NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|333108228|ref|NP_001193940|]
View 

ciliary neurotrophic factor receptor subunit alpha preproprotein [Homo sapiens]

Protein Classification

Ig and FN3 domain-containing protein( domain architecture ID 10307510)

Ig and FN3 domain-containing protein similar to Homo sapiens contactins, which are comprised of six immunoglobulin (Ig)-like domains followed by four fibronectin type III (Fn3) domains anchored to the membrane by glycosylphosphatidylinositol, and to Robo (roundabout) receptors which typically contain five Ig-like domains and three FN3 domains

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
FN3 cd00063
Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein ...
 204-300 1.89e-10

Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all animal proteins contain the FN3 repeat; including extracellular and intracellular proteins, membrane spanning cytokine receptors, growth hormone receptors, tyrosine phosphatase receptors, and adhesion molecules. FN3-like domains are also found in bacterial glycosyl hydrolases.


:

Pssm-ID: 238020 [Multi-domain]  Cd Length: 93  Bit Score: 57.12  E-value: 1.89e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228 204 PDPPENVVARPVpsNPRRLEVTWQTPstwPDPESFPLKFFLRYRPLILDQWQHVE--LSDGTAHTITDAYAGKEYIIQVA 281
Cdd:cd00063    1 PSPPTNLRVTDV--TSTSVTLSWTPP---EDDGGPITGYVVEYREKGSGDWKEVEvtPGSETSYTLTGLKPGTEYEFRVR 75

                         90
                 ....*....|....*....
gi 333108228 282 AKDNeiGTWSDWSVAAHAT 300
Cdd:cd00063   76 AVNG--GGESPPSESVTVT 92
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 38-90 8.18e-04

Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found in the Ig superfamily. The Ig superfamily is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. Members of this group are components of immunoglobulin, neuroglia, cell surface glycoproteins, including T-cell receptors, CD2, CD4, CD8, and membrane glycoproteins, including butyrophilin and chondroitin sulfate proteoglycan core protein. A predominant feature of most Ig domains is a disulfide bridge connecting the two beta-sheets with a tryptophan residue packed against the disulfide bond. Ig superfamily (IgSF) domains can be divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets. Typically, the V-set domains have A, B, E, and D strands in one sheet and A', G, F, C, C' and C" in the other. The structures in C1-set are smaller than those in the V-set; they have one beta sheet that is formed by strands A, B, E, and D and the other by strands G, F, C, and C'. Moreover, a C1-set Ig domain contains a short C' strand (three residues) and lacks A' and C" strand. Unlike other Ig domain sets, C2-set structures do not have a D strand. Like the V-set Ig domains, members of the I-set have a discontinuous A strand, but lack a C" strand.


The actual alignment was detected with superfamily member cd05872:

Pssm-ID: 472250  Cd Length: 86  Bit Score: 38.19  E-value: 8.18e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 333108228  38 LGSDVTLPCG-TANWdAAVTWRVNGTDLAPD----LLNGSQLVLHGLELGHSGLYACF 90
Cdd:cd05872   10 AGADVVLPCQlRSNL-ASPVWLFNGTPLNAQfsylRLGTDGLLILVTSPEHSGTYRCY 66
 
Name Accession Description Interval E-value
FN3 cd00063
Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein ...
 204-300 1.89e-10

Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all animal proteins contain the FN3 repeat; including extracellular and intracellular proteins, membrane spanning cytokine receptors, growth hormone receptors, tyrosine phosphatase receptors, and adhesion molecules. FN3-like domains are also found in bacterial glycosyl hydrolases.


Pssm-ID: 238020 [Multi-domain]  Cd Length: 93  Bit Score: 57.12  E-value: 1.89e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228 204 PDPPENVVARPVpsNPRRLEVTWQTPstwPDPESFPLKFFLRYRPLILDQWQHVE--LSDGTAHTITDAYAGKEYIIQVA 281
Cdd:cd00063    1 PSPPTNLRVTDV--TSTSVTLSWTPP---EDDGGPITGYVVEYREKGSGDWKEVEvtPGSETSYTLTGLKPGTEYEFRVR 75

                         90
                 ....*....|....*....
gi 333108228 282 AKDNeiGTWSDWSVAAHAT 300
Cdd:cd00063   76 AVNG--GGESPPSESVTVT 92
fn3 pfam00041
Fibronectin type III domain;
205-291 1.19e-06

Fibronectin type III domain;


Pssm-ID: 394996 [Multi-domain]  Cd Length: 85  Bit Score: 45.87  E-value: 1.19e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228  205 DPPENVVARPVpsNPRRLEVTWQTPSTWPDPesfPLKFFLRYRPLI-LDQWQHVELSDGTA-HTITDAYAGKEYIIQVAA 282
Cdd:pfam00041   1 SAPSNLTVTDV--TSTSLTVSWTPPPDGNGP---ITGYEVEYRPKNsGEPWNEITVPGTTTsVTLTGLKPGTEYEVRVQA 75

                          90
                  ....*....|
gi 333108228  283 -KDNEIGTWS 291
Cdd:pfam00041  76 vNGGGEGPPS 85
FN3 smart00060
Fibronectin type 3 domain; One of three types of internal repeat within the plasma protein, ...
 204-288 4.42e-06

Fibronectin type 3 domain; One of three types of internal repeat within the plasma protein, fibronectin. The tenth fibronectin type III repeat contains a RGD cell recognition sequence in a flexible loop between 2 strands. Type III modules are present in both extracellular and intracellular proteins.


Pssm-ID: 214495 [Multi-domain]  Cd Length: 83  Bit Score: 44.53  E-value: 4.42e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228   204 PDPPENVVARPVpsNPRRLEVTWQTPSTwPDPESFPLKFFLRYRPLILDQWQHVELSDGTAHTITDAYAGKEYIIQVAAK 283
Cdd:smart00060   1 PSPPSNLRVTDV--TSTSVTLSWEPPPD-DGITGYIVGYRVEYREEGSEWKEVNVTPSSTSYTLTGLKPGTEYEFRVRAV 77


                   ....*
gi 333108228   284 dNEIG 288
Cdd:smart00060  78 -NGAG 81
FN3 COG3401
Fibronectin type 3 domain [General function prediction only];
175-306 9.65e-05

Fibronectin type 3 domain [General function prediction only];


Pssm-ID: 442628 [Multi-domain]  Cd Length: 603  Bit Score: 44.22  E-value: 9.65e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228 175 IKYKVSISVSNALGHNATAITFDEFTI-VKPDPPENVVArpVPSNPRRLEVTWqTPSTWPDPESFPLkfflrYR-PLILD 252
Cdd:COG3401  203 TTYYYRVAATDTGGESAPSNEVSVTTPtTPPSAPTGLTA--TADTPGSVTLSW-DPVTESDATGYRV-----YRsNSGDG 274

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 333108228 253 QWQHVELSDGTAHTITDAYAGKEYIIQVAAKDNEiGTWSDWSVAAHATPWTEEP 306
Cdd:COG3401  275 PFTKVATVTTTSYTDTGLTNGTTYYYRVTAVDAA-GNESAPSNVVSVTTDLTPP 327
Ig_Sema4B_like cd05872
Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4B; The members here are ...
 38-90 8.18e-04

Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4B; The members here are composed of the immunoglobulin (Ig)-like domain of Sema4B and similar proteins. Sema4B is a Class IV semaphorin. Semaphorins are classified based on structural features additional to the Sema domain. Sema4B has extracellular Sema and Ig domains, a transmembrane domain, and a short cytoplasmic domain. Sema4B has been shown to preferentially regulate the development of the postsynaptic specialization at the glutamatergic synapses. This cytoplasmic domain includes a PDZ-binding motif upon which the synaptic localization of Sem4B is dependent. Sema4B is a ligand of CLCP1. CLCP1 was identified in an expression profiling analysis, which compared a highly metastic lung cancer subline with its low metastic parental line. Sema4B was shown to promote CLCP1 endocytosis and their interaction is a potential target for therapeutic intervention of metastasis.


Pssm-ID: 409456  Cd Length: 86  Bit Score: 38.19  E-value: 8.18e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 333108228  38 LGSDVTLPCG-TANWdAAVTWRVNGTDLAPD----LLNGSQLVLHGLELGHSGLYACF 90
Cdd:cd05872   10 AGADVVLPCQlRSNL-ASPVWLFNGTPLNAQfsylRLGTDGLLILVTSPEHSGTYRCY 66
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 31-89 2.92e-03

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 36.39  E-value: 2.92e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 333108228   31 PHVQYERLGSDVTLPCG-TANWDAAVTWRVNGTDLAP-------DLLNGSQLVLHGLELGHSGLYAC 89
Cdd:pfam13927   8 PSSVTVREGETVTLTCEaTGSPPPTITWYKNGEPISSgstrsrsLSGSNSTLTISNVTRSDAGTYTC 74
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 31-105 4.04e-03

Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.


Pssm-ID: 214653 [Multi-domain]  Cd Length: 85  Bit Score: 35.94  E-value: 4.04e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228    31 PHVQYERLGSDVTLPC-GTANWDAAVTWRVNGTDLAPD--------LLNGSQLVLHGLELGHSGLYACFHRDSWHLRHQ- 100
Cdd:smart00410   1 PPSVTVKEGESVTLSCeASGSPPPEVTWYKQGGKLLAEsgrfsvsrSGSTSTLTISNVTPEDSGTYTCAATNSSGSASSg 80


                   ....*
gi 333108228   101 VLLHV 105
Cdd:smart00410  81 TTLTV 85
 
Name Accession Description Interval E-value
FN3 cd00063
Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein ...
 204-300 1.89e-10

Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all animal proteins contain the FN3 repeat; including extracellular and intracellular proteins, membrane spanning cytokine receptors, growth hormone receptors, tyrosine phosphatase receptors, and adhesion molecules. FN3-like domains are also found in bacterial glycosyl hydrolases.


Pssm-ID: 238020 [Multi-domain]  Cd Length: 93  Bit Score: 57.12  E-value: 1.89e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228 204 PDPPENVVARPVpsNPRRLEVTWQTPstwPDPESFPLKFFLRYRPLILDQWQHVE--LSDGTAHTITDAYAGKEYIIQVA 281
Cdd:cd00063    1 PSPPTNLRVTDV--TSTSVTLSWTPP---EDDGGPITGYVVEYREKGSGDWKEVEvtPGSETSYTLTGLKPGTEYEFRVR 75

                         90
                 ....*....|....*....
gi 333108228 282 AKDNeiGTWSDWSVAAHAT 300
Cdd:cd00063   76 AVNG--GGESPPSESVTVT 92
fn3 pfam00041
Fibronectin type III domain;
205-291 1.19e-06

Fibronectin type III domain;


Pssm-ID: 394996 [Multi-domain]  Cd Length: 85  Bit Score: 45.87  E-value: 1.19e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228  205 DPPENVVARPVpsNPRRLEVTWQTPSTWPDPesfPLKFFLRYRPLI-LDQWQHVELSDGTA-HTITDAYAGKEYIIQVAA 282
Cdd:pfam00041   1 SAPSNLTVTDV--TSTSLTVSWTPPPDGNGP---ITGYEVEYRPKNsGEPWNEITVPGTTTsVTLTGLKPGTEYEVRVQA 75

                          90
                  ....*....|
gi 333108228  283 -KDNEIGTWS 291
Cdd:pfam00041  76 vNGGGEGPPS 85
FN3 smart00060
Fibronectin type 3 domain; One of three types of internal repeat within the plasma protein, ...
 204-288 4.42e-06

Fibronectin type 3 domain; One of three types of internal repeat within the plasma protein, fibronectin. The tenth fibronectin type III repeat contains a RGD cell recognition sequence in a flexible loop between 2 strands. Type III modules are present in both extracellular and intracellular proteins.


Pssm-ID: 214495 [Multi-domain]  Cd Length: 83  Bit Score: 44.53  E-value: 4.42e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228   204 PDPPENVVARPVpsNPRRLEVTWQTPSTwPDPESFPLKFFLRYRPLILDQWQHVELSDGTAHTITDAYAGKEYIIQVAAK 283
Cdd:smart00060   1 PSPPSNLRVTDV--TSTSVTLSWEPPPD-DGITGYIVGYRVEYREEGSEWKEVNVTPSSTSYTLTGLKPGTEYEFRVRAV 77


                   ....*
gi 333108228   284 dNEIG 288
Cdd:smart00060  78 -NGAG 81
FN3 COG3401
Fibronectin type 3 domain [General function prediction only];
175-306 9.65e-05

Fibronectin type 3 domain [General function prediction only];


Pssm-ID: 442628 [Multi-domain]  Cd Length: 603  Bit Score: 44.22  E-value: 9.65e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228 175 IKYKVSISVSNALGHNATAITFDEFTI-VKPDPPENVVArpVPSNPRRLEVTWqTPSTWPDPESFPLkfflrYR-PLILD 252
Cdd:COG3401  203 TTYYYRVAATDTGGESAPSNEVSVTTPtTPPSAPTGLTA--TADTPGSVTLSW-DPVTESDATGYRV-----YRsNSGDG 274

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 333108228 253 QWQHVELSDGTAHTITDAYAGKEYIIQVAAKDNEiGTWSDWSVAAHATPWTEEP 306
Cdd:COG3401  275 PFTKVATVTTTSYTDTGLTNGTTYYYRVTAVDAA-GNESAPSNVVSVTTDLTPP 327
FN3 COG3401
Fibronectin type 3 domain [General function prediction only];
201-303 1.69e-04

Fibronectin type 3 domain [General function prediction only];


Pssm-ID: 442628 [Multi-domain]  Cd Length: 603  Bit Score: 43.45  E-value: 1.69e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228 201 IVKPDPPENVVArpVPSNPRRLEVTWQTPStwpdpeSFPLKFFLRYR-PLILDQWQHV-ELSDGTAHTITDAYAGKEYII 278
Cdd:COG3401  324 LTPPAAPSGLTA--TAVGSSSITLSWTASS------DADVTGYNVYRsTSGGGTYTKIaETVTTTSYTDTGLTPGTTYYY 395

                         90       100
                 ....*....|....*....|....*
gi 333108228 279 QVAAKDnEIGTWSDWSVAAHATPWT 303
Cdd:COG3401  396 KVTAVD-AAGNESAPSEEVSATTAS 419
Ig_Sema4B_like cd05872
Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4B; The members here are ...
 38-90 8.18e-04

Immunoglobulin (Ig)-like domain of the class IV semaphorin Sema4B; The members here are composed of the immunoglobulin (Ig)-like domain of Sema4B and similar proteins. Sema4B is a Class IV semaphorin. Semaphorins are classified based on structural features additional to the Sema domain. Sema4B has extracellular Sema and Ig domains, a transmembrane domain, and a short cytoplasmic domain. Sema4B has been shown to preferentially regulate the development of the postsynaptic specialization at the glutamatergic synapses. This cytoplasmic domain includes a PDZ-binding motif upon which the synaptic localization of Sem4B is dependent. Sema4B is a ligand of CLCP1. CLCP1 was identified in an expression profiling analysis, which compared a highly metastic lung cancer subline with its low metastic parental line. Sema4B was shown to promote CLCP1 endocytosis and their interaction is a potential target for therapeutic intervention of metastasis.


Pssm-ID: 409456  Cd Length: 86  Bit Score: 38.19  E-value: 8.18e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 333108228  38 LGSDVTLPCG-TANWdAAVTWRVNGTDLAPD----LLNGSQLVLHGLELGHSGLYACF 90
Cdd:cd05872   10 AGADVVLPCQlRSNL-ASPVWLFNGTPLNAQfsylRLGTDGLLILVTSPEHSGTYRCY 66
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 31-89 2.92e-03

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 36.39  E-value: 2.92e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 333108228   31 PHVQYERLGSDVTLPCG-TANWDAAVTWRVNGTDLAP-------DLLNGSQLVLHGLELGHSGLYAC 89
Cdd:pfam13927   8 PSSVTVREGETVTLTCEaTGSPPPTITWYKNGEPISSgstrsrsLSGSNSTLTISNVTRSDAGTYTC 74
Ig cd00096
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 42-89 3.31e-03

Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found in the Ig superfamily. The Ig superfamily is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. Members of this group are components of immunoglobulin, neuroglia, cell surface glycoproteins, including T-cell receptors, CD2, CD4, CD8, and membrane glycoproteins, including butyrophilin and chondroitin sulfate proteoglycan core protein. A predominant feature of most Ig domains is a disulfide bridge connecting the two beta-sheets with a tryptophan residue packed against the disulfide bond. Ig superfamily (IgSF) domains can be divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets. Typically, the V-set domains have A, B, E, and D strands in one sheet and A', G, F, C, C' and C" in the other. The structures in C1-set are smaller than those in the V-set; they have one beta sheet that is formed by strands A, B, E, and D and the other by strands G, F, C, and C'. Moreover, a C1-set Ig domain contains a short C' strand (three residues) and lacks A' and C" strand. Unlike other Ig domain sets, C2-set structures do not have a D strand. Like the V-set Ig domains, members of the I-set have a discontinuous A strand, but lack a C" strand.


Pssm-ID: 409353 [Multi-domain]  Cd Length: 70  Bit Score: 35.77  E-value: 3.31e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 333108228  42 VTLPC-GTANWDAAVTWRVNGTDLAPD-------LLNGSQLVLHGLELGHSGLYAC 89
Cdd:cd00096    1 VTLTCsASGNPPPTITWYKNGKPLPPSsrdsrrsELGNGTLTISNVTLEDSGTYTC 56
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 31-105 4.04e-03

Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.


Pssm-ID: 214653 [Multi-domain]  Cd Length: 85  Bit Score: 35.94  E-value: 4.04e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 333108228    31 PHVQYERLGSDVTLPC-GTANWDAAVTWRVNGTDLAPD--------LLNGSQLVLHGLELGHSGLYACFHRDSWHLRHQ- 100
Cdd:smart00410   1 PPSVTVKEGESVTLSCeASGSPPPEVTWYKQGGKLLAEsgrfsvsrSGSTSTLTISNVTPEDSGTYTCAATNSSGSASSg 80


                   ....*
gi 333108228   101 VLLHV 105
Cdd:smart00410  81 TTLTV 85
 
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