PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

CA03g35500

Organism

Capsicum annuum

Taxonomic ID

4072

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Capsiceae; Capsicum

Family

NF-YA

Protein Properties

Length: 430aa MW: 49160.1 Da PI: 5.8184

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CA03g35500	genome	PEP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	102.5	3.9e-32	35	91	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 dep++VNaKQyq+Il+RRq Rakle+++kl +k+rkpylheSRh+hAl+R+Rg+gGrF CA03g35500 35 DEPIFVNAKQYQAILRRRQYRAKLEAQNKL-SKARKPYLHESRHRHALNRARGPGGRF 91 79**************************.************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	6.0E-35	33	94	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	36.088	34	94	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	2.6E-27	36	91	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	2.0E-22	37	59	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	39	59	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	2.0E-22	68	91	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF12165	4.2E-45	188	293	IPR021998	Alfin
SuperFamily	SSF57903	3.54E-16	366	426	IPR011011	Zinc finger, FYVE/PHD-type
Gene3D	G3DSA:3.30.40.10	2.1E-16	368	425	IPR013083	Zinc finger, RING/FYVE/PHD-type
PROSITE profile	PS50016	9.259	373	425	IPR019787	Zinc finger, PHD-finger
SMART	SM00249	1.6E-8	375	423	IPR001965	Zinc finger, PHD-type
CDD	cd15613	5.29E-24	375	425	No hit	No description
PROSITE pattern	PS01359	0	376	422	IPR019786	Zinc finger, PHD-type, conserved site
Pfam	PF00628	4.1E-10	376	424	IPR019787	Zinc finger, PHD-finger

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0016602	Cellular Component	CCAAT-binding factor complex
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0008270	Molecular Function	zinc ion binding
GO:0042393	Molecular Function	histone binding

Sequence ? help Back to Top
Protein Sequence Length: 430 aa Download sequence Send to blast
MPTVRYLPFS FLQVQSQMLG TVSPRVPLPV DLQQDEPIFV NAKQYQAILR RRQYRAKLEA 60 QNKLSKARKP YLHESRHRHA LNRARGPGGR FVNKKKPQES KFPDLINGQD DQVPEHELQL 120 NTKMLELDVH QSGSYKGSSS TPVYSSIASV SNSAAIYHHQ PLKYSAFSSC IGGTSQQNKE 180 KDHISNPDVE EFFKLCDPGK ENLCLYGLPN GQWEVKLPAE DLPPSLPDPV VGINFARDGM 240 PQKEWLSFIA YHCDAWLLSV AFHASGRFGF DKADREKLFD MINDFPTIHN LMTDDPETQQ 300 KEQPTVTDKR KNKSKPNPSK VKDYRASESQ GKLTKLQKKY EEEEDDNGED IGEEEEGEEG 360 WDIEKDDEEM QDETLCGACG EKYQEDEFWI CCDKCETWFH GECVKITAAT AEYIKQYKCR 420 PCSSKRYRS*

Sequence ? help Back to Top

Protein Sequence Length: 430 aa Download sequence Send to blast

MPTVRYLPFS FLQVQSQMLG TVSPRVPLPV DLQQDEPIFV NAKQYQAILR RRQYRAKLEA  60
QNKLSKARKP YLHESRHRHA LNRARGPGGR FVNKKKPQES KFPDLINGQD DQVPEHELQL  120
NTKMLELDVH QSGSYKGSSS TPVYSSIASV SNSAAIYHHQ PLKYSAFSSC IGGTSQQNKE  180
KDHISNPDVE EFFKLCDPGK ENLCLYGLPN GQWEVKLPAE DLPPSLPDPV VGINFARDGM  240
PQKEWLSFIA YHCDAWLLSV AFHASGRFGF DKADREKLFD MINDFPTIHN LMTDDPETQQ  300
KEQPTVTDKR KNKSKPNPSK VKDYRASESQ GKLTKLQKKY EEEEDDNGED IGEEEEGEEG  360
WDIEKDDEEM QDETLCGACG EKYQEDEFWI CCDKCETWFH GECVKITAAT AEYIKQYKCR  420
PCSSKRYRS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5xvj_A	2e-35	186	296	25	135	PHD finger protein ALFIN-LIKE 7
5xvj_B	2e-35	186	296	25	135	PHD finger protein ALFIN-LIKE 7
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Functional Description ? help Back to Top
Source	Description
UniProt	Histone-binding component that specifically recognizes H3 tails trimethylated on 'Lys-4' (H3K4me3), which mark transcription start sites of virtually all active genes. {ECO:0000250}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	CU928192	3e-65	CU928192.4 S.lycopersicum DNA sequence from clone LE_HBa-142A5, complete sequence.
GenBank	HG975515	3e-65	HG975515.1 Solanum lycopersicum chromosome ch03, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016562506.1	1e-153	PREDICTED: PHD finger protein ALFIN-LIKE 4-like isoform X1
Refseq	XP_016562507.1	1e-153	PREDICTED: PHD finger protein ALFIN-LIKE 4-like isoform X2
Swissprot	Q7XUW3	5e-77	ALFL4_ORYSJ; PHD finger protein ALFIN-LIKE 4
TrEMBL	A0A1U8FTK5	1e-152	A0A1U8FTK5_CAPAN; PHD finger protein ALFIN-LIKE 4-like isoform X1
TrEMBL	A0A1U8FTM5	1e-152	A0A1U8FTM5_CAPAN; PHD finger protein ALFIN-LIKE 4-like isoform X2
STRING	PGSC0003DMT400006365	1e-111	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA184	5	6

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G54160.1	3e-38	nuclear factor Y, subunit A5

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Lee WY,Lee D,Chung WI,Kwon CS Arabidopsis ING and Alfin1-like protein families localize to the nucleus and bind to H3K4me3/2 via plant homeodomain fingers. Plant J., 2009. 58(3): p. 511-24 [PMID:19154204]