NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|569007016|ref|XP_006527039|]
View 

transient receptor potential cation channel subfamily M member 3 isoform X12 [Mus musculus]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
LSDAT_euk pfam18139
SLOG in TRPM; Family in the SLOG superfamily, found in several eukaryotic channels including ...
 1-290 6.62e-167

SLOG in TRPM; Family in the SLOG superfamily, found in several eukaryotic channels including diverse ciliate channels and the TRPM class of animal ion channels. Positioned near the N-terminus of all TRPM channels, it is predicted to play a regulatory role for the channel in potentially recognizing a universal nucleotide or nucleotide-derived ligand.


:

Pssm-ID: 465665  Cd Length: 266  Bit Score: 503.65  E-value: 6.62e-167
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016     1 MYVRVSFDTKPDLLLHLMTKEWQLELPKLLISVHGGLQNFELQPKLKQVFGKGLIKAAMTTGAWIFTGGVNTGVIRHVGD 80
Cdd:pfam18139    2 KYIRLSFDTDPEDLLHLMEKEWQLELPKLVISVHGGATNFELQPKLKRVFRKGLLKAAKTTGAWIITGGTNTGVMRHVGD 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016    81 ALKDHASKSRGKICTIGIAPWGIVENQEDLIGRDVVRPYQTMSNPMSKLTVLNSMHSHFILADNGTTGKYGAEVKLRRQL 160
Cdd:pfam18139   82 ALKDLGSQSRRKIVTIGIAPWGIIKNREDLIGKDVVVPYQTLGNPKSKLAVLNNNHSHFLLVDDGTVGKYGAEIILRRRL 161

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   161 EKHISLQKINTRclpffsldsrlfysfwgscqldpigIGQGVPVVALIVEGGPNVISIVLEYLRDTPPVPVVVCDGSGRA 240
Cdd:pfam18139  162 EKYISQQKIHPR-------------------------GGQGVPVVCVVVEGGPNTIKTVLEYVRDTPPVPVVVCDGSGRA 216

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|
gi 569007016   241 SDILAFGHKYSEEGGLINESLRDQLLVTIQKTFTYTRTQAQHLFIILMEC 290
Cdd:pfam18139  217 ADLLAFAHKYTHEDGQLPSSVKEQLLSLIQKTFGYSQKQAEKLLKQLMEC 266
TRPM_tetra pfam16519
tetramerization domain of TRPM; TRPM7_tetra is a short anti-parallel coiled-coil ...
 1111-1166 3.16e-24

tetramerization domain of TRPM; TRPM7_tetra is a short anti-parallel coiled-coil tetramerization domain of the transient receptor potential cation channel subfamily M member proteins 1-8. It is held together by extensive core packing and interstrand polar interactions. Transient receptor potential (TRP) channels comprise a large family of tetrameric cation-selective ion channels that respond to diverse forms of sensory input. The presence of cytoplasmic domains that direct channel assembly appears to be a feature of many voltage-gated ion channel superfamily members.


:

Pssm-ID: 465156  Cd Length: 56  Bit Score: 97.01  E-value: 3.16e-24
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 569007016  1111 DERIRVTSERVENMSMRLEEVNEREHSMKASLQTVDIRLAQLEDLIGRMATALERL 1166
Cdd:pfam16519    1 DERIRVTTERVENMSMKVEEVNEKENFQKASLQSLDFRLGKLEDLSAQTVDTLSVL 56
TRPV super family cl40437
Transient Receptor Potential channel, Vanilloid subfamily (TRPV); The vanilloid TRP subfamily ...
 753-1083 5.45e-18

Transient Receptor Potential channel, Vanilloid subfamily (TRPV); The vanilloid TRP subfamily (TRPV), named after the vanilloid receptor 1 (TRPV1), consists of six members: four thermo-sensing channels (TRPV1, TRPV2, TRPV3, and TRPV4) and two Ca2+ selective channels (TRPV5 and TRPV6). The calcium-selective channels TRPV5 and TRPV6 can be heterotetramers and are important for general Ca2+ homeostasis. All four channels within the TRPV1-4 group show temperature-invoked currents when expressed in heterologous cell systems, ranging from activation at ~25C for TRPV4 to ~52C for TRPV2. The structure of TRPV shows the typical topology features of all Transient Receptor Potential (TRP) ion channel family members, such as six transmembrane regions, a short hydrophobic stretch between transmembrane segments 5 and 6 and large intracellular N- and C-terminal domains. The TRP family consists of membrane proteins that function as ion channels that communicate between the cell and its environment, by a vast array of physical or chemical stimuli, including radiation (in the form of temperature, infrared ,or light) and pressure (osmotic or mechanical). TRP channels are formed by a tetrameric complex of channel subunits. Based on sequence identity, the mammalian TRP channel family is classified into six subfamilies, with significant sequence similarity within the transmembrane domains, but very low similarity in their N- and C-terminal cytoplasmic regions. The six subfamilies are named based on their first member: TRPC (canonical), TRPV (vanilloid), TRPM (melastatin), TRPA (ankyrin), TRPML (mucolipin), and TRPP (polycystic).


The actual alignment was detected with superfamily member TIGR00870:

Pssm-ID: 454755 [Multi-domain]  Cd Length: 743  Bit Score: 90.14  E-value: 5.45e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   753 PIVKFWFYTLAYIGYLMLF------NYIVLVKMERWPSTQ----EWIVISYIftLGIEKMREILMsepgkLLQKVKVWLQ 822
Cdd:TIGR00870  348 PFIKFIFHSASYLYFLYLIiftsvaYYRPTRTDLRVTGLQqtplEMLIVTWV--DGLRLGEEKLI-----WLGGIFEYIH 420

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   823 EYWNVTDLIAILLFSVGMILR-------------LQDQPFRSDGRVIYCV-----NIIYWyIRLLDIFGVNKYLGPYVMM 884
Cdd:TIGR00870  421 QLWNILDFGMNSFYLATFLDRpfailfvtqaflvLREHWLRFDPTLIEEAlfafaLVLSW-LNLLYIFRGNQHLGPLQIM 499

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   885 IGKMMI-DMMYFVIIMLVVLMSFGVARQAILF---PNEEPSWKLAKNIFYMPYWMIYGEVFA----------DQIDRKQV 950
Cdd:TIGR00870  500 IGRMILgDILRFLFIYAVVLFGFACGLNQLYQyydELKLNECSNPHARSCEKQGNAYSTLFEtsqelfwaiiGLGDLLAN 579

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   951 YDSHTPksapcgqnetredgktiqlppcktgawIVPAIM-ACYLLVANILLVNLLIAVFNNTFFEVKSISNQVWKFQRYQ 1029
Cdd:TIGR00870  580 EHKFTE---------------------------FVGLLLfGAYNVIMYILLLNMLIAMMGNTYQLIADDADEEWKFQRAK 632

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 569007016  1030 LIM-TFHERPVLPPPLIIFS-------HMTMIFQHVC---CRWRKHESDQDERDYGLKLFITDDE 1083
Cdd:TIGR00870  633 LWMsYEREGGTCPPPFNIIPgpksfvgLFKRIEKHDGkkrQRWCRRVEEVNWTTWERKAETLIED 697
 
Name Accession Description Interval E-value
LSDAT_euk pfam18139
SLOG in TRPM; Family in the SLOG superfamily, found in several eukaryotic channels including ...
 1-290 6.62e-167

SLOG in TRPM; Family in the SLOG superfamily, found in several eukaryotic channels including diverse ciliate channels and the TRPM class of animal ion channels. Positioned near the N-terminus of all TRPM channels, it is predicted to play a regulatory role for the channel in potentially recognizing a universal nucleotide or nucleotide-derived ligand.


Pssm-ID: 465665  Cd Length: 266  Bit Score: 503.65  E-value: 6.62e-167
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016     1 MYVRVSFDTKPDLLLHLMTKEWQLELPKLLISVHGGLQNFELQPKLKQVFGKGLIKAAMTTGAWIFTGGVNTGVIRHVGD 80
Cdd:pfam18139    2 KYIRLSFDTDPEDLLHLMEKEWQLELPKLVISVHGGATNFELQPKLKRVFRKGLLKAAKTTGAWIITGGTNTGVMRHVGD 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016    81 ALKDHASKSRGKICTIGIAPWGIVENQEDLIGRDVVRPYQTMSNPMSKLTVLNSMHSHFILADNGTTGKYGAEVKLRRQL 160
Cdd:pfam18139   82 ALKDLGSQSRRKIVTIGIAPWGIIKNREDLIGKDVVVPYQTLGNPKSKLAVLNNNHSHFLLVDDGTVGKYGAEIILRRRL 161

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   161 EKHISLQKINTRclpffsldsrlfysfwgscqldpigIGQGVPVVALIVEGGPNVISIVLEYLRDTPPVPVVVCDGSGRA 240
Cdd:pfam18139  162 EKYISQQKIHPR-------------------------GGQGVPVVCVVVEGGPNTIKTVLEYVRDTPPVPVVVCDGSGRA 216

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|
gi 569007016   241 SDILAFGHKYSEEGGLINESLRDQLLVTIQKTFTYTRTQAQHLFIILMEC 290
Cdd:pfam18139  217 ADLLAFAHKYTHEDGQLPSSVKEQLLSLIQKTFGYSQKQAEKLLKQLMEC 266
TRPM_tetra pfam16519
tetramerization domain of TRPM; TRPM7_tetra is a short anti-parallel coiled-coil ...
 1111-1166 3.16e-24

tetramerization domain of TRPM; TRPM7_tetra is a short anti-parallel coiled-coil tetramerization domain of the transient receptor potential cation channel subfamily M member proteins 1-8. It is held together by extensive core packing and interstrand polar interactions. Transient receptor potential (TRP) channels comprise a large family of tetrameric cation-selective ion channels that respond to diverse forms of sensory input. The presence of cytoplasmic domains that direct channel assembly appears to be a feature of many voltage-gated ion channel superfamily members.


Pssm-ID: 465156  Cd Length: 56  Bit Score: 97.01  E-value: 3.16e-24
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 569007016  1111 DERIRVTSERVENMSMRLEEVNEREHSMKASLQTVDIRLAQLEDLIGRMATALERL 1166
Cdd:pfam16519    1 DERIRVTTERVENMSMKVEEVNEKENFQKASLQSLDFRLGKLEDLSAQTVDTLSVL 56
trp TIGR00870
transient-receptor-potential calcium channel protein; The Transient Receptor Potential Ca2+ ...
 753-1083 5.45e-18

transient-receptor-potential calcium channel protein; The Transient Receptor Potential Ca2+ Channel (TRP-CC) Family (TC. 1.A.4)The TRP-CC family has also been called the store-operated calcium channel (SOC) family. The prototypical members include the Drosophila retinal proteinsTRP and TRPL (Montell and Rubin, 1989; Hardie and Minke, 1993). SOC members of the family mediate the entry of extracellular Ca2+ into cells in responseto depletion of intracellular Ca2+ stores (Clapham, 1996) and agonist stimulated production of inositol-1,4,5 trisphosphate (IP3). One member of the TRP-CCfamily, mammalian Htrp3, has been shown to form a tight complex with the IP3 receptor (TC #1.A.3.2.1). This interaction is apparently required for IP3 tostimulate Ca2+ release via Htrp3. The vanilloid receptor subtype 1 (VR1), which is the receptor for capsaicin (the ?hot? ingredient in chili peppers) and servesas a heat-activated ion channel in the pain pathway (Caterina et al., 1997), is also a member of this family. The stretch-inhibitable non-selective cation channel(SIC) is identical to the vanilloid receptor throughout all of its first 700 residues, but it exhibits a different sequence in its last 100 residues. VR1 and SICtransport monovalent cations as well as Ca2+. VR1 is about 10x more permeable to Ca2+ than to monovalent ions. Ca2+ overload probably causes cell deathafter chronic exposure to capsaicin. (McCleskey and Gold, 1999). [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 273311 [Multi-domain]  Cd Length: 743  Bit Score: 90.14  E-value: 5.45e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   753 PIVKFWFYTLAYIGYLMLF------NYIVLVKMERWPSTQ----EWIVISYIftLGIEKMREILMsepgkLLQKVKVWLQ 822
Cdd:TIGR00870  348 PFIKFIFHSASYLYFLYLIiftsvaYYRPTRTDLRVTGLQqtplEMLIVTWV--DGLRLGEEKLI-----WLGGIFEYIH 420

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   823 EYWNVTDLIAILLFSVGMILR-------------LQDQPFRSDGRVIYCV-----NIIYWyIRLLDIFGVNKYLGPYVMM 884
Cdd:TIGR00870  421 QLWNILDFGMNSFYLATFLDRpfailfvtqaflvLREHWLRFDPTLIEEAlfafaLVLSW-LNLLYIFRGNQHLGPLQIM 499

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   885 IGKMMI-DMMYFVIIMLVVLMSFGVARQAILF---PNEEPSWKLAKNIFYMPYWMIYGEVFA----------DQIDRKQV 950
Cdd:TIGR00870  500 IGRMILgDILRFLFIYAVVLFGFACGLNQLYQyydELKLNECSNPHARSCEKQGNAYSTLFEtsqelfwaiiGLGDLLAN 579

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   951 YDSHTPksapcgqnetredgktiqlppcktgawIVPAIM-ACYLLVANILLVNLLIAVFNNTFFEVKSISNQVWKFQRYQ 1029
Cdd:TIGR00870  580 EHKFTE---------------------------FVGLLLfGAYNVIMYILLLNMLIAMMGNTYQLIADDADEEWKFQRAK 632

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 569007016  1030 LIM-TFHERPVLPPPLIIFS-------HMTMIFQHVC---CRWRKHESDQDERDYGLKLFITDDE 1083
Cdd:TIGR00870  633 LWMsYEREGGTCPPPFNIIPgpksfvgLFKRIEKHDGkkrQRWCRRVEEVNWTTWERKAETLIED 697
Ion_trans pfam00520
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
 757-1017 2.49e-16

Ion transport protein; This family contains sodium, potassium and calcium ion channels. This family is 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some sub-families (e.g. Na channels) the domain is repeated four times, whereas in others (e.g. K channels) the protein forms as a tetramer in the membrane.


Pssm-ID: 459842 [Multi-domain]  Cd Length: 238  Bit Score: 80.00  E-value: 2.49e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   757 FWFYtlaYIGYLMLFNYIVLVKMERWPSTQEW---------IVISYIFTLgiekmrEILMsepgKLLQ--KVKVWLQEYW 825
Cdd:pfam00520    2 RYFE---LFILLLILLNTIFLALETYFQPEEPlttvleildYVFTGIFTL------EMLL----KIIAagFKKRYFRSPW 68

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   826 NVTDLIAILLFSVGMILRLQDQPFrsdgrVIYCVNIIYWyIRLLDIFGVNKYLGPYVMMIGKMMIDMMYFVIIMLVVLMS 905
Cdd:pfam00520   69 NILDFVVVLPSLISLVLSSVGSLS-----GLRVLRLLRL-LRLLRLIRRLEGLRTLVNSLIRSLKSLGNLLLLLLLFLFI 142

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   906 FGVARQaILFPNEEPSWKLA-------KNIFYMPYWMI-------YGEVFADQIDRKqvydshtpksapcgqnetredgk 971
Cdd:pfam00520  143 FAIIGY-QLFGGKLKTWENPdngrtnfDNFPNAFLWLFqtmttegWGDIMYDTIDGK----------------------- 198

                          250       260       270       280
                   ....*....|....*....|....*....|....*....|....*.
gi 569007016   972 tiqlppcktGAWIVPAIMACYLLVANILLVNLLIAVFNNTFFEVKS 1017
Cdd:pfam00520  199 ---------GEFWAYIYFVSFIILGGFLLLNLFIAVIIDNFQELTE 235
TRPV5-6 cd22192
Transient Receptor Potential channel, Vanilloid subfamily (TRPV), types 5 and 6; TRPV5 and ...
 876-1026 3.48e-08

Transient Receptor Potential channel, Vanilloid subfamily (TRPV), types 5 and 6; TRPV5 and TRPV6 (TRPV5/6) are two homologous members within the vanilloid subfamily of the transient receptor potential (TRP) family. TRPV5 and TRPV6 show only 30-40% homology with other members of the TRP family and have unique properties that differentiates them from other TRP channels. They mediate calcium uptake in epithelia and their expression is dramatically increased in numerous types of cancer. The structure of TRPV5/6 shows the typical topology features of all TRP family members, such as six transmembrane regions, a short hydrophobic stretch between transmembrane segments 5 and 6, which is predicted to form the Ca2+ pore, and large intracellular N- and C-terminal domains. The N-terminal domain of TRPV5/6 contains three ankyrin repeats. This structural element is present in several proteins and plays a role in protein-protein interactions. The N- and C-terminal tails of TRPV5/6 each contain an internal PDZ motif which can function as part of a molecular scaffold via interaction with PDZ-domain containing proteins. A major difference between the properties of TRPV5 and TRPV6 is in their tissue distribution: TRPV5 is predominantly expressed in the distal convoluted tubules (DCT) and connecting tubules (CNT) of the kidney, with limited expression in extrarenal tissues. In contrast, TRPV6 has a broader expression pattern such as expression in the intestine, kidney, placenta, epididymis, exocrine tissues, and a few other tissues.


Pssm-ID: 411976 [Multi-domain]  Cd Length: 609  Bit Score: 58.10  E-value: 3.48e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016  876 KYLGPYVMMIGKMMI-DMMYFVIIMLVVLMSFGVARQaILFPNEEPSWKLAKNIFYMPYWMIYgEVFADQIDRKQVYDsh 954
Cdd:cd22192   445 QMLGPFTIMIQKIIFgDLMKFCWLMFVVILGFSSAFY-MIFQTEDPDSLGHFYDFPMTLFSTF-ELFLGLIDGPANYT-- 520

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 569007016  955 tpksapcgqnetredgktIQLPPcktgawIVPAIMACYLLVANILLVNLLIAVFNNTFFEVKSISNQVWKFQ 1026
Cdd:cd22192   521 ------------------VDLPF------MYKVLYTAFAVIAYLLMLNLLIAMMGDTHWRVAHERDELWRAQ 568
 
Name Accession Description Interval E-value
LSDAT_euk pfam18139
SLOG in TRPM; Family in the SLOG superfamily, found in several eukaryotic channels including ...
 1-290 6.62e-167

SLOG in TRPM; Family in the SLOG superfamily, found in several eukaryotic channels including diverse ciliate channels and the TRPM class of animal ion channels. Positioned near the N-terminus of all TRPM channels, it is predicted to play a regulatory role for the channel in potentially recognizing a universal nucleotide or nucleotide-derived ligand.


Pssm-ID: 465665  Cd Length: 266  Bit Score: 503.65  E-value: 6.62e-167
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016     1 MYVRVSFDTKPDLLLHLMTKEWQLELPKLLISVHGGLQNFELQPKLKQVFGKGLIKAAMTTGAWIFTGGVNTGVIRHVGD 80
Cdd:pfam18139    2 KYIRLSFDTDPEDLLHLMEKEWQLELPKLVISVHGGATNFELQPKLKRVFRKGLLKAAKTTGAWIITGGTNTGVMRHVGD 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016    81 ALKDHASKSRGKICTIGIAPWGIVENQEDLIGRDVVRPYQTMSNPMSKLTVLNSMHSHFILADNGTTGKYGAEVKLRRQL 160
Cdd:pfam18139   82 ALKDLGSQSRRKIVTIGIAPWGIIKNREDLIGKDVVVPYQTLGNPKSKLAVLNNNHSHFLLVDDGTVGKYGAEIILRRRL 161

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   161 EKHISLQKINTRclpffsldsrlfysfwgscqldpigIGQGVPVVALIVEGGPNVISIVLEYLRDTPPVPVVVCDGSGRA 240
Cdd:pfam18139  162 EKYISQQKIHPR-------------------------GGQGVPVVCVVVEGGPNTIKTVLEYVRDTPPVPVVVCDGSGRA 216

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|
gi 569007016   241 SDILAFGHKYSEEGGLINESLRDQLLVTIQKTFTYTRTQAQHLFIILMEC 290
Cdd:pfam18139  217 ADLLAFAHKYTHEDGQLPSSVKEQLLSLIQKTFGYSQKQAEKLLKQLMEC 266
TRPM_tetra pfam16519
tetramerization domain of TRPM; TRPM7_tetra is a short anti-parallel coiled-coil ...
 1111-1166 3.16e-24

tetramerization domain of TRPM; TRPM7_tetra is a short anti-parallel coiled-coil tetramerization domain of the transient receptor potential cation channel subfamily M member proteins 1-8. It is held together by extensive core packing and interstrand polar interactions. Transient receptor potential (TRP) channels comprise a large family of tetrameric cation-selective ion channels that respond to diverse forms of sensory input. The presence of cytoplasmic domains that direct channel assembly appears to be a feature of many voltage-gated ion channel superfamily members.


Pssm-ID: 465156  Cd Length: 56  Bit Score: 97.01  E-value: 3.16e-24
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 569007016  1111 DERIRVTSERVENMSMRLEEVNEREHSMKASLQTVDIRLAQLEDLIGRMATALERL 1166
Cdd:pfam16519    1 DERIRVTTERVENMSMKVEEVNEKENFQKASLQSLDFRLGKLEDLSAQTVDTLSVL 56
trp TIGR00870
transient-receptor-potential calcium channel protein; The Transient Receptor Potential Ca2+ ...
 753-1083 5.45e-18

transient-receptor-potential calcium channel protein; The Transient Receptor Potential Ca2+ Channel (TRP-CC) Family (TC. 1.A.4)The TRP-CC family has also been called the store-operated calcium channel (SOC) family. The prototypical members include the Drosophila retinal proteinsTRP and TRPL (Montell and Rubin, 1989; Hardie and Minke, 1993). SOC members of the family mediate the entry of extracellular Ca2+ into cells in responseto depletion of intracellular Ca2+ stores (Clapham, 1996) and agonist stimulated production of inositol-1,4,5 trisphosphate (IP3). One member of the TRP-CCfamily, mammalian Htrp3, has been shown to form a tight complex with the IP3 receptor (TC #1.A.3.2.1). This interaction is apparently required for IP3 tostimulate Ca2+ release via Htrp3. The vanilloid receptor subtype 1 (VR1), which is the receptor for capsaicin (the ?hot? ingredient in chili peppers) and servesas a heat-activated ion channel in the pain pathway (Caterina et al., 1997), is also a member of this family. The stretch-inhibitable non-selective cation channel(SIC) is identical to the vanilloid receptor throughout all of its first 700 residues, but it exhibits a different sequence in its last 100 residues. VR1 and SICtransport monovalent cations as well as Ca2+. VR1 is about 10x more permeable to Ca2+ than to monovalent ions. Ca2+ overload probably causes cell deathafter chronic exposure to capsaicin. (McCleskey and Gold, 1999). [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 273311 [Multi-domain]  Cd Length: 743  Bit Score: 90.14  E-value: 5.45e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   753 PIVKFWFYTLAYIGYLMLF------NYIVLVKMERWPSTQ----EWIVISYIftLGIEKMREILMsepgkLLQKVKVWLQ 822
Cdd:TIGR00870  348 PFIKFIFHSASYLYFLYLIiftsvaYYRPTRTDLRVTGLQqtplEMLIVTWV--DGLRLGEEKLI-----WLGGIFEYIH 420

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   823 EYWNVTDLIAILLFSVGMILR-------------LQDQPFRSDGRVIYCV-----NIIYWyIRLLDIFGVNKYLGPYVMM 884
Cdd:TIGR00870  421 QLWNILDFGMNSFYLATFLDRpfailfvtqaflvLREHWLRFDPTLIEEAlfafaLVLSW-LNLLYIFRGNQHLGPLQIM 499

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   885 IGKMMI-DMMYFVIIMLVVLMSFGVARQAILF---PNEEPSWKLAKNIFYMPYWMIYGEVFA----------DQIDRKQV 950
Cdd:TIGR00870  500 IGRMILgDILRFLFIYAVVLFGFACGLNQLYQyydELKLNECSNPHARSCEKQGNAYSTLFEtsqelfwaiiGLGDLLAN 579

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   951 YDSHTPksapcgqnetredgktiqlppcktgawIVPAIM-ACYLLVANILLVNLLIAVFNNTFFEVKSISNQVWKFQRYQ 1029
Cdd:TIGR00870  580 EHKFTE---------------------------FVGLLLfGAYNVIMYILLLNMLIAMMGNTYQLIADDADEEWKFQRAK 632

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 569007016  1030 LIM-TFHERPVLPPPLIIFS-------HMTMIFQHVC---CRWRKHESDQDERDYGLKLFITDDE 1083
Cdd:TIGR00870  633 LWMsYEREGGTCPPPFNIIPgpksfvgLFKRIEKHDGkkrQRWCRRVEEVNWTTWERKAETLIED 697
Ion_trans pfam00520
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
 757-1017 2.49e-16

Ion transport protein; This family contains sodium, potassium and calcium ion channels. This family is 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some sub-families (e.g. Na channels) the domain is repeated four times, whereas in others (e.g. K channels) the protein forms as a tetramer in the membrane.


Pssm-ID: 459842 [Multi-domain]  Cd Length: 238  Bit Score: 80.00  E-value: 2.49e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   757 FWFYtlaYIGYLMLFNYIVLVKMERWPSTQEW---------IVISYIFTLgiekmrEILMsepgKLLQ--KVKVWLQEYW 825
Cdd:pfam00520    2 RYFE---LFILLLILLNTIFLALETYFQPEEPlttvleildYVFTGIFTL------EMLL----KIIAagFKKRYFRSPW 68

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   826 NVTDLIAILLFSVGMILRLQDQPFrsdgrVIYCVNIIYWyIRLLDIFGVNKYLGPYVMMIGKMMIDMMYFVIIMLVVLMS 905
Cdd:pfam00520   69 NILDFVVVLPSLISLVLSSVGSLS-----GLRVLRLLRL-LRLLRLIRRLEGLRTLVNSLIRSLKSLGNLLLLLLLFLFI 142

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016   906 FGVARQaILFPNEEPSWKLA-------KNIFYMPYWMI-------YGEVFADQIDRKqvydshtpksapcgqnetredgk 971
Cdd:pfam00520  143 FAIIGY-QLFGGKLKTWENPdngrtnfDNFPNAFLWLFqtmttegWGDIMYDTIDGK----------------------- 198

                          250       260       270       280
                   ....*....|....*....|....*....|....*....|....*.
gi 569007016   972 tiqlppcktGAWIVPAIMACYLLVANILLVNLLIAVFNNTFFEVKS 1017
Cdd:pfam00520  199 ---------GEFWAYIYFVSFIILGGFLLLNLFIAVIIDNFQELTE 235
TRPV5-6 cd22192
Transient Receptor Potential channel, Vanilloid subfamily (TRPV), types 5 and 6; TRPV5 and ...
 876-1026 3.48e-08

Transient Receptor Potential channel, Vanilloid subfamily (TRPV), types 5 and 6; TRPV5 and TRPV6 (TRPV5/6) are two homologous members within the vanilloid subfamily of the transient receptor potential (TRP) family. TRPV5 and TRPV6 show only 30-40% homology with other members of the TRP family and have unique properties that differentiates them from other TRP channels. They mediate calcium uptake in epithelia and their expression is dramatically increased in numerous types of cancer. The structure of TRPV5/6 shows the typical topology features of all TRP family members, such as six transmembrane regions, a short hydrophobic stretch between transmembrane segments 5 and 6, which is predicted to form the Ca2+ pore, and large intracellular N- and C-terminal domains. The N-terminal domain of TRPV5/6 contains three ankyrin repeats. This structural element is present in several proteins and plays a role in protein-protein interactions. The N- and C-terminal tails of TRPV5/6 each contain an internal PDZ motif which can function as part of a molecular scaffold via interaction with PDZ-domain containing proteins. A major difference between the properties of TRPV5 and TRPV6 is in their tissue distribution: TRPV5 is predominantly expressed in the distal convoluted tubules (DCT) and connecting tubules (CNT) of the kidney, with limited expression in extrarenal tissues. In contrast, TRPV6 has a broader expression pattern such as expression in the intestine, kidney, placenta, epididymis, exocrine tissues, and a few other tissues.


Pssm-ID: 411976 [Multi-domain]  Cd Length: 609  Bit Score: 58.10  E-value: 3.48e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016  876 KYLGPYVMMIGKMMI-DMMYFVIIMLVVLMSFGVARQaILFPNEEPSWKLAKNIFYMPYWMIYgEVFADQIDRKQVYDsh 954
Cdd:cd22192   445 QMLGPFTIMIQKIIFgDLMKFCWLMFVVILGFSSAFY-MIFQTEDPDSLGHFYDFPMTLFSTF-ELFLGLIDGPANYT-- 520

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 569007016  955 tpksapcgqnetredgktIQLPPcktgawIVPAIMACYLLVANILLVNLLIAVFNNTFFEVKSISNQVWKFQ 1026
Cdd:cd22192   521 ------------------VDLPF------MYKVLYTAFAVIAYLLMLNLLIAMMGDTHWRVAHERDELWRAQ 568
TRPV cd21882
Transient Receptor Potential channel, Vanilloid subfamily (TRPV); The vanilloid TRP subfamily ...
 876-1027 2.35e-06

Transient Receptor Potential channel, Vanilloid subfamily (TRPV); The vanilloid TRP subfamily (TRPV), named after the vanilloid receptor 1 (TRPV1), consists of six members: four thermo-sensing channels (TRPV1, TRPV2, TRPV3, and TRPV4) and two Ca2+ selective channels (TRPV5 and TRPV6). The calcium-selective channels TRPV5 and TRPV6 can be heterotetramers and are important for general Ca2+ homeostasis. All four channels within the TRPV1-4 group show temperature-invoked currents when expressed in heterologous cell systems, ranging from activation at ~25C for TRPV4 to ~52C for TRPV2. The structure of TRPV shows the typical topology features of all Transient Receptor Potential (TRP) ion channel family members, such as six transmembrane regions, a short hydrophobic stretch between transmembrane segments 5 and 6 and large intracellular N- and C-terminal domains. The TRP family consists of membrane proteins that function as ion channels that communicate between the cell and its environment, by a vast array of physical or chemical stimuli, including radiation (in the form of temperature, infrared ,or light) and pressure (osmotic or mechanical). TRP channels are formed by a tetrameric complex of channel subunits. Based on sequence identity, the mammalian TRP channel family is classified into six subfamilies, with significant sequence similarity within the transmembrane domains, but very low similarity in their N- and C-terminal cytoplasmic regions. The six subfamilies are named based on their first member: TRPC (canonical), TRPV (vanilloid), TRPM (melastatin), TRPA (ankyrin), TRPML (mucolipin), and TRPP (polycystic).


Pssm-ID: 411975 [Multi-domain]  Cd Length: 600  Bit Score: 52.19  E-value: 2.35e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569007016  876 KYLGPYVMMIGKMMI-DMMYFVIIMLVVLMSFGVARqAILFPNEEPSWKLAKNIFYMPYWMIYgEVFADQIDRKQVYDSH 954
Cdd:cd21882   430 QMLGIYTVMIQKMILrDLMRFCWVYLVFLFGFASAF-VILFQTEDPNKLGEFRDYPDALLELF-KFTIGMGDLPFNENVD 507

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 569007016  955 TPksapcgqnetredgktiqlppcktgaWIVPAIMACYLLVANILLVNLLIAVFNNTFFEVKSISNQVWKFQR 1027
Cdd:cd21882   508 FP--------------------------FVYLILLLAYVILTYLLLLNMLIALMGETVNRVAQESDEIWKLQK 554
RNase_Y_N pfam12072
RNase Y N-terminal region;
1119-1177 3.37e-03

RNase Y N-terminal region;


Pssm-ID: 463456 [Multi-domain]  Cd Length: 201  Bit Score: 40.64  E-value: 3.37e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 569007016  1119 ERVENMSMRLEEVNEREHSMKASLQTVDIRLAQLEDLIGRMATALERLTGLERAESNKI 1177
Cdd:pfam12072   96 RKDESLEKKEESLEKKEKELEAQQQQLEEKEEELEELIEEQRQELERISGLTSEEAKEI 154
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH