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Conserved domains on  [gi|4504077|ref|NP_000165|]
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platelet glycoprotein IX precursor [Homo sapiens]

Protein Classification

LRRNT and PCC domain-containing protein( domain architecture ID 10635027)

LRRNT and PCC domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PCC super family cl28216
polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) ...
 58-124 3.33e-08

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: 52.39  E-value: 3.33e-08
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 4504077      58 LANNSLQSVPPGAFDHLPQLQTLDVTQNPWHCDCSLTYLRLWLED-----RTPEALLqvrCASPSLAAHGPL 124
Cdd:TIGR00864    2 ISNNKISTIEEGICANLCNLSEIDLSGNPFECDCGLARLPRWAEEkgvkvRQPEAAL---CAGPGALAGQPL 70
LRRNT smart00013
Leucine rich repeat N-terminal domain;
19-55 8.14e-04

Leucine rich repeat N-terminal domain;


:

Pssm-ID: 214470 [Multi-domain]  Cd Length: 33  Bit Score: 35.37  E-value: 8.14e-04
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 4504077      19 DCPSPCTCRaletmGLWVDCRGHGLTALP-ALPARTRH 55
Cdd:smart00013   1 ACPAPCNCS-----GTAVDCSGRGLTEVPlDLPPDTTL 33
 
Name Accession Description Interval E-value
PCC TIGR00864
polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) ...
 58-124 3.33e-08

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: 52.39  E-value: 3.33e-08
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 4504077      58 LANNSLQSVPPGAFDHLPQLQTLDVTQNPWHCDCSLTYLRLWLED-----RTPEALLqvrCASPSLAAHGPL 124
Cdd:TIGR00864    2 ISNNKISTIEEGICANLCNLSEIDLSGNPFECDCGLARLPRWAEEkgvkvRQPEAAL---CAGPGALAGQPL 70
LRR_8 pfam13855
Leucine rich repeat;
46-86 1.13e-06

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 44.05  E-value: 1.13e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 4504077     46 LPALpartRHLLLANNSLQSVPPGAFDHLPQLQTLDVTQNP 86
Cdd:pfam13855  24 LSNL----KVLDLSNNLLTTLSPGAFSGLPSLRYLDLSGNR 60
LRRCT smart00082
Leucine rich repeat C-terminal domain;
85-130 6.20e-06

Leucine rich repeat C-terminal domain;


Pssm-ID: 214507 [Multi-domain]  Cd Length: 51  Bit Score: 41.65  E-value: 6.20e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 4504077      85 NPWHCDCSLTYLRLWLEDRT-PEALLQVRCASPSlAAHGPLGRLTGY 130
Cdd:smart00082   1 NPFICDCELRWLLRWLQANEhLQDPVDLRCASPS-SLRGPLLELLHS 46
LRRNT smart00013
Leucine rich repeat N-terminal domain;
19-55 8.14e-04

Leucine rich repeat N-terminal domain;


Pssm-ID: 214470 [Multi-domain]  Cd Length: 33  Bit Score: 35.37  E-value: 8.14e-04
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 4504077      19 DCPSPCTCRaletmGLWVDCRGHGLTALP-ALPARTRH 55
Cdd:smart00013   1 ACPAPCNCS-----GTAVDCSGRGLTEVPlDLPPDTTL 33
LRRNT pfam01462
Leucine rich repeat N-terminal domain; Leucine Rich Repeats pfam00560 are short sequence ...
 19-47 1.54e-03

Leucine rich repeat N-terminal domain; Leucine Rich Repeats pfam00560 are short sequence motifs present in a number of proteins with diverse functions and cellular locations. Leucine Rich Repeats are often flanked by cysteine rich domains. This domain is often found at the N-terminus of tandem leucine rich repeats.


Pssm-ID: 396168 [Multi-domain]  Cd Length: 28  Bit Score: 34.53  E-value: 1.54e-03
                          10        20
                  ....*....|....*....|....*....
gi 4504077     19 DCPSPCTCRALetmglWVDCRGHGLTALP 47
Cdd:pfam01462   1 ACPVPCHCSAT-----VVNCSDRGLTAVP 24
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
26-86 3.94e-03

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


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 36.84  E-value: 3.94e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 4504077   26 CRALETmglwVDCRGHGLTALPALPART--RHLLLANNSLQSVPPGAfdHLPQLQTLDVTQNP 86
Cdd:COG4886 227 LTNLET----LDLSNNQLTDLPELGNLTnlEELDLSNNQLTDLPPLA--NLTNLKTLDLSNNQ 283
 
Name Accession Description Interval E-value
PCC TIGR00864
polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) ...
 58-124 3.33e-08

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: 52.39  E-value: 3.33e-08
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 4504077      58 LANNSLQSVPPGAFDHLPQLQTLDVTQNPWHCDCSLTYLRLWLED-----RTPEALLqvrCASPSLAAHGPL 124
Cdd:TIGR00864    2 ISNNKISTIEEGICANLCNLSEIDLSGNPFECDCGLARLPRWAEEkgvkvRQPEAAL---CAGPGALAGQPL 70
LRR_8 pfam13855
Leucine rich repeat;
46-86 1.13e-06

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 44.05  E-value: 1.13e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 4504077     46 LPALpartRHLLLANNSLQSVPPGAFDHLPQLQTLDVTQNP 86
Cdd:pfam13855  24 LSNL----KVLDLSNNLLTTLSPGAFSGLPSLRYLDLSGNR 60
LRRCT smart00082
Leucine rich repeat C-terminal domain;
85-130 6.20e-06

Leucine rich repeat C-terminal domain;


Pssm-ID: 214507 [Multi-domain]  Cd Length: 51  Bit Score: 41.65  E-value: 6.20e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 4504077      85 NPWHCDCSLTYLRLWLEDRT-PEALLQVRCASPSlAAHGPLGRLTGY 130
Cdd:smart00082   1 NPFICDCELRWLLRWLQANEhLQDPVDLRCASPS-SLRGPLLELLHS 46
LRR_8 pfam13855
Leucine rich repeat;
54-85 1.12e-05

Leucine rich repeat;


Pssm-ID: 404697 [Multi-domain]  Cd Length: 61  Bit Score: 41.36  E-value: 1.12e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 4504077     54 RHLLLANNSLQSVPPGAFDHLPQLQTLDVTQN 85
Cdd:pfam13855   4 RSLDLSNNRLTSLDDGAFKGLSNLKVLDLSNN 35
LRR_4 pfam12799
Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a ...
 54-86 2.73e-04

Leucine Rich repeats (2 copies); Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains.


Pssm-ID: 463713 [Multi-domain]  Cd Length: 44  Bit Score: 37.22  E-value: 2.73e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 4504077     54 RHLLLANNSLQSVPPgaFDHLPQLQTLDVTQNP 86
Cdd:pfam12799   4 EVLDLSNNQITDIPP--LAKLPNLETLDLSGNN 34
LRRNT smart00013
Leucine rich repeat N-terminal domain;
19-55 8.14e-04

Leucine rich repeat N-terminal domain;


Pssm-ID: 214470 [Multi-domain]  Cd Length: 33  Bit Score: 35.37  E-value: 8.14e-04
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 4504077      19 DCPSPCTCRaletmGLWVDCRGHGLTALP-ALPARTRH 55
Cdd:smart00013   1 ACPAPCNCS-----GTAVDCSGRGLTEVPlDLPPDTTL 33
LRRNT pfam01462
Leucine rich repeat N-terminal domain; Leucine Rich Repeats pfam00560 are short sequence ...
 19-47 1.54e-03

Leucine rich repeat N-terminal domain; Leucine Rich Repeats pfam00560 are short sequence motifs present in a number of proteins with diverse functions and cellular locations. Leucine Rich Repeats are often flanked by cysteine rich domains. This domain is often found at the N-terminus of tandem leucine rich repeats.


Pssm-ID: 396168 [Multi-domain]  Cd Length: 28  Bit Score: 34.53  E-value: 1.54e-03
                          10        20
                  ....*....|....*....|....*....
gi 4504077     19 DCPSPCTCRALetmglWVDCRGHGLTALP 47
Cdd:pfam01462   1 ACPVPCHCSAT-----VVNCSDRGLTAVP 24
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
26-86 3.94e-03

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


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 36.84  E-value: 3.94e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 4504077   26 CRALETmglwVDCRGHGLTALPALPART--RHLLLANNSLQSVPPGAfdHLPQLQTLDVTQNP 86
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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