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Conserved domains on  [gi|45550870|ref|NP_651898|]
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ionotropic receptor 100a [Drosophila melanogaster]

Protein Classification

type 2 periplasmic-binding domain-containing protein( domain architecture ID 229383)

type 2 periplasmic-binding protein (PBP2) is typically comprised of two globular subdomains connected by a flexible hinge; it binds its ligand in the cleft between these domains in a manner resembling a Venus flytrap; similar to the ligand-binding domains found in solute binding proteins that serve as initial receptors in the transport, signal transduction and channel gating

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HisJ super family cl43291
ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino ...
 189-287 1.72e-04

ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino acid transport and metabolism, Signal transduction mechanisms];


The actual alignment was detected with superfamily member COG0834:

Pssm-ID: 440596 [Multi-domain]  Cd Length: 223  Bit Score: 43.43  E-value: 1.72e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 45550870 189 YSSVIGDGEnkvlsVTGADAKLAKTVARQLNFTADFVWPDdefFGGRLAngeysggvgRAHRGEVDIIFAGFFIKDYLTT 268
Cdd:COG0834  12 FSFRDEDGK-----LVGFDVDLARAIAKRLGLKVEFVPVP---WDRLIP---------ALQSGKVDLIIAGMTITPEREK 74

                        90
                ....*....|....*....
gi 45550870 269 HIQFSAAVYMDELCLYVKK 287
Cdd:COG0834  75 QVDFSDPYYTSGQVLLVRK 93
 
Name Accession Description Interval E-value
HisJ COG0834
ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino ...
 189-287 1.72e-04

ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino acid transport and metabolism, Signal transduction mechanisms];


Pssm-ID: 440596 [Multi-domain]  Cd Length: 223  Bit Score: 43.43  E-value: 1.72e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 45550870 189 YSSVIGDGEnkvlsVTGADAKLAKTVARQLNFTADFVWPDdefFGGRLAngeysggvgRAHRGEVDIIFAGFFIKDYLTT 268
Cdd:COG0834  12 FSFRDEDGK-----LVGFDVDLARAIAKRLGLKVEFVPVP---WDRLIP---------ALQSGKVDLIIAGMTITPEREK 74

                        90
                ....*....|....*....
gi 45550870 269 HIQFSAAVYMDELCLYVKK 287
Cdd:COG0834  75 QVDFSDPYYTSGQVLLVRK 93
PBP2_iGluR_putative cd13717
The ligand-binding domain of putative ionotropic glutamate receptors, a member of the type 2 ...
 210-255 7.82e-04

The ligand-binding domain of putative ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily; This group contains glutamate receptor domain GluR. These domains are found in the GluR proteins that have been shown to function as L-glutamate activated potassium channels, also known ionotropic glutamate receptors or iGluRs. In addition to two ligand binding core domains, iGluRs typically have a channel-like domain inserted in the middle of the GluR-like domain. Animal iGluRs mediate the ion flux in the synapses of the CNS and can be subdivided into several classes depending on the neurotransmitter specificity and ion conductance properties. Their plant homologs have been shown to function in light signal transduction and calcium homeostasis. The GluR proteins belong to the PBPII superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270435 [Multi-domain]  Cd Length: 360  Bit Score: 41.90  E-value: 7.82e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 45550870 210 LAKTVARQLNFTADFVWPDDEFFGGRLANGEYSGGVGRAHRGEVDI 255
Cdd:cd13717  32 LIEEISEILNFDYEIVEPEDGKFGTMDENGEWNGLIGDLVRKEADI 77
Lig_chan-Glu_bd smart00918
Ligated ion channel L-glutamate- and glycine-binding site; This region, sometimes called the ...
 210-248 3.46e-03

Ligated ion channel L-glutamate- and glycine-binding site; This region, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and it binds L-glutamate and glycine. It is found in association with Lig_chan.


Pssm-ID: 214911 [Multi-domain]  Cd Length: 62  Bit Score: 36.07  E-value: 3.46e-03
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 45550870    210 LAKTVARQLNFTADFVWPDDEFFGGRLANGEYSGGVGRA 248
Cdd:smart00918  23 LLKELAKKLGFTYEIILVPDGKYGARLPNGSWNGMVGEL 61
 
Name Accession Description Interval E-value
HisJ COG0834
ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino ...
 189-287 1.72e-04

ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino acid transport and metabolism, Signal transduction mechanisms];


Pssm-ID: 440596 [Multi-domain]  Cd Length: 223  Bit Score: 43.43  E-value: 1.72e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 45550870 189 YSSVIGDGEnkvlsVTGADAKLAKTVARQLNFTADFVWPDdefFGGRLAngeysggvgRAHRGEVDIIFAGFFIKDYLTT 268
Cdd:COG0834  12 FSFRDEDGK-----LVGFDVDLARAIAKRLGLKVEFVPVP---WDRLIP---------ALQSGKVDLIIAGMTITPEREK 74

                        90
                ....*....|....*....
gi 45550870 269 HIQFSAAVYMDELCLYVKK 287
Cdd:COG0834  75 QVDFSDPYYTSGQVLLVRK 93
PBP2_iGluR_putative cd13717
The ligand-binding domain of putative ionotropic glutamate receptors, a member of the type 2 ...
 210-255 7.82e-04

The ligand-binding domain of putative ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily; This group contains glutamate receptor domain GluR. These domains are found in the GluR proteins that have been shown to function as L-glutamate activated potassium channels, also known ionotropic glutamate receptors or iGluRs. In addition to two ligand binding core domains, iGluRs typically have a channel-like domain inserted in the middle of the GluR-like domain. Animal iGluRs mediate the ion flux in the synapses of the CNS and can be subdivided into several classes depending on the neurotransmitter specificity and ion conductance properties. Their plant homologs have been shown to function in light signal transduction and calcium homeostasis. The GluR proteins belong to the PBPII superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270435 [Multi-domain]  Cd Length: 360  Bit Score: 41.90  E-value: 7.82e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 45550870 210 LAKTVARQLNFTADFVWPDDEFFGGRLANGEYSGGVGRAHRGEVDI 255
Cdd:cd13717  32 LIEEISEILNFDYEIVEPEDGKFGTMDENGEWNGLIGDLVRKEADI 77
Lig_chan-Glu_bd smart00918
Ligated ion channel L-glutamate- and glycine-binding site; This region, sometimes called the ...
 210-248 3.46e-03

Ligated ion channel L-glutamate- and glycine-binding site; This region, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and it binds L-glutamate and glycine. It is found in association with Lig_chan.


Pssm-ID: 214911 [Multi-domain]  Cd Length: 62  Bit Score: 36.07  E-value: 3.46e-03
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 45550870    210 LAKTVARQLNFTADFVWPDDEFFGGRLANGEYSGGVGRA 248
Cdd:smart00918  23 LLKELAKKLGFTYEIILVPDGKYGARLPNGSWNGMVGEL 61
PBPb smart00062
Bacterial periplasmic substrate-binding proteins; bacterial proteins, eukaryotic ones are in ...
 180-291 4.09e-03

Bacterial periplasmic substrate-binding proteins; bacterial proteins, eukaryotic ones are in PBPe


Pssm-ID: 214497 [Multi-domain]  Cd Length: 219  Bit Score: 39.23  E-value: 4.09e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 45550870    180 LRIYIFDS--VYSSVIGDGEnkvlsVTGADAKLAKTVARQLNFTADFVWPDdefFGGRLANGEysggvgrahRGEVDIIF 257
Cdd:smart00062   2 LRVGTNGDypPFSFADEDGE-----LTGFDVDLAKAIAKELGLKVEFVEVS---FDSLLTALK---------SGKIDVVA 64

                           90       100       110
                   ....*....|....*....|....*....|....
gi 45550870    258 AGFFIKDYLTTHIQFSAAVYMDELCLYVKKAQRI 291
Cdd:smart00062  65 AGMTITPERAKQVDFSDPYYRSGQVILVRKDSPI 98
 
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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