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Conserved domains on  [gi|2462584971|ref|XP_054181650|]
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platelet-derived growth factor subunit B isoform X1 [Homo sapiens]

Protein Classification

PDGF/VEGF family growth factor( domain architecture ID 10267418)

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 pfam00341
PDGF/VEGF domain;
66-149 2.87e-34

PDGF/VEGF domain;


:

Pssm-ID: 425620  Cd Length: 82  Bit Score: 117.00  E-value: 2.87e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462584971  66 CKTRTEVFEISRRLIDRTNANFLvwPPCVEVQRCSGCCNNRNVQCRPTQVQLRPVQVRKIEIVRKKPIFKKATVTLEDHL 145
Cdd:pfam00341   1 CKPRETLVEIRRELPDETNAFFK--PSCVEVQRCSGCCNDEGLECVPTETHNVTMQVLKIEYAPRRPSPELVEVSFEEHV 78


                  ....
gi 2462584971 146 ACKC 149
Cdd:pfam00341  79 QCEC 82
PDGF_N super family cl04679
Platelet-derived growth factor, N terminal region; This family consists of the amino terminal ...
 1-62 2.07e-11

Platelet-derived growth factor, N terminal region; This family consists of the amino terminal regions of platelet-derived growth factor (PDGF, pfam00341) A and B chains.


The actual alignment was detected with superfamily member pfam04692:

Pssm-ID: 461394  Cd Length: 78  Bit Score: 57.83  E-value: 2.07e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462584971   1 MLSDHSIRSFDDLQRLLHGDPGEEDGAELDLNMTRSHSGGELESLARGRRSLG-----SLTIAEPAM 62
Cdd:pfam04692  12 RLSRSEIRSISDLQRLLEIDSVGNEDAEEVETKHRAHSDHSSSSVDLKRRQLHsrrkrSIEEAVPAV 78
 
Name Accession Description Interval E-value
PDGF pfam00341
PDGF/VEGF domain;
66-149 2.87e-34

PDGF/VEGF domain;


Pssm-ID: 425620  Cd Length: 82  Bit Score: 117.00  E-value: 2.87e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462584971  66 CKTRTEVFEISRRLIDRTNANFLvwPPCVEVQRCSGCCNNRNVQCRPTQVQLRPVQVRKIEIVRKKPIFKKATVTLEDHL 145
Cdd:pfam00341   1 CKPRETLVEIRRELPDETNAFFK--PSCVEVQRCSGCCNDEGLECVPTETHNVTMQVLKIEYAPRRPSPELVEVSFEEHV 78


                  ....
gi 2462584971 146 ACKC 149
Cdd:pfam00341  79 QCEC 82
PDGF smart00141
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family; Platelet-derived ...
 64-151 6.58e-31

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: 108.28  E-value: 6.58e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462584971   64 AECKTRTEVFEISRRLIDRTNanFLVWPPCVEVQRCSGCCNNRNVQCRPTQVQLrpVQVRKIEIVRKKPIfKKATVTLED 143
Cdd:smart00141   1 SQCKPRETVVEVSREYPDETN--FLFKPPCVTVKRCGGCCNDEGLECVPTETSN--VTMQLLEISRPLSQ-HLVEVSFEE 75


                   ....*...
gi 2462584971  144 HLACKCET 151
Cdd:smart00141  76 HTKCECRP 83
PDGF cd00135
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a ...
 64-151 8.56e-29

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: 103.22  E-value: 8.56e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462584971  64 AECKTRTEVFEISRRLIDRTNanFLVWPPCVEVQRCSGCCNNRNVQCRPTQVQLRPVQVRKIEIVRkKPIFKKATVTLED 143
Cdd:cd00135     1 SSCKPRETLVEISEELPDETN--TIFKPPCVEVKRCGGCCNDESLECVPTETSNVTMQVLKISPKR-KPRSKLVEISFEE 77


                  ....*...
gi 2462584971 144 HLACKCET 151
Cdd:cd00135    78 HTECECRP 85
PDGF_N pfam04692
Platelet-derived growth factor, N terminal region; This family consists of the amino terminal ...
 1-62 2.07e-11

Platelet-derived growth factor, N terminal region; This family consists of the amino terminal regions of platelet-derived growth factor (PDGF, pfam00341) A and B chains.


Pssm-ID: 461394  Cd Length: 78  Bit Score: 57.83  E-value: 2.07e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462584971   1 MLSDHSIRSFDDLQRLLHGDPGEEDGAELDLNMTRSHSGGELESLARGRRSLG-----SLTIAEPAM 62
Cdd:pfam04692  12 RLSRSEIRSISDLQRLLEIDSVGNEDAEEVETKHRAHSDHSSSSVDLKRRQLHsrrkrSIEEAVPAV 78
PHA02661 PHA02661
vascular endothelial growth factor like protein; Provisional
 62-162 9.86e-10

vascular endothelial growth factor like protein; Provisional


Pssm-ID: 177444  Cd Length: 146  Bit Score: 55.01  E-value: 9.86e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462584971  62 MIAECKTRTEVFEISRRLIDRTNANFLvwPPCVEVQRCSGCCNNRNVQCRPTQVQLRPVQVRKIEIVRKKPIFKK-ATVT 140
Cdd:PHA02661   44 DKSSCQPRDTVVQLSDEYPGNTNDRYN--PRCVTVRRCGGCCNDESQICTPTETSNVTVTVMLTSVSGSTGATSNfQTIS 121

                          90       100
                  ....*....|....*....|....
gi 2462584971 141 LEDHLACKCETVAAARPVT--RSP 162
Cdd:PHA02661  122 VEEHTKCKCEFKTTPPPTTttREP 145
 
Name Accession Description Interval E-value
PDGF pfam00341
PDGF/VEGF domain;
66-149 2.87e-34

PDGF/VEGF domain;


Pssm-ID: 425620  Cd Length: 82  Bit Score: 117.00  E-value: 2.87e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462584971  66 CKTRTEVFEISRRLIDRTNANFLvwPPCVEVQRCSGCCNNRNVQCRPTQVQLRPVQVRKIEIVRKKPIFKKATVTLEDHL 145
Cdd:pfam00341   1 CKPRETLVEIRRELPDETNAFFK--PSCVEVQRCSGCCNDEGLECVPTETHNVTMQVLKIEYAPRRPSPELVEVSFEEHV 78


                  ....
gi 2462584971 146 ACKC 149
Cdd:pfam00341  79 QCEC 82
PDGF smart00141
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family; Platelet-derived ...
 64-151 6.58e-31

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: 108.28  E-value: 6.58e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462584971   64 AECKTRTEVFEISRRLIDRTNanFLVWPPCVEVQRCSGCCNNRNVQCRPTQVQLrpVQVRKIEIVRKKPIfKKATVTLED 143
Cdd:smart00141   1 SQCKPRETVVEVSREYPDETN--FLFKPPCVTVKRCGGCCNDEGLECVPTETSN--VTMQLLEISRPLSQ-HLVEVSFEE 75


                   ....*...
gi 2462584971  144 HLACKCET 151
Cdd:smart00141  76 HTKCECRP 83
PDGF cd00135
Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family domain; PDGF is a ...
 64-151 8.56e-29

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: 103.22  E-value: 8.56e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462584971  64 AECKTRTEVFEISRRLIDRTNanFLVWPPCVEVQRCSGCCNNRNVQCRPTQVQLRPVQVRKIEIVRkKPIFKKATVTLED 143
Cdd:cd00135     1 SSCKPRETLVEISEELPDETN--TIFKPPCVEVKRCGGCCNDESLECVPTETSNVTMQVLKISPKR-KPRSKLVEISFEE 77


                  ....*...
gi 2462584971 144 HLACKCET 151
Cdd:cd00135    78 HTECECRP 85
PDGF_N pfam04692
Platelet-derived growth factor, N terminal region; This family consists of the amino terminal ...
 1-62 2.07e-11

Platelet-derived growth factor, N terminal region; This family consists of the amino terminal regions of platelet-derived growth factor (PDGF, pfam00341) A and B chains.


Pssm-ID: 461394  Cd Length: 78  Bit Score: 57.83  E-value: 2.07e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462584971   1 MLSDHSIRSFDDLQRLLHGDPGEEDGAELDLNMTRSHSGGELESLARGRRSLG-----SLTIAEPAM 62
Cdd:pfam04692  12 RLSRSEIRSISDLQRLLEIDSVGNEDAEEVETKHRAHSDHSSSSVDLKRRQLHsrrkrSIEEAVPAV 78
PHA02661 PHA02661
vascular endothelial growth factor like protein; Provisional
 62-162 9.86e-10

vascular endothelial growth factor like protein; Provisional


Pssm-ID: 177444  Cd Length: 146  Bit Score: 55.01  E-value: 9.86e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462584971  62 MIAECKTRTEVFEISRRLIDRTNANFLvwPPCVEVQRCSGCCNNRNVQCRPTQVQLRPVQVRKIEIVRKKPIFKK-ATVT 140
Cdd:PHA02661   44 DKSSCQPRDTVVQLSDEYPGNTNDRYN--PRCVTVRRCGGCCNDESQICTPTETSNVTVTVMLTSVSGSTGATSNfQTIS 121

                          90       100
                  ....*....|....*....|....
gi 2462584971 141 LEDHLACKCETVAAARPVT--RSP 162
Cdd:PHA02661  122 VEEHTKCKCEFKTTPPPTTttREP 145
 
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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