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Conserved domains on  [gi|568942436|ref|XP_006506457|]
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platelet glycoprotein IX isoform X1 [Mus musculus]

Protein Classification

leucine-rich repeat domain-containing protein( domain architecture ID 12183727)

leucine-rich repeat (LRR) domain-containing protein may participate in protein-protein interactions

CATH:  3.80.10.10
Gene Ontology:  GO:0005515
PubMed:  11751054|7583641|14747988
SCOP:  4003523

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LRR_8 pfam13855
Leucine rich repeat;
75-105 1.99e-06

Leucine rich repeat;


:

Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 43.67  E-value: 1.99e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 568942436   75 LLLANNSLRSVPPGAFDHLPQLWDLDVTHNP 105
Cdd:pfam13855  30 LDLSNNLLTTLSPGAFSGLPSLRYLDLSGNR 60
PCC super family cl28216
polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) ...
 77-143 4.28e-06

polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a huge protein of 4303aas. Its repeated leucine-rich (LRR) segment is found in many proteins. It contains 16 polycystic kidney disease (PKD) domains, one LDL-receptor class A domain, one C-type lectin family domain, and 16-18 putative TMSs in positions between residues 2200 and 4100. Polycystin-L has been shown to be a cation (Na+, K+ and Ca2+) channel that is activated by Ca2+. Two members of the PCC family (polycystin 1 and 2) are mutated in autosomal dominant polycystic kidney disease, and polycystin-L is deleted in mice with renal and retinal defects. Note: this model is restricted to the amino half.


The actual alignment was detected with superfamily member TIGR00864:

Pssm-ID: 188093 [Multi-domain]  Cd Length: 2740  Bit Score: 46.61  E-value: 4.28e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568942436    77 LANNSLRSVPPGAFDHLPQLWDLDVTHNPWHCDCSLTYLRLWLEDH-----MPEALMhvyCASPDLATRRPL 143
Cdd:TIGR00864    2 ISNNKISTIEEGICANLCNLSEIDLSGNPFECDCGLARLPRWAEEKgvkvrQPEAAL---CAGPGALAGQPL 70
LRRNT smart00013
Leucine rich repeat N-terminal domain;
38-72 1.30e-03

Leucine rich repeat N-terminal domain;


:

Pssm-ID: 214470 [Multi-domain]  Cd Length: 33  Bit Score: 34.99  E-value: 1.30e-03
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 568942436    38 ACPRPCTCQsletmGLKVNCEGQGLTALPV-IPAHT 72
Cdd:smart00013   1 ACPAPCNCS-----GTAVDCSGRGLTEVPLdLPPDT 31
 
Name Accession Description Interval E-value
LRR_8 pfam13855
Leucine rich repeat;
75-105 1.99e-06

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 43.67  E-value: 1.99e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 568942436   75 LLLANNSLRSVPPGAFDHLPQLWDLDVTHNP 105
Cdd:pfam13855  30 LDLSNNLLTTLSPGAFSGLPSLRYLDLSGNR 60
PCC TIGR00864
polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) ...
 77-143 4.28e-06

polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a huge protein of 4303aas. Its repeated leucine-rich (LRR) segment is found in many proteins. It contains 16 polycystic kidney disease (PKD) domains, one LDL-receptor class A domain, one C-type lectin family domain, and 16-18 putative TMSs in positions between residues 2200 and 4100. Polycystin-L has been shown to be a cation (Na+, K+ and Ca2+) channel that is activated by Ca2+. Two members of the PCC family (polycystin 1 and 2) are mutated in autosomal dominant polycystic kidney disease, and polycystin-L is deleted in mice with renal and retinal defects. Note: this model is restricted to the amino half.


Pssm-ID: 188093 [Multi-domain]  Cd Length: 2740  Bit Score: 46.61  E-value: 4.28e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568942436    77 LANNSLRSVPPGAFDHLPQLWDLDVTHNPWHCDCSLTYLRLWLEDH-----MPEALMhvyCASPDLATRRPL 143
Cdd:TIGR00864    2 ISNNKISTIEEGICANLCNLSEIDLSGNPFECDCGLARLPRWAEEKgvkvrQPEAAL---CAGPGALAGQPL 70
LRRCT smart00082
Leucine rich repeat C-terminal domain;
104-152 3.00e-05

Leucine rich repeat C-terminal domain;


Pssm-ID: 214507 [Multi-domain]  Cd Length: 51  Bit Score: 40.11  E-value: 3.00e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 568942436   104 NPWHCDCSLTYLRLWLEDhmPEALM---HVYCASPDlATRRPLGQLTGYELG 152
Cdd:smart00082   1 NPFICDCELRWLLRWLQA--NEHLQdpvDLRCASPS-SLRGPLLELLHSEFK 49
LRRNT smart00013
Leucine rich repeat N-terminal domain;
38-72 1.30e-03

Leucine rich repeat N-terminal domain;


Pssm-ID: 214470 [Multi-domain]  Cd Length: 33  Bit Score: 34.99  E-value: 1.30e-03
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 568942436    38 ACPRPCTCQsletmGLKVNCEGQGLTALPV-IPAHT 72
Cdd:smart00013   1 ACPAPCNCS-----GTAVDCSGRGLTEVPLdLPPDT 31
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
45-105 3.44e-03

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 37.61  E-value: 3.44e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568942436  45 CQSLETmglkVNCEGQGLTALPVIPAHT--RQLLLANNSLRSVPPGAfdHLPQLWDLDVTHNP 105
Cdd:COG4886  227 LTNLET----LDLSNNQLTDLPELGNLTnlEELDLSNNQLTDLPPLA--NLTNLKTLDLSNNQ 283
 
Name Accession Description Interval E-value
LRR_8 pfam13855
Leucine rich repeat;
75-105 1.99e-06

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 43.67  E-value: 1.99e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 568942436   75 LLLANNSLRSVPPGAFDHLPQLWDLDVTHNP 105
Cdd:pfam13855  30 LDLSNNLLTTLSPGAFSGLPSLRYLDLSGNR 60
PCC TIGR00864
polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) ...
 77-143 4.28e-06

polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a huge protein of 4303aas. Its repeated leucine-rich (LRR) segment is found in many proteins. It contains 16 polycystic kidney disease (PKD) domains, one LDL-receptor class A domain, one C-type lectin family domain, and 16-18 putative TMSs in positions between residues 2200 and 4100. Polycystin-L has been shown to be a cation (Na+, K+ and Ca2+) channel that is activated by Ca2+. Two members of the PCC family (polycystin 1 and 2) are mutated in autosomal dominant polycystic kidney disease, and polycystin-L is deleted in mice with renal and retinal defects. Note: this model is restricted to the amino half.


Pssm-ID: 188093 [Multi-domain]  Cd Length: 2740  Bit Score: 46.61  E-value: 4.28e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568942436    77 LANNSLRSVPPGAFDHLPQLWDLDVTHNPWHCDCSLTYLRLWLEDH-----MPEALMhvyCASPDLATRRPL 143
Cdd:TIGR00864    2 ISNNKISTIEEGICANLCNLSEIDLSGNPFECDCGLARLPRWAEEKgvkvrQPEAAL---CAGPGALAGQPL 70
LRRCT smart00082
Leucine rich repeat C-terminal domain;
104-152 3.00e-05

Leucine rich repeat C-terminal domain;


Pssm-ID: 214507 [Multi-domain]  Cd Length: 51  Bit Score: 40.11  E-value: 3.00e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 568942436   104 NPWHCDCSLTYLRLWLEDhmPEALM---HVYCASPDlATRRPLGQLTGYELG 152
Cdd:smart00082   1 NPFICDCELRWLLRWLQA--NEHLQdpvDLRCASPS-SLRGPLLELLHSEFK 49
LRR_8 pfam13855
Leucine rich repeat;
75-104 6.55e-04

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 36.73  E-value: 6.55e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 568942436   75 LLLANNSLRSVPPGAFDHLPQLWDLDVTHN 104
Cdd:pfam13855   6 LDLSNNRLTSLDDGAFKGLSNLKVLDLSNN 35
LRRNT smart00013
Leucine rich repeat N-terminal domain;
38-72 1.30e-03

Leucine rich repeat N-terminal domain;


Pssm-ID: 214470 [Multi-domain]  Cd Length: 33  Bit Score: 34.99  E-value: 1.30e-03
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 568942436    38 ACPRPCTCQsletmGLKVNCEGQGLTALPV-IPAHT 72
Cdd:smart00013   1 ACPAPCNCS-----GTAVDCSGRGLTEVPLdLPPDT 31
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
45-105 3.44e-03

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 37.61  E-value: 3.44e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568942436  45 CQSLETmglkVNCEGQGLTALPVIPAHT--RQLLLANNSLRSVPPGAfdHLPQLWDLDVTHNP 105
Cdd:COG4886  227 LTNLET----LDLSNNQLTDLPELGNLTnlEELDLSNNQLTDLPPLA--NLTNLKTLDLSNNQ 283
 
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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