NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|186511931|ref|NP_193414|]
View 

VEFS-Box of polycomb protein [Arabidopsis thaliana]

Protein Classification

polycomb protein( domain architecture ID 10560825)

VEFS family polycomb protein such as human polycomb protein SUZ12

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
VEFS-Box pfam09733
VEFS-Box of polycomb protein; The VEFS-Box (VRN2-EMF2-FIS2-Su(z)12) box is the C-terminal ...
11-152 1.50e-72

VEFS-Box of polycomb protein; The VEFS-Box (VRN2-EMF2-FIS2-Su(z)12) box is the C-terminal region of these proteins, characterized by an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain. Some of these sequences are associated with a zinc-finger domain about 100 residues towards the N-terminus. This protein is one of the polycomb cluster of proteins which control HOX gene transcription as it functions in heterochromatin-mediated repression.


:

Pssm-ID: 462864  Cd Length: 137  Bit Score: 219.48  E-value: 1.50e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186511931   11 KVPAKRSKATSHYLpLHKRQFYHSRTGQPLSLEQVMSDRDSENDVDknDDAAHLEESQMLNGSMDENEiVAERFIKLWNS 90
Cdd:pfam09733   1 KLPAERSDPRSYIL-LHNRQYFHSRTCQPMRLEEVDSDVDSEDEVD--PDWLRFETRRMLDEFTDVNE-GEKEFMKLWNL 76
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 186511931   91 FVKQQRIVADAHIPWACEAFSRLHLQELRSNlSLDLCWRQFMIKQWDYGLLDRVTMNKCNTI 152
Cdd:pfam09733  77 FVMKQRVIADGQIPWACEAFVKLHGQELVQN-NLRRNWRLHMIKLWDFGLLDARTINKCNTI 137
 
Name Accession Description Interval E-value
VEFS-Box pfam09733
VEFS-Box of polycomb protein; The VEFS-Box (VRN2-EMF2-FIS2-Su(z)12) box is the C-terminal ...
11-152 1.50e-72

VEFS-Box of polycomb protein; The VEFS-Box (VRN2-EMF2-FIS2-Su(z)12) box is the C-terminal region of these proteins, characterized by an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain. Some of these sequences are associated with a zinc-finger domain about 100 residues towards the N-terminus. This protein is one of the polycomb cluster of proteins which control HOX gene transcription as it functions in heterochromatin-mediated repression.


Pssm-ID: 462864  Cd Length: 137  Bit Score: 219.48  E-value: 1.50e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186511931   11 KVPAKRSKATSHYLpLHKRQFYHSRTGQPLSLEQVMSDRDSENDVDknDDAAHLEESQMLNGSMDENEiVAERFIKLWNS 90
Cdd:pfam09733   1 KLPAERSDPRSYIL-LHNRQYFHSRTCQPMRLEEVDSDVDSEDEVD--PDWLRFETRRMLDEFTDVNE-GEKEFMKLWNL 76
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 186511931   91 FVKQQRIVADAHIPWACEAFSRLHLQELRSNlSLDLCWRQFMIKQWDYGLLDRVTMNKCNTI 152
Cdd:pfam09733  77 FVMKQRVIADGQIPWACEAFVKLHGQELVQN-NLRRNWRLHMIKLWDFGLLDARTINKCNTI 137
VEFS-box_EMF2-like cd21553
VEFS (VRN2-EMF2-FIS2-Su(z)12) box found in Arabidopsis thaliana Polycomb group protein ...
26-153 3.66e-56

VEFS (VRN2-EMF2-FIS2-Su(z)12) box found in Arabidopsis thaliana Polycomb group protein EMBRYONIC FLOWER 2 (EMF2) and similar proteins; This subfamily includes a group of proteins similar to Arabidopsis thaliana Polycomb group (PcG) proteins, EMF2, Polycomb group protein FERTILIZATION-INDEPENDENT SEED 2 (FIS2), and Polycomb group protein VERNALIZATION 2 (VRN2). EMF2 is involved in flowering processes by repressing unknown target genes and preventing reproductive development. It participates in PcG protein complex-mediated (probably in complex with EMF1) silencing of the flower homeotic genes AGAMOUS (AG), PISTILLATA (PI), and APETALA3 (AP3), as well as of some regulatory genes such as ABSCISIC ACID INSENSITIVE3 (ABI3), LONG VEGETATIVE PHASE1 (LOV1), and FLOWERING LOCUS C (FLC) during vegetative development, by mediating trimethylation of histone 3 lysine 27 on the AG chromatin (H3K27me3). FIS2 is required to prevent the proliferation of the central cell by repressing unknown target genes before fertilization. It regulates the anteroposterior organization of the endosperm. VRN2 plays a central role in vernalization by maintaining repressed the homeotic gene FLC, a floral repressor, after cold treatment. PcG proteins act by forming multiprotein complexes, which are required to maintain the transcriptionally repressive state of homeotic genes throughout development. Members of this family contain a VEFS (VRN2-EMF2-FIS2-Su(z)12) box.


Pssm-ID: 439218  Cd Length: 128  Bit Score: 177.52  E-value: 3.66e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186511931  26 LHKRQFYHSRTGQPLSLEQVMSDRDSENDVDknDDAAHLEESQMLNGSMDENEiVAERFIKLWNSFVKQQRIVADAHIPW 105
Cdd:cd21553    1 LPKRQFYHSRTAQPMTLEEVDSDSDSEDEVD--EEWADEEDRRLLDEFVDVSP-DEKEFMHLWNSFVRRQRVLADGHVPW 77
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 186511931 106 ACEAFSRLHLQELRSNLSLDLCWRQFMIKQWDYGLLDRVTMNKCNTII 153
Cdd:cd21553   78 ACEAFAREHGKELVADPGLRRCFRLHLINLWNFGLLDAKTIADCLQIL 125
 
Name Accession Description Interval E-value
VEFS-Box pfam09733
VEFS-Box of polycomb protein; The VEFS-Box (VRN2-EMF2-FIS2-Su(z)12) box is the C-terminal ...
11-152 1.50e-72

VEFS-Box of polycomb protein; The VEFS-Box (VRN2-EMF2-FIS2-Su(z)12) box is the C-terminal region of these proteins, characterized by an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain. Some of these sequences are associated with a zinc-finger domain about 100 residues towards the N-terminus. This protein is one of the polycomb cluster of proteins which control HOX gene transcription as it functions in heterochromatin-mediated repression.


Pssm-ID: 462864  Cd Length: 137  Bit Score: 219.48  E-value: 1.50e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186511931   11 KVPAKRSKATSHYLpLHKRQFYHSRTGQPLSLEQVMSDRDSENDVDknDDAAHLEESQMLNGSMDENEiVAERFIKLWNS 90
Cdd:pfam09733   1 KLPAERSDPRSYIL-LHNRQYFHSRTCQPMRLEEVDSDVDSEDEVD--PDWLRFETRRMLDEFTDVNE-GEKEFMKLWNL 76
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 186511931   91 FVKQQRIVADAHIPWACEAFSRLHLQELRSNlSLDLCWRQFMIKQWDYGLLDRVTMNKCNTI 152
Cdd:pfam09733  77 FVMKQRVIADGQIPWACEAFVKLHGQELVQN-NLRRNWRLHMIKLWDFGLLDARTINKCNTI 137
VEFS-box_EMF2-like cd21553
VEFS (VRN2-EMF2-FIS2-Su(z)12) box found in Arabidopsis thaliana Polycomb group protein ...
26-153 3.66e-56

VEFS (VRN2-EMF2-FIS2-Su(z)12) box found in Arabidopsis thaliana Polycomb group protein EMBRYONIC FLOWER 2 (EMF2) and similar proteins; This subfamily includes a group of proteins similar to Arabidopsis thaliana Polycomb group (PcG) proteins, EMF2, Polycomb group protein FERTILIZATION-INDEPENDENT SEED 2 (FIS2), and Polycomb group protein VERNALIZATION 2 (VRN2). EMF2 is involved in flowering processes by repressing unknown target genes and preventing reproductive development. It participates in PcG protein complex-mediated (probably in complex with EMF1) silencing of the flower homeotic genes AGAMOUS (AG), PISTILLATA (PI), and APETALA3 (AP3), as well as of some regulatory genes such as ABSCISIC ACID INSENSITIVE3 (ABI3), LONG VEGETATIVE PHASE1 (LOV1), and FLOWERING LOCUS C (FLC) during vegetative development, by mediating trimethylation of histone 3 lysine 27 on the AG chromatin (H3K27me3). FIS2 is required to prevent the proliferation of the central cell by repressing unknown target genes before fertilization. It regulates the anteroposterior organization of the endosperm. VRN2 plays a central role in vernalization by maintaining repressed the homeotic gene FLC, a floral repressor, after cold treatment. PcG proteins act by forming multiprotein complexes, which are required to maintain the transcriptionally repressive state of homeotic genes throughout development. Members of this family contain a VEFS (VRN2-EMF2-FIS2-Su(z)12) box.


Pssm-ID: 439218  Cd Length: 128  Bit Score: 177.52  E-value: 3.66e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186511931  26 LHKRQFYHSRTGQPLSLEQVMSDRDSENDVDknDDAAHLEESQMLNGSMDENEiVAERFIKLWNSFVKQQRIVADAHIPW 105
Cdd:cd21553    1 LPKRQFYHSRTAQPMTLEEVDSDSDSEDEVD--EEWADEEDRRLLDEFVDVSP-DEKEFMHLWNSFVRRQRVLADGHVPW 77
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 186511931 106 ACEAFSRLHLQELRSNLSLDLCWRQFMIKQWDYGLLDRVTMNKCNTII 153
Cdd:cd21553   78 ACEAFAREHGKELVADPGLRRCFRLHLINLWNFGLLDAKTIADCLQIL 125
VEFS-box cd21521
VEFS (VRN2-EMF2-FIS2-Su(z)12) box family; This family corresponds to a group of polycomb ...
29-151 1.51e-21

VEFS (VRN2-EMF2-FIS2-Su(z)12) box family; This family corresponds to a group of polycomb cluster proteins which control HOX gene transcription, as they function in heterochromatin-mediated repression. They are characterized by containing a VEFS-box in the C-terminal region, which is an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain. Some of these sequences are associated with a zinc-finger domain about 100 residues towards the N-terminus. Members include suppressor of zeste 12 protein (SUZ12) from vertebrates, plants, insects and fungi, as well as Polycomb group protein EMBRYONIC FLOWER 2 (EMF2), Polycomb group protein FERTILIZATION-INDEPENDENT SEED 2 (FIS2), and Polycomb group protein VERNALIZATION 2 (VRN2) from plants.


Pssm-ID: 439215  Cd Length: 121  Bit Score: 87.75  E-value: 1.51e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186511931  29 RQFYHSRTGQPLSLEQVMSDRDSEND-VDKNDDAAHLEESQMLNgsmdENEivaERFIKLWNSFVKQQRIVADAHIPWAC 107
Cdd:cd21521    1 RQYFHPRSCVPLLPEVDLSDLDEIDDeWLQEYLRRQIEDFVDVN----PGE---KEFMKLWNAFLLKLRPLGDSHLPDTC 73
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 186511931 108 EAFSRLHLQELRSNlSLDLCWRQFMIKQWDYGLLDRVTMNKCNT 151
Cdd:cd21521   74 RRFVRKHGQEIELK-NLYREFVLHLTTLHEDGLLDADEVYELIQ 116
VEFS-box_SUZ12 cd21551
VEFS (VRN2-EMF2-FIS2-Su(z)12) box found in suppressor of zeste 12 protein (SUZ12) and similar ...
29-149 2.69e-09

VEFS (VRN2-EMF2-FIS2-Su(z)12) box found in suppressor of zeste 12 protein (SUZ12) and similar proteins; SUZ12, also called chromatin precipitated E2F target 9 protein (ChET 9 protein), or joined to JAZF1 protein, is a Polycomb group (PcG) protein that acts as a component of the PRC2/EED-EZH2 complex, which methylates 'Lys-9' (H3K9me) and 'Lys-27' (H3K27me) of histone H3, leading to transcriptional repression of the affected target gene. The PRC2/EED-EZH2 complex may also serve as a recruiting platform for DNA methyltransferases, thereby linking two epigenetic repression systems. This model corresponds to the VEFS (VRN2-EMF2-FIS2-Su(z)12) box at the C-terminus of SUZ12, which is responsible for binding to EED and EZH2.


Pssm-ID: 439216  Cd Length: 122  Bit Score: 54.14  E-value: 2.69e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186511931  29 RQFYHSRTGQPLsLEQVMsDRDSENDvdknDDAAHLEE--SQMLNGSMDENEIvaERFI-KLWNSFVKQQRIVADAHIPW 105
Cdd:cd21551    1 RLYYHSTTCLPI-RPQEL-DVDSEDE----DDPEWLREktQRMIDEFTDVNEG--EKELmKLWNLHVMKHGYVADCQMPQ 72
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 186511931 106 ACEAFSRLHLQEL-RSNLsldlcWRQFMI---KQWDYGLLDRVTMNKC 149
Cdd:cd21551   73 ACKTFVEEYGPEIiEKNL-----RRNFILhlvNLYDFGLISASQILKL 115
VEFS-box_ctSUZ12-like cd21552
VEFS (VRN2-EMF2-FIS2-Su(z)12) box found in Chaetomium thermophilum suppressor of zeste 12 ...
29-153 1.19e-08

VEFS (VRN2-EMF2-FIS2-Su(z)12) box found in Chaetomium thermophilum suppressor of zeste 12 protein (ctSUZ12) and similar proteins; SUZ12 is a Polycomb group (PcG) protein that acts as a component of the Polycomb Repressive Complex 2 (PRC2), a histone methyltransferase complex composed of core subunits EZH2 (or EZH1), EED, SUZ12 and Rbbp4. PRC2 trimethylates histone H3K27 (H3K27me3) to mark developmentally repressed chromatin. This model corresponds to the VEFS (VRN2-EMF2-FIS2-Su(z)12) box at the C-terminus of SUZ12, which is responsible for binding to EED and EZH2 (or EZH1).


Pssm-ID: 439217  Cd Length: 123  Bit Score: 52.56  E-value: 1.19e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186511931  29 RQFYHSRTGQPLSLEQVMSDrdSENDVDknDDAAHLEESQMLNGSMDENEivAER-FIKLWNSFVKQQRIVADAHIPWAC 107
Cdd:cd21552    1 VPFYRSISKRPLEPGEELSE--SDDEID--ESWLIQKHRDEIDDFTDVTP--AEKeFIKLWDAFILEERLSSDVYLPDAL 74
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 186511931 108 EAFSRLHLQELRSNLSLDLCWRQFMIKQWDYGLLDRVTMNKCNTII 153
Cdd:cd21552   75 VRFVRKKAEWLVASPSRLVEFGKHLAELLARGVIDEEVVRECLEIL 120
 
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