Structure of PDB 4a0h Chain B Binding Site BS06

Receptor Information
>4a0h Chain B (length=738) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PFHLPLNHPTYLIWSANTSLGKTLVSTGIAASFLLQQSATKLLYLKPIQT
GFPSDSDSRFVFSKLDSLSLRRQIPISISNSVLHSSLPAAKSLGGMCSLN
FRDEKTVTGAPELLCKTLYAWEAAISPHLAAERENATVEDSVVLQMIEKC
LKEEMDLLCLVETAGGVASPGPSGTLQCDLYRPFRLPGILVGDGRLGGIS
GTIAAYESLKLRGYDIAAVVFEDHGLVNEVPLTSYLRNKVPVLVLPPVPK
DPSDDLIEWFVESDGVFKALKETMVLANLERLERLNGMAKLAGEVFWWPF
TQHKLVHQETVTVIDSRCGENFSIYKASDNSSLSQQFDACASWWTQGPDP
TFQAELAREMGYTAARFGHVMFPENVYEPALKCAELLLDGVGKGWASRVY
FSDNGSTAIEIALKMAFRKFCVDHNFIVVKVIALRGSYHGDTLGAMEAQA
PSPYTGFLQQPWYTGRGLFLDPPTVFLSNGSWNISLPTFTSRDEIFDKSR
DASTLARIYSAYLSKHLQAHVGALIIEPVIHGAGGMHMVDPLFQRVLVNE
CRNRKIPVIFDEVFTGFWRLGVETTTELLGCKPDIACFAKLLTGGMVPLA
VTLATDAVFDSFSGDSKLKALLHGHSYSAHAMGCATAAKAIQWFKDPETN
HNITSQGKTLRELWDEELVQQISSHSAVQRVVVIGTLFALELSLLIMLRE
DGIFTRPLGNVIYLMCGPCTSPEICRRLLTKLYKRLGE
Ligand information
Ligand IDKAP
InChIInChI=1S/C9H17NO3/c1-7(10)8(11)5-3-2-4-6-9(12)13/h7H,2-6,10H2,1H3,(H,12,13)/t7-/m0/s1
InChIKeyGUAHPAJOXVYFON-ZETCQYMHSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04O=C(CCCCCC(=O)O)C(N)C
OpenEye OEToolkits 1.5.0C[C@@H](C(=O)CCCCCC(=O)O)N
OpenEye OEToolkits 1.5.0CC(C(=O)CCCCCC(=O)O)N
CACTVS 3.341C[CH](N)C(=O)CCCCCC(O)=O
CACTVS 3.341C[C@H](N)C(=O)CCCCCC(O)=O
FormulaC9 H17 N O3
Name7-KETO-8-AMINOPELARGONIC ACID
ChEMBL
DrugBankDB02274
ZINCZINC000001532843
PDB chain4a0h Chain B Residue 1809 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB4a0h Biochemical and Structural Characterization of the Arabidopsis Bifunctional Enzyme Dethiobiotin Synthetase-Diaminopelargonic Acid Aminotransferase: Evidence for Substrate Channeling in Biotin Synthesis.
Resolution2.808 Å
Binding residue
(original residue number in PDB)		L222 G223 I225
Binding residue
(residue number reindexed from 1)		L196 G197 I199
Annotation score5
Enzymatic activity
Catalytic site (original residue number in PDB) F326 Y473 D615 K644
Catalytic site (residue number reindexed from 1) F300 Y438 D561 K590
Enzyme Commision number 2.6.1.62: adenosylmethionine--8-amino-7-oxononanoate transaminase.
6.3.3.3: dethiobiotin synthase.
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0004015 adenosylmethionine-8-amino-7-oxononanoate transaminase activity
GO:0004141 dethiobiotin synthase activity
GO:0005524 ATP binding
GO:0008483 transaminase activity
GO:0016874 ligase activity
GO:0030170 pyridoxal phosphate binding
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding
Biological Process
GO:0009102 biotin biosynthetic process
Cellular Component
GO:0005739 mitochondrion
GO:0005759 mitochondrial matrix

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4a0h, PDBe:4a0h, PDBj:4a0h
PDBsum4a0h
PubMed22547782
UniProtB0F481|BIODA_ARATH Bifunctional dethiobiotin synthetase/7,8-diamino-pelargonic acid aminotransferase, mitochondrial (Gene Name=BIO3-BIO1)

[Back to BioLiP]