1QXD
Structural Basis for the Potent Antisickling Effect of a Novel Class of 5-Membered Heterocyclic Aldehydic Compounds
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004601 | molecular_function | peroxidase activity |
| A | 0005344 | molecular_function | oxygen carrier activity |
| A | 0005506 | molecular_function | iron ion binding |
| A | 0005515 | molecular_function | protein binding |
| A | 0005576 | cellular_component | extracellular region |
| A | 0005615 | cellular_component | extracellular space |
| A | 0005829 | cellular_component | cytosol |
| A | 0005833 | cellular_component | hemoglobin complex |
| A | 0015670 | biological_process | carbon dioxide transport |
| A | 0015671 | biological_process | oxygen transport |
| A | 0016020 | cellular_component | membrane |
| A | 0019825 | molecular_function | oxygen binding |
| A | 0020037 | molecular_function | heme binding |
| A | 0030185 | biological_process | nitric oxide transport |
| A | 0031720 | molecular_function | haptoglobin binding |
| A | 0031838 | cellular_component | haptoglobin-hemoglobin complex |
| A | 0042542 | biological_process | response to hydrogen peroxide |
| A | 0042744 | biological_process | hydrogen peroxide catabolic process |
| A | 0043177 | molecular_function | organic acid binding |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0070062 | cellular_component | extracellular exosome |
| A | 0071682 | cellular_component | endocytic vesicle lumen |
| A | 0072562 | cellular_component | blood microparticle |
| A | 0098869 | biological_process | cellular oxidant detoxification |
| B | 0004601 | molecular_function | peroxidase activity |
| B | 0005344 | molecular_function | oxygen carrier activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005576 | cellular_component | extracellular region |
| B | 0005615 | cellular_component | extracellular space |
| B | 0005829 | cellular_component | cytosol |
| B | 0005833 | cellular_component | hemoglobin complex |
| B | 0008217 | biological_process | regulation of blood pressure |
| B | 0015670 | biological_process | carbon dioxide transport |
| B | 0015671 | biological_process | oxygen transport |
| B | 0019825 | molecular_function | oxygen binding |
| B | 0020037 | molecular_function | heme binding |
| B | 0030185 | biological_process | nitric oxide transport |
| B | 0030492 | molecular_function | hemoglobin binding |
| B | 0031720 | molecular_function | haptoglobin binding |
| B | 0031721 | molecular_function | hemoglobin alpha binding |
| B | 0031838 | cellular_component | haptoglobin-hemoglobin complex |
| B | 0042542 | biological_process | response to hydrogen peroxide |
| B | 0042744 | biological_process | hydrogen peroxide catabolic process |
| B | 0043177 | molecular_function | organic acid binding |
| B | 0045429 | biological_process | positive regulation of nitric oxide biosynthetic process |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0070062 | cellular_component | extracellular exosome |
| B | 0070293 | biological_process | renal absorption |
| B | 0070527 | biological_process | platelet aggregation |
| B | 0071682 | cellular_component | endocytic vesicle lumen |
| B | 0072562 | cellular_component | blood microparticle |
| B | 0097746 | biological_process | blood vessel diameter maintenance |
| B | 0098869 | biological_process | cellular oxidant detoxification |
| B | 1904724 | cellular_component | tertiary granule lumen |
| B | 1904813 | cellular_component | ficolin-1-rich granule lumen |
| C | 0004601 | molecular_function | peroxidase activity |
| C | 0005344 | molecular_function | oxygen carrier activity |
| C | 0005506 | molecular_function | iron ion binding |
| C | 0005515 | molecular_function | protein binding |
| C | 0005576 | cellular_component | extracellular region |
| C | 0005615 | cellular_component | extracellular space |
| C | 0005829 | cellular_component | cytosol |
| C | 0005833 | cellular_component | hemoglobin complex |
| C | 0015670 | biological_process | carbon dioxide transport |
| C | 0015671 | biological_process | oxygen transport |
| C | 0016020 | cellular_component | membrane |
| C | 0019825 | molecular_function | oxygen binding |
| C | 0020037 | molecular_function | heme binding |
| C | 0030185 | biological_process | nitric oxide transport |
| C | 0031720 | molecular_function | haptoglobin binding |
| C | 0031838 | cellular_component | haptoglobin-hemoglobin complex |
| C | 0042542 | biological_process | response to hydrogen peroxide |
| C | 0042744 | biological_process | hydrogen peroxide catabolic process |
| C | 0043177 | molecular_function | organic acid binding |
| C | 0046872 | molecular_function | metal ion binding |
| C | 0070062 | cellular_component | extracellular exosome |
| C | 0071682 | cellular_component | endocytic vesicle lumen |
| C | 0072562 | cellular_component | blood microparticle |
| C | 0098869 | biological_process | cellular oxidant detoxification |
| D | 0004601 | molecular_function | peroxidase activity |
| D | 0005344 | molecular_function | oxygen carrier activity |
| D | 0005515 | molecular_function | protein binding |
| D | 0005576 | cellular_component | extracellular region |
| D | 0005615 | cellular_component | extracellular space |
| D | 0005829 | cellular_component | cytosol |
| D | 0005833 | cellular_component | hemoglobin complex |
| D | 0008217 | biological_process | regulation of blood pressure |
| D | 0015670 | biological_process | carbon dioxide transport |
| D | 0015671 | biological_process | oxygen transport |
| D | 0019825 | molecular_function | oxygen binding |
| D | 0020037 | molecular_function | heme binding |
| D | 0030185 | biological_process | nitric oxide transport |
| D | 0030492 | molecular_function | hemoglobin binding |
| D | 0031720 | molecular_function | haptoglobin binding |
| D | 0031721 | molecular_function | hemoglobin alpha binding |
| D | 0031838 | cellular_component | haptoglobin-hemoglobin complex |
| D | 0042542 | biological_process | response to hydrogen peroxide |
| D | 0042744 | biological_process | hydrogen peroxide catabolic process |
| D | 0043177 | molecular_function | organic acid binding |
| D | 0045429 | biological_process | positive regulation of nitric oxide biosynthetic process |
| D | 0046872 | molecular_function | metal ion binding |
| D | 0070062 | cellular_component | extracellular exosome |
| D | 0070293 | biological_process | renal absorption |
| D | 0070527 | biological_process | platelet aggregation |
| D | 0071682 | cellular_component | endocytic vesicle lumen |
| D | 0072562 | cellular_component | blood microparticle |
| D | 0097746 | biological_process | blood vessel diameter maintenance |
| D | 0098869 | biological_process | cellular oxidant detoxification |
| D | 1904724 | cellular_component | tertiary granule lumen |
| D | 1904813 | cellular_component | ficolin-1-rich granule lumen |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE SO4 B 1001 |
| Chain | Residue |
| A | HOH9034 |
| B | HIS143 |
| D | HIS143 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SO4 B 1003 |
| Chain | Residue |
| B | VAL1 |
| B | ASP79 |
| B | ASN80 |
| B | LEU81 |
| B | LYS82 |
| site_id | AC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SO4 D 1005 |
| Chain | Residue |
| D | LEU78 |
| D | LEU81 |
| D | LYS82 |
| D | HOH9165 |
| D | VAL1 |
| site_id | AC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SO4 A 1007 |
| Chain | Residue |
| A | HIS20 |
| A | TYR24 |
| A | HIS112 |
| A | HOH9006 |
| A | HOH9061 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SO4 C 1009 |
| Chain | Residue |
| C | LYS16 |
| C | HIS20 |
| C | LEU113 |
| D | THR50 |
| D | ASP52 |
| site_id | AC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SO4 B 1011 |
| Chain | Residue |
| B | ARG104 |
| B | HIS146 |
| B | HOH5208 |
| B | HOH5214 |
| D | ARG104 |
| site_id | AC7 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE SO4 C 1013 |
| Chain | Residue |
| C | HIS89 |
| C | LYS90 |
| D | PHE45 |
| D | GLY46 |
| D | ASP47 |
| D | ASN57 |
| D | LYS120 |
| D | HOH9200 |
| site_id | AC8 |
| Number of Residues | 20 |
| Details | BINDING SITE FOR RESIDUE HEM A 143 |
| Chain | Residue |
| A | TYR42 |
| A | PHE43 |
| A | HIS45 |
| A | PHE46 |
| A | HIS58 |
| A | LYS61 |
| A | LEU66 |
| A | LEU83 |
| A | LEU86 |
| A | HIS87 |
| A | LEU91 |
| A | VAL93 |
| A | ASN97 |
| A | PHE98 |
| A | LEU101 |
| A | LEU136 |
| A | HOH9002 |
| A | HOH9051 |
| A | HOH9070 |
| B | LYS95 |
| site_id | AC9 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE HEM B 148 |
| Chain | Residue |
| A | LYS90 |
| B | THR38 |
| B | PHE41 |
| B | PHE42 |
| B | HIS63 |
| B | LYS66 |
| B | PHE71 |
| B | LEU91 |
| B | HIS92 |
| B | LEU96 |
| B | VAL98 |
| B | ASN102 |
| B | PHE103 |
| B | LEU106 |
| B | LEU141 |
| B | HOH5147 |
| B | HOH5209 |
| site_id | BC1 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE HEM C 143 |
| Chain | Residue |
| C | TYR42 |
| C | PHE43 |
| C | PHE46 |
| C | HIS58 |
| C | LYS61 |
| C | LEU83 |
| C | LEU86 |
| C | HIS87 |
| C | LEU91 |
| C | VAL93 |
| C | ASN97 |
| C | PHE98 |
| C | VAL132 |
| C | LEU136 |
| C | HOH9142 |
| C | HOH9160 |
| C | HOH9168 |
| site_id | BC2 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE HEM D 148 |
| Chain | Residue |
| D | LEU106 |
| D | VAL137 |
| D | LEU141 |
| D | HOH9147 |
| D | HOH9204 |
| D | HOH9209 |
| D | THR38 |
| D | PHE41 |
| D | PHE42 |
| D | HIS63 |
| D | PHE71 |
| D | HIS92 |
| D | LEU96 |
| D | VAL98 |
| D | ASN102 |
| site_id | BC3 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE FU2 A 9001 |
| Chain | Residue |
| A | VAL1 |
| A | LEU2 |
| A | ALA130 |
| A | SER131 |
| A | THR134 |
| A | HOH9046 |
| C | THR134 |
| C | SER138 |
| site_id | BC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE FU2 C 9003 |
| Chain | Residue |
| A | THR134 |
| C | VAL1 |
| C | LYS127 |
| C | ALA130 |
| C | SER131 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 8 |
| Details | BINDING: |
| Chain | Residue | Details |
| B | HIS2 | |
| B | LEU3 | |
| B | GLY83 | |
| B | LYS144 | |
| D | HIS2 | |
| D | LEU3 | |
| D | GLY83 | |
| D | LYS144 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | BINDING: distal binding residue |
| Chain | Residue | Details |
| B | GLY64 | |
| D | GLY64 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | BINDING: proximal binding residue |
| Chain | Residue | Details |
| B | CYS93 | |
| A | ARG92 | |
| A | VAL107 | |
| A | LEU109 | |
| A | HIS122 | |
| A | THR134 | |
| C | ASN9 | |
| C | TRP14 | |
| C | GLY25 | |
| C | GLU30 | |
| C | PHE46 | |
| D | CYS93 | |
| C | LEU48 | |
| C | ALA53 | |
| C | LYS56 | |
| C | LYS60 | |
| C | ARG92 | |
| C | VAL107 | |
| C | LEU109 | |
| C | HIS122 | |
| C | THR134 | |
| A | GLY25 | |
| A | GLU30 | |
| A | PHE46 | |
| A | LEU48 | |
| A | ALA53 | |
| A | LYS56 | |
| A | LYS60 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 38 |
| Details | SITE: (Microbial infection) Cleavage; by N.americanus apr-2 => ECO:0000269|PubMed:12552433 |
| Chain | Residue | Details |
| B | LYS8 | |
| B | LEU75 | |
| B | PHE85 | |
| B | CYS93 | |
| B | LEU105 | |
| B | VAL111 | |
| B | LYS120 | |
| B | THR123 | |
| B | ALA129 | |
| B | LEU141 | |
| B | TYR145 | |
| B | GLU26 | |
| D | LYS8 | |
| D | GLU26 | |
| D | ARG30 | |
| D | PRO36 | |
| D | THR38 | |
| D | GLY46 | |
| D | ALA53 | |
| D | ASN57 | |
| D | SER72 | |
| D | LEU75 | |
| B | ARG30 | |
| D | PHE85 | |
| D | CYS93 | |
| D | LEU105 | |
| D | VAL111 | |
| D | LYS120 | |
| D | THR123 | |
| D | ALA129 | |
| D | LEU141 | |
| D | TYR145 | |
| B | PRO36 | |
| B | THR38 | |
| B | GLY46 | |
| B | ALA53 | |
| B | ASN57 | |
| B | SER72 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 6 |
| Details | SITE: Not glycated => ECO:0000269|PubMed:7358733 |
| Chain | Residue | Details |
| B | VAL60 | |
| B | GLY83 | |
| B | LEU96 | |
| D | VAL60 | |
| D | GLY83 | |
| D | LEU96 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | MOD_RES: N-pyruvate 2-iminyl-valine; in Hb A1b |
| Chain | Residue | Details |
| B | HIS2 | |
| D | HIS2 | |
| A | THR41 | |
| C | THR8 | |
| C | VAL17 | |
| C | THR41 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 4 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:24275569 |
| Chain | Residue | Details |
| B | ALA10 | |
| B | PHE45 | |
| D | ALA10 | |
| D | PHE45 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 6 |
| Details | MOD_RES: Phosphothreonine => ECO:0007744|PubMed:24275569 |
| Chain | Residue | Details |
| B | ALA13 | |
| B | PRO51 | |
| B | LEU88 | |
| D | ALA13 | |
| D | PRO51 | |
| D | LEU88 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 4 |
| Details | MOD_RES: N6-acetyllysine => ECO:0000269|PubMed:4531009 |
| Chain | Residue | Details |
| B | VAL60 | |
| B | GLY83 | |
| D | VAL60 | |
| D | GLY83 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 2 |
| Details | MOD_RES: S-nitrosocysteine => ECO:0000269|PubMed:8637569, ECO:0000269|PubMed:9843411 |
| Chain | Residue | Details |
| B | ASP94 | |
| D | ASP94 | |
| A | VAL132 | |
| A | LYS139 | |
| C | HIS103 | |
| C | LEU125 | |
| C | VAL132 | |
| C | LYS139 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-acetyllysine; alternate => ECO:0000269|PubMed:4531009 |
| Chain | Residue | Details |
| B | TYR145 | |
| D | TYR145 | |
| A | SER138 | |
| C | LEU109 | |
| C | VAL135 | |
| C | SER138 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 2 |
| Details | CARBOHYD: N-linked (Glc) (glycation) valine; in Hb A1c => ECO:0000269|PubMed:635569 |
| Chain | Residue | Details |
| B | HIS2 | |
| D | HIS2 | |
| A | THR41 | |
| C | THR8 | |
| C | VAL17 | |
| C | THR41 |
| site_id | SWS_FT_FI13 |
| Number of Residues | 8 |
| Details | CARBOHYD: N-linked (Glc) (glycation) lysine => ECO:0000269|PubMed:7358733 |
| Chain | Residue | Details |
| B | SER9 | |
| B | VAL18 | |
| B | VAL67 | |
| B | GLU121 | |
| D | SER9 | |
| D | VAL18 | |
| D | VAL67 | |
| D | GLU121 |
| site_id | SWS_FT_FI14 |
| Number of Residues | 2 |
| Details | CARBOHYD: N-linked (Glc) (glycation) lysine; alternate => ECO:0000269|PubMed:7358733 |
| Chain | Residue | Details |
| B | TYR145 | |
| D | TYR145 |
