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Conserved domains on  [gi|1958650280|ref|XP_038948924|]
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vascular endothelial growth factor B isoform X4 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PDGF super family cl00116
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a ...
 45-100 4.77e-19

Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a potent activator for cells of mesenchymal origin; PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer; VEGF is a potent mitogen in embryonic and somatic angiogenesis with a unique specificity for vascular endothelial cells; VEGF forms homodimers and exists in 4 different isoforms; overall, the VEGF monomer resembles that of PDGF, but its N-terminal segment is helical rather than extended; the cysteine knot motif is a common feature of this domain


The actual alignment was detected with superfamily member smart00141:

Pssm-ID: 444701  Cd Length: 83  Bit Score: 75.54  E-value: 4.77e-19
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1958650280   45 ATCQPREVVVPLSMELMGNVVKQLVPSCVTVQRCGGCCPDDGLECVPIGQHQVRMQ 100
Cdd:smart00141   1 SQCKPRETVVEVSREYPDETNFLFKPPCVTVKRCGGCCNDEGLECVPTETSNVTMQ 56
 
Name Accession Description Interval E-value
PDGF smart00141
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family; Platelet-derived ...
 45-100 4.77e-19

Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family; Platelet-derived growth factor is a potent activator for cells of mesenchymal origin. PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer. Members of the VEGF family are homologues of PDGF.


Pssm-ID: 197537  Cd Length: 83  Bit Score: 75.54  E-value: 4.77e-19
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1958650280   45 ATCQPREVVVPLSMELMGNVVKQLVPSCVTVQRCGGCCPDDGLECVPIGQHQVRMQ 100
Cdd:smart00141   1 SQCKPRETVVEVSREYPDETNFLFKPPCVTVKRCGGCCNDEGLECVPTETSNVTMQ 56
PDGF cd00135
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a ...
 45-100 1.02e-16

Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a potent activator for cells of mesenchymal origin; PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer; VEGF is a potent mitogen in embryonic and somatic angiogenesis with a unique specificity for vascular endothelial cells; VEGF forms homodimers and exists in 4 different isoforms; overall, the VEGF monomer resembles that of PDGF, but its N-terminal segment is helical rather than extended; the cysteine knot motif is a common feature of this domain


Pssm-ID: 238079  Cd Length: 86  Bit Score: 69.71  E-value: 1.02e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1958650280  45 ATCQPREVVVPLSMELMGNVVKQLVPSCVTVQRCGGCCPDDGLECVPIGQHQVRMQ 100
Cdd:cd00135     1 SSCKPRETLVEISEELPDETNTIFKPPCVEVKRCGGCCNDESLECVPTETSNVTMQ 56
PDGF pfam00341
PDGF/VEGF domain;
47-100 1.12e-16

PDGF/VEGF domain;


Pssm-ID: 425620  Cd Length: 82  Bit Score: 69.62  E-value: 1.12e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1958650280  47 CQPREVVVPLSMELMGNVVKQLVPSCVTVQRCGGCCPDDGLECVPIGQHQVRMQ 100
Cdd:pfam00341   1 CKPRETLVEIRRELPDETNAFFKPSCVEVQRCSGCCNDEGLECVPTETHNVTMQ 54
PHA02661 PHA02661
vascular endothelial growth factor like protein; Provisional
 23-105 4.69e-15

vascular endothelial growth factor like protein; Provisional


Pssm-ID: 177444  Cd Length: 146  Bit Score: 67.34  E-value: 4.69e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958650280  23 VSQFDGPSHQKKVVSWIDVYARATCQPREVVVPLSMELMGNVVKQLVPSCVTVQRCGGCCPDDGLECVPIGQHQVRMQTK 102
Cdd:PHA02661   24 FSGSTGSSSASSLSSWLDTSDKSSCQPRDTVVQLSDEYPGNTNDRYNPRCVTVRRCGGCCNDESQICTPTETSNVTVTVM 103


                  ...
gi 1958650280 103 KKG 105
Cdd:PHA02661  104 LTS 106
 
Name Accession Description Interval E-value
PDGF smart00141
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family; Platelet-derived ...
 45-100 4.77e-19

Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family; Platelet-derived growth factor is a potent activator for cells of mesenchymal origin. PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer. Members of the VEGF family are homologues of PDGF.


Pssm-ID: 197537  Cd Length: 83  Bit Score: 75.54  E-value: 4.77e-19
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1958650280   45 ATCQPREVVVPLSMELMGNVVKQLVPSCVTVQRCGGCCPDDGLECVPIGQHQVRMQ 100
Cdd:smart00141   1 SQCKPRETVVEVSREYPDETNFLFKPPCVTVKRCGGCCNDEGLECVPTETSNVTMQ 56
PDGF cd00135
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a ...
 45-100 1.02e-16

Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a potent activator for cells of mesenchymal origin; PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer; VEGF is a potent mitogen in embryonic and somatic angiogenesis with a unique specificity for vascular endothelial cells; VEGF forms homodimers and exists in 4 different isoforms; overall, the VEGF monomer resembles that of PDGF, but its N-terminal segment is helical rather than extended; the cysteine knot motif is a common feature of this domain


Pssm-ID: 238079  Cd Length: 86  Bit Score: 69.71  E-value: 1.02e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1958650280  45 ATCQPREVVVPLSMELMGNVVKQLVPSCVTVQRCGGCCPDDGLECVPIGQHQVRMQ 100
Cdd:cd00135     1 SSCKPRETLVEISEELPDETNTIFKPPCVEVKRCGGCCNDESLECVPTETSNVTMQ 56
PDGF pfam00341
PDGF/VEGF domain;
47-100 1.12e-16

PDGF/VEGF domain;


Pssm-ID: 425620  Cd Length: 82  Bit Score: 69.62  E-value: 1.12e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1958650280  47 CQPREVVVPLSMELMGNVVKQLVPSCVTVQRCGGCCPDDGLECVPIGQHQVRMQ 100
Cdd:pfam00341   1 CKPRETLVEIRRELPDETNAFFKPSCVEVQRCSGCCNDEGLECVPTETHNVTMQ 54
PHA02661 PHA02661
vascular endothelial growth factor like protein; Provisional
 23-105 4.69e-15

vascular endothelial growth factor like protein; Provisional


Pssm-ID: 177444  Cd Length: 146  Bit Score: 67.34  E-value: 4.69e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958650280  23 VSQFDGPSHQKKVVSWIDVYARATCQPREVVVPLSMELMGNVVKQLVPSCVTVQRCGGCCPDDGLECVPIGQHQVRMQTK 102
Cdd:PHA02661   24 FSGSTGSSSASSLSSWLDTSDKSSCQPRDTVVQLSDEYPGNTNDRYNPRCVTVRRCGGCCNDESQICTPTETSNVTVTVM 103


                  ...
gi 1958650280 103 KKG 105
Cdd:PHA02661  104 LTS 106
 
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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