUDATE CELLS TO SECRETE YM1 sample PERITONEAL EXUDATE CELLS(MACROPHAGES) CYTOPLASM 10090 MUS MUSCULUS ICR 1 2.19 44 6.00 pH 6.00 atom_site pdbx_database_proc pdbx_database_status refine struct_conn chem_comp pdbx_database_status pdbx_validate_close_contact struct_conn struct_conn_type chem_comp entity pdbx_chem_comp_identifier pdbx_entity_nonpoly struct_site struct_site_gen repository Initial release Carbohydrate remediation repository Remediation Version format compliance Version format compliance Atomic model Data collection Derived calculations Other Refinement description Advisory Data collection Derived calculations Other Data collection Derived calculations Structure summary 1 0 2001-03-01 1 1 2011-05-08 1 2 2011-07-13 2 0 2019-05-22 2 1 2020-07-01 2 2 2020-07-29 _pdbx_database_status.recvd_author_approval _refine.pdbx_ls_cross_valid_method _struct_conn.pdbx_leaving_atom_flag _chem_comp.type _pdbx_database_status.status_code_sf _chem_comp.name _entity.pdbx_description _pdbx_entity_nonpoly.name DGlcpNb b-D-glucopyranosamine b-D-GlcpN GlcN SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "A" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. PDBE Y PDBE 2000-10-21 REL REL 1 A O HOH 2006 7.58 1 A O HOH 2010 9.13 1 A O HOH 2016 7.33 1 A O HOH 2019 9.78 1 A O HOH 2021 8.62 1 A O HOH 2025 6.26 1 A O HOH 2030 9.46 1 A O HOH 2031 7.61 1 A O HOH 2036 6.61 1 A O HOH 2037 6.41 1 A O HOH 2040 7.37 1 A O HOH 2049 8.21 1 A O HOH 2055 6.40 1 A O HOH 2066 6.22 1 A O HOH 2076 6.49 1 A O HOH 2081 6.90 1 A O HOH 2091 6.26 1 A O HOH 2097 6.26 GCS 2-amino-2-deoxy-beta-D-glucopyranose HOH water RESIDUES 394-398 WERE NOT VISIBLE IN THE ELECTRON DENSITY. HOWEVER, AS THERE IS NO EVIDENCE TO SUGGEST THAT THESE RESIDUES ARE NOT PRESENT IN THE SAMPLE THEY HAVE BEEN INCLUDED IN THE SEQRES RECORD. GCS 800 2 GCS GCS 800 A HOH 2001 3 HOH HOH 2001 A HOH 2002 3 HOH HOH 2002 A HOH 2003 3 HOH HOH 2003 A HOH 2004 3 HOH HOH 2004 A HOH 2005 3 HOH HOH 2005 A HOH 2006 3 HOH HOH 2006 A HOH 2007 3 HOH HOH 2007 A HOH 2008 3 HOH HOH 2008 A HOH 2009 3 HOH HOH 2009 A HOH 2010 3 HOH HOH 2010 A HOH 2011 3 HOH HOH 2011 A HOH 2012 3 HOH HOH 2012 A HOH 2013 3 HOH HOH 2013 A HOH 2014 3 HOH HOH 2014 A HOH 2015 3 HOH HOH 2015 A HOH 2016 3 HOH HOH 2016 A HOH 2017 3 HOH HOH 2017 A HOH 2018 3 HOH HOH 2018 A HOH 2019 3 HOH HOH 2019 A HOH 2020 3 HOH HOH 2020 A HOH 2021 3 HOH HOH 2021 A HOH 2022 3 HOH HOH 2022 A HOH 2023 3 HOH HOH 2023 A HOH 2024 3 HOH HOH 2024 A HOH 2025 3 HOH HOH 2025 A HOH 2026 3 HOH HOH 2026 A HOH 2027 3 HOH HOH 2027 A HOH 2028 3 HOH HOH 2028 A HOH 2029 3 HOH HOH 2029 A HOH 2030 3 HOH HOH 2030 A HOH 2031 3 HOH HOH 2031 A HOH 2032 3 HOH HOH 2032 A HOH 2033 3 HOH HOH 2033 A HOH 2034 3 HOH HOH 2034 A HOH 2035 3 HOH HOH 2035 A HOH 2036 3 HOH HOH 2036 A HOH 2037 3 HOH HOH 2037 A HOH 2038 3 HOH HOH 2038 A HOH 2039 3 HOH HOH 2039 A HOH 2040 3 HOH HOH 2040 A HOH 2041 3 HOH HOH 2041 A HOH 2042 3 HOH HOH 2042 A HOH 2043 3 HOH HOH 2043 A HOH 2044 3 HOH HOH 2044 A HOH 2045 3 HOH HOH 2045 A HOH 2046 3 HOH HOH 2046 A HOH 2047 3 HOH HOH 2047 A HOH 2048 3 HOH HOH 2048 A HOH 2049 3 HOH HOH 2049 A HOH 2050 3 HOH HOH 2050 A HOH 2051 3 HOH HOH 2051 A HOH 2052 3 HOH HOH 2052 A HOH 2053 3 HOH HOH 2053 A HOH 2054 3 HOH HOH 2054 A HOH 2055 3 HOH HOH 2055 A HOH 2056 3 HOH HOH 2056 A HOH 2057 3 HOH HOH 2057 A HOH 2058 3 HOH HOH 2058 A HOH 2059 3 HOH HOH 2059 A HOH 2060 3 HOH HOH 2060 A HOH 2061 3 HOH HOH 2061 A HOH 2062 3 HOH HOH 2062 A HOH 2063 3 HOH HOH 2063 A HOH 2064 3 HOH HOH 2064 A HOH 2065 3 HOH HOH 2065 A HOH 2066 3 HOH HOH 2066 A HOH 2067 3 HOH HOH 2067 A HOH 2068 3 HOH HOH 2068 A HOH 2069 3 HOH HOH 2069 A HOH 2070 3 HOH HOH 2070 A HOH 2071 3 HOH HOH 2071 A HOH 2072 3 HOH HOH 2072 A HOH 2073 3 HOH HOH 2073 A HOH 2074 3 HOH HOH 2074 A HOH 2075 3 HOH HOH 2075 A HOH 2076 3 HOH HOH 2076 A HOH 2077 3 HOH HOH 2077 A HOH 2078 3 HOH HOH 2078 A HOH 2079 3 HOH HOH 2079 A HOH 2080 3 HOH HOH 2080 A HOH 2081 3 HOH HOH 2081 A HOH 2082 3 HOH HOH 2082 A HOH 2083 3 HOH HOH 2083 A HOH 2084 3 HOH HOH 2084 A HOH 2085 3 HOH HOH 2085 A HOH 2086 3 HOH HOH 2086 A HOH 2087 3 HOH HOH 2087 A HOH 2088 3 HOH HOH 2088 A HOH 2089 3 HOH HOH 2089 A HOH 2090 3 HOH HOH 2090 A HOH 2091 3 HOH HOH 2091 A HOH 2092 3 HOH HOH 2092 A HOH 2093 3 HOH HOH 2093 A HOH 2094 3 HOH HOH 2094 A HOH 2095 3 HOH HOH 2095 A HOH 2096 3 HOH HOH 2096 A HOH 2097 3 HOH HOH 2097 A HOH 2098 3 HOH HOH 2098 A HOH 2099 3 HOH HOH 2099 A HOH 2100 3 HOH HOH 2100 A HOH 2101 3 HOH HOH 2101 A HOH 2102 3 HOH HOH 2102 A HOH 2103 3 HOH HOH 2103 A HOH 2104 3 HOH HOH 2104 A HOH 2105 3 HOH HOH 2105 A HOH 2106 3 HOH HOH 2106 A HOH 2107 3 HOH HOH 2107 A HOH 2108 3 HOH HOH 2108 A HOH 2109 3 HOH HOH 2109 A HOH 2110 3 HOH HOH 2110 A HOH 2111 3 HOH HOH 2111 A HOH 2112 3 HOH HOH 2112 A HOH 2113 3 HOH HOH 2113 A HOH 2114 3 HOH HOH 2114 A HOH 2115 3 HOH HOH 2115 A HOH 2116 3 HOH HOH 2116 A HOH 2117 3 HOH HOH 2117 A HOH 2118 3 HOH HOH 2118 A HOH 2119 3 HOH HOH 2119 A HOH 2120 3 HOH HOH 2120 A HOH 2121 3 HOH HOH 2121 A HOH 2122 3 HOH HOH 2122 A HOH 2123 3 HOH HOH 2123 A HOH 2124 3 HOH HOH 2124 A HOH 2125 3 HOH HOH 2125 A HOH 2126 3 HOH HOH 2126 A HOH 2127 3 HOH HOH 2127 A HOH 2128 3 HOH HOH 2128 A HOH 2129 3 HOH HOH 2129 A HOH 2130 3 HOH HOH 2130 A HOH 2131 3 HOH HOH 2131 A HOH 2132 3 HOH HOH 2132 A HOH 2133 3 HOH HOH 2133 A HOH 2134 3 HOH HOH 2134 A HOH 2135 3 HOH HOH 2135 A HOH 2136 3 HOH HOH 2136 A HOH 2137 3 HOH HOH 2137 A HOH 2138 3 HOH HOH 2138 A HOH 2139 3 HOH HOH 2139 A HOH 2140 3 HOH HOH 2140 A HOH 2141 3 HOH HOH 2141 A HOH 2142 3 HOH HOH 2142 A HOH 2143 3 HOH HOH 2143 A HOH 2144 3 HOH HOH 2144 A HOH 2145 3 HOH HOH 2145 A HOH 2146 3 HOH HOH 2146 A HOH 2147 3 HOH HOH 2147 A HOH 2148 3 HOH HOH 2148 A HOH 2149 3 HOH HOH 2149 A HOH 2150 3 HOH HOH 2150 A HOH 2151 3 HOH HOH 2151 A HOH 2152 3 HOH HOH 2152 A HOH 2153 3 HOH HOH 2153 A HOH 2154 3 HOH HOH 2154 A HOH 2155 3 HOH HOH 2155 A HOH 2156 3 HOH HOH 2156 A HOH 2157 3 HOH HOH 2157 A HOH 2158 3 HOH HOH 2158 A HOH 2159 3 HOH HOH 2159 A HOH 2160 3 HOH HOH 2160 A HOH 2161 3 HOH HOH 2161 A HOH 2162 3 HOH HOH 2162 A HOH 2163 3 HOH HOH 2163 A HOH 2164 3 HOH HOH 2164 A HOH 2165 3 HOH HOH 2165 A HOH 2166 3 HOH HOH 2166 A HOH 2167 3 HOH HOH 2167 A HOH 2168 3 HOH HOH 2168 A HOH 2169 3 HOH HOH 2169 A HOH 2170 3 HOH HOH 2170 A HOH 2171 3 HOH HOH 2171 A HOH 2172 3 HOH HOH 2172 A HOH 2173 3 HOH HOH 2173 A HOH 2174 3 HOH HOH 2174 A HOH 2175 3 HOH HOH 2175 A HOH 2176 3 HOH HOH 2176 A HOH 2177 3 HOH HOH 2177 A HOH 2178 3 HOH HOH 2178 A HOH 2179 3 HOH HOH 2179 A HOH 2180 3 HOH HOH 2180 A HOH 2181 3 HOH HOH 2181 A HOH 2182 3 HOH HOH 2182 A HOH 2183 3 HOH HOH 2183 A HOH 2184 3 HOH HOH 2184 A HOH 2185 3 HOH HOH 2185 A HOH 2186 3 HOH HOH 2186 A HOH 2187 3 HOH HOH 2187 A HOH 2188 3 HOH HOH 2188 A HOH 2189 3 HOH HOH 2189 A HOH 2190 3 HOH HOH 2190 A HOH 2191 3 HOH HOH 2191 A HOH 2192 3 HOH HOH 2192 A HOH 2193 3 HOH HOH 2193 A HOH 2194 3 HOH HOH 2194 A HOH 2195 3 HOH HOH 2195 A HOH 2196 3 HOH HOH 2196 A HOH 2197 3 HOH HOH 2197 A HOH 2198 3 HOH HOH 2198 A HOH 2199 3 HOH HOH 2199 A HOH 2200 3 HOH HOH 2200 A HOH 2201 3 HOH HOH 2201 A HOH 2202 3 HOH HOH 2202 A HOH 2203 3 HOH HOH 2203 A HOH 2204 3 HOH HOH 2204 A HOH 2205 3 HOH HOH 2205 A HOH 2206 3 HOH HOH 2206 A HOH 2207 3 HOH HOH 2207 A HOH 2208 3 HOH HOH 2208 A HOH 2209 3 HOH HOH 2209 A HOH 2210 3 HOH HOH 2210 A HOH 2211 3 HOH HOH 2211 A HOH 2212 3 HOH HOH 2212 A HOH 2213 3 HOH HOH 2213 A HOH 2214 3 HOH HOH 2214 A TYR 22 n 1 TYR 22 A GLN 23 n 2 GLN 23 A LEU 24 n 3 LEU 24 A MET 25 n 4 MET 25 A CYS 26 n 5 CYS 26 A TYR 27 n 6 TYR 27 A TYR 28 n 7 TYR 28 A THR 29 n 8 THR 29 A SER 30 n 9 SER 30 A TRP 31 n 10 TRP 31 A ALA 32 n 11 ALA 32 A LYS 33 n 12 LYS 33 A ASP 34 n 13 ASP 34 A ARG 35 n 14 ARG 35 A PRO 36 n 15 PRO 36 A ILE 37 n 16 ILE 37 A GLU 38 n 17 GLU 38 A GLY 39 n 18 GLY 39 A SER 40 n 19 SER 40 A PHE 41 n 20 PHE 41 A LYS 42 n 21 LYS 42 A PRO 43 n 22 PRO 43 A GLY 44 n 23 GLY 44 A ASN 45 n 24 ASN 45 A ILE 46 n 25 ILE 46 A ASP 47 n 26 ASP 47 A PRO 48 n 27 PRO 48 A CYS 49 n 28 CYS 49 A LEU 50 n 29 LEU 50 A CYS 51 n 30 CYS 51 A THR 52 n 31 THR 52 A HIS 53 n 32 HIS 53 A LEU 54 n 33 LEU 54 A ILE 55 n 34 ILE 55 A TYR 56 n 35 TYR 56 A ALA 57 n 36 ALA 57 A PHE 58 n 37 PHE 58 A ALA 59 n 38 ALA 59 A GLY 60 n 39 GLY 60 A MET 61 n 40 MET 61 A GLN 62 n 41 GLN 62 A ASN 63 n 42 ASN 63 A ASN 64 n 43 ASN 64 A GLU 65 n 44 GLU 65 A ILE 66 n 45 ILE 66 A THR 67 n 46 THR 67 A TYR 68 n 47 TYR 68 A THR 69 n 48 THR 69 A HIS 70 n 49 HIS 70 A GLU 71 n 50 GLU 71 A GLN 72 n 51 GLN 72 A ASP 73 n 52 ASP 73 A LEU 74 n 53 LEU 74 A ARG 75 n 54 ARG 75 A ASP 76 n 55 ASP 76 A TYR 77 n 56 TYR 77 A GLU 78 n 57 GLU 78 A ALA 79 n 58 ALA 79 A LEU 80 n 59 LEU 80 A ASN 81 n 60 ASN 81 A GLY 82 n 61 GLY 82 A LEU 83 n 62 LEU 83 A LYS 84 n 63 LYS 84 A ASP 85 n 64 ASP 85 A LYS 86 n 65 LYS 86 A ASN 87 n 66 ASN 87 A THR 88 n 67 THR 88 A GLU 89 n 68 GLU 89 A LEU 90 n 69 LEU 90 A LYS 91 n 70 LYS 91 A THR 92 n 71 THR 92 A LEU 93 n 72 LEU 93 A LEU 94 n 73 LEU 94 A ALA 95 n 74 ALA 95 A ILE 96 n 75 ILE 96 A GLY 97 n 76 GLY 97 A GLY 98 n 77 GLY 98 A TRP 99 n 78 TRP 99 A LYS 100 n 79 LYS 100 A PHE 101 n 80 PHE 101 A GLY 102 n 81 GLY 102 A PRO 103 n 82 PRO 103 A ALA 104 n 83 ALA 104 A PRO 105 n 84 PRO 105 A PHE 106 n 85 PHE 106 A SER 107 n 86 SER 107 A ALA 108 n 87 ALA 108 A MET 109 n 88 MET 109 A VAL 110 n 89 VAL 110 A SER 111 n 90 SER 111 A THR 112 n 91 THR 112 A PRO 113 n 92 PRO 113 A GLN 114 n 93 GLN 114 A ASN 115 n 94 ASN 115 A ARG 116 n 95 ARG 116 A GLN 117 n 96 GLN 117 A ILE 118 n 97 ILE 118 A PHE 119 n 98 PHE 119 A ILE 120 n 99 ILE 120 A GLN 121 n 100 GLN 121 A SER 122 n 101 SER 122 A VAL 123 n 102 VAL 123 A ILE 124 n 103 ILE 124 A ARG 125 n 104 ARG 125 A PHE 126 n 105 PHE 126 A LEU 127 n 106 LEU 127 A ARG 128 n 107 ARG 128 A GLN 129 n 108 GLN 129 A TYR 130 n 109 TYR 130 A ASN 131 n 110 ASN 131 A PHE 132 n 111 PHE 132 A ASP 133 n 112 ASP 133 A GLY 134 n 113 GLY 134 A LEU 135 n 114 LEU 135 A ASN 136 n 115 ASN 136 A LEU 137 n 116 LEU 137 A ASP 138 n 117 ASP 138 A TRP 139 n 118 TRP 139 A GLN 140 n 119 GLN 140 A TYR 141 n 120 TYR 141 A PRO 142 n 121 PRO 142 A GLY 143 n 122 GLY 143 A SER 144 n 123 SER 144 A ARG 145 n 124 ARG 145 A GLY 146 n 125 GLY 146 A SER 147 n 126 SER 147 A PRO 148 n 127 PRO 148 A PRO 149 n 128 PRO 149 A LYS 150 n 129 LYS 150 A ASP 151 n 130 ASP 151 A LYS 152 n 131 LYS 152 A HIS 153 n 132 HIS 153 A LEU 154 n 133 LEU 154 A PHE 155 n 134 PHE 155 A SER 156 n 135 SER 156 A VAL 157 n 136 VAL 157 A LEU 158 n 137 LEU 158 A VAL 159 n 138 VAL 159 A LYS 160 n 139 LYS 160 A GLU 161 n 140 GLU 161 A MET 162 n 141 MET 162 A ARG 163 n 142 ARG 163 A LYS 164 n 143 LYS 164 A ALA 165 n 144 ALA 165 A PHE 166 n 145 PHE 166 A GLU 167 n 146 GLU 167 A GLU 168 n 147 GLU 168 A GLU 169 n 148 GLU 169 A SER 170 n 149 SER 170 A VAL 171 n 150 VAL 171 A GLU 172 n 151 GLU 172 A LYS 173 n 152 LYS 173 A ASP 174 n 153 ASP 174 A ILE 175 n 154 ILE 175 A PRO 176 n 155 PRO 176 A ARG 177 n 156 ARG 177 A LEU 178 n 157 LEU 178 A LEU 179 n 158 LEU 179 A LEU 180 n 159 LEU 180 A THR 181 n 160 THR 181 A SER 182 n 161 SER 182 A THR 183 n 162 THR 183 A GLY 184 n 163 GLY 184 A ALA 185 n 164 ALA 185 A GLY 186 n 165 GLY 186 A ILE 187 n 166 ILE 187 A ILE 188 n 167 ILE 188 A ASP 189 n 168 ASP 189 A VAL 190 n 169 VAL 190 A ILE 191 n 170 ILE 191 A LYS 192 n 171 LYS 192 A SER 193 n 172 SER 193 A GLY 194 n 173 GLY 194 A TYR 195 n 174 TYR 195 A LYS 196 n 175 LYS 196 A ILE 197 n 176 ILE 197 A PRO 198 n 177 PRO 198 A GLU 199 n 178 GLU 199 A LEU 200 n 179 LEU 200 A SER 201 n 180 SER 201 A GLN 202 n 181 GLN 202 A SER 203 n 182 SER 203 A LEU 204 n 183 LEU 204 A ASP 205 n 184 ASP 205 A TYR 206 n 185 TYR 206 A ILE 207 n 186 ILE 207 A GLN 208 n 187 GLN 208 A VAL 209 n 188 VAL 209 A MET 210 n 189 MET 210 A THR 211 n 190 THR 211 A TYR 212 n 191 TYR 212 A ASP 213 n 192 ASP 213 A LEU 214 n 193 LEU 214 A HIS 215 n 194 HIS 215 A ASP 216 n 195 ASP 216 A PRO 217 n 196 PRO 217 A LYS 218 n 197 LYS 218 A ASP 219 n 198 ASP 219 A GLY 220 n 199 GLY 220 A TYR 221 n 200 TYR 221 A THR 222 n 201 THR 222 A GLY 223 n 202 GLY 223 A GLU 224 n 203 GLU 224 A ASN 225 n 204 ASN 225 A SER 226 n 205 SER 226 A PRO 227 n 206 PRO 227 A LEU 228 n 207 LEU 228 A TYR 229 n 208 TYR 229 A LYS 230 n 209 LYS 230 A SER 231 n 210 SER 231 A PRO 232 n 211 PRO 232 A TYR 233 n 212 TYR 233 A ASP 234 n 213 ASP 234 A ILE 235 n 214 ILE 235 A GLY 236 n 215 GLY 236 A LYS 237 n 216 LYS 237 A SER 238 n 217 SER 238 A ALA 239 n 218 ALA 239 A ASP 240 n 219 ASP 240 A LEU 241 n 220 LEU 241 A ASN 242 n 221 ASN 242 A VAL 243 n 222 VAL 243 A ASP 244 n 223 ASP 244 A SER 245 n 224 SER 245 A ILE 246 n 225 ILE 246 A ILE 247 n 226 ILE 247 A SER 248 n 227 SER 248 A TYR 249 n 228 TYR 249 A TRP 250 n 229 TRP 250 A LYS 251 n 230 LYS 251 A ASP 252 n 231 ASP 252 A HIS 253 n 232 HIS 253 A GLY 254 n 233 GLY 254 A ALA 255 n 234 ALA 255 A ALA 256 n 235 ALA 256 A SER 257 n 236 SER 257 A GLU 258 n 237 GLU 258 A LYS 259 n 238 LYS 259 A LEU 260 n 239 LEU 260 A ILE 261 n 240 ILE 261 A VAL 262 n 241 VAL 262 A GLY 263 n 242 GLY 263 A PHE 264 n 243 PHE 264 A PRO 265 n 244 PRO 265 A ALA 266 n 245 ALA 266 A TYR 267 n 246 TYR 267 A GLY 268 n 247 GLY 268 A HIS 269 n 248 HIS 269 A THR 270 n 249 THR 270 A PHE 271 n 250 PHE 271 A ILE 272 n 251 ILE 272 A LEU 273 n 252 LEU 273 A SER 274 n 253 SER 274 A ASP 275 n 254 ASP 275 A PRO 276 n 255 PRO 276 A SER 277 n 256 SER 277 A LYS 278 n 257 LYS 278 A THR 279 n 258 THR 279 A GLY 280 n 259 GLY 280 A ILE 281 n 260 ILE 281 A GLY 282 n 261 GLY 282 A ALA 283 n 262 ALA 283 A PRO 284 n 263 PRO 284 A THR 285 n 264 THR 285 A ILE 286 n 265 ILE 286 A SER 287 n 266 SER 287 A THR 288 n 267 THR 288 A GLY 289 n 268 GLY 289 A PRO 290 n 269 PRO 290 A PRO 291 n 270 PRO 291 A GLY 292 n 271 GLY 292 A LYS 293 n 272 LYS 293 A TYR 294 n 273 TYR 294 A THR 295 n 274 THR 295 A ASP 296 n 275 ASP 296 A GLU 297 n 276 GLU 297 A SER 298 n 277 SER 298 A GLY 299 n 278 GLY 299 A LEU 300 n 279 LEU 300 A LEU 301 n 280 LEU 301 A ALA 302 n 281 ALA 302 A TYR 303 n 282 TYR 303 A TYR 304 n 283 TYR 304 A GLU 305 n 284 GLU 305 A VAL 306 n 285 VAL 306 A CYS 307 n 286 CYS 307 A THR 308 n 287 THR 308 A PHE 309 n 288 PHE 309 A LEU 310 n 289 LEU 310 A ASN 311 n 290 ASN 311 A GLU 312 n 291 GLU 312 A GLY 313 n 292 GLY 313 A ALA 314 n 293 ALA 314 A THR 315 n 294 THR 315 A GLU 316 n 295 GLU 316 A VAL 317 n 296 VAL 317 A TRP 318 n 297 TRP 318 A ASP 319 n 298 ASP 319 A ALA 320 n 299 ALA 320 A PRO 321 n 300 PRO 321 A GLN 322 n 301 GLN 322 A GLU 323 n 302 GLU 323 A VAL 324 n 303 VAL 324 A PRO 325 n 304 PRO 325 A TYR 326 n 305 TYR 326 A ALA 327 n 306 ALA 327 A TYR 328 n 307 TYR 328 A GLN 329 n 308 GLN 329 A GLY 330 n 309 GLY 330 A ASN 331 n 310 ASN 331 A GLU 332 n 311 GLU 332 A TRP 333 n 312 TRP 333 A VAL 334 n 313 VAL 334 A GLY 335 n 314 GLY 335 A TYR 336 n 315 TYR 336 A ASP 337 n 316 ASP 337 A ASN 338 n 317 ASN 338 A VAL 339 n 318 VAL 339 A ARG 340 n 319 ARG 340 A SER 341 n 320 SER 341 A PHE 342 n 321 PHE 342 A LYS 343 n 322 LYS 343 A LEU 344 n 323 LEU 344 A LYS 345 n 324 LYS 345 A ALA 346 n 325 ALA 346 A GLN 347 n 326 GLN 347 A TRP 348 n 327 TRP 348 A LEU 349 n 328 LEU 349 A LYS 350 n 329 LYS 350 A ASP 351 n 330 ASP 351 A ASN 352 n 331 ASN 352 A ASN 353 n 332 ASN 353 A LEU 354 n 333 LEU 354 A GLY 355 n 334 GLY 355 A GLY 356 n 335 GLY 356 A ALA 357 n 336 ALA 357 A VAL 358 n 337 VAL 358 A VAL 359 n 338 VAL 359 A TRP 360 n 339 TRP 360 A PRO 361 n 340 PRO 361 A LEU 362 n 341 LEU 362 A ASP 363 n 342 ASP 363 A MET 364 n 343 MET 364 A ASP 365 n 344 ASP 365 A ASP 366 n 345 ASP 366 A PHE 367 n 346 PHE 367 A SER 368 n 347 SER 368 A GLY 369 n 348 GLY 369 A SER 370 n 349 SER 370 A PHE 371 n 350 PHE 371 A CYS 372 n 351 CYS 372 A HIS 373 n 352 HIS 373 A GLN 374 n 353 GLN 374 A ARG 375 n 354 ARG 375 A HIS 376 n 355 HIS 376 A PHE 377 n 356 PHE 377 A PRO 378 n 357 PRO 378 A LEU 379 n 358 LEU 379 A THR 380 n 359 THR 380 A SER 381 n 360 SER 381 A THR 382 n 361 THR 382 A LEU 383 n 362 LEU 383 A LYS 384 n 363 LYS 384 A GLY 385 n 364 GLY 385 A ASP 386 n 365 ASP 386 A LEU 387 n 366 LEU 387 A ASN 388 n 367 ASN 388 A ILE 389 n 368 ILE 389 A HIS 390 n 369 HIS 390 A SER 391 n 370 SER 391 A ALA 392 n 371 ALA 392 A SER 393 n 372 SER 393 A n 373 394 A n 374 395 A n 375 396 A n 376 397 A n 377 398 A software_defined_assembly PQS 1 monomeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A N MET 25 A N MET 4 A O ALA 357 A O ALA 336 A N GLY 356 A N GLY 335 A O LEU 260 A O LEU 239 A N ILE 261 A N ILE 240 A O ILE 207 A O ILE 186 A N GLN 208 A N GLN 187 A O SER 182 A O SER 161 A N THR 181 A N THR 160 A O LEU 135 A O LEU 114 A N ASN 136 A N ASN 115 A O LEU 94 A O LEU 73 A N LEU 93 A N LEU 72 A O LEU 54 A O LEU 33 A N ILE 286 A N ILE 265 A O ILE 272 A O ILE 251 A N GLY 268 A N GLY 247 A O LEU 301 A O LEU 280 A N ILE 286 A N ILE 265 A O ILE 272 A O ILE 251 A N PHE 271 A N PHE 250 A O TRP 333 A O TRP 312 A N VAL 334 A N VAL 313 A O ALA 327 A O ALA 306 A N TYR 328 A N TYR 307 A O THR 315 A O THR 294 1 A CG GLU 71 A CG GLU 50 1 Y 1 A CD GLU 71 A CD GLU 50 1 Y 1 A OE1 GLU 71 A OE1 GLU 50 1 Y 1 A OE2 GLU 71 A OE2 GLU 50 1 Y 1 A CG GLN 72 A CG GLN 51 1 Y 1 A CD GLN 72 A CD GLN 51 1 Y 1 A OE1 GLN 72 A OE1 GLN 51 1 Y 1 A NE2 GLN 72 A NE2 GLN 51 1 Y 1 A CYS 394 A CYS 373 1 Y 1 A LYS 395 A LYS 374 1 Y 1 A GLY 396 A GLY 375 1 Y 1 A PRO 397 A PRO 376 1 Y 1 A TYR 398 A TYR 377 1 Y 1 A A H1 H2 HOH HOH 2125 2211 1.31 1 A A H HD21 LYS ASN 42 45 1.34 1 A A H O GLN GLY 23 355 1.55 1 A A OH O4 TYR GCS 212 800 1.71 1 A A CH2 O3 TRP GCS 360 800 1.91 1 A A CZ3 O3 TRP GCS 360 800 2.00 1 9.73 1.50 119.30 129.03 A A A C N CA TYR PRO PRO 141 142 142 Y 1 -22.10 2.50 113.10 91.00 A A A N CA C GLY GLY GLY 355 355 355 N 1 A A N CA ASP ASP 138 138 -0.201 0.020 1.459 1.258 N 1 A ALA 57 -1.54 -97.75 1 A LYS 84 -64.26 4.17 1 A ALA 104 -28.74 -56.23 1 A GLN 140 -67.20 91.46 1 A TYR 141 69.89 96.12 1 A ASP 174 72.89 65.87 1 A PRO 217 -39.91 -20.75 1 A PRO 232 -58.91 -0.96 1 A ALA 266 -97.35 41.82 1 A ASP 296 21.87 88.02 1 A TYR 336 -135.90 -155.89 1 A ASN 338 -127.76 -166.58 1 A ASN 352 47.64 29.38 1 A ASN 353 -78.36 45.50 1 A LEU 354 -47.28 -171.50 1 A ASP 366 -67.29 75.82 1 A ARG 375 62.15 -175.49 1 A PHE 377 44.81 72.66 PARHCSDX.PRO TOPHCSDX.PRO 14.6 0.00 0.00 0.00 0.00 0.00 0.00 0.272 0.008 0.198 0.198 2.5 20.0 1154 11644 9.9 94.2 RANDOM 10000000.00 1 RESTRAINED THROUGHOUT 2.0 MIRAS 0.36 0.27 3.5 0.38 0.32 2.5 20.0 214 3170 12 0 2944 0.008 1.4 27.8 0.71 1.8 1.5 1.3 2.00 1.34 2.00 0.52 2.50 0.328 0.027 0.244 2.66 147 1568 6 8.6 89.4 21.2 2.500 20.000 1E9L 11644 2.000 0.03900 1 15.3000 3.690 94.2 0.21000 2.50 2.60 5.150 1 2.80 89.4 refinement X-PLOR 3.851 data reduction DENZO data scaling SCALEPACK phasing CCP4 YM1 SECRETORY PROTEIN The crystal structure of novel mammalian lectin Ym1 suggests a saccharide binding site 1 N N 2 N N 3 N N A THR 29 A THR 8 HELX_P A LYS 33 A LYS 12 5 1 5 A PRO 36 A PRO 15 HELX_P A SER 40 A SER 19 5 2 5 A LYS 42 A LYS 21 HELX_P A ILE 46 A ILE 25 5 3 5 A GLN 72 A GLN 51 HELX_P A GLY 82 A GLY 61 1 4 11 A LEU 83 A LEU 62 HELX_P A LYS 86 A LYS 65 5 5 4 A PRO 103 A PRO 82 HELX_P A SER 111 A SER 90 1 6 9 A THR 112 A THR 91 HELX_P A TYR 130 A TYR 109 1 7 19 A PRO 149 A PRO 128 HELX_P A LYS 173 A LYS 152 1 8 25 A ILE 187 A ILE 166 HELX_P A TYR 195 A TYR 174 1 9 9 A LYS 196 A LYS 175 HELX_P A LEU 204 A LEU 183 1 10 9 A ASP 216 A ASP 195 HELX_P A GLY 220 A GLY 199 5 11 5 A ILE 235 A ILE 214 HELX_P A LEU 241 A LEU 220 5 12 7 A ASN 242 A ASN 221 HELX_P A HIS 253 A HIS 232 1 13 12 A ALA 256 A ALA 235 HELX_P A GLU 258 A GLU 237 5 14 3 A TYR 303 A TYR 282 HELX_P A GLU 312 A GLU 291 1 15 10 A ASN 338 A ASN 317 HELX_P A LEU 349 A LEU 328 1 16 12 A PRO 361 A PRO 340 HELX_P A ASP 365 A ASP 344 5 17 5 A PHE 377 A PHE 356 HELX_P A LEU 387 A LEU 366 1 18 11 disulf 2.021 A CYS 26 A SG CYS 5 1_555 A CYS 51 A SG CYS 30 1_555 disulf 2.024 A CYS 307 A SG CYS 286 1_555 A CYS 372 A SG CYS 351 1_555 MACROPHAGE SECRETORY PROTEIN MACROPHAGE SECRETORY PROTEIN, INFLAMMATION, LECTIN, INDUCIBLE, SECRETORY A TRP 360 A TRP 339 1 A PRO 361 A PRO 340 -0.21 O35744 UNP 1 O35744 22 399 1E9L 22 398 O35744 A 1 1 377 8 3 5 parallel parallel parallel parallel parallel parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A GLN 23 A GLN 2 A TYR 28 A TYR 7 A GLY 356 A GLY 335 A TRP 360 A TRP 339 A LEU 260 A LEU 239 A PRO 265 A PRO 244 A TYR 206 A TYR 185 A VAL 209 A VAL 188 A LEU 179 A LEU 158 A GLY 184 A GLY 163 A GLY 134 A GLY 113 A TRP 139 A TRP 118 A LYS 91 A LYS 70 A GLY 98 A GLY 77 A HIS 53 A HIS 32 A MET 61 A MET 40 A THR 285 A THR 264 A THR 288 A THR 267 A TYR 267 A TYR 246 A LEU 273 A LEU 252 A LEU 300 A LEU 279 A ALA 302 A ALA 281 A THR 285 A THR 264 A THR 288 A THR 267 A TYR 267 A TYR 246 A LEU 273 A LEU 252 A GLU 332 A GLU 311 A GLY 335 A GLY 314 A VAL 324 A VAL 303 A GLN 329 A GLN 308 A THR 315 A THR 294 A ASP 319 A ASP 298 4 P 1 21 1