Target Binding Site Detail
| Target General Information | Top | ||||
|---|---|---|---|---|---|
| Target ID | T60366 | Target Info | |||
| Target Name | Ornithine decarboxylase (ODC1) | ||||
| Synonyms | ODC | ||||
| Target Type | Successful Target | ||||
| Gene Name | ODC1 | ||||
| Biochemical Class | Carbon-carbon lyase | ||||
| UniProt ID | |||||
| Ligand General Information | Top | ||||
|---|---|---|---|---|---|
| Ligand Name | Pyridoxal phosphate | Ligand Info | |||
| Canonical SMILES | CC1=NC=C(C(=C1O)C=O)COP(=O)(O)O | ||||
| InChI | 1S/C8H10NO6P/c1-5-8(11)7(3-10)6(2-9-5)4-15-16(12,13)14/h2-3,11H,4H2,1H3,(H2,12,13,14) | ||||
| InChIKey | NGVDGCNFYWLIFO-UHFFFAOYSA-N | ||||
| PubChem Compound ID | 1051 | ||||
| Drug Binding Sites of Target | Top | |||||
|---|---|---|---|---|---|---|
| PDB ID: 5BWA Crystal structure of ODC-PLP-AZ1 ternary complex | ||||||
| Method | X-ray diffraction | Resolution | 3.20 Å | Mutation | No | [1] |
| PDB Sequence |
TAKDILDQKI
28 NDAFYVADLG46 DILKKHLRWL56 KALPRVTPFY66 AVKCNDSKAI76 VKTLAATGTG 86 FDCASKTEIQ96 LVQSLGVPPE106 RIIYANPCKQ116 VSQIKYAANN126 GVQMMTFDSE 136 VELMKVARAH146 PKAKLVLRIA156 TDRLSVKFGA172 TLRTSRLLLE182 RAKELNIDVV 192 GVSFHVGSGC202 TDPETFVQAI212 SDARCVFDMG222 AEVGFSMYLL232 DIGGGFPGSE 242 DKFEEITGVI255 NPALDKYFPS265 RIIAEPGRYY279 VASAFTLAVN289 IIAKKIVLKE 299 QTSEQTFMYY317 VNDGVYGSFN327 CILYDHAHVK337 PLLQSSSIWG357 PTCDGLDRIV 367 ERCDLPEMHV377 GDWMLFENMG387 AYTVATFNGF400 QRPTIYYVMS410 |
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| PDB ID: 2OO0 A structural insight into the inhibition of human and Leishmania donovani ornithine decarboxylases by 3-aminooxy-1-aminopropane | ||||||
| Method | X-ray diffraction | Resolution | 1.90 Å | Mutation | No | [2] |
| PDB Sequence |
AGENLYFQSL
0 MNNFGNEEFD10 CHFLDEGFTA20 KDILDQKINE30 VSSSDDKDAF40 YVADLGDILK 50 KHLRWLKALP60 RVTPFYAVKC70 NDSKAIVKTL80 AATGTGFDCA90 SKTEIQLVQS 100 LGVPPERIIY110 ANPCKQVSQI120 KYAANNGVQM130 MTFDSEVELM140 KVARAHPKAK 150 LVLRIATDDS160 KAVCRLSVKF170 GATLRTSRLL180 LERAKELNID190 VVGVSFHVGS 200 GCTDPETFVQ210 AISDARCVFD220 MGAEVGFSMY230 LLDIGGGFPG240 SEDVKLKFEE 250 ITGVINPALD260 KYFPSDSGVR270 IIAEPGRYYV280 ASAFTLAVNI290 IAKKIVLEQT 313 FMYYVNDGVY323 GSFNCILYDH333 AHVKPLLQKR343 PKPDEKYYSS353 SIWGPTCDGL 363 DRIVERCDLP373 EMHVGDWMLF383 ENMGAYTVAA393 ASTFNGFQRP403 TIYYVMSGPA 413 WQLMQQFQN
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| PDB ID: 7U6U Structure of an intellectual disability-associated ornithine decarboxylase variant G84R in complex with PLP | ||||||
| Method | X-ray diffraction | Resolution | 1.85 Å | Mutation | Yes | [3] |
| PDB Sequence |
EEFDCHFLDE
16 GFTAKDILDQ26 KINEVSSSDD36 KDAFYVADLG46 DILKKHLRWL56 KALPRVTPFY 66 AVKCNDSKAI76 VKTLAATRTG86 FDCASKTEIQ96 LVQSLGVPPE106 RIIYANPCKQ 116 VSQIKYAANN126 GVQMMTFDSE136 VELMKVARAH146 PKAKLVLRIA156 TDDSKAVCRL 166 SVKFGATLRT176 SRLLLERAKE186 LNIDVVGVSF196 HVGSGCTDPE206 TFVQAISDAR 216 CVFDMGAEVG226 FSMYLLDIGG236 GFPGSEDVKL246 KFEEITGVIN256 PALDKYFPSD 266 SGVRIIAEPG276 RYYVASAFTL286 AVNIIAKKIV296 LEQTFMYYVN319 DGVYGSFNCI 329 LYDHAHVKPL339 LQKRPKPDEK349 YYSSSIWGPT359 CDGLDRIVER369 CDLPEMHVGD 379 WMLFENMGAY389 TVAAASTFNG399 FQRPTIYYVM409 SGPAWQLMQQ419 FQN |
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| PDB ID: 4ZGY STRUCTURE of HUMAN ORNITHINE DECARBOXYLASE IN COMPLEX WITH A C-TERMINAL FRAGMENT OF ANTIZYME | ||||||
| Method | X-ray diffraction | Resolution | 2.63 Å | Mutation | No | [4] |
| PDB Sequence |
TAKDILDQKI
28 NEKDAFYVAD44 LGDILKKHLR54 WLKALPRVTP64 FYAVKCNDSK74 AIVKTLAATG 84 TGFDCASKTE94 IQLVQSLGVP104 PERIIYANPC114 KQVSQIKYAA124 NNGVQMMTFD 134 SEVELMKVAR144 AHPKAKLVLR154 IATDDSCRLS167 VKFGATLRTS177 RLLLERAKEL 187 NIDVVGVSFH197 VGSGCTDPET207 FVQAISDARC217 VFDMGAEVGF227 SMYLLDIGGG 237 FPGSEDVKLK247 FEEITGVINP257 ALDKYFPSDS267 GVRIIAEPGR277 YYVASAFTLA 287 VNIIAKKIVL297 KEQTGSSEQT313 FMYYVNDGVY323 GSFNCILYDH333 AHVKPLLQKR 343 PEKYYSSSIW356 GPTCDGLDRI366 VERCDLPEMH376 VGDWMLFENM386 GAYTVASTFN 398 GFQRPTIYYV408 MSGPAWQLMQ418 QFQ
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Click to Show 3D Structure of This Binding Site
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| References | Top | ||||
|---|---|---|---|---|---|
| REF 1 | Structural basis of Ornithine Decarboxylase inactivation and accelerated degradation by polyamine sensor Antizyme1. Sci Rep. 2015 Oct 7;5:14738. | ||||
| REF 2 | A structural insight into the inhibition of human and Leishmania donovani ornithine decarboxylases by 1-amino-oxy-3-aminopropane. Biochem J. 2007 Jul 15;405(2):261-8. | ||||
| REF 3 | Structure and Enzymatic Activity of an Intellectual Disability-Associated Ornithine Decarboxylase Variant, G84R. ACS Omega. 2022 Sep 13;7(38):34665-34675. | ||||
| REF 4 | Structural basis of antizyme-mediated regulation of polyamine homeostasis. Proc Natl Acad Sci U S A. 2015 Sep 8;112(36):11229-34. | ||||
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