NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15011862|ref|NP_065138|]
View 

plexin domain-containing protein 1 precursor [Homo sapiens]

Protein Classification

NIDO and PSI domain-containing protein( domain architecture ID 10250010)

NIDO and PSI domain-containing protein

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PSI pfam01437
Plexin repeat; A cysteine rich repeat found in several different extracellular receptors. The ...
 303-347 1.98e-08

Plexin repeat; A cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found Plexin. Two copies of the repeat are found in mahogany protein. A related C. elegans protein contains four copies of the repeat. The Met receptor contains a single copy of the repeat. The Pfam alignment shows 6 conserved cysteine residues that may form three conserved disulphide bridges, whereas some members show 8 conserved cysteines. The pattern of conservation suggests that cysteines 5 and 7 (that are not absolutely conserved) form a disulphide bridge (Personal observation. A Bateman).


:

Pssm-ID: 396154 [Multi-domain]  Cd Length: 52  Bit Score: 50.40  E-value: 1.98e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15011862   303 TCLQHRSCDACMSSDlTFNCSWCHVLQRCS-----SGFDRYRQEWMDYGC 347
Cdd:pfam01437   1 RCSQYTSCSSCLAAR-DPYCGWCSSEGRCVrrsacGAPEGNCEEWEQASS 49
NIDO super family cl02648
Nidogen-like; This is a nidogen-like domain (NIDO) domain and is an extracellular domain found ...
 152-242 4.10e-04

Nidogen-like; This is a nidogen-like domain (NIDO) domain and is an extracellular domain found in nidogen and hypothetical proteins of unknown function.


The actual alignment was detected with superfamily member smart00539:

Pssm-ID: 470642  Cd Length: 152  Bit Score: 40.87  E-value: 4.10e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15011862    152 TIATGGFIFMGDVIHRML-TATQYVaplmanfNPGYSDNSTvvyFDNGTVFVVQWDHV-YLQGWEDKGSFTFQAALHHDG 229
Cdd:smart00539   8 TEGTGKVYYRETTDHAILdRATESV-------REGFTDMGG---FRAKSVVIVTWENVaAYGSQSSDGTNTFQAVLATDG 77

                           90
                   ....*....|....*.
gi 15011862    230 RIVFA---YKEIPMSV 242
Cdd:smart00539  78 SRTYAiflYPSLGWTS 93
 
Name Accession Description Interval E-value
PSI pfam01437
Plexin repeat; A cysteine rich repeat found in several different extracellular receptors. The ...
 303-347 1.98e-08

Plexin repeat; A cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found Plexin. Two copies of the repeat are found in mahogany protein. A related C. elegans protein contains four copies of the repeat. The Met receptor contains a single copy of the repeat. The Pfam alignment shows 6 conserved cysteine residues that may form three conserved disulphide bridges, whereas some members show 8 conserved cysteines. The pattern of conservation suggests that cysteines 5 and 7 (that are not absolutely conserved) form a disulphide bridge (Personal observation. A Bateman).


Pssm-ID: 396154 [Multi-domain]  Cd Length: 52  Bit Score: 50.40  E-value: 1.98e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15011862   303 TCLQHRSCDACMSSDlTFNCSWCHVLQRCS-----SGFDRYRQEWMDYGC 347
Cdd:pfam01437   1 RCSQYTSCSSCLAAR-DPYCGWCSSEGRCVrrsacGAPEGNCEEWEQASS 49
PSI smart00423
domain found in Plexins, Semaphorins and Integrins;
304-347 4.96e-07

domain found in Plexins, Semaphorins and Integrins;


Pssm-ID: 214655 [Multi-domain]  Cd Length: 47  Bit Score: 46.38  E-value: 4.96e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 15011862    304 CLQHRSCDACMSSDlTFNCSWCHVLQRCSSGF--DRYRQEWMDYGC 347
Cdd:smart00423   2 CSKYTSCSECLLAR-DPYCAWCSSQGRCTSGErcDSRRQNWLSGGC 46
NIDO smart00539
Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins;
152-242 4.10e-04

Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins;


Pssm-ID: 214712  Cd Length: 152  Bit Score: 40.87  E-value: 4.10e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15011862    152 TIATGGFIFMGDVIHRML-TATQYVaplmanfNPGYSDNSTvvyFDNGTVFVVQWDHV-YLQGWEDKGSFTFQAALHHDG 229
Cdd:smart00539   8 TEGTGKVYYRETTDHAILdRATESV-------REGFTDMGG---FRAKSVVIVTWENVaAYGSQSSDGTNTFQAVLATDG 77

                           90
                   ....*....|....*.
gi 15011862    230 RIVFA---YKEIPMSV 242
Cdd:smart00539  78 SRTYAiflYPSLGWTS 93
 
Name Accession Description Interval E-value
PSI pfam01437
Plexin repeat; A cysteine rich repeat found in several different extracellular receptors. The ...
 303-347 1.98e-08

Plexin repeat; A cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found Plexin. Two copies of the repeat are found in mahogany protein. A related C. elegans protein contains four copies of the repeat. The Met receptor contains a single copy of the repeat. The Pfam alignment shows 6 conserved cysteine residues that may form three conserved disulphide bridges, whereas some members show 8 conserved cysteines. The pattern of conservation suggests that cysteines 5 and 7 (that are not absolutely conserved) form a disulphide bridge (Personal observation. A Bateman).


Pssm-ID: 396154 [Multi-domain]  Cd Length: 52  Bit Score: 50.40  E-value: 1.98e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 15011862   303 TCLQHRSCDACMSSDlTFNCSWCHVLQRCS-----SGFDRYRQEWMDYGC 347
Cdd:pfam01437   1 RCSQYTSCSSCLAAR-DPYCGWCSSEGRCVrrsacGAPEGNCEEWEQASS 49
PSI smart00423
domain found in Plexins, Semaphorins and Integrins;
304-347 4.96e-07

domain found in Plexins, Semaphorins and Integrins;


Pssm-ID: 214655 [Multi-domain]  Cd Length: 47  Bit Score: 46.38  E-value: 4.96e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 15011862    304 CLQHRSCDACMSSDlTFNCSWCHVLQRCSSGF--DRYRQEWMDYGC 347
Cdd:smart00423   2 CSKYTSCSECLLAR-DPYCAWCSSQGRCTSGErcDSRRQNWLSGGC 46
NIDO smart00539
Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins;
152-242 4.10e-04

Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins;


Pssm-ID: 214712  Cd Length: 152  Bit Score: 40.87  E-value: 4.10e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15011862    152 TIATGGFIFMGDVIHRML-TATQYVaplmanfNPGYSDNSTvvyFDNGTVFVVQWDHV-YLQGWEDKGSFTFQAALHHDG 229
Cdd:smart00539   8 TEGTGKVYYRETTDHAILdRATESV-------REGFTDMGG---FRAKSVVIVTWENVaAYGSQSSDGTNTFQAVLATDG 77

                           90
                   ....*....|....*.
gi 15011862    230 RIVFA---YKEIPMSV 242
Cdd:smart00539  78 SRTYAiflYPSLGWTS 93
 
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