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3V9U

Crystal structure of RNase T in complex with a preferred ssDNA (AAT) with two Mg in the active site

Functional Information from GO Data
ChainGOidnamespacecontents
A0000175molecular_function3'-5'-RNA exonuclease activity
A0000287molecular_functionmagnesium ion binding
A0003676molecular_functionnucleic acid binding
A0004518molecular_functionnuclease activity
A0004527molecular_functionexonuclease activity
A0004540molecular_functionRNA nuclease activity
A0005515molecular_functionprotein binding
A0005829cellular_componentcytosol
A0006396biological_processRNA processing
A0006974biological_processDNA damage response
A0008033biological_processtRNA processing
A0008310molecular_functionsingle-stranded DNA 3'-5' DNA exonuclease activity
A0008408molecular_function3'-5' exonuclease activity
A0016787molecular_functionhydrolase activity
A0016896molecular_functionRNA exonuclease activity, producing 5'-phosphomonoesters
A0031125biological_processrRNA 3'-end processing
A0042780biological_processtRNA 3'-end processing
A0042802molecular_functionidentical protein binding
A0042803molecular_functionprotein homodimerization activity
A0043628biological_processregulatory ncRNA 3'-end processing
A0045004biological_processDNA replication proofreading
A0046872molecular_functionmetal ion binding
B0000175molecular_function3'-5'-RNA exonuclease activity
B0000287molecular_functionmagnesium ion binding
B0003676molecular_functionnucleic acid binding
B0004518molecular_functionnuclease activity
B0004527molecular_functionexonuclease activity
B0004540molecular_functionRNA nuclease activity
B0005515molecular_functionprotein binding
B0005829cellular_componentcytosol
B0006396biological_processRNA processing
B0006974biological_processDNA damage response
B0008033biological_processtRNA processing
B0008310molecular_functionsingle-stranded DNA 3'-5' DNA exonuclease activity
B0008408molecular_function3'-5' exonuclease activity
B0016787molecular_functionhydrolase activity
B0016896molecular_functionRNA exonuclease activity, producing 5'-phosphomonoesters
B0031125biological_processrRNA 3'-end processing
B0042780biological_processtRNA 3'-end processing
B0042802molecular_functionidentical protein binding
B0042803molecular_functionprotein homodimerization activity
B0043628biological_processregulatory ncRNA 3'-end processing
B0045004biological_processDNA replication proofreading
B0046872molecular_functionmetal ion binding
C0000175molecular_function3'-5'-RNA exonuclease activity
C0000287molecular_functionmagnesium ion binding
C0003676molecular_functionnucleic acid binding
C0004518molecular_functionnuclease activity
C0004527molecular_functionexonuclease activity
C0004540molecular_functionRNA nuclease activity
C0005515molecular_functionprotein binding
C0005829cellular_componentcytosol
C0006396biological_processRNA processing
C0006974biological_processDNA damage response
C0008033biological_processtRNA processing
C0008310molecular_functionsingle-stranded DNA 3'-5' DNA exonuclease activity
C0008408molecular_function3'-5' exonuclease activity
C0016787molecular_functionhydrolase activity
C0016896molecular_functionRNA exonuclease activity, producing 5'-phosphomonoesters
C0031125biological_processrRNA 3'-end processing
C0042780biological_processtRNA 3'-end processing
C0042802molecular_functionidentical protein binding
C0042803molecular_functionprotein homodimerization activity
C0043628biological_processregulatory ncRNA 3'-end processing
C0045004biological_processDNA replication proofreading
C0046872molecular_functionmetal ion binding
D0000175molecular_function3'-5'-RNA exonuclease activity
D0000287molecular_functionmagnesium ion binding
D0003676molecular_functionnucleic acid binding
D0004518molecular_functionnuclease activity
D0004527molecular_functionexonuclease activity
D0004540molecular_functionRNA nuclease activity
D0005515molecular_functionprotein binding
D0005829cellular_componentcytosol
D0006396biological_processRNA processing
D0006974biological_processDNA damage response
D0008033biological_processtRNA processing
D0008310molecular_functionsingle-stranded DNA 3'-5' DNA exonuclease activity
D0008408molecular_function3'-5' exonuclease activity
D0016787molecular_functionhydrolase activity
D0016896molecular_functionRNA exonuclease activity, producing 5'-phosphomonoesters
D0031125biological_processrRNA 3'-end processing
D0042780biological_processtRNA 3'-end processing
D0042802molecular_functionidentical protein binding
D0042803molecular_functionprotein homodimerization activity
D0043628biological_processregulatory ncRNA 3'-end processing
D0045004biological_processDNA replication proofreading
D0046872molecular_functionmetal ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues4
DetailsBINDING SITE FOR RESIDUE MG A 301
ChainResidue
AASP23
AGLU25
AASP186
EDT7

site_idAC2
Number of Residues2
DetailsBINDING SITE FOR RESIDUE CO A 302
ChainResidue
AARG135
AHOH418

site_idAC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE MG B 301
ChainResidue
FDT7
BASP23
BGLU25
BASP186

site_idAC4
Number of Residues1
DetailsBINDING SITE FOR RESIDUE CO B 302
ChainResidue
BARG135

site_idAC5
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CO C 301
ChainResidue
CGLU25
CHIS181
CASP186
GDT7

site_idAC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CO D 301
ChainResidue
DGLU25
DHIS181
DASP186
HDT7

site_idAC7
Number of Residues2
DetailsBINDING SITE FOR RESIDUE CO D 302
ChainResidue
DGLY92
DARG135

site_idAC8
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG E 101
ChainResidue
AASP23
AHOH401
AHOH402
AHOH403
EDA6
EDT7

site_idAC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG F 101
ChainResidue
BASP23
BHOH410
BHOH423
BHOH428
FDA6
FDT7

site_idBC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG G 101
ChainResidue
CASP23
CHOH414
CHOH417
CHOH423
GDA6
GDT7

site_idBC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG H 101
ChainResidue
DASP23
DHOH409
DHOH412
DHOH424
HDA6
HDT7

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsACT_SITE: Proton donor/acceptor => ECO:0000255|HAMAP-Rule:MF_00157, ECO:0000269|PubMed:21317904, ECO:0000269|PubMed:22718982
ChainResidueDetails
AHIS181
BHIS181
CHIS181
DHIS181

site_idSWS_FT_FI2
Number of Residues16
DetailsBINDING:
ChainResidueDetails
AASP23
CGLU25
CHIS181
CASP186
DASP23
DGLU25
DHIS181
DASP186
AGLU25
AHIS181
AASP186
BASP23
BGLU25
BHIS181
BASP186
CASP23

site_idSWS_FT_FI3
Number of Residues20
DetailsSITE: Important for substrate binding and specificity
ChainResidueDetails
APHE29
BPHE146
CPHE29
CGLU73
CPHE77
CPHE124
CPHE146
DPHE29
DGLU73
DPHE77
DPHE124
AGLU73
DPHE146
APHE77
APHE124
APHE146
BPHE29
BGLU73
BPHE77
BPHE124

218853

PDB entries from 2024-04-24

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