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Conserved domains on  [gi|4507887|ref|NP_003368|]
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vascular endothelial growth factor B isoform VEGFB-186 precursor [Homo sapiens]

Protein Classification

PDGF/VEGF family growth factor( domain architecture ID 11255535)

PDGF/VEGF family growth factor binds to its receptor tyrosine kinase and regulates a variety of biological processes such as blood and lymphatic vessel development

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PDGF smart00141
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family; Platelet-derived ...
 45-126 1.20e-36

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: 122.91  E-value: 1.20e-36
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887      45 ATCQPREVVVPLTVELMGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQILMIRYPSSQ-LGEMSLEEHSQCE 123
Cdd:smart00141   1 SQCKPRETVVEVSREYPDETNFLFKPPCVTVKRCGGCCNDEGLECVPTETSNVTMQLLEISRPLSQhLVEVSFEEHTKCE 80


                   ...
gi 4507887     124 CRP 126
Cdd:smart00141  81 CRP 83
PHA03269 super family cl29788
envelope glycoprotein C; Provisional
 108-188 5.19e-04

envelope glycoprotein C; Provisional


The actual alignment was detected with superfamily member PHA03269:

Pssm-ID: 165527 [Multi-domain]  Cd Length: 566  Bit Score: 40.10  E-value: 5.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887   108 SSQLGEMSLEEHSQCECRPkkkDSAVKPDRAAT----PHHRPQPRSVPGWDSAPgAPSPADITHPTPAPGPSAHAAPSTT 183
Cdd:PHA03269  36 ATQKPDPAPAPHQAASRAP---DPAVAPTSAASrkpdLAQAPTPAASEKFDPAP-APHQAASRAPDPAVAPQLAAAPKPD 111


                 ....*
gi 4507887   184 SALTP 188
Cdd:PHA03269 112 AAEAF 116
 
Name Accession Description Interval E-value
PDGF smart00141
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family; Platelet-derived ...
 45-126 1.20e-36

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: 122.91  E-value: 1.20e-36
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887      45 ATCQPREVVVPLTVELMGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQILMIRYPSSQ-LGEMSLEEHSQCE 123
Cdd:smart00141   1 SQCKPRETVVEVSREYPDETNFLFKPPCVTVKRCGGCCNDEGLECVPTETSNVTMQLLEISRPLSQhLVEVSFEEHTKCE 80


                   ...
gi 4507887     124 CRP 126
Cdd:smart00141  81 CRP 83
PDGF cd00135
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a ...
 45-127 4.41e-33

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: 114.00  E-value: 4.41e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887   45 ATCQPREVVVPLTVELMGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQILMIRY---PSSQLGEMSLEEHSQ 121
Cdd:cd00135   1 SSCKPRETLVEISEELPDETNTIFKPPCVEVKRCGGCCNDESLECVPTETSNVTMQVLKISPkrkPRSKLVEISFEEHTE 80


                ....*.
gi 4507887  122 CECRPK 127
Cdd:cd00135  81 CECRPR 86
PDGF pfam00341
PDGF/VEGF domain;
47-124 1.21e-28

PDGF/VEGF domain;


Pssm-ID: 425620  Cd Length: 82  Bit Score: 102.37  E-value: 1.21e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887     47 CQPREVVVPLTVELMGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQILMIRY----PSSQLGEMSLEEHSQC 122
Cdd:pfam00341   1 CKPRETLVEIRRELPDETNAFFKPSCVEVQRCSGCCNDEGLECVPTETHNVTMQVLKIEYaprrPSPELVEVSFEEHVQC 80


                  ..
gi 4507887    123 EC 124
Cdd:pfam00341  81 EC 82
PHA02661 PHA02661
vascular endothelial growth factor like protein; Provisional
 23-127 5.03e-22

vascular endothelial growth factor like protein; Provisional


Pssm-ID: 177444  Cd Length: 146  Bit Score: 87.37  E-value: 5.03e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887    23 VSQPDAPGHQRKVVSWIDVYTRATCQPREVVVPLTVELMGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQIL 102
Cdd:PHA02661  24 FSGSTGSSSASSLSSWLDTSDKSSCQPRDTVVQLSDEYPGNTNDRYNPRCVTVRRCGGCCNDESQICTPTETSNVTVTVM 103

                         90       100       110
                 ....*....|....*....|....*....|
gi 4507887   103 MIRY-----PSSQLGEMSLEEHSQCECRPK 127
Cdd:PHA02661 104 LTSVsgstgATSNFQTISVEEHTKCKCEFK 133
PHA03269 PHA03269
envelope glycoprotein C; Provisional
 108-188 5.19e-04

envelope glycoprotein C; Provisional


Pssm-ID: 165527 [Multi-domain]  Cd Length: 566  Bit Score: 40.10  E-value: 5.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887   108 SSQLGEMSLEEHSQCECRPkkkDSAVKPDRAAT----PHHRPQPRSVPGWDSAPgAPSPADITHPTPAPGPSAHAAPSTT 183
Cdd:PHA03269  36 ATQKPDPAPAPHQAASRAP---DPAVAPTSAASrkpdLAQAPTPAASEKFDPAP-APHQAASRAPDPAVAPQLAAAPKPD 111


                 ....*
gi 4507887   184 SALTP 188
Cdd:PHA03269 112 AAEAF 116
 
Name Accession Description Interval E-value
PDGF smart00141
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family; Platelet-derived ...
 45-126 1.20e-36

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: 122.91  E-value: 1.20e-36
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887      45 ATCQPREVVVPLTVELMGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQILMIRYPSSQ-LGEMSLEEHSQCE 123
Cdd:smart00141   1 SQCKPRETVVEVSREYPDETNFLFKPPCVTVKRCGGCCNDEGLECVPTETSNVTMQLLEISRPLSQhLVEVSFEEHTKCE 80


                   ...
gi 4507887     124 CRP 126
Cdd:smart00141  81 CRP 83
PDGF cd00135
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a ...
 45-127 4.41e-33

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: 114.00  E-value: 4.41e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887   45 ATCQPREVVVPLTVELMGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQILMIRY---PSSQLGEMSLEEHSQ 121
Cdd:cd00135   1 SSCKPRETLVEISEELPDETNTIFKPPCVEVKRCGGCCNDESLECVPTETSNVTMQVLKISPkrkPRSKLVEISFEEHTE 80


                ....*.
gi 4507887  122 CECRPK 127
Cdd:cd00135  81 CECRPR 86
PDGF pfam00341
PDGF/VEGF domain;
47-124 1.21e-28

PDGF/VEGF domain;


Pssm-ID: 425620  Cd Length: 82  Bit Score: 102.37  E-value: 1.21e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887     47 CQPREVVVPLTVELMGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQILMIRY----PSSQLGEMSLEEHSQC 122
Cdd:pfam00341   1 CKPRETLVEIRRELPDETNAFFKPSCVEVQRCSGCCNDEGLECVPTETHNVTMQVLKIEYaprrPSPELVEVSFEEHVQC 80


                  ..
gi 4507887    123 EC 124
Cdd:pfam00341  81 EC 82
PHA02661 PHA02661
vascular endothelial growth factor like protein; Provisional
 23-127 5.03e-22

vascular endothelial growth factor like protein; Provisional


Pssm-ID: 177444  Cd Length: 146  Bit Score: 87.37  E-value: 5.03e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887    23 VSQPDAPGHQRKVVSWIDVYTRATCQPREVVVPLTVELMGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQIL 102
Cdd:PHA02661  24 FSGSTGSSSASSLSSWLDTSDKSSCQPRDTVVQLSDEYPGNTNDRYNPRCVTVRRCGGCCNDESQICTPTETSNVTVTVM 103

                         90       100       110
                 ....*....|....*....|....*....|
gi 4507887   103 MIRY-----PSSQLGEMSLEEHSQCECRPK 127
Cdd:PHA02661 104 LTSVsgstgATSNFQTISVEEHTKCKCEFK 133
PHA03269 PHA03269
envelope glycoprotein C; Provisional
 108-188 5.19e-04

envelope glycoprotein C; Provisional


Pssm-ID: 165527 [Multi-domain]  Cd Length: 566  Bit Score: 40.10  E-value: 5.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4507887   108 SSQLGEMSLEEHSQCECRPkkkDSAVKPDRAAT----PHHRPQPRSVPGWDSAPgAPSPADITHPTPAPGPSAHAAPSTT 183
Cdd:PHA03269  36 ATQKPDPAPAPHQAASRAP---DPAVAPTSAASrkpdLAQAPTPAASEKFDPAP-APHQAASRAPDPAVAPQLAAAPKPD 111


                 ....*
gi 4507887   184 SALTP 188
Cdd:PHA03269 112 AAEAF 116
kgd PRK12270
multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine ...
 125-190 9.19e-03

multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit;


Pssm-ID: 237030 [Multi-domain]  Cd Length: 1228  Bit Score: 36.41  E-value: 9.19e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 4507887    125 RPKKKDSAVKPDRAATPHHRPQPRSVPGWDSAPGAPSPADITHPTPAPGPSAHAAPSTTSALTPGP 190
Cdd:PRK12270   37 GPGSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAPAAPPKPAAAAAAAAAPAAPPAA 102
 
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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