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6IMC

Crystal Structure of ALKBH1 in complex with Mn(II) and N-Oxalylglycine

Functional Information from GO Data
ChainGOidnamespacecontents
A0000049molecular_functiontRNA binding
A0000791cellular_componenteuchromatin
A0001701biological_processin utero embryonic development
A0001764biological_processneuron migration
A0001890biological_processplacenta development
A0002101biological_processtRNA wobble cytosine modification
A0003824molecular_functioncatalytic activity
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005737cellular_componentcytoplasm
A0005739cellular_componentmitochondrion
A0005783cellular_componentendoplasmic reticulum
A0006281biological_processDNA repair
A0006417biological_processregulation of translation
A0006446biological_processregulation of translational initiation
A0006448biological_processregulation of translational elongation
A0006974biological_processDNA damage response
A0008198molecular_functionferrous iron binding
A0010468biological_processregulation of gene expression
A0016491molecular_functionoxidoreductase activity
A0016706molecular_function2-oxoglutarate-dependent dioxygenase activity
A0016829molecular_functionlyase activity
A0030154biological_processcell differentiation
A0031175biological_processneuron projection development
A0035513biological_processoxidative RNA demethylation
A0035515molecular_functionoxidative RNA demethylase activity
A0035516molecular_functionbroad specificity oxidative DNA demethylase activity
A0042056molecular_functionchemoattractant activity
A0042245biological_processRNA repair
A0043524biological_processnegative regulation of neuron apoptotic process
A0046872molecular_functionmetal ion binding
A0048589biological_processdevelopmental growth
A0050918biological_processpositive chemotaxis
A0051213molecular_functiondioxygenase activity
A0070129biological_processregulation of mitochondrial translation
A0140078molecular_functionclass I DNA-(apurinic or apyrimidinic site) endonuclease activity
A0141131molecular_functionDNA N6-methyladenine demethylase activity
A0141137biological_processpositive regulation of gene expression, epigenetic
A1990983biological_processregulation of translational initiation by tRNA modification
A1990984molecular_functiontRNA demethylase activity
B0000049molecular_functiontRNA binding
B0000791cellular_componenteuchromatin
B0001701biological_processin utero embryonic development
B0001764biological_processneuron migration
B0001890biological_processplacenta development
B0002101biological_processtRNA wobble cytosine modification
B0003824molecular_functioncatalytic activity
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005654cellular_componentnucleoplasm
B0005737cellular_componentcytoplasm
B0005739cellular_componentmitochondrion
B0005783cellular_componentendoplasmic reticulum
B0006281biological_processDNA repair
B0006417biological_processregulation of translation
B0006446biological_processregulation of translational initiation
B0006448biological_processregulation of translational elongation
B0006974biological_processDNA damage response
B0008198molecular_functionferrous iron binding
B0010468biological_processregulation of gene expression
B0016491molecular_functionoxidoreductase activity
B0016706molecular_function2-oxoglutarate-dependent dioxygenase activity
B0016829molecular_functionlyase activity
B0030154biological_processcell differentiation
B0031175biological_processneuron projection development
B0035513biological_processoxidative RNA demethylation
B0035515molecular_functionoxidative RNA demethylase activity
B0035516molecular_functionbroad specificity oxidative DNA demethylase activity
B0042056molecular_functionchemoattractant activity
B0042245biological_processRNA repair
B0043524biological_processnegative regulation of neuron apoptotic process
B0046872molecular_functionmetal ion binding
B0048589biological_processdevelopmental growth
B0050918biological_processpositive chemotaxis
B0051213molecular_functiondioxygenase activity
B0070129biological_processregulation of mitochondrial translation
B0140078molecular_functionclass I DNA-(apurinic or apyrimidinic site) endonuclease activity
B0141131molecular_functionDNA N6-methyladenine demethylase activity
B0141137biological_processpositive regulation of gene expression, epigenetic
B1990983biological_processregulation of translational initiation by tRNA modification
B1990984molecular_functiontRNA demethylase activity
C0000049molecular_functiontRNA binding
C0000791cellular_componenteuchromatin
C0001701biological_processin utero embryonic development
C0001764biological_processneuron migration
C0001890biological_processplacenta development
C0002101biological_processtRNA wobble cytosine modification
C0003824molecular_functioncatalytic activity
C0005515molecular_functionprotein binding
C0005634cellular_componentnucleus
C0005654cellular_componentnucleoplasm
C0005737cellular_componentcytoplasm
C0005739cellular_componentmitochondrion
C0005783cellular_componentendoplasmic reticulum
C0006281biological_processDNA repair
C0006417biological_processregulation of translation
C0006446biological_processregulation of translational initiation
C0006448biological_processregulation of translational elongation
C0006974biological_processDNA damage response
C0008198molecular_functionferrous iron binding
C0010468biological_processregulation of gene expression
C0016491molecular_functionoxidoreductase activity
C0016706molecular_function2-oxoglutarate-dependent dioxygenase activity
C0016829molecular_functionlyase activity
C0030154biological_processcell differentiation
C0031175biological_processneuron projection development
C0035513biological_processoxidative RNA demethylation
C0035515molecular_functionoxidative RNA demethylase activity
C0035516molecular_functionbroad specificity oxidative DNA demethylase activity
C0042056molecular_functionchemoattractant activity
C0042245biological_processRNA repair
C0043524biological_processnegative regulation of neuron apoptotic process
C0046872molecular_functionmetal ion binding
C0048589biological_processdevelopmental growth
C0050918biological_processpositive chemotaxis
C0051213molecular_functiondioxygenase activity
C0070129biological_processregulation of mitochondrial translation
C0140078molecular_functionclass I DNA-(apurinic or apyrimidinic site) endonuclease activity
C0141131molecular_functionDNA N6-methyladenine demethylase activity
C0141137biological_processpositive regulation of gene expression, epigenetic
C1990983biological_processregulation of translational initiation by tRNA modification
C1990984molecular_functiontRNA demethylase activity
D0000049molecular_functiontRNA binding
D0000791cellular_componenteuchromatin
D0001701biological_processin utero embryonic development
D0001764biological_processneuron migration
D0001890biological_processplacenta development
D0002101biological_processtRNA wobble cytosine modification
D0003824molecular_functioncatalytic activity
D0005515molecular_functionprotein binding
D0005634cellular_componentnucleus
D0005654cellular_componentnucleoplasm
D0005737cellular_componentcytoplasm
D0005739cellular_componentmitochondrion
D0005783cellular_componentendoplasmic reticulum
D0006281biological_processDNA repair
D0006417biological_processregulation of translation
D0006446biological_processregulation of translational initiation
D0006448biological_processregulation of translational elongation
D0006974biological_processDNA damage response
D0008198molecular_functionferrous iron binding
D0010468biological_processregulation of gene expression
D0016491molecular_functionoxidoreductase activity
D0016706molecular_function2-oxoglutarate-dependent dioxygenase activity
D0016829molecular_functionlyase activity
D0030154biological_processcell differentiation
D0031175biological_processneuron projection development
D0035513biological_processoxidative RNA demethylation
D0035515molecular_functionoxidative RNA demethylase activity
D0035516molecular_functionbroad specificity oxidative DNA demethylase activity
D0042056molecular_functionchemoattractant activity
D0042245biological_processRNA repair
D0043524biological_processnegative regulation of neuron apoptotic process
D0046872molecular_functionmetal ion binding
D0048589biological_processdevelopmental growth
D0050918biological_processpositive chemotaxis
D0051213molecular_functiondioxygenase activity
D0070129biological_processregulation of mitochondrial translation
D0140078molecular_functionclass I DNA-(apurinic or apyrimidinic site) endonuclease activity
D0141131molecular_functionDNA N6-methyladenine demethylase activity
D0141137biological_processpositive regulation of gene expression, epigenetic
D1990983biological_processregulation of translational initiation by tRNA modification
D1990984molecular_functiontRNA demethylase activity
Functional Information from PDB Data
site_idAC1
Number of Residues5
Detailsbinding site for residue MN A 501
ChainResidue
AHIS231
AASP233
AHIS287
AOGA502
AHOH661

site_idAC2
Number of Residues14
Detailsbinding site for residue OGA A 502
ChainResidue
AASP233
AHIS287
AVAL289
AARG338
AASN340
ATHR342
AARG344
AVAL358
AMN501
AHOH661
AASN220
ATYR222
ALEU228
AHIS231

site_idAC3
Number of Residues5
Detailsbinding site for residue MN B 501
ChainResidue
BHIS231
BASP233
BHIS287
BOGA502
DVAL358

site_idAC4
Number of Residues14
Detailsbinding site for residue OGA B 502
ChainResidue
BASN220
BTYR222
BLEU228
BHIS231
BASP233
BHIS287
BVAL289
BARG338
BASN340
BTHR342
BARG344
BMN501
BHOH614
DVAL358

site_idAC5
Number of Residues5
Detailsbinding site for residue MN C 501
ChainResidue
CHIS231
CASP233
CHIS287
COGA502
CHOH638

site_idAC6
Number of Residues14
Detailsbinding site for residue OGA C 502
ChainResidue
CASN220
CTYR222
CLEU228
CHIS231
CASP233
CHIS287
CVAL289
CARG338
CASN340
CARG344
CVAL358
CMN501
CHOH607
CHOH638

site_idAC7
Number of Residues5
Detailsbinding site for residue MN D 501
ChainResidue
DHIS231
DASP233
DHIS287
DOGA502
DHOH656

site_idAC8
Number of Residues15
Detailsbinding site for residue OGA D 502
ChainResidue
BVAL358
DASN220
DTYR222
DLEU228
DHIS231
DASP233
DHIS287
DVAL289
DARG338
DASN340
DTHR342
DARG344
DMN501
DHOH625
DHOH656

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues12
DetailsBINDING: BINDING => ECO:0000250|UniProtKB:Q6NS38
ChainResidueDetails
ATRP144
DTRP144
DTYR175
DASP233
ATYR175
AASP233
BTRP144
BTYR175
BASP233
CTRP144
CTYR175
CASP233

site_idSWS_FT_FI2
Number of Residues8
DetailsBINDING: BINDING => ECO:0000250|UniProtKB:Q96Q83
ChainResidueDetails
AASN220
AARG338
BASN220
BARG338
CASN220
CARG338
DASN220
DARG338

site_idSWS_FT_FI3
Number of Residues8
DetailsBINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00805
ChainResidueDetails
AHIS231
AHIS287
BHIS231
BHIS287
CHIS231
CHIS287
DHIS231
DHIS287

237735

PDB entries from 2025-06-18

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