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Conserved domains on  [gi|110555474|gb|ABG75722|]
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spectinomycin/streptomycin resistance [Cloning vector pRGK 366]

Protein Classification

AadA family aminoglycoside 3''-O-nucleotidyltransferase( domain architecture ID 11486831)

AadA family aminoglycoside 3''-O-nucleotidyltransferase such as streptomycin 3''-adenylyltransferase, which mediates bacterial resistance to the antibiotics streptomycin and spectomycin

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK13746 PRK13746
aminoglycoside resistance protein; Provisional
 1-261 1.50e-180

aminoglycoside resistance protein; Provisional


:

Pssm-ID: 184296 [Multi-domain]  Cd Length: 262  Bit Score: 496.47  E-value: 1.50e-180
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474   1 MREAVIAEVSTQLSEVVGVIERHLEPTLLAVHLYGSAVDGGLKPHSDIDLLVTVTVRLDETTRRALINDLLETSASPGES 80
Cdd:PRK13746   1 MREAVPAEISTQLSEACAVIERHLEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVPLDETTRRALMNDLLEVSAPPGES 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474  81 EILRAVEVTIVVHDDIIPWRYPAKRELQFGEWQRNDILAGIFEPATIDIDLAILLTKAREHSVALVGPAAEELFDPVPEQ 160
Cdd:PRK13746  81 EILRALEVTVVVHDDVVPWRYPAKRELQFGEWLRNDILAGIFEPAMIDHDLAILLTKAREHSVALVGPAAEELFDPVPEQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474 161 DLFEALNETLTLWNSPPDWAGDERNVVLTLSRIWYSAVTGKIAPKDVAADWAMERLPAQYQPVILEARQAYLGQE-DRLA 239
Cdd:PRK13746 161 DLFEALRDTLALWNSPPDWAGDERNVVLTLARIWYSASTGKIAPKDVAADWALERLPAEYQPVLLEARQAYLGQEeDDLA 240

                        250       260
                 ....*....|....*....|..
gi 110555474 240 SRADQLEEFVHYVKGEITKVVG 261
Cdd:PRK13746 241 SRADALEAFVRYAKGEIEKVVG 262
 
Name Accession Description Interval E-value
PRK13746 PRK13746
aminoglycoside resistance protein; Provisional
 1-261 1.50e-180

aminoglycoside resistance protein; Provisional


Pssm-ID: 184296 [Multi-domain]  Cd Length: 262  Bit Score: 496.47  E-value: 1.50e-180
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474   1 MREAVIAEVSTQLSEVVGVIERHLEPTLLAVHLYGSAVDGGLKPHSDIDLLVTVTVRLDETTRRALINDLLETSASPGES 80
Cdd:PRK13746   1 MREAVPAEISTQLSEACAVIERHLEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVPLDETTRRALMNDLLEVSAPPGES 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474  81 EILRAVEVTIVVHDDIIPWRYPAKRELQFGEWQRNDILAGIFEPATIDIDLAILLTKAREHSVALVGPAAEELFDPVPEQ 160
Cdd:PRK13746  81 EILRALEVTVVVHDDVVPWRYPAKRELQFGEWLRNDILAGIFEPAMIDHDLAILLTKAREHSVALVGPAAEELFDPVPEQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474 161 DLFEALNETLTLWNSPPDWAGDERNVVLTLSRIWYSAVTGKIAPKDVAADWAMERLPAQYQPVILEARQAYLGQE-DRLA 239
Cdd:PRK13746 161 DLFEALRDTLALWNSPPDWAGDERNVVLTLARIWYSASTGKIAPKDVAADWALERLPAEYQPVLLEARQAYLGQEeDDLA 240

                        250       260
                 ....*....|....*....|..
gi 110555474 240 SRADQLEEFVHYVKGEITKVVG 261
Cdd:PRK13746 241 SRADALEAFVRYAKGEIEKVVG 262
DUF4111 pfam13427
Domain of unknown function (DUF4111); Although the exact function of this domain is not known ...
 152-253 2.20e-36

Domain of unknown function (DUF4111); Although the exact function of this domain is not known it frequently appears downstream of the family Nucleotidyltransferase, pfam01909. It is also found in species associated with methicillin-resistant bacteria.


Pssm-ID: 433197  Cd Length: 102  Bit Score: 124.62  E-value: 2.20e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474  152 ELFDPVPEQDLFEALNETLTLWNSPPDWagDERNVVLTLSRIWYSAVTGKIAPKDVAADWAMERLPAQYQPVILEARQAY 231
Cdd:pfam13427   1 EVFPPVPRADYRDAILADVPELLEEIEE--DPRYVVLTLARVWATLETGEILSKDEAAEWALPRLPKEYRPLLAQARDAY 78

                          90       100
                  ....*....|....*....|...
gi 110555474  232 LGQE-DRLASRADQLEEFVHYVK 253
Cdd:pfam13427  79 LGGAeEDWDGDREELEEFADYML 101
MJ0604 COG1708
Predicted nucleotidyltransferase, MJ0604 family [General function prediction only];
8-100 6.56e-09

Predicted nucleotidyltransferase, MJ0604 family [General function prediction only];


Pssm-ID: 441314  Cd Length: 95  Bit Score: 51.95  E-value: 6.56e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474   8 EVSTQLSEVVGVIERHLEPtlLAVHLYGSAVDGGLKPHSDIDLLVTVTVRLDETTRRALINDLLEtsaspgesEILRAVE 87
Cdd:COG1708    4 LLRELLEEIVEALRRGPEV--AAVYLFGSYARGDARPDSDIDLLVVVDDPPLPDERLELLADLLR--------ELGLPVD 73

                         90
                 ....*....|...
gi 110555474  88 VTIVVHDDIIPWR 100
Cdd:COG1708   74 LVVLTPAELELRL 86
NT_KNTase_like cd05403
Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, ...
 12-107 2.96e-07

Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; S. aureus KNTase is a plasmid encoded enzyme which confers resistance to a wide range of aminoglycoside antibiotics which have a 4'- or 4''-hydroxyl group in the equatorial position, such as kanamycin A. This enzyme transfers a nucleoside monophosphate group from a nucleotide (ATP,GTP, or UTP) to the 4'-hydroxyl group of kanamycin A. This enzyme is a homodimer, having two NT active sites. The nucleotide and antibiotic binding sites of each active site include residues from each monomer. Included in this subgroup is Escherichia coli AadA5 which confers resistance to the antibiotic spectinomycin and is a putative aminoglycoside-3'-adenylyltransferase. It is part of the aadA5 cassette of a class 1 integron. This subgroup also includes Haemophilus influenzae HI0073 which forms a 2:2 heterotetramer with an unrelated protein HI0074. Structurally HI0074 is related to the substrate-binding domain of S. aureus KNTase. The genes encoding HI0073 and HI0074 form an operon. Little is known about the substrate specificity or function of two-component NTs. The characterized members of this subgroup may not be representive of the function of this subgroup. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, co-ordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These carboxylate residues are conserved in this subgroup.


Pssm-ID: 143393  Cd Length: 93  Bit Score: 47.41  E-value: 2.96e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474  12 QLSEVVGVIERHLEPtLLAVHLYGSAVDGGLKPHSDIDLLVTVTVRLDETTRRALINDLletsaspgesEILRAVEVTIV 91
Cdd:cd05403    3 ILEEILEILRELLGG-VEKVYLFGSYARGDARPDSDIDLLVIFDDPLDPLELARLLEEL----------ELLLGRPVDLV 71

                         90
                 ....*....|....*.
gi 110555474  92 VHDDIIPWRYPAKREL 107
Cdd:cd05403   72 VLNALELELLLRILIE 87
 
Name Accession Description Interval E-value
PRK13746 PRK13746
aminoglycoside resistance protein; Provisional
 1-261 1.50e-180

aminoglycoside resistance protein; Provisional


Pssm-ID: 184296 [Multi-domain]  Cd Length: 262  Bit Score: 496.47  E-value: 1.50e-180
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474   1 MREAVIAEVSTQLSEVVGVIERHLEPTLLAVHLYGSAVDGGLKPHSDIDLLVTVTVRLDETTRRALINDLLETSASPGES 80
Cdd:PRK13746   1 MREAVPAEISTQLSEACAVIERHLEPTLLAIHLYGSAVDGGLKPHSDIDLLVTVAVPLDETTRRALMNDLLEVSAPPGES 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474  81 EILRAVEVTIVVHDDIIPWRYPAKRELQFGEWQRNDILAGIFEPATIDIDLAILLTKAREHSVALVGPAAEELFDPVPEQ 160
Cdd:PRK13746  81 EILRALEVTVVVHDDVVPWRYPAKRELQFGEWLRNDILAGIFEPAMIDHDLAILLTKAREHSVALVGPAAEELFDPVPEQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474 161 DLFEALNETLTLWNSPPDWAGDERNVVLTLSRIWYSAVTGKIAPKDVAADWAMERLPAQYQPVILEARQAYLGQE-DRLA 239
Cdd:PRK13746 161 DLFEALRDTLALWNSPPDWAGDERNVVLTLARIWYSASTGKIAPKDVAADWALERLPAEYQPVLLEARQAYLGQEeDDLA 240

                        250       260
                 ....*....|....*....|..
gi 110555474 240 SRADQLEEFVHYVKGEITKVVG 261
Cdd:PRK13746 241 SRADALEAFVRYAKGEIEKVVG 262
DUF4111 pfam13427
Domain of unknown function (DUF4111); Although the exact function of this domain is not known ...
 152-253 2.20e-36

Domain of unknown function (DUF4111); Although the exact function of this domain is not known it frequently appears downstream of the family Nucleotidyltransferase, pfam01909. It is also found in species associated with methicillin-resistant bacteria.


Pssm-ID: 433197  Cd Length: 102  Bit Score: 124.62  E-value: 2.20e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474  152 ELFDPVPEQDLFEALNETLTLWNSPPDWagDERNVVLTLSRIWYSAVTGKIAPKDVAADWAMERLPAQYQPVILEARQAY 231
Cdd:pfam13427   1 EVFPPVPRADYRDAILADVPELLEEIEE--DPRYVVLTLARVWATLETGEILSKDEAAEWALPRLPKEYRPLLAQARDAY 78

                          90       100
                  ....*....|....*....|...
gi 110555474  232 LGQE-DRLASRADQLEEFVHYVK 253
Cdd:pfam13427  79 LGGAeEDWDGDREELEEFADYML 101
MJ0604 COG1708
Predicted nucleotidyltransferase, MJ0604 family [General function prediction only];
8-100 6.56e-09

Predicted nucleotidyltransferase, MJ0604 family [General function prediction only];


Pssm-ID: 441314  Cd Length: 95  Bit Score: 51.95  E-value: 6.56e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474   8 EVSTQLSEVVGVIERHLEPtlLAVHLYGSAVDGGLKPHSDIDLLVTVTVRLDETTRRALINDLLEtsaspgesEILRAVE 87
Cdd:COG1708    4 LLRELLEEIVEALRRGPEV--AAVYLFGSYARGDARPDSDIDLLVVVDDPPLPDERLELLADLLR--------ELGLPVD 73

                         90
                 ....*....|...
gi 110555474  88 VTIVVHDDIIPWR 100
Cdd:COG1708   74 LVVLTPAELELRL 86
NT_KNTase_like cd05403
Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, ...
 12-107 2.96e-07

Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; S. aureus KNTase is a plasmid encoded enzyme which confers resistance to a wide range of aminoglycoside antibiotics which have a 4'- or 4''-hydroxyl group in the equatorial position, such as kanamycin A. This enzyme transfers a nucleoside monophosphate group from a nucleotide (ATP,GTP, or UTP) to the 4'-hydroxyl group of kanamycin A. This enzyme is a homodimer, having two NT active sites. The nucleotide and antibiotic binding sites of each active site include residues from each monomer. Included in this subgroup is Escherichia coli AadA5 which confers resistance to the antibiotic spectinomycin and is a putative aminoglycoside-3'-adenylyltransferase. It is part of the aadA5 cassette of a class 1 integron. This subgroup also includes Haemophilus influenzae HI0073 which forms a 2:2 heterotetramer with an unrelated protein HI0074. Structurally HI0074 is related to the substrate-binding domain of S. aureus KNTase. The genes encoding HI0073 and HI0074 form an operon. Little is known about the substrate specificity or function of two-component NTs. The characterized members of this subgroup may not be representive of the function of this subgroup. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, co-ordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These carboxylate residues are conserved in this subgroup.


Pssm-ID: 143393  Cd Length: 93  Bit Score: 47.41  E-value: 2.96e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 110555474  12 QLSEVVGVIERHLEPtLLAVHLYGSAVDGGLKPHSDIDLLVTVTVRLDETTRRALINDLletsaspgesEILRAVEVTIV 91
Cdd:cd05403    3 ILEEILEILRELLGG-VEKVYLFGSYARGDARPDSDIDLLVIFDDPLDPLELARLLEEL----------ELLLGRPVDLV 71

                         90
                 ....*....|....*.
gi 110555474  92 VHDDIIPWRYPAKREL 107
Cdd:cd05403   72 VLNALELELLLRILIE 87
Polbeta pfam18765
Polymerase beta, Nucleotidyltransferase; A member of the nucleotidyltransferase fold found in ...
 28-72 4.49e-03

Polymerase beta, Nucleotidyltransferase; A member of the nucleotidyltransferase fold found in polymorphic toxins (NTox45) and polyvalent proteins.


Pssm-ID: 465859  Cd Length: 93  Bit Score: 35.58  E-value: 4.49e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 110555474   28 LLAVHLYGSAVDGGLKPHSDIDLLVTVTVRLDETTRRALINDLLE 72
Cdd:pfam18765  13 IEAAYLFGSRAKGDAREDSDIDLAVLYDEKLDFEELLELASELED 57
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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