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

AMDW01025897.1_FGP001

Organism

Oryza longistaminata

Taxonomic ID

4528

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

NF-YC

Protein Properties

Length: 104aa MW: 11861.6 Da PI: 6.107

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AMDW01025897.1_FGP001	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	163	4.3e-51	3	96	8	101
NF-YC 8 kqiekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdi 95 ++ie++tdfknh+lPlarikki+kadedv+mi+aeaPv++++ace+filelt r w haeenkrrtl+ksdiaaa++rt++fdflvdi AMDW01025897.1_FGP001 3 REIEHTTDFKNHNLPLARIKKIMKADEDVRMIAAEAPVVFARACEMFILELTHRGWAHAEENKRRTLQKSDIAAAIARTEVFDFLVDI 90 579*********************************************************************************** PP NF-YC 96 vprdel 101 vprde AMDW01025897.1_FGP001 91 VPRDEA 96 **86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	1.63E-30	3	87	IPR009072	Histone-fold
Pfam	PF00808	7.4E-22	15	78	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	1.8E-37	16	93	IPR009072	Histone-fold

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 104 aa Download sequence Send to blast
QYREIEHTTD FKNHNLPLAR IKKIMKADED VRMIAAEAPV VFARACEMFI LELTHRGWAH 60 AEENKRRTLQ KSDIAAAIAR TEVFDFLVDI VPRDEAKDAE AAAA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	2e-55	1	93	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	65	71	RRTLQKS

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the NF-Y/HAP transcription factor complex. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AMDW01025897.1_FGP001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB288044	1e-174	AB288044.1 Oryza sativa Japonica Group OsHAP5D gene for HAP5 subunit of HAP complex, complete cds.
GenBank	AK108510	1e-174	AK108510.1 Oryza sativa Japonica Group cDNA clone:002-144-A03, full insert sequence.
GenBank	AP000364	1e-174	AP000364.1 Oryza sativa Japonica Group genomic DNA, chromosome 8, PAC clone:P0026F07.
GenBank	AP005148	1e-174	AP005148.3 Oryza sativa Japonica Group genomic DNA, chromosome 8, BAC clone:B1142B04.
GenBank	AP014964	1e-174	AP014964.1 Oryza sativa Japonica Group DNA, chromosome 8, cultivar: Nipponbare, complete sequence.
GenBank	CP012616	1e-174	CP012616.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 8 sequence.
GenBank	CT828952	1e-174	CT828952.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCSN028G23, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015648381.1	1e-71	nuclear transcription factor Y subunit C-6
Swissprot	Q9XE33	1e-72	NFYC6_ORYSJ; Nuclear transcription factor Y subunit C-6
TrEMBL	A0A0E0IDS0	3e-70	A0A0E0IDS0_ORYNI; Uncharacterized protein
TrEMBL	A2YWL9	3e-70	A2YWL9_ORYSI; Uncharacterized protein
TrEMBL	I1QJT4	3e-70	I1QJT4_ORYGL; Uncharacterized protein
STRING	OS08T0496500-01	4e-71	(Oryza sativa)
STRING	ONIVA08G21210.1	4e-71	(Oryza nivara)
STRING	ORGLA08G0168500.1	4e-71	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3856	36	76

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G54830.3	1e-56	nuclear factor Y, subunit C3

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] Kim SK, et al. OsNF-YC2 and OsNF-YC4 proteins inhibit flowering under long-day conditions in rice. Planta, 2016. 243(3): p. 563-76 [PMID:26542958]