MULTISPECIES: molybdate ABC transporter substrate-binding protein [Staphylococcus]
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
List of domain hits
| Name | Accession | Description | Interval | E-value | ||||
| Periplasmic_Binding_Protein_Type_2 super family | cl21456 | Type 2 periplasmic binding fold superfamily; This evolutionary model and hierarchy represent ... |
45-263 | 7.71e-81 | ||||
Type 2 periplasmic binding fold superfamily; This evolutionary model and hierarchy represent the ligand-binding domains found in solute binding proteins that serve as initial receptors in the transport, signal transduction and channel gating. The PBP2 proteins share the same architecture as periplasmic binding proteins type 1 (PBP1), but have a different topology. They are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. The origin of PBP module can be traced across the distant phyla, including eukaryotes, archebacteria, and prokaryotes. The majority of PBP2 proteins are involved in the uptake of a variety of soluble substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the family includes ionotropic glutamate receptors and unorthodox sensor proteins involved in signal transduction. The substrate binding domain of the LysR transcriptional regulators and the oligopeptide-like transport systems also contain the type 2 periplasmic binding fold and thus they are significantly homologous to that of the PBP2; however, these two families are grouped into a separate hierarchy of the PBP2 superfamily due to the large number of protein sequences. The actual alignment was detected with superfamily member cd13537: Pssm-ID: 473866 [Multi-domain] Cd Length: 225 Bit Score: 242.58 E-value: 7.71e-81
|
||||||||
| Name | Accession | Description | Interval | E-value | |||||
| PBP2_YvgL_like | cd13537 | Substrate binding domain of putative molybdate-binding protein YvgL and similar proteins;the ... |
45-263 | 7.71e-81 | |||||
Substrate binding domain of putative molybdate-binding protein YvgL and similar proteins;the type 2 periplasmic binding protein fold; This subfamily contains domains found in ModA proteins of putative ABC-type transporter. ModA proteins serve as initial receptors in the ABC transport of molybdate in eubacteria and archaea. Bacteria and archaea import molybdenum and tungsten from the environment in the form of the oxyanions molybdate (MoO(4) (2-)) and tungstate (WO(4) (2-)). After binding molybdate and tungstate with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. The ModA proteins belong to the PBP2 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: 270255 [Multi-domain] Cd Length: 225 Bit Score: 242.58 E-value: 7.71e-81
|
|||||||||
| ModA | COG0725 | ABC-type molybdate transport system, periplasmic Mo-binding protein ModA [Inorganic ion ... |
4-264 | 6.20e-79 | |||||
ABC-type molybdate transport system, periplasmic Mo-binding protein ModA [Inorganic ion transport and metabolism]; ABC-type molybdate transport system, periplasmic Mo-binding protein ModA is part of the Pathway/BioSystem: Molybdopterin biosynthesis Pssm-ID: 440489 [Multi-domain] Cd Length: 253 Bit Score: 238.62 E-value: 6.20e-79
|
|||||||||
| modA | TIGR01256 | molybdenum ABC transporter, periplasmic molybdate-binding protein; The model describes the ... |
51-260 | 7.00e-54 | |||||
molybdenum ABC transporter, periplasmic molybdate-binding protein; The model describes the molybdate ABC transporter periplasmic binding protein in bacteria and archae. Several of the periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. It has been shown experimentally by radioactive labeling that ModA represent hydrophylioc periplasmic-binding protein in gram-negative organisms and its counterpart in gram-positive organisms is a lipoprotein. The other components of the system include the ModB, an integral membrane protein and ModC the ATP-binding subunit. Invariably almost all of them display a common beta/alpha folding motif and have similar tertiary structures consisting of two globular domains. [Transport and binding proteins, Anions] Pssm-ID: 273526 [Multi-domain] Cd Length: 216 Bit Score: 173.37 E-value: 7.00e-54
|
|||||||||
| SBP_bac_11 | pfam13531 | Bacterial extracellular solute-binding protein; This family includes bacterial extracellular ... |
47-263 | 4.12e-48 | |||||
Bacterial extracellular solute-binding protein; This family includes bacterial extracellular solute-binding proteins. Pssm-ID: 463911 [Multi-domain] Cd Length: 225 Bit Score: 158.97 E-value: 4.12e-48
|
|||||||||
| modA | PRK10677 | molybdate transporter periplasmic protein; Provisional |
50-262 | 6.00e-29 | |||||
molybdate transporter periplasmic protein; Provisional Pssm-ID: 182641 [Multi-domain] Cd Length: 257 Bit Score: 110.14 E-value: 6.00e-29
|
|||||||||
| Name | Accession | Description | Interval | E-value | |||||
| PBP2_YvgL_like | cd13537 | Substrate binding domain of putative molybdate-binding protein YvgL and similar proteins;the ... |
45-263 | 7.71e-81 | |||||
Substrate binding domain of putative molybdate-binding protein YvgL and similar proteins;the type 2 periplasmic binding protein fold; This subfamily contains domains found in ModA proteins of putative ABC-type transporter. ModA proteins serve as initial receptors in the ABC transport of molybdate in eubacteria and archaea. Bacteria and archaea import molybdenum and tungsten from the environment in the form of the oxyanions molybdate (MoO(4) (2-)) and tungstate (WO(4) (2-)). After binding molybdate and tungstate with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. The ModA proteins belong to the PBP2 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: 270255 [Multi-domain] Cd Length: 225 Bit Score: 242.58 E-value: 7.71e-81
|
|||||||||
| ModA | COG0725 | ABC-type molybdate transport system, periplasmic Mo-binding protein ModA [Inorganic ion ... |
4-264 | 6.20e-79 | |||||
ABC-type molybdate transport system, periplasmic Mo-binding protein ModA [Inorganic ion transport and metabolism]; ABC-type molybdate transport system, periplasmic Mo-binding protein ModA is part of the Pathway/BioSystem: Molybdopterin biosynthesis Pssm-ID: 440489 [Multi-domain] Cd Length: 253 Bit Score: 238.62 E-value: 6.20e-79
|
|||||||||
| PBP2_ModA_like | cd00993 | Substrate binding domain of molybdate-binding proteins, the type 2 periplasmic binding protein ... |
45-263 | 2.91e-64 | |||||
Substrate binding domain of molybdate-binding proteins, the type 2 periplasmic binding protein fold; Molybdate binding domain ModA. Molybdate transport system is comprised of a periplasmic binding protein, an integral membrane protein, and an energizer protein. These three proteins are coded by modA, modB, and modC genes, respectively. ModA proteins serve as initial receptors in the ABC transport of molybdate mostly in eubacteria and archaea. Bacteria and archaea import molybdenum and tungsten from the environment in the form of the oxyanions molybdate (MoO(4) (2-)) and tungstate (WO(4) (2-)). After binding molybdate with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. In contrast to the structure of the two ModA homologs from Escherichia coli and Azotobacter vinelandii, where the oxygen atoms are tetrahedrally arranged around the metal center, the structure of Pyrococcus furiosus ModA/WtpA (PfModA) has revealed a binding site for molybdate and tungstate where the central metal atom is in a hexacoordinate configuration. This octahedral geometry was rather unexpected. The ModA proteins belong to the PBP2 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: 270215 [Multi-domain] Cd Length: 225 Bit Score: 200.26 E-value: 2.91e-64
|
|||||||||
| PBP2_ModA_like_1 | cd13538 | Substrate binding domain of putative molybdate-binding protein;the type 2 periplasmic binding ... |
45-263 | 1.05e-54 | |||||
Substrate binding domain of putative molybdate-binding protein;the type 2 periplasmic binding protein fold; This subfamily contains domains found in ModA proteins of putative ABC-type transporter. Molybdate transport system is comprised of a periplasmic binding protein, an integral membrane protein, and an energizer protein. These three proteins are coded by modA, modB, and modC genes, respectively. ModA proteins serve as initial receptors in the ABC transport of molybdate mostly in eubacteria and archaea. After binding molybdate with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. The ModA proteins belong to the PBP2 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: 270256 [Multi-domain] Cd Length: 230 Bit Score: 175.95 E-value: 1.05e-54
|
|||||||||
| modA | TIGR01256 | molybdenum ABC transporter, periplasmic molybdate-binding protein; The model describes the ... |
51-260 | 7.00e-54 | |||||
molybdenum ABC transporter, periplasmic molybdate-binding protein; The model describes the molybdate ABC transporter periplasmic binding protein in bacteria and archae. Several of the periplasmic receptors constitute a diverse class of binding proteins that differ widely in size, sequence and ligand specificity. It has been shown experimentally by radioactive labeling that ModA represent hydrophylioc periplasmic-binding protein in gram-negative organisms and its counterpart in gram-positive organisms is a lipoprotein. The other components of the system include the ModB, an integral membrane protein and ModC the ATP-binding subunit. Invariably almost all of them display a common beta/alpha folding motif and have similar tertiary structures consisting of two globular domains. [Transport and binding proteins, Anions] Pssm-ID: 273526 [Multi-domain] Cd Length: 216 Bit Score: 173.37 E-value: 7.00e-54
|
|||||||||
| PBP2_EcModA | cd13536 | Substrate binding domain of ModA from Escherichia coli and its closest homologs;the type 2 ... |
46-262 | 1.88e-51 | |||||
Substrate binding domain of ModA from Escherichia coli and its closest homologs;the type 2 periplasmic binding protein fold; This subfamily contains domains found in ModA proteins that serve as initial receptors in the ABC transport of molybdate in eubacteria and archaea. After binding molybdate with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. The ModA 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: 270254 [Multi-domain] Cd Length: 227 Bit Score: 167.59 E-value: 1.88e-51
|
|||||||||
| SBP_bac_11 | pfam13531 | Bacterial extracellular solute-binding protein; This family includes bacterial extracellular ... |
47-263 | 4.12e-48 | |||||
Bacterial extracellular solute-binding protein; This family includes bacterial extracellular solute-binding proteins. Pssm-ID: 463911 [Multi-domain] Cd Length: 225 Bit Score: 158.97 E-value: 4.12e-48
|
|||||||||
| PBP2_AvModA | cd13539 | Substrate binding domain of ModA/WtpA from Azotobacter vinelandii and its closest homologs;the ... |
45-263 | 1.16e-45 | |||||
Substrate binding domain of ModA/WtpA from Azotobacter vinelandii and its closest homologs;the type 2 periplasmic binding protein fold; This subfamily contains domains found in ModA proteins that serve as initial receptors in the ABC transport of molybdate in eubacteria and archaea. Bacteria and archaea import molybdenum and tungsten from the environment in the form of the oxyanions molybdate (MoO(4) (2-)) and tungstate (WO(4) (2-)). After binding molybdate with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. In contrast to the structure of the two ModA homologs from Escherichia coli and Azotobacter vinelandii, where the oxygen atoms are tetrahedrally arranged around the metal center, the structure of Pyrococcus furiosus ModA/WtpA (PfModA) has shown that a binding site for molybdate and tungstate is where the central metal atom is in a hexacoordinate configuration. This octahedral geometry was rather unexpected. The ModA proteins belong to the PBP2 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: 270257 [Multi-domain] Cd Length: 226 Bit Score: 152.72 E-value: 1.16e-45
|
|||||||||
| PBP2_ModA3_like | cd13517 | Substrate binding domain of molybdate binding protein-like (ModA3), a member of the type 2 ... |
45-263 | 2.53e-29 | |||||
Substrate binding domain of molybdate binding protein-like (ModA3), a member of the type 2 periplasmic binding fold superfamily; This subfamily contains molybdate binding protein-like (ModA3) domain of an ABC-type transporter. Molybdate transport system is comprised of a periplasmic binding protein, an integral membrane protein, and an energizer protein. These three proteins are coded by modA, modB, and modC genes, respectively. ModA proteins serve as initial receptors in the ABC transport of molybdate mostly in eubacteria and archaea. ModA transporters import molybdenum and tungsten from the environment in the form of the oxyanions molybdate (MoO(4) (2-)) and tungstate (WO(4) (2-)). After binding molybdate with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. In contrast to the structure of the two ModA homologs from Escherichia coli and Azotobacter vinelandii, where the oxygen atoms are tetrahedrally arrangted around the metal center, the structure of Pyrococcus furiosus ModA/WtpA (PfModA) has shown that a binding site for molybdate and tungstate where the central metal atom is in a hexacoordinate configuration. The ModA proteins belong to the PBP2 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: 270235 [Multi-domain] Cd Length: 223 Bit Score: 110.39 E-value: 2.53e-29
|
|||||||||
| modA | PRK10677 | molybdate transporter periplasmic protein; Provisional |
50-262 | 6.00e-29 | |||||
molybdate transporter periplasmic protein; Provisional Pssm-ID: 182641 [Multi-domain] Cd Length: 257 Bit Score: 110.14 E-value: 6.00e-29
|
|||||||||
| PBP2_ModA_WtpA | cd13540 | Substrate binding domain of ModA/WtpA from Pyrococcus furiosus and its closest homologs;the ... |
45-263 | 3.15e-14 | |||||
Substrate binding domain of ModA/WtpA from Pyrococcus furiosus and its closest homologs;the type 2 periplasmic binding protein fold; This subfamily contains domains found in ModA proteins that serve as initial receptors in the ABC transport of molybdate in eubacteria and archaea. Bacteria and archaea import molybdenum and tungsten from the environment in the form of the oxyanions molybdate (MoO(4) (2-)) and tungstate (WO(4) (2-)). After binding molybdate with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. In contrast to the structure of the two ModA homologs from Escherichia coli and Azotobacter vinelandii, where the oxygen atoms are tetrahedrally arranged around the metal center, the structure of Pyrococcus furiosus ModA/WtpA (PfModA) has shown that a binding site for molybdate and tungstate where the central metal atom is in a hexacoordinate configuration. The ModA proteins belong to the PBP2 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: 270258 [Multi-domain] Cd Length: 263 Bit Score: 70.41 E-value: 3.15e-14
|
|||||||||
| PBP2_ModA_like_2 | cd13541 | Substrate binding domain of molybdate-binding proteins;the type 2 periplasmic binding protein ... |
45-263 | 3.74e-14 | |||||
Substrate binding domain of molybdate-binding proteins;the type 2 periplasmic binding protein fold; This subfamily contains domains found in ModA proteins of putative ABC-type transporter. ModA proteins serve as initial receptors in the ABC transport of molybdate in eubacteria and archaea. Bacteria and archaea import molybdenum and tungsten from the environment in the form of the oxyanions molybdate (MoO(4) (2-)) and tungstate (WO(4) (2-)). After binding molybdate and tungstate with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. The ModA proteins belong to the PBP2 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: 270259 [Multi-domain] Cd Length: 238 Bit Score: 69.64 E-value: 3.74e-14
|
|||||||||
| ptsS_2 | TIGR02136 | phosphate binding protein; Members of this family are phosphate-binding proteins. Most are ... |
4-259 | 8.11e-09 | |||||
phosphate binding protein; Members of this family are phosphate-binding proteins. Most are found in phosphate ABC-transporter operons, but some are found in phosphate regulatory operons. This model separates members of the current family from the phosphate ABC transporter phosphate binding protein described by TIGRFAMs model TIGR00975. [Transport and binding proteins, Anions] Pssm-ID: 273991 [Multi-domain] Cd Length: 287 Bit Score: 55.14 E-value: 8.11e-09
|
|||||||||
| PBP2_Fe3_thiamine_like | cd13518 | Substrate binding domain of iron and thiamine transporters-like, a member of the type 2 ... |
56-264 | 1.00e-07 | |||||
Substrate binding domain of iron and thiamine transporters-like, a member of the type 2 periplasmic binding fold superfamily; The periplasmic iron binding protein plays an essential role in the iron uptake pathway of Gram-negative pathogenic bacteria from the Pasteurellaceae and Neisseriaceae families and is critical for survival of these pathogens within the host. On the other hand, thiamin is an essential cofactor in all living systems. Thiamin diphosphate (ThDP)-dependent enzymes play an important role in carbohydrate and branched-chain amino acid metabolism. Most prokaryotes, plants, and fungi can synthesize thiamin, but it is not synthesized in vertebrates. These periplasmic domains have high affinities for their respective substrates and serve as the primary receptor for transport. After binding iron and thiamine with high affinity, they interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. The iron- and thiamine-binding proteins belong to the PBPI2 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: 270236 [Multi-domain] Cd Length: 260 Bit Score: 51.53 E-value: 1.00e-07
|
|||||||||
| MalE | COG2182 | Maltose-binding periplasmic protein MalE [Carbohydrate transport and metabolism]; |
1-102 | 2.44e-07 | |||||
Maltose-binding periplasmic protein MalE [Carbohydrate transport and metabolism]; Pssm-ID: 441785 [Multi-domain] Cd Length: 410 Bit Score: 51.10 E-value: 2.44e-07
|
|||||||||
| AfuA | COG1840 | ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; ... |
61-264 | 2.64e-07 | |||||
ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Pssm-ID: 441445 [Multi-domain] Cd Length: 286 Bit Score: 50.70 E-value: 2.64e-07
|
|||||||||
| PRK04168 | PRK04168 | tungstate ABC transporter substrate-binding protein WtpA; |
6-140 | 5.55e-07 | |||||
tungstate ABC transporter substrate-binding protein WtpA; Pssm-ID: 235236 Cd Length: 334 Bit Score: 49.98 E-value: 5.55e-07
|
|||||||||
| SBP_bac_1 | pfam01547 | Bacterial extracellular solute-binding protein; This family also includes the bacterial ... |
59-254 | 2.89e-05 | |||||
Bacterial extracellular solute-binding protein; This family also includes the bacterial extracellular solute-binding protein family POTD/POTF. Pssm-ID: 460248 [Multi-domain] Cd Length: 294 Bit Score: 44.33 E-value: 2.89e-05
|
|||||||||
| UgpB | COG1653 | ABC-type glycerol-3-phosphate transport system, periplasmic component [Carbohydrate transport ... |
4-98 | 9.74e-05 | |||||
ABC-type glycerol-3-phosphate transport system, periplasmic component [Carbohydrate transport and metabolism]; Pssm-ID: 441259 [Multi-domain] Cd Length: 363 Bit Score: 43.11 E-value: 9.74e-05
|
|||||||||
| PBP_like_2 | pfam12849 | PBP superfamily domain; This domain belongs to the periplasmic binding protein superfamily. |
45-154 | 8.67e-04 | |||||
PBP superfamily domain; This domain belongs to the periplasmic binding protein superfamily. Pssm-ID: 432831 [Multi-domain] Cd Length: 267 Bit Score: 39.84 E-value: 8.67e-04
|
|||||||||
| PstS | COG0226 | ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and ... |
43-100 | 8.14e-03 | |||||
ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Pssm-ID: 439996 [Multi-domain] Cd Length: 275 Bit Score: 36.78 E-value: 8.14e-03
|
|||||||||
| Blast search parameters | ||||
|
