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Conserved domains on  [gi|115533594|ref|NP_490838|]
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FYVE-type domain-containing protein [Caenorhabditis elegans]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FYVE_Slp3_4_5 cd15747
FYVE-related domain found in the synaptotagmin-like proteins 3, 4, 5; The synaptotagmin-like ...
 95-148 9.72e-14

FYVE-related domain found in the synaptotagmin-like proteins 3, 4, 5; The synaptotagmin-like proteins 1-5 (Slp1-5) family belongs to the carboxyl-terminal-type (C-type) tandem C2 proteins superfamily, which also contains the synaptotagmin and the Doc2 families. Slp proteins are putative membrane trafficking proteins that are characterized by the presence of a unique N-terminal Slp homology domain (SHD), and C-terminal tandem C2 domains (known as the C2A domain and C2B domain). The SHD consists of two conserved regions, designated SHD1 (Slp homology domain 1) and SHD2. The SHD1 and SHD2 of Slp3, Slp4 and Slp5 are separated by a putative FYVE zinc finger. By contrast, Slp1 and Slp2 lack such zinc finger and their SHD1 and SHD2 are linked together. This model corresponds to the FYVE zinc finger. At this point, Slp1 and Slp2 are not included in this model. Moreover, the FYVE domains of Slp3, Slp4 and Slp5 resemble a FYVE-related domain that is structurally similar to the canonical FYVE domains but lacks the three signature sequences: an N-terminal WxxD motif (x for any residue), the central basic R(R/K)HHCRxCG patch, and a C-terminal RVC motif.


:

Pssm-ID: 277286  Cd Length: 48  Bit Score: 64.63  E-value: 9.72e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 115533594  95 RLCSTCQCTLGYILNSGTKCKKCSSHICDKCAHSVSSgsaqnpQKYSLCTVCYS 148
Cdd:cd15747    1 RICARCREKLGFIFNRGARCPKCSHKVCKKCRVLTSN------TGKWLCTVCHK 48
PHD_SF super family cl22851
PHD finger superfamily; The PHD finger superfamily includes a canonical plant homeodomain (PHD) ...
 15-159 1.07e-05

PHD finger superfamily; The PHD finger superfamily includes a canonical plant homeodomain (PHD) finger typically characterized as Cys4HisCys3, and a non-canonical extended PHD finger, characterized as Cys2HisCys5HisCys2His. Variations include the RAG2 PHD finger characterized by Cys3His2Cys2His and the PHD finger 5 found in nuclear receptor-binding SET domain-containing proteins characterized by Cys4HisCys2His. The PHD finger is also termed LAP (leukemia-associated protein) motif or TTC (trithorax consensus) domain. Single or multiple copies of PHD fingers have been found in a variety of eukaryotic proteins involved in the control of gene transcription and chromatin dynamics. PHD fingers can recognize the unmodified and modified histone H3 tail, and some have been found to interact with non-histone proteins. They also function as epigenome readers controlling gene expression through molecular recruitment of multi-protein complexes of chromatin regulators and transcription factors. The PHD finger domain SF is structurally similar to the RING and FYVE_like superfamilies.


The actual alignment was detected with superfamily member pfam02318:

Pssm-ID: 473978  Cd Length: 118  Bit Score: 43.90  E-value: 1.07e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115533594   15 ELSIEEQRAIRSVLEKDLEFQQSEQNRIRSLstcvaikKTSLQE---KRRASSvagsessesgLSSPGNVSHgrtsplpk 91
Cdd:pfam02318   2 KLTDEEAEHVWEVVQRDFDLRKKEEERLGEL-------KGKLDKessKRELLG----------NQAHLGETH-------- 56

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 115533594   92 wnnrlCSTCQCTLGYILNSGTKCKKCSSHICDKCahsvssGSAQNPQKYSLCTVCYSERELSAAKNEW 159
Cdd:pfam02318  57 -----CIRCLQPFGFLVNSKRQCLDCRKNVCKKC------GVYNKPEQGWLCDPCSEARELKKGSLEW 113
 
Name Accession Description Interval E-value
FYVE_Slp3_4_5 cd15747
FYVE-related domain found in the synaptotagmin-like proteins 3, 4, 5; The synaptotagmin-like ...
 95-148 9.72e-14

FYVE-related domain found in the synaptotagmin-like proteins 3, 4, 5; The synaptotagmin-like proteins 1-5 (Slp1-5) family belongs to the carboxyl-terminal-type (C-type) tandem C2 proteins superfamily, which also contains the synaptotagmin and the Doc2 families. Slp proteins are putative membrane trafficking proteins that are characterized by the presence of a unique N-terminal Slp homology domain (SHD), and C-terminal tandem C2 domains (known as the C2A domain and C2B domain). The SHD consists of two conserved regions, designated SHD1 (Slp homology domain 1) and SHD2. The SHD1 and SHD2 of Slp3, Slp4 and Slp5 are separated by a putative FYVE zinc finger. By contrast, Slp1 and Slp2 lack such zinc finger and their SHD1 and SHD2 are linked together. This model corresponds to the FYVE zinc finger. At this point, Slp1 and Slp2 are not included in this model. Moreover, the FYVE domains of Slp3, Slp4 and Slp5 resemble a FYVE-related domain that is structurally similar to the canonical FYVE domains but lacks the three signature sequences: an N-terminal WxxD motif (x for any residue), the central basic R(R/K)HHCRxCG patch, and a C-terminal RVC motif.


Pssm-ID: 277286  Cd Length: 48  Bit Score: 64.63  E-value: 9.72e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 115533594  95 RLCSTCQCTLGYILNSGTKCKKCSSHICDKCAHSVSSgsaqnpQKYSLCTVCYS 148
Cdd:cd15747    1 RICARCREKLGFIFNRGARCPKCSHKVCKKCRVLTSN------TGKWLCTVCHK 48
FYVE_2 pfam02318
FYVE-type zinc finger; This FYVE-type zinc finger is found at the N-terminus of effector ...
 15-159 1.07e-05

FYVE-type zinc finger; This FYVE-type zinc finger is found at the N-terminus of effector proteins including rabphilin-3A and regulating synaptic membrane exocytosis protein 2.


Pssm-ID: 426716  Cd Length: 118  Bit Score: 43.90  E-value: 1.07e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115533594   15 ELSIEEQRAIRSVLEKDLEFQQSEQNRIRSLstcvaikKTSLQE---KRRASSvagsessesgLSSPGNVSHgrtsplpk 91
Cdd:pfam02318   2 KLTDEEAEHVWEVVQRDFDLRKKEEERLGEL-------KGKLDKessKRELLG----------NQAHLGETH-------- 56

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 115533594   92 wnnrlCSTCQCTLGYILNSGTKCKKCSSHICDKCahsvssGSAQNPQKYSLCTVCYSERELSAAKNEW 159
Cdd:pfam02318  57 -----CIRCLQPFGFLVNSKRQCLDCRKNVCKKC------GVYNKPEQGWLCDPCSEARELKKGSLEW 113
 
Name Accession Description Interval E-value
FYVE_Slp3_4_5 cd15747
FYVE-related domain found in the synaptotagmin-like proteins 3, 4, 5; The synaptotagmin-like ...
 95-148 9.72e-14

FYVE-related domain found in the synaptotagmin-like proteins 3, 4, 5; The synaptotagmin-like proteins 1-5 (Slp1-5) family belongs to the carboxyl-terminal-type (C-type) tandem C2 proteins superfamily, which also contains the synaptotagmin and the Doc2 families. Slp proteins are putative membrane trafficking proteins that are characterized by the presence of a unique N-terminal Slp homology domain (SHD), and C-terminal tandem C2 domains (known as the C2A domain and C2B domain). The SHD consists of two conserved regions, designated SHD1 (Slp homology domain 1) and SHD2. The SHD1 and SHD2 of Slp3, Slp4 and Slp5 are separated by a putative FYVE zinc finger. By contrast, Slp1 and Slp2 lack such zinc finger and their SHD1 and SHD2 are linked together. This model corresponds to the FYVE zinc finger. At this point, Slp1 and Slp2 are not included in this model. Moreover, the FYVE domains of Slp3, Slp4 and Slp5 resemble a FYVE-related domain that is structurally similar to the canonical FYVE domains but lacks the three signature sequences: an N-terminal WxxD motif (x for any residue), the central basic R(R/K)HHCRxCG patch, and a C-terminal RVC motif.


Pssm-ID: 277286  Cd Length: 48  Bit Score: 64.63  E-value: 9.72e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 115533594  95 RLCSTCQCTLGYILNSGTKCKKCSSHICDKCAHSVSSgsaqnpQKYSLCTVCYS 148
Cdd:cd15747    1 RICARCREKLGFIFNRGARCPKCSHKVCKKCRVLTSN------TGKWLCTVCHK 48
FYVE_2 pfam02318
FYVE-type zinc finger; This FYVE-type zinc finger is found at the N-terminus of effector ...
 15-159 1.07e-05

FYVE-type zinc finger; This FYVE-type zinc finger is found at the N-terminus of effector proteins including rabphilin-3A and regulating synaptic membrane exocytosis protein 2.


Pssm-ID: 426716  Cd Length: 118  Bit Score: 43.90  E-value: 1.07e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115533594   15 ELSIEEQRAIRSVLEKDLEFQQSEQNRIRSLstcvaikKTSLQE---KRRASSvagsessesgLSSPGNVSHgrtsplpk 91
Cdd:pfam02318   2 KLTDEEAEHVWEVVQRDFDLRKKEEERLGEL-------KGKLDKessKRELLG----------NQAHLGETH-------- 56

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 115533594   92 wnnrlCSTCQCTLGYILNSGTKCKKCSSHICDKCahsvssGSAQNPQKYSLCTVCYSERELSAAKNEW 159
Cdd:pfam02318  57 -----CIRCLQPFGFLVNSKRQCLDCRKNVCKKC------GVYNKPEQGWLCDPCSEARELKKGSLEW 113
FYVE_Slp5 cd15766
FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins; Slp5 is ...
 95-146 7.20e-05

FYVE-related domain found in synaptotagmin-like protein 5 (Slp5) and similar proteins; Slp5 is a novel Rab27A-specific effector that is highly expressed in placenta and liver. Slp5 specifically interacted with the GTP-bound form of Rab27A and is involved in Rab27A-dependent membrane trafficking in specific tissues. Slp5 contains an N-terminal Slp homology domain (SHD) and C-terminal tandem C2 domains. The Slp homology domain (SHD) consists of two conserved regions, designated SHD1 (Slp homology domain 1) and SHD2, which may function as protein interaction sites. The SHD1 and SHD2 of Slp5 are separated by a putative FYVE zinc finger, which resembles a FYVE-related domain that is structurally similar to the canonical FYVE domains but lacks the three signature sequences: an N-terminal WxxD motif (x for any residue), the central basic R(R/K)HHCRxCG patch, and a C-terminal RVC motif.


Pssm-ID: 277305  Cd Length: 47  Bit Score: 39.81  E-value: 7.20e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 115533594  95 RLCSTCQCTLGYILNSGTKCKKCSSHICDKCAHSVSSGSAQnpqkyslCTVC 146
Cdd:cd15766    1 RLCVRCLKNLGLIFDRGDLCQECQLRVCSECRVLGANGKWK-------CTVC 45
FYVE_Slp3 cd15765
FYVE-related domain found in synaptotagmin-like protein 3 (Slp3) and similar proteins; Slp3, ...
 95-148 6.76e-04

FYVE-related domain found in synaptotagmin-like protein 3 (Slp3) and similar proteins; Slp3, also termed exophilin-6, functions as a Rab27A-specific effector in cytotoxic T lymphocytes. It binds to kinesin-1 motor through interaction with the tetratricopeptide repeat of the kinesin-1 light chain (KLC1). The kinesin-1/Slp3/Rab27a complex plays a role in mediating the terminal transport of lytic granules to the immune synapse. Slp3 contains an N-terminal Slp homology domain (SHD) and C-terminal tandem C2 domains. The Slp homology domain (SHD) consists of two conserved regions, designated SHD1 (Slp homology domain 1) and SHD2, which may function as protein interaction sites. The SHD1 and SHD2 of Slp3 are separated by a putative FYVE zinc finger, which resembles a FYVE-related domain that is structurally similar to the canonical FYVE domains but lacks the three signature sequences: an N-terminal WxxD motif (x for any residue), the central basic R(R/K)HHCRxCG patch, and a C-terminal RVC motif. In addition, the Slp3 C2A domain showed Ca2+-dependent phospholipid binding activity. At this point, Slp3 is a Ca2+-dependent isoform in Slp proteins family.


Pssm-ID: 277304  Cd Length: 48  Bit Score: 37.09  E-value: 6.76e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 115533594  95 RLCSTCQCTLGYILNSGTKCKKCSSHICDKCAHSVssgsaqNPQKYSlCTVCYS 148
Cdd:cd15765    2 RSCARCQKPLGKLLNRGAVCNGCSHRVCSECRVFL------GREIWK-CTVCHA 48
 
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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