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Conserved domains on  [gi|767912074|ref|XP_011542337|]
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lysosomal-trafficking regulator isoform X2 [Homo sapiens]

Protein Classification

PH_BEACH and Beach domain-containing protein( domain architecture ID 10100387)

PH_BEACH and Beach domain-containing protein

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Beach super family cl10511
BEACH (Beige and Chediak-Higashi) domains, implicated in membrane trafficking, are present in ...
3186-3316 2.95e-58

BEACH (Beige and Chediak-Higashi) domains, implicated in membrane trafficking, are present in a family of proteins conserved throughout eukaryotes. This group contains human lysosomal trafficking regulator (LYST), LPS-responsive and beige-like anchor (LRBA) and neurobeachin. Disruption of LYST leads to Chediak-Higashi syndrome, characterized by severe immunodeficiency, albinism, poor blood coagulation and neurologic problems. Neurobeachin is a candidate gene linked to autism. LBRA seems to be upregulated in several cancer types. It has been shown that the BEACH domain itself is important for the function of these proteins.


The actual alignment was detected with superfamily member smart01026:

Pssm-ID: 471984  Cd Length: 280  Bit Score: 203.99  E-value: 2.95e-58
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074   3186 TNLWYTGQITNFEYLTHLNKHAGRSFNDLMQYPVFPFILADYVSETLDLNDLLIYRNLSKPIAVQYKEKEDRYVDTYKYL 3265
Cdd:smart01026    1 TQKWQNGEISNFEYLMHLNTLAGRSYNDLTQYPVFPWVLADYTSETLDLSNPSTFRDLSKPIGALNPERLEFFYERYEEL 80
                            90       100       110       120       130
                    ....*....|....*....|....*....|....*....|....*....|.
gi 767912074   3266 EEeyrkgareddpmPPVQPYHYGSHYSNSGTVLHFLVRMPPFTKMFLAYQD 3316
Cdd:smart01026   81 ED------------PDIPPFHYGTHYSSAGIVLYYLIRLEPFTTLFLQLQG 119
PH_BEACH cd01201
Pleckstrin homology domain in BEACH domain containing proteins; The BEACH domain is present in ...
3066-3171 6.90e-30

Pleckstrin homology domain in BEACH domain containing proteins; The BEACH domain is present in several eukaroyotic proteins CHS, neurobeachin (Nbea), LRBA (also called BGL, beige-like, or CDC4L), FAN, KIAA1607, and LvsA-LvsF. CHS is a rare, autosomal recessive disorder that can cause severe immunodeficiency and albinism in mammals and beige is the name for the CHS disease in mice. The CHS disease is associated with the presence of giant, perinuclear vesicles (lysosomes, melanosomes, and others) and CHS protein is thought to play an important role in the fusion, fission, or trafficking of these vesicles. All BEACH proteins contain the following domains: PH, BEACH, and WD40. The WD40 domain is involved in mediating protein-protein interactions involved in targeting proteins to subcellular compartments. The combined PH-BEACH motifs may present a single continuous structural unit involved in protein binding. Some members have an additional N-terminal Laminin G-like (LamG) domains Ca++ mediated receptors or an additional C-terminal FYVE zinc-binding domain which targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P. PH domains have diverse functions, but in general are involved in targeting proteins to the appropriate cellular location or in the interaction with a binding partner. They share little sequence conservation, but all have a common fold, which is electrostatically polarized. Less than 10% of PH domains bind phosphoinositide phosphates (PIPs) with high affinity and specificity. PH domains are distinguished from other PIP-binding domains by their specific high-affinity binding to PIPs with two vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which results in targeting some PH domain proteins to the plasma membrane. A few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.


:

Pssm-ID: 275391  Cd Length: 112  Bit Score: 115.80  E-value: 6.90e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074 3066 ESIRVNRRCISVAPSRETAGELLLGKCGMYFVEDN------ASDTVESSSLQGELEPASFSWTYEEIKEVHKRWWQLRDN 3139
Cdd:cd01201     1 EKILLSVNCSLVTPLDVIEGRLLITKTHLYFVDDFtisedgKIVVINSQKVLSYKEHLVFKWSLSDIREVHKRRYLLRDT 80
                          90       100       110
                  ....*....|....*....|....*....|..
gi 767912074 3140 AVEIFLTNGRTLLLAFDNtKVRDDVYHNILTN 3171
Cdd:cd01201    81 ALEIFFTDGTNYFLNFPS-KERNDVYKKLLSL 111
 
Name Accession Description Interval E-value
Beach smart01026
Beige/BEACH domain; The BEACH domain was described in the BEIGE protein (D1035670) and in the ...
3186-3316 2.95e-58

Beige/BEACH domain; The BEACH domain was described in the BEIGE protein (D1035670) and in the highly homologous CHS protein. The BEACH domain is usually followed by a series of WD repeats. The function of the BEACH domain is unknown.


Pssm-ID: 214982  Cd Length: 280  Bit Score: 203.99  E-value: 2.95e-58
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074   3186 TNLWYTGQITNFEYLTHLNKHAGRSFNDLMQYPVFPFILADYVSETLDLNDLLIYRNLSKPIAVQYKEKEDRYVDTYKYL 3265
Cdd:smart01026    1 TQKWQNGEISNFEYLMHLNTLAGRSYNDLTQYPVFPWVLADYTSETLDLSNPSTFRDLSKPIGALNPERLEFFYERYEEL 80
                            90       100       110       120       130
                    ....*....|....*....|....*....|....*....|....*....|.
gi 767912074   3266 EEeyrkgareddpmPPVQPYHYGSHYSNSGTVLHFLVRMPPFTKMFLAYQD 3316
Cdd:smart01026   81 ED------------PDIPPFHYGTHYSSAGIVLYYLIRLEPFTTLFLQLQG 119
Beach pfam02138
Beige/BEACH domain;
3187-3316 2.60e-57

Beige/BEACH domain;


Pssm-ID: 460459  Cd Length: 277  Bit Score: 201.16  E-value: 2.60e-57
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074  3187 NLWYTGQITNFEYLTHLNKHAGRSFNDLMQYPVFPFILADYVSETLDLNDLLIYRNLSKPIAVQYKEKEDRYVDTYKYLE 3266
Cdd:pfam02138    1 KKWQNGEISNFEYLMYLNTLAGRSFNDLSQYPVFPWVLADYTSEELDLNDPSTYRDLSKPIGALNEERLEKFKERYEELE 80
                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|
gi 767912074  3267 EeyrkgareddpmpPVQPYHYGSHYSNSGTVLHFLVRMPPFTKMFLAYQD 3316
Cdd:pfam02138   81 D-------------DDPPFHYGSHYSSPGIVLYYLIRLEPFTTLHIELQG 117
Beach cd06071
BEACH (Beige and Chediak-Higashi) domains, implicated in membrane trafficking, are present in ...
3186-3316 2.69e-48

BEACH (Beige and Chediak-Higashi) domains, implicated in membrane trafficking, are present in a family of proteins conserved throughout eukaryotes. This group contains human lysosomal trafficking regulator (LYST), LPS-responsive and beige-like anchor (LRBA) and neurobeachin. Disruption of LYST leads to Chediak-Higashi syndrome, characterized by severe immunodeficiency, albinism, poor blood coagulation and neurologic problems. Neurobeachin is a candidate gene linked to autism. LBRA seems to be upregulated in several cancer types. It has been shown that the BEACH domain itself is important for the function of these proteins.


Pssm-ID: 100117 [Multi-domain]  Cd Length: 275  Bit Score: 175.12  E-value: 2.69e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074 3186 TNLWYTGQITNFEYLTHLNKHAGRSFNDLMQYPVFPFILADYVSETLDLNDLLIYRNLSKPIAVQYKEKEDRYVDTYkyl 3265
Cdd:cd06071     1 TKKWQNGEISNFEYLMYLNTLAGRSFNDLSQYPIFPWVISDYTSEELDLNDPSTYRDLSKPIGALNKERLQLLKERY--- 77
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 767912074 3266 eeeyrkgarEDDPMPPVQPYHYGSHYSNSGTVLHFLVRMPPFTKMFLAYQD 3316
Cdd:cd06071    78 ---------ESDSDDSDPPFHYGSHYSNPAIVLYYLVRLEPFTTLHLSLQG 119
PH_BEACH cd01201
Pleckstrin homology domain in BEACH domain containing proteins; The BEACH domain is present in ...
3066-3171 6.90e-30

Pleckstrin homology domain in BEACH domain containing proteins; The BEACH domain is present in several eukaroyotic proteins CHS, neurobeachin (Nbea), LRBA (also called BGL, beige-like, or CDC4L), FAN, KIAA1607, and LvsA-LvsF. CHS is a rare, autosomal recessive disorder that can cause severe immunodeficiency and albinism in mammals and beige is the name for the CHS disease in mice. The CHS disease is associated with the presence of giant, perinuclear vesicles (lysosomes, melanosomes, and others) and CHS protein is thought to play an important role in the fusion, fission, or trafficking of these vesicles. All BEACH proteins contain the following domains: PH, BEACH, and WD40. The WD40 domain is involved in mediating protein-protein interactions involved in targeting proteins to subcellular compartments. The combined PH-BEACH motifs may present a single continuous structural unit involved in protein binding. Some members have an additional N-terminal Laminin G-like (LamG) domains Ca++ mediated receptors or an additional C-terminal FYVE zinc-binding domain which targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P. PH domains have diverse functions, but in general are involved in targeting proteins to the appropriate cellular location or in the interaction with a binding partner. They share little sequence conservation, but all have a common fold, which is electrostatically polarized. Less than 10% of PH domains bind phosphoinositide phosphates (PIPs) with high affinity and specificity. PH domains are distinguished from other PIP-binding domains by their specific high-affinity binding to PIPs with two vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which results in targeting some PH domain proteins to the plasma membrane. A few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.


Pssm-ID: 275391  Cd Length: 112  Bit Score: 115.80  E-value: 6.90e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074 3066 ESIRVNRRCISVAPSRETAGELLLGKCGMYFVEDN------ASDTVESSSLQGELEPASFSWTYEEIKEVHKRWWQLRDN 3139
Cdd:cd01201     1 EKILLSVNCSLVTPLDVIEGRLLITKTHLYFVDDFtisedgKIVVINSQKVLSYKEHLVFKWSLSDIREVHKRRYLLRDT 80
                          90       100       110
                  ....*....|....*....|....*....|..
gi 767912074 3140 AVEIFLTNGRTLLLAFDNtKVRDDVYHNILTN 3171
Cdd:cd01201    81 ALEIFFTDGTNYFLNFPS-KERNDVYKKLLSL 111
PH_BEACH pfam14844
PH domain associated with Beige/BEACH; This PH domain is found in proteins containing the ...
3074-3169 5.33e-29

PH domain associated with Beige/BEACH; This PH domain is found in proteins containing the Beige/BEACH domain (pfam02138), it immediately precedes the Beige/BEACH domain.


Pssm-ID: 434260  Cd Length: 99  Bit Score: 113.13  E-value: 5.33e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074  3074 CISVAPSRETAGELLLGKCGMYFVED---NASDTVESSSLQGELEPASFSWTYEEIKEVHKRWWQLRDNAVEIFLTNGRT 3150
Cdd:pfam14844    1 CELVTPMGVVRGKLSITTDHIYFTADdedEALDSVQESESLGYDKPKHKRWPISDIKEVHLRRYLLRDTALEIFLIDRTS 80
                           90
                   ....*....|....*....
gi 767912074  3151 LLLAFDNTKVRDDVYHNIL 3169
Cdd:pfam14844   81 LFFNFPDTGTRRKVYRKLV 99
 
Name Accession Description Interval E-value
Beach smart01026
Beige/BEACH domain; The BEACH domain was described in the BEIGE protein (D1035670) and in the ...
3186-3316 2.95e-58

Beige/BEACH domain; The BEACH domain was described in the BEIGE protein (D1035670) and in the highly homologous CHS protein. The BEACH domain is usually followed by a series of WD repeats. The function of the BEACH domain is unknown.


Pssm-ID: 214982  Cd Length: 280  Bit Score: 203.99  E-value: 2.95e-58
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074   3186 TNLWYTGQITNFEYLTHLNKHAGRSFNDLMQYPVFPFILADYVSETLDLNDLLIYRNLSKPIAVQYKEKEDRYVDTYKYL 3265
Cdd:smart01026    1 TQKWQNGEISNFEYLMHLNTLAGRSYNDLTQYPVFPWVLADYTSETLDLSNPSTFRDLSKPIGALNPERLEFFYERYEEL 80
                            90       100       110       120       130
                    ....*....|....*....|....*....|....*....|....*....|.
gi 767912074   3266 EEeyrkgareddpmPPVQPYHYGSHYSNSGTVLHFLVRMPPFTKMFLAYQD 3316
Cdd:smart01026   81 ED------------PDIPPFHYGTHYSSAGIVLYYLIRLEPFTTLFLQLQG 119
Beach pfam02138
Beige/BEACH domain;
3187-3316 2.60e-57

Beige/BEACH domain;


Pssm-ID: 460459  Cd Length: 277  Bit Score: 201.16  E-value: 2.60e-57
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074  3187 NLWYTGQITNFEYLTHLNKHAGRSFNDLMQYPVFPFILADYVSETLDLNDLLIYRNLSKPIAVQYKEKEDRYVDTYKYLE 3266
Cdd:pfam02138    1 KKWQNGEISNFEYLMYLNTLAGRSFNDLSQYPVFPWVLADYTSEELDLNDPSTYRDLSKPIGALNEERLEKFKERYEELE 80
                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|
gi 767912074  3267 EeyrkgareddpmpPVQPYHYGSHYSNSGTVLHFLVRMPPFTKMFLAYQD 3316
Cdd:pfam02138   81 D-------------DDPPFHYGSHYSSPGIVLYYLIRLEPFTTLHIELQG 117
Beach cd06071
BEACH (Beige and Chediak-Higashi) domains, implicated in membrane trafficking, are present in ...
3186-3316 2.69e-48

BEACH (Beige and Chediak-Higashi) domains, implicated in membrane trafficking, are present in a family of proteins conserved throughout eukaryotes. This group contains human lysosomal trafficking regulator (LYST), LPS-responsive and beige-like anchor (LRBA) and neurobeachin. Disruption of LYST leads to Chediak-Higashi syndrome, characterized by severe immunodeficiency, albinism, poor blood coagulation and neurologic problems. Neurobeachin is a candidate gene linked to autism. LBRA seems to be upregulated in several cancer types. It has been shown that the BEACH domain itself is important for the function of these proteins.


Pssm-ID: 100117 [Multi-domain]  Cd Length: 275  Bit Score: 175.12  E-value: 2.69e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074 3186 TNLWYTGQITNFEYLTHLNKHAGRSFNDLMQYPVFPFILADYVSETLDLNDLLIYRNLSKPIAVQYKEKEDRYVDTYkyl 3265
Cdd:cd06071     1 TKKWQNGEISNFEYLMYLNTLAGRSFNDLSQYPIFPWVISDYTSEELDLNDPSTYRDLSKPIGALNKERLQLLKERY--- 77
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 767912074 3266 eeeyrkgarEDDPMPPVQPYHYGSHYSNSGTVLHFLVRMPPFTKMFLAYQD 3316
Cdd:cd06071    78 ---------ESDSDDSDPPFHYGSHYSNPAIVLYYLVRLEPFTTLHLSLQG 119
PH_BEACH cd01201
Pleckstrin homology domain in BEACH domain containing proteins; The BEACH domain is present in ...
3066-3171 6.90e-30

Pleckstrin homology domain in BEACH domain containing proteins; The BEACH domain is present in several eukaroyotic proteins CHS, neurobeachin (Nbea), LRBA (also called BGL, beige-like, or CDC4L), FAN, KIAA1607, and LvsA-LvsF. CHS is a rare, autosomal recessive disorder that can cause severe immunodeficiency and albinism in mammals and beige is the name for the CHS disease in mice. The CHS disease is associated with the presence of giant, perinuclear vesicles (lysosomes, melanosomes, and others) and CHS protein is thought to play an important role in the fusion, fission, or trafficking of these vesicles. All BEACH proteins contain the following domains: PH, BEACH, and WD40. The WD40 domain is involved in mediating protein-protein interactions involved in targeting proteins to subcellular compartments. The combined PH-BEACH motifs may present a single continuous structural unit involved in protein binding. Some members have an additional N-terminal Laminin G-like (LamG) domains Ca++ mediated receptors or an additional C-terminal FYVE zinc-binding domain which targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P. PH domains have diverse functions, but in general are involved in targeting proteins to the appropriate cellular location or in the interaction with a binding partner. They share little sequence conservation, but all have a common fold, which is electrostatically polarized. Less than 10% of PH domains bind phosphoinositide phosphates (PIPs) with high affinity and specificity. PH domains are distinguished from other PIP-binding domains by their specific high-affinity binding to PIPs with two vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which results in targeting some PH domain proteins to the plasma membrane. A few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.


Pssm-ID: 275391  Cd Length: 112  Bit Score: 115.80  E-value: 6.90e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074 3066 ESIRVNRRCISVAPSRETAGELLLGKCGMYFVEDN------ASDTVESSSLQGELEPASFSWTYEEIKEVHKRWWQLRDN 3139
Cdd:cd01201     1 EKILLSVNCSLVTPLDVIEGRLLITKTHLYFVDDFtisedgKIVVINSQKVLSYKEHLVFKWSLSDIREVHKRRYLLRDT 80
                          90       100       110
                  ....*....|....*....|....*....|..
gi 767912074 3140 AVEIFLTNGRTLLLAFDNtKVRDDVYHNILTN 3171
Cdd:cd01201    81 ALEIFFTDGTNYFLNFPS-KERNDVYKKLLSL 111
PH_BEACH pfam14844
PH domain associated with Beige/BEACH; This PH domain is found in proteins containing the ...
3074-3169 5.33e-29

PH domain associated with Beige/BEACH; This PH domain is found in proteins containing the Beige/BEACH domain (pfam02138), it immediately precedes the Beige/BEACH domain.


Pssm-ID: 434260  Cd Length: 99  Bit Score: 113.13  E-value: 5.33e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767912074  3074 CISVAPSRETAGELLLGKCGMYFVED---NASDTVESSSLQGELEPASFSWTYEEIKEVHKRWWQLRDNAVEIFLTNGRT 3150
Cdd:pfam14844    1 CELVTPMGVVRGKLSITTDHIYFTADdedEALDSVQESESLGYDKPKHKRWPISDIKEVHLRRYLLRDTALEIFLIDRTS 80
                           90
                   ....*....|....*....
gi 767912074  3151 LLLAFDNTKVRDDVYHNIL 3169
Cdd:pfam14844   81 LFFNFPDTGTRRKVYRKLV 99
 
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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