ABC transporter substrate-binding protein [Nocardioides aquaticus]
Protein Classification
type 1 periplasmic-binding domain-containing protein( domain architecture ID 70)
type 1 periplasmic-binding domain-containing protein such as the ligand binding domains of the LacI family of transcriptional regulators, the ABC transporter substrate-binding proteins, the family C GPCRs, membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal LIVBP-like domains of the ionotropic glutamate receptors (iGluRs); contains the Venus flytrap-like domain which undergoes transition from an open to a closed conformational state upon ligand binding
List of domain hits
| Name | Accession | Description | Interval | E-value | ||||||
| Periplasmic_Binding_Protein_type1 super family | cl10011 | Type 1 periplasmic binding fold superfamily; Type 1 periplasmic binding fold superfamily. This ... |
23-369 | 7.56e-66 | ||||||
Type 1 periplasmic binding fold superfamily; Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine-isoleucine-valine binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins, the ligands are monosaccharides, including lactose, ribose, fructose, xylose, arabinose, galactose/glucose and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The core structures of periplasmic binding proteins are classified into two types, and they differ in number and order of beta strands: type 1 has six beta strands while type 2 has five beta strands per sub-domain. These two structural folds are thought to be distantly related via a common ancestor. Notably, while the N-terminal LIVBP-like domain of iGluRs belongs to the type 1 periplasmic-binding fold protein superfamily, the glutamate-binding domain of the iGluR is structurally similar to the type 2 periplasmic-binding fold. The actual alignment was detected with superfamily member cd06343: Pssm-ID: 471960 [Multi-domain] Cd Length: 355 Bit Score: 212.81 E-value: 7.56e-66
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| Name | Accession | Description | Interval | E-value | ||||||
| PBP1_ABC_ligand_binding-like | cd06343 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
23-369 | 7.56e-66 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally. Pssm-ID: 380566 [Multi-domain] Cd Length: 355 Bit Score: 212.81 E-value: 7.56e-66
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| LivK | COG0683 | ABC-type branched-chain amino acid transport system, periplasmic component [Amino acid ... |
23-247 | 1.03e-42 | ||||||
ABC-type branched-chain amino acid transport system, periplasmic component [Amino acid transport and metabolism]; Pssm-ID: 440447 [Multi-domain] Cd Length: 314 Bit Score: 151.24 E-value: 1.03e-42
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| Peripla_BP_6 | pfam13458 | Periplasmic binding protein; This family includes a diverse range of periplasmic binding ... |
25-369 | 1.13e-41 | ||||||
Periplasmic binding protein; This family includes a diverse range of periplasmic binding proteins. Pssm-ID: 433225 [Multi-domain] Cd Length: 342 Bit Score: 149.35 E-value: 1.13e-41
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| PRK15404 | PRK15404 | high-affinity branched-chain amino acid ABC transporter substrate-binding protein; |
24-219 | 8.26e-07 | ||||||
high-affinity branched-chain amino acid ABC transporter substrate-binding protein; Pssm-ID: 237959 [Multi-domain] Cd Length: 369 Bit Score: 50.40 E-value: 8.26e-07
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| Name | Accession | Description | Interval | E-value | ||||||
| PBP1_ABC_ligand_binding-like | cd06343 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
23-369 | 7.56e-66 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally. Pssm-ID: 380566 [Multi-domain] Cd Length: 355 Bit Score: 212.81 E-value: 7.56e-66
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| LivK | COG0683 | ABC-type branched-chain amino acid transport system, periplasmic component [Amino acid ... |
23-247 | 1.03e-42 | ||||||
ABC-type branched-chain amino acid transport system, periplasmic component [Amino acid transport and metabolism]; Pssm-ID: 440447 [Multi-domain] Cd Length: 314 Bit Score: 151.24 E-value: 1.03e-42
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| Peripla_BP_6 | pfam13458 | Periplasmic binding protein; This family includes a diverse range of periplasmic binding ... |
25-369 | 1.13e-41 | ||||||
Periplasmic binding protein; This family includes a diverse range of periplasmic binding proteins. Pssm-ID: 433225 [Multi-domain] Cd Length: 342 Bit Score: 149.35 E-value: 1.13e-41
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| PBP1_ABC_HAAT-like | cd06349 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
27-268 | 8.18e-34 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids or peptides; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids or peptides. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380572 [Multi-domain] Cd Length: 338 Bit Score: 128.07 E-value: 8.18e-34
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| PBP1_ABC_transporter_LIVBP-like | cd06268 | periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the ... |
27-280 | 2.21e-32 | ||||||
periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type 1 periplasmic binding fold protein superfamily; Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type 1 periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC-type Leucine-Isoleucine-Valine-Binding Proteins (LIVBP), which are homologous to the aliphatic amidase transcriptional repressor, AmiC, of Pseudomonas aeruginosa. The uncharacterized periplasmic components of various ABC-type transport systems are included in this group. Pssm-ID: 380492 [Multi-domain] Cd Length: 298 Bit Score: 123.21 E-value: 2.21e-32
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| PBP1_ABC_ligand_binding-like | cd19980 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
28-285 | 9.61e-31 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380635 [Multi-domain] Cd Length: 334 Bit Score: 119.63 E-value: 9.61e-31
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| PBP1_ABC_ligand_binding-like | cd19978 | periplasmic ligand-binding domain of uncharacterized ABC-type transport systems predicted to ... |
26-357 | 2.14e-30 | ||||||
periplasmic ligand-binding domain of uncharacterized ABC-type transport systems predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; This group includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); its ligand specificity has not been determined experimentally, however. Pssm-ID: 380633 [Multi-domain] Cd Length: 341 Bit Score: 118.83 E-value: 2.14e-30
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| PBP1_ABC_LIVBP-like | cd06342 | type 1 periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active ... |
27-277 | 2.34e-29 | ||||||
type 1 periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); This subgroup includes the type 1 periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few. Pssm-ID: 380565 [Multi-domain] Cd Length: 334 Bit Score: 116.09 E-value: 2.34e-29
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| PBP1_ABC_ligand_binding-like | cd06326 | periplasmic ligand-binding domain of uncharacterized ABC-type transport systems predicted to ... |
26-269 | 6.62e-28 | ||||||
periplasmic ligand-binding domain of uncharacterized ABC-type transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions; This group includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); its ligand specificity has not been determined experimentally, however. Pssm-ID: 380549 [Multi-domain] Cd Length: 339 Bit Score: 112.25 E-value: 6.62e-28
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| PBP1_ABC_ligand_binding-like | cd19984 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
27-285 | 1.89e-26 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380639 [Multi-domain] Cd Length: 296 Bit Score: 107.30 E-value: 1.89e-26
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| PBP1_ABC_ligand_binding-like | cd06341 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
35-366 | 3.47e-26 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in transport of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally. Pssm-ID: 380564 [Multi-domain] Cd Length: 340 Bit Score: 107.39 E-value: 3.47e-26
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| PBP1_ABC_HAAT-like | cd19986 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
28-283 | 9.09e-26 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids or peptides; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids or peptides. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380641 [Multi-domain] Cd Length: 297 Bit Score: 105.40 E-value: 9.09e-26
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| PBP1_ABC_ligand_binding-like | cd06335 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
28-290 | 2.64e-25 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in transport of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally. Pssm-ID: 380558 [Multi-domain] Cd Length: 348 Bit Score: 105.00 E-value: 2.64e-25
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| PBP1_ABC_LivK_ligand_binding-like | cd06347 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
28-287 | 2.80e-23 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380570 [Multi-domain] Cd Length: 334 Bit Score: 99.15 E-value: 2.80e-23
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| PBP1_ABC_ligand_binding-like | cd06334 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
27-369 | 7.88e-23 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in transport of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally. Pssm-ID: 380557 [Multi-domain] Cd Length: 360 Bit Score: 98.47 E-value: 7.88e-23
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| PBP1_SBP-like | cd19989 | periplasmic substrate-binding domain of active transport proteins; Periplasmic ... |
27-288 | 9.81e-22 | ||||||
periplasmic substrate-binding domain of active transport proteins; Periplasmic substrate-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids. Pssm-ID: 380644 [Multi-domain] Cd Length: 299 Bit Score: 94.27 E-value: 9.81e-22
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| PBP1_ABC_HAAT-like | cd19988 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
28-280 | 3.41e-21 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids or peptides; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids or peptides. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380643 [Multi-domain] Cd Length: 302 Bit Score: 92.72 E-value: 3.41e-21
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| PBP1_ABC_RPA1789-like | cd06333 | type 1 periplasmic binding-protein component (CouP) of an ABC system (CouPSTU; RPA1789, ... |
28-268 | 1.07e-19 | ||||||
type 1 periplasmic binding-protein component (CouP) of an ABC system (CouPSTU; RPA1789, RPA1791-1793), involved in active transport of lignin-derived aromatic substrates, and its close homologs; This group includes RPA1789 (CouP) from Rhodopseudomonas palustris and its close homologs in other bacteria. RPA1789 (CouP) is the periplasmic binding-protein component of an ABC system (CouPSTU; RPA1789, RPA1791-1793) that is involved in the active transport of lignin-derived aromatic substrates. Members of this group has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP). Pssm-ID: 380556 [Multi-domain] Cd Length: 342 Bit Score: 89.14 E-value: 1.07e-19
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| PBP1_ABC_ligand_binding-like | cd06338 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
27-287 | 6.33e-19 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in transport of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however, their ligand specificity has not been determined experimentally. Pssm-ID: 380561 [Multi-domain] Cd Length: 347 Bit Score: 86.87 E-value: 6.33e-19
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| PBP1_ABC_ligand_binding-like | cd06336 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
28-212 | 1.23e-18 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in transport of amino acids, peptides, or inorganic ions; This group includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, their ligand specificity has not been determined experimentally. Pssm-ID: 380559 [Multi-domain] Cd Length: 345 Bit Score: 86.13 E-value: 1.23e-18
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| PBP1_ABC_HAAT-like | cd19981 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
28-267 | 3.20e-17 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids or peptides; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids or peptides. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380636 [Multi-domain] Cd Length: 297 Bit Score: 81.18 E-value: 3.20e-17
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| PBP1_AmiC-like | cd06331 | type 1 periplasmic components of amide-binding protein (AmiC) and the active transport system ... |
28-269 | 1.45e-15 | ||||||
type 1 periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); This group includes the type 1 periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems. Pssm-ID: 380554 [Multi-domain] Cd Length: 333 Bit Score: 76.87 E-value: 1.45e-15
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| PBP1_ABC_ligand_binding-like | cd06346 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
34-219 | 2.36e-15 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380569 [Multi-domain] Cd Length: 314 Bit Score: 76.06 E-value: 2.36e-15
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| PBP1_As_SBP-like | cd06330 | periplasmic substrate-binding domain of active transport proteins; Periplasmic ... |
27-222 | 3.38e-15 | ||||||
periplasmic substrate-binding domain of active transport proteins; Periplasmic substrate-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic (As) and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Pssm-ID: 380553 [Multi-domain] Cd Length: 342 Bit Score: 76.06 E-value: 3.38e-15
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| PBP1_ABC_ligand_binding-like | cd06340 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
34-287 | 8.22e-15 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in transport of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, their ligand specificity has not been determined experimentally. Pssm-ID: 380563 [Multi-domain] Cd Length: 352 Bit Score: 74.90 E-value: 8.22e-15
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| PBP1_ABC_ligand_binding-like | cd19982 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
28-263 | 9.21e-15 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in transport of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, their ligand specificity has not been determined experimentally. Pssm-ID: 380637 [Multi-domain] Cd Length: 302 Bit Score: 74.24 E-value: 9.21e-15
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| PBP1_ABC_ligand_binding-like | cd06345 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
38-283 | 6.10e-13 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380568 [Multi-domain] Cd Length: 356 Bit Score: 69.22 E-value: 6.10e-13
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| PBP1_ABC_HAAT-like | cd06348 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
28-287 | 2.78e-10 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids or peptides; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids or peptides. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380571 [Multi-domain] Cd Length: 342 Bit Score: 61.09 E-value: 2.78e-10
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| PBP1_ABC_HAAT-like | cd19983 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
28-269 | 1.50e-09 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of hydrophobic amino acids or peptides; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of hydrophobic amino acids or peptides. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380638 [Multi-domain] Cd Length: 303 Bit Score: 58.36 E-value: 1.50e-09
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| PBP1_SBP-like | cd06327 | periplasmic substrate-binding domain of active transport proteins (substrate binding proteins ... |
34-218 | 1.29e-08 | ||||||
periplasmic substrate-binding domain of active transport proteins (substrate binding proteins or SBPs); Periplasmic substrate-binding domain of active transport proteins found in gram-negative, gram-positive bacteria, and archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids. Pssm-ID: 380550 [Multi-domain] Cd Length: 336 Bit Score: 56.04 E-value: 1.29e-08
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| PBP1_aromatic_compounds-like | cd06332 | type 1 periplasmic binding proteins of active transport systems predicted to be involved in ... |
27-238 | 1.63e-08 | ||||||
type 1 periplasmic binding proteins of active transport systems predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; This group includes the type 1 periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea. Pssm-ID: 380555 [Multi-domain] Cd Length: 336 Bit Score: 55.68 E-value: 1.63e-08
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| PBP1_YraM_LppC_lipoprotein-like | cd06339 | periplasmic binding component of lipoprotein LppC, an immunodominant antigen; This subgroup ... |
34-211 | 2.22e-08 | ||||||
periplasmic binding component of lipoprotein LppC, an immunodominant antigen; This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT). Pssm-ID: 380562 [Multi-domain] Cd Length: 331 Bit Score: 55.35 E-value: 2.22e-08
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| PBP1_RPA0985_benzoate-like | cd20013 | type 1 periplasmic binding-protein component of an ABC system (RPA0985), involved in the ... |
28-219 | 3.44e-08 | ||||||
type 1 periplasmic binding-protein component of an ABC system (RPA0985), involved in the active transport of lignin-derived benzoate derivative compounds, and its close homologs; This group includes RPA0985 from Rhodopseudomonas palustris and its close homologs in other bacteria. Rpa0985 is the periplasmic binding-protein component of an ABC system that is involved in the active transport of lignin-derived benzoate derivative compounds. Members of this group has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP). Pssm-ID: 380666 [Multi-domain] Cd Length: 356 Bit Score: 54.57 E-value: 3.44e-08
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| PBP1_AmiC | cd06357 | periplasmic binding domain of amidase (AmiC) that belongs to the type 1 periplasmic binding ... |
28-241 | 7.59e-08 | ||||||
periplasmic binding domain of amidase (AmiC) that belongs to the type 1 periplasmic binding fold protein family; This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type 1 periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced. Pssm-ID: 380580 [Multi-domain] Cd Length: 357 Bit Score: 53.74 E-value: 7.59e-08
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| PBP1_ABC_ligand_binding-like | cd19979 | amino acid amide ABC transporter substrate binding protein haat family; This subgroup includes ... |
28-218 | 3.97e-07 | ||||||
amino acid amide ABC transporter substrate binding protein haat family; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally. Pssm-ID: 380634 [Multi-domain] Cd Length: 350 Bit Score: 51.46 E-value: 3.97e-07
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| PBP1_ABC_HAAT-like | cd19985 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
28-274 | 4.07e-07 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of hydrophobic amino acids or peptides; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of hydrophobic amino acids or peptides. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380640 [Multi-domain] Cd Length: 321 Bit Score: 51.12 E-value: 4.07e-07
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| PBP1_ABC_ligand_binding-like | cd06337 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type ... |
27-241 | 6.94e-07 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in transport of amino acids, peptides, or inorganic ions; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally. Pssm-ID: 380560 [Multi-domain] Cd Length: 354 Bit Score: 50.76 E-value: 6.94e-07
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| PRK15404 | PRK15404 | high-affinity branched-chain amino acid ABC transporter substrate-binding protein; |
24-219 | 8.26e-07 | ||||||
high-affinity branched-chain amino acid ABC transporter substrate-binding protein; Pssm-ID: 237959 [Multi-domain] Cd Length: 369 Bit Score: 50.40 E-value: 8.26e-07
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| Peripla_BP_5 | pfam13433 | Periplasmic binding protein domain; This domain is found in a variety of bacterial periplasmic ... |
26-242 | 3.08e-06 | ||||||
Periplasmic binding protein domain; This domain is found in a variety of bacterial periplasmic binding proteins. Pssm-ID: 463875 [Multi-domain] Cd Length: 363 Bit Score: 48.74 E-value: 3.08e-06
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| PBP1_SBP-like | cd06329 | periplasmic substrate-binding domain of active transport proteins (substrate binding proteins ... |
34-262 | 1.29e-05 | ||||||
periplasmic substrate-binding domain of active transport proteins (substrate binding proteins or SBPs); Periplasmic substrate-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids. Pssm-ID: 380552 [Multi-domain] Cd Length: 343 Bit Score: 46.50 E-value: 1.29e-05
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| PBP1_SBP-like | cd06328 | periplasmic substrate-binding domain of active transport proteins (substrate binding proteins ... |
28-238 | 1.50e-05 | ||||||
periplasmic substrate-binding domain of active transport proteins (substrate binding proteins or SBPs); Periplasmic substrate-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids. Pssm-ID: 380551 [Multi-domain] Cd Length: 336 Bit Score: 46.52 E-value: 1.50e-05
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| PBP1_RPA0668_benzoate-like | cd20014 | type 1 periplasmic binding-protein component of an ABC system (RPA0668), involved in in the ... |
28-220 | 1.79e-05 | ||||||
type 1 periplasmic binding-protein component of an ABC system (RPA0668), involved in in the active transport of lignin-derived benzoate derivative compounds, and its close homologs; This group includes RPA0668 from Rhodopseudomonas palustris and its close homologs in other bacteria. Rpa0668 is the periplasmic binding-protein component of an ABC system that is involved in the active transport of lignin-derived benzoate derivative compounds. Members of this group has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP). Pssm-ID: 380667 [Multi-domain] Cd Length: 346 Bit Score: 46.07 E-value: 1.79e-05
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| PBP1_ABC_HAAT-like | cd06344 | type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type ... |
30-267 | 2.31e-05 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of hydrophobic amino acids or peptides; This subgroup includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of hydrophobic amino acids or peptides. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); however, its ligand specificity has not been determined experimentally. Pssm-ID: 380567 [Multi-domain] Cd Length: 332 Bit Score: 45.68 E-value: 2.31e-05
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| PBP1_ABC_unchar_transporter | cd06325 | type 1 periplasmic ligand-binding domain of uncharacterized ABC-type transport systems ... |
27-118 | 4.45e-05 | ||||||
type 1 periplasmic ligand-binding domain of uncharacterized ABC-type transport systems predicted to be involved in uptake of amino acids, peptides, or inorganic ions; This group includes the type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine binding protein (LIVBP); its ligand specificity has not been determined experimentally. Pssm-ID: 380548 Cd Length: 282 Bit Score: 44.80 E-value: 4.45e-05
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| COG2984 | COG2984 | ABC-type uncharacterized transport system, periplasmic component [General function prediction ... |
24-122 | 1.37e-03 | ||||||
ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Pssm-ID: 442223 Cd Length: 284 Bit Score: 40.28 E-value: 1.37e-03
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