0.024789 0.000000 0.000000 0.000000 0.007815 0.000000 0.000000 0.000000 0.029656 0.00000 0.00000 0.00000 Andersen, J.F. Montfort, W.R. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 40.340 127.960 33.720 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 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 C34 H32 Fe N4 O4 616.487 PROTOPORPHYRIN IX CONTAINING FE HEME non-polymer 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 H3 N 17.031 AMMONIA non-polymer 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 275 30496 30503 10.1074/jbc.M002857200 10884386 The crystal structure of nitrophorin 2. A trifunctional antihemostatic protein from the saliva of Rhodnius prolixus 2000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 298 1 DIFFRACTOMETER 1998-10-30 ENRAF-NONIUS FAST SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE ENRAF-NONIUS 20080.391 NITROPHORIN 2 1 man polymer 616.487 PROTOPORPHYRIN IX CONTAINING FE 1 syn non-polymer 17.031 AMMONIA 1 syn non-polymer 18.015 water 80 nat water PROLIXIN-S no no MDCSTNISPKQGLDKAKYFSGKWYVTHFLDKDPQVTDQYCSSFTPRESDGTVKEALYHYNANKKTSFYNIGEGKLESSGL QYTAKYKTVDKKKAVLKEADEKNSYTLTVLEADDSSALVHICLREGSKDLGDLYTVLTHQKDAEPSAKVKSAVTQAGLQL SQFVGTKDLGCQYDDQFTSL MDCSTNISPKQGLDKAKYFSGKWYVTHFLDKDPQVTDQYCSSFTPRESDGTVKEALYHYNANKKTSFYNIGEGKLESSGL QYTAKYKTVDKKKAVLKEADEKNSYTLTVLEADDSSALVHICLREGSKDLGDLYTVLTHQKDAEPSAKVKSAVTQAGLQL SQFVGTKDLGCQYDDQFTSL 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 Rhodnius Escherichia sample SALIVARY GLAND CDNA 13249 SALIVARY GLAND Rhodnius prolixus 562 Escherichia coli PLASMID PET 17B 1 2.17 43.24 VAPOR DIFFUSION, HANGING DROP 7.7 ammonium phosphate, Tris-HCl, pH 7.7, VAPOR DIFFUSION, HANGING DROP, temperature 298K 298 software diffrn_detector repository Initial release Version format compliance Version format compliance Refinement description Data collection 1 0 2000-05-10 1 1 2008-04-27 1 2 2011-07-13 1 3 2017-10-04 1 4 2018-04-18 _software.name _diffrn_detector.detector Crystal structure of nitrophorin 1 Crystal structure of nitrophorin 4 RCSB Y RCSB 2000-04-17 REL REL HEM PROTOPORPHYRIN IX CONTAINING FE NH3 AMMONIA HOH water HEM 260 2 HEM HEM 260 A NH3 261 3 NH3 NH3 261 A HOH 180 4 HOH HOH 180 A HOH 181 4 HOH HOH 181 A HOH 182 4 HOH HOH 182 A HOH 183 4 HOH HOH 183 A HOH 184 4 HOH HOH 184 A HOH 185 4 HOH HOH 185 A HOH 186 4 HOH HOH 186 A HOH 187 4 HOH HOH 187 A HOH 188 4 HOH HOH 188 A HOH 189 4 HOH HOH 189 A HOH 190 4 HOH HOH 190 A HOH 191 4 HOH HOH 191 A HOH 192 4 HOH HOH 192 A HOH 193 4 HOH HOH 193 A HOH 194 4 HOH HOH 194 A HOH 195 4 HOH HOH 195 A HOH 196 4 HOH HOH 196 A HOH 197 4 HOH HOH 197 A HOH 198 4 HOH HOH 198 A HOH 199 4 HOH HOH 199 A HOH 200 4 HOH HOH 200 A HOH 201 4 HOH HOH 201 A HOH 202 4 HOH HOH 202 A HOH 203 4 HOH HOH 203 A HOH 204 4 HOH HOH 204 A HOH 205 4 HOH HOH 205 A HOH 206 4 HOH HOH 206 A HOH 207 4 HOH HOH 207 A HOH 208 4 HOH HOH 208 A HOH 209 4 HOH HOH 209 A HOH 210 4 HOH HOH 210 A HOH 211 4 HOH HOH 211 A HOH 212 4 HOH HOH 212 A HOH 213 4 HOH HOH 213 A HOH 214 4 HOH HOH 214 A HOH 215 4 HOH HOH 215 A HOH 216 4 HOH HOH 216 A HOH 217 4 HOH HOH 217 A HOH 218 4 HOH HOH 218 A HOH 219 4 HOH HOH 219 A HOH 220 4 HOH HOH 220 A HOH 221 4 HOH HOH 221 A HOH 222 4 HOH HOH 222 A HOH 223 4 HOH HOH 223 A HOH 224 4 HOH HOH 224 A HOH 225 4 HOH HOH 225 A HOH 226 4 HOH HOH 226 A HOH 227 4 HOH HOH 227 A HOH 228 4 HOH HOH 228 A HOH 229 4 HOH HOH 229 A HOH 230 4 HOH HOH 230 A HOH 231 4 HOH HOH 231 A HOH 232 4 HOH HOH 232 A HOH 233 4 HOH HOH 233 A HOH 234 4 HOH HOH 234 A HOH 235 4 HOH HOH 235 A HOH 236 4 HOH HOH 236 A HOH 237 4 HOH HOH 237 A HOH 238 4 HOH HOH 238 A HOH 239 4 HOH HOH 239 A HOH 240 4 HOH HOH 240 A HOH 241 4 HOH HOH 241 A HOH 242 4 HOH HOH 242 A HOH 243 4 HOH HOH 243 A HOH 244 4 HOH HOH 244 A HOH 245 4 HOH HOH 245 A HOH 246 4 HOH HOH 246 A HOH 247 4 HOH HOH 247 A HOH 248 4 HOH HOH 248 A HOH 249 4 HOH HOH 249 A HOH 250 4 HOH HOH 250 A HOH 251 4 HOH HOH 251 A HOH 252 4 HOH HOH 252 A HOH 253 4 HOH HOH 253 A HOH 254 4 HOH HOH 254 A HOH 255 4 HOH HOH 255 A HOH 256 4 HOH HOH 256 A HOH 257 4 HOH HOH 257 A HOH 258 4 HOH HOH 258 A HOH 259 4 HOH HOH 259 A MET 0 n 1 MET 0 A ASP 1 n 2 ASP 1 A CYS 2 n 3 CYS 2 A SER 3 n 4 SER 3 A THR 4 n 5 THR 4 A ASN 5 n 6 ASN 5 A ILE 6 n 7 ILE 6 A SER 7 n 8 SER 7 A PRO 8 n 9 PRO 8 A LYS 9 n 10 LYS 9 A GLN 10 n 11 GLN 10 A GLY 11 n 12 GLY 11 A LEU 12 n 13 LEU 12 A ASP 13 n 14 ASP 13 A LYS 14 n 15 LYS 14 A ALA 15 n 16 ALA 15 A LYS 16 n 17 LYS 16 A TYR 17 n 18 TYR 17 A PHE 18 n 19 PHE 18 A SER 19 n 20 SER 19 A GLY 20 n 21 GLY 20 A LYS 21 n 22 LYS 21 A TRP 22 n 23 TRP 22 A TYR 23 n 24 TYR 23 A VAL 24 n 25 VAL 24 A THR 25 n 26 THR 25 A HIS 26 n 27 HIS 26 A PHE 27 n 28 PHE 27 A LEU 28 n 29 LEU 28 A ASP 29 n 30 ASP 29 A LYS 30 n 31 LYS 30 A ASP 31 n 32 ASP 31 A PRO 32 n 33 PRO 32 A GLN 33 n 34 GLN 33 A VAL 34 n 35 VAL 34 A THR 35 n 36 THR 35 A ASP 36 n 37 ASP 36 A GLN 37 n 38 GLN 37 A TYR 38 n 39 TYR 38 A CYS 39 n 40 CYS 39 A SER 40 n 41 SER 40 A SER 41 n 42 SER 41 A PHE 42 n 43 PHE 42 A THR 43 n 44 THR 43 A PRO 44 n 45 PRO 44 A ARG 45 n 46 ARG 45 A GLU 46 n 47 GLU 46 A SER 47 n 48 SER 47 A ASP 48 n 49 ASP 48 A GLY 49 n 50 GLY 49 A THR 50 n 51 THR 50 A VAL 51 n 52 VAL 51 A LYS 52 n 53 LYS 52 A GLU 53 n 54 GLU 53 A ALA 54 n 55 ALA 54 A LEU 55 n 56 LEU 55 A TYR 56 n 57 TYR 56 A HIS 57 n 58 HIS 57 A TYR 58 n 59 TYR 58 A ASN 59 n 60 ASN 59 A ALA 60 n 61 ALA 60 A ASN 61 n 62 ASN 61 A LYS 62 n 63 LYS 62 A LYS 63 n 64 LYS 63 A THR 64 n 65 THR 64 A SER 65 n 66 SER 65 A PHE 66 n 67 PHE 66 A TYR 67 n 68 TYR 67 A ASN 68 n 69 ASN 68 A ILE 69 n 70 ILE 69 A GLY 70 n 71 GLY 70 A GLU 71 n 72 GLU 71 A GLY 72 n 73 GLY 72 A LYS 73 n 74 LYS 73 A LEU 74 n 75 LEU 74 A GLU 75 n 76 GLU 75 A SER 76 n 77 SER 76 A SER 77 n 78 SER 77 A GLY 78 n 79 GLY 78 A LEU 79 n 80 LEU 79 A GLN 80 n 81 GLN 80 A TYR 81 n 82 TYR 81 A THR 82 n 83 THR 82 A ALA 83 n 84 ALA 83 A LYS 84 n 85 LYS 84 A TYR 85 n 86 TYR 85 A LYS 86 n 87 LYS 86 A THR 87 n 88 THR 87 A VAL 88 n 89 VAL 88 A ASP 89 n 90 ASP 89 A LYS 90 n 91 LYS 90 A LYS 91 n 92 LYS 91 A LYS 92 n 93 LYS 92 A ALA 93 n 94 ALA 93 A VAL 94 n 95 VAL 94 A LEU 95 n 96 LEU 95 A LYS 96 n 97 LYS 96 A GLU 97 n 98 GLU 97 A ALA 98 n 99 ALA 98 A ASP 99 n 100 ASP 99 A GLU 100 n 101 GLU 100 A LYS 101 n 102 LYS 101 A ASN 102 n 103 ASN 102 A SER 103 n 104 SER 103 A TYR 104 n 105 TYR 104 A THR 105 n 106 THR 105 A LEU 106 n 107 LEU 106 A THR 107 n 108 THR 107 A VAL 108 n 109 VAL 108 A LEU 109 n 110 LEU 109 A GLU 110 n 111 GLU 110 A ALA 111 n 112 ALA 111 A ASP 112 n 113 ASP 112 A ASP 113 n 114 ASP 113 A SER 114 n 115 SER 114 A SER 115 n 116 SER 115 A ALA 116 n 117 ALA 116 A LEU 117 n 118 LEU 117 A VAL 118 n 119 VAL 118 A HIS 119 n 120 HIS 119 A ILE 120 n 121 ILE 120 A CYS 121 n 122 CYS 121 A LEU 122 n 123 LEU 122 A ARG 123 n 124 ARG 123 A GLU 124 n 125 GLU 124 A GLY 125 n 126 GLY 125 A SER 126 n 127 SER 126 A LYS 127 n 128 LYS 127 A ASP 128 n 129 ASP 128 A LEU 129 n 130 LEU 129 A GLY 130 n 131 GLY 130 A ASP 131 n 132 ASP 131 A LEU 132 n 133 LEU 132 A TYR 133 n 134 TYR 133 A THR 134 n 135 THR 134 A VAL 135 n 136 VAL 135 A LEU 136 n 137 LEU 136 A THR 137 n 138 THR 137 A HIS 138 n 139 HIS 138 A GLN 139 n 140 GLN 139 A LYS 140 n 141 LYS 140 A ASP 141 n 142 ASP 141 A ALA 142 n 143 ALA 142 A GLU 143 n 144 GLU 143 A PRO 144 n 145 PRO 144 A SER 145 n 146 SER 145 A ALA 146 n 147 ALA 146 A LYS 147 n 148 LYS 147 A VAL 148 n 149 VAL 148 A LYS 149 n 150 LYS 149 A SER 150 n 151 SER 150 A ALA 151 n 152 ALA 151 A VAL 152 n 153 VAL 152 A THR 153 n 154 THR 153 A GLN 154 n 155 GLN 154 A ALA 155 n 156 ALA 155 A GLY 156 n 157 GLY 156 A LEU 157 n 158 LEU 157 A GLN 158 n 159 GLN 158 A LEU 159 n 160 LEU 159 A SER 160 n 161 SER 160 A GLN 161 n 162 GLN 161 A PHE 162 n 163 PHE 162 A VAL 163 n 164 VAL 163 A GLY 164 n 165 GLY 164 A THR 165 n 166 THR 165 A LYS 166 n 167 LYS 166 A ASP 167 n 168 ASP 167 A LEU 168 n 169 LEU 168 A GLY 169 n 170 GLY 169 A CYS 170 n 171 CYS 170 A GLN 171 n 172 GLN 171 A TYR 172 n 173 TYR 172 A ASP 173 n 174 ASP 173 A ASP 174 n 175 ASP 174 A GLN 175 n 176 GLN 175 A PHE 176 n 177 PHE 176 A THR 177 n 178 THR 177 A SER 178 n 179 SER 178 A LEU 179 n 180 LEU 179 A author_defined_assembly 1 monomeric A HIS 57 A NE2 HIS 58 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B NA HEM 1_555 96.5 A HIS 57 A NE2 HIS 58 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B NB HEM 1_555 91.9 A HEM 260 B NA HEM 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B NB HEM 1_555 89.0 A HIS 57 A NE2 HIS 58 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B NC HEM 1_555 85.5 A HEM 260 B NA HEM 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B NC HEM 1_555 178.0 A HEM 260 B NB HEM 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B NC HEM 1_555 90.8 A HIS 57 A NE2 HIS 58 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B ND HEM 1_555 88.0 A HEM 260 B NA HEM 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B ND HEM 1_555 89.5 A HEM 260 B NB HEM 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B ND HEM 1_555 178.5 A HEM 260 B NC HEM 1_555 A HEM 260 B FE HEM 1_555 A HEM 260 B ND HEM 1_555 90.7 A HIS 57 A NE2 HIS 58 1_555 A HEM 260 B FE HEM 1_555 A NH3 261 C N NH3 1_555 173.0 A HEM 260 B NA HEM 1_555 A HEM 260 B FE HEM 1_555 A NH3 261 C N NH3 1_555 90.4 A HEM 260 B NB HEM 1_555 A HEM 260 B FE HEM 1_555 A NH3 261 C N NH3 1_555 87.3 A HEM 260 B NC HEM 1_555 A HEM 260 B FE HEM 1_555 A NH3 261 C N NH3 1_555 87.5 A HEM 260 B ND HEM 1_555 A HEM 260 B FE HEM 1_555 A NH3 261 C N NH3 1_555 93.0 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 THR 25 A N THR 26 A O VAL 135 A O VAL 136 A O LEU 132 A O LEU 133 A N ILE 120 A N ILE 121 A N HIS 119 A N HIS 120 A O THR 107 A O THR 108 A O TYR 104 A O TYR 105 A N ALA 83 A N ALA 84 A N LYS 86 A N LYS 87 A O ILE 69 A O ILE 70 A O ASN 68 A O ASN 69 A N LEU 55 A N LEU 56 A O LYS 52 A O LYS 53 A N ARG 45 A N ARG 46 A O SER 40 A O SER 41 A N VAL 24 A N VAL 25 1 A HOH 259 D HOH 1 A ASN 5 -99.15 42.67 1 A THR 35 -122.18 -50.42 1 A SER 77 -51.18 -75.64 1 A ASP 112 -126.35 -160.82 1 A GLU 124 -116.23 74.26 Used simulated annealing and maximum likelihood procedures. 0.246 0.195 0.197 0.197 2.0 9.2 599 11592 11592 94.3 Random 1 0 0 Engh & Huber 2.0 9.2 80 1535 44 0 1411 0.007 1.27 10.2 2.0 9.2 1EUO 12186 12186 0 0 0.106 1 4.5 4.2 96.9 0.35 2.00 2.10 187 3.2 90.3 data collection MADNESS data scaling SCALA model building X-PLOR refinement CNS data reduction MADNESS data scaling CCP4 (SCALA) phasing X-PLOR NITROPHORIN 2 Crystal structure of nitrophorin 2 (prolixin-S) 1 N N 2 N N 3 N N 4 N N The biological assembly is a monomer containing a single heme prosthetic group. His 57 forms the proximal heme ligand, and NH3 forms the distal ligand. A ASP 13 A ASP 14 HELX_P A PHE 18 A PHE 19 1 1 6 A SER 145 A SER 146 HELX_P A ALA 155 A ALA 156 1 2 11 A GLN 158 A GLN 159 HELX_P A PHE 162 A PHE 163 5 3 5 A ASP 174 A ASP 175 HELX_P A SER 178 A SER 179 1 4 5 disulf 2.033 A CYS 2 A SG CYS 3 1_555 A CYS 121 A SG CYS 122 1_555 disulf 2.022 A CYS 39 A SG CYS 40 1_555 A CYS 170 A SG CYS 171 1_555 metalc 2.007 A HIS 57 A NE2 HIS 58 1_555 A HEM 260 B FE HEM 1_555 metalc 2.104 A NH3 261 C N NH3 1_555 A HEM 260 B FE HEM 1_555 SIGNALING PROTEIN beta barrel, lipocalin, heme, SIGNALING PROTEIN NP2_RHOPR UNP 1 24 Q26241 DCSTNISPKQGLDKAKYFSGKWYVTHFLDKDPQVTDQYCSSFTPRESDGTVKEALYHYNANKKTSFYNIGEGKLESSGLQ YTAKYKTVDKKKAVLKEADEKNSYTLTVLEADDSSALVHICLREGSKDLGDLYTVLTHQKDAEPSAKVKSAVTQAGLQLS QFVGTKDLGCQYDDQFTSL 24 202 1EUO 1 179 Q26241 A 1 2 180 1 CLONING ARTIFACT MET 0 1EUO A Q26241 UNP 1 9 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A LYS 21 A LYS 22 A ASP 29 A ASP 30 A LYS 127 A LYS 128 A THR 137 A THR 138 A SER 115 A SER 116 A GLU 124 A GLU 125 A ASN 102 A ASN 103 A ALA 111 A ALA 112 A GLN 80 A GLN 81 A VAL 88 A VAL 89 A SER 65 A SER 66 A LEU 74 A LEU 75 A THR 50 A THR 51 A ASN 59 A ASN 60 A TYR 38 A TYR 39 A SER 47 A SER 48 A LYS 21 A LYS 22 A ASP 29 A ASP 30 BINDING SITE FOR RESIDUE HEM A 260 Software 14 BINDING SITE FOR RESIDUE NH3 A 261 Software 2 A VAL 24 A VAL 25 14 1_555 A PHE 27 A PHE 28 14 1_555 A TYR 38 A TYR 39 14 1_555 A SER 40 A SER 41 14 1_555 A GLU 53 A GLU 54 14 1_555 A LEU 55 A LEU 56 14 1_555 A HIS 57 A HIS 58 14 1_555 A ASN 68 A ASN 69 14 1_555 A TYR 85 A TYR 86 14 1_555 A THR 87 A THR 88 14 1_555 A TYR 104 A TYR 105 14 1_555 A LEU 132 A LEU 133 14 1_555 A HOH 244 D HOH 14 1_555 A NH3 261 C NH3 14 1_555 A LEU 132 A LEU 133 2 1_555 A HEM 260 B HEM 2 1_555 18 P 21 21 2