Arabidopsis thaliana protein interaction network
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
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AT4G12610 - ( transcription initiation factor IIF alpha subunit (TFIIF-alpha) family protein )

49 Proteins interacs with AT4G12610
LocusMethodFSW Cellular Compartment Classification (C3)Description
AT2G33540

Experimental

pull down

Reconstituted Complex

FSW = 0.0308

Class A:

nucleus

Class B:

plastid

Class D:

nucleus (p = 0.78)

 CPL3 (C-TERMINAL DOMAIN PHOSPHATASE-LIKE 3) CTD PHOSPHATASE/ PHOSPHOPROTEIN PHOSPHATASE
AT5G58000

Experimental

pull down

FSW = 0.0323

Class A:

nucleus

Class B:

plastid

 LOCATED IN ENDOPLASMIC RETICULUM CHLOROPLAST CONTAINS INTERPRO DOMAIN/S RETICULON (INTERPROIPR003388) BEST ARABIDOPSIS THALIANA PROTEIN MATCH IS RETICULON FAMILY PROTEIN (TAIRAT4G284301) HAS 1047 BLAST HITS TO 1034 PROTEINS IN 125 SPECIES ARCHAE - 0 BACTERIA - 2 METAZOA - 715 FUNGI - 46 PLANTS - 58 VIRUSES - 4 OTHER EUKARYOTES - 222 (SOURCE NCBI BLINK)
AT5G58003

Experimental

Reconstituted Complex

pull down

FSW = 0.1977

Unknown

 CPL4 (C-TERMINAL DOMAIN PHOSPHATASE-LIKE 4) PHOSPHOPROTEIN PHOSPHATASE
AT1G79840

Predicted

Affinity Capture-MS

in vitro

FSW = 0.0440

Class C:

plastid

nucleus

 GL2 (GLABRA 2) DNA BINDING / TRANSCRIPTION FACTOR
AT4G35800

Predicted

Synthetic Rescue

Synthetic Rescue

Co-purification

Affinity Capture-MS

Affinity Capture-MS

Co-purification

Reconstituted Complex

co-fractionation

Co-fractionation

Affinity Capture-MS

Phenotypic Suppression

Synthetic Rescue

FSW = 0.2822

Class C:

plastid

 NRPB1 (RNA POLYMERASE II LARGE SUBUNIT) DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT3G48750

Predicted

biochemical

interaction prediction

FSW = 0.0237

Class C:

nucleus

 CDC2 (CELL DIVISION CONTROL 2) CYCLIN-DEPENDENT PROTEIN KINASE/ KINASE/ PROTEIN BINDING / PROTEIN KINASE
AT4G21010

Predicted

in vitro

in vitro

FSW = 0.1308

Class C:

nucleus

 TRANSCRIPTION INITIATION FACTOR-RELATED
AT4G20340

Predicted

Co-purification

Reconstituted Complex

FSW = 0.2564

Class C:

nucleus

 RNA POLYMERASE II TRANSCRIPTION FACTOR/ TRANSCRIPTION INITIATION FACTOR
AT1G03280

Predicted

Co-purification

FSW = 0.1845

Class C:

nucleus

 TRANSCRIPTION INITIATION FACTOR IIE (TFIIE) ALPHA SUBUNIT FAMILY PROTEIN / GENERAL TRANSCRIPTION FACTOR TFIIE FAMILY PROTEIN
AT3G13445

Predicted

Co-purification

Reconstituted Complex

FSW = 0.0531

Class C:

nucleus

 TBP1 (TATA BINDING PROTEIN 1) DNA BINDING / RNA POLYMERASE II TRANSCRIPTION FACTOR/ BINDING
AT3G16980

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

synthetic growth defect

interaction prediction

FSW = 0.2054

Class C:

nucleus

 NRPB9A DNA BINDING / DNA-DIRECTED RNA POLYMERASE/ NUCLEIC ACID BINDING / TRANSCRIPTION REGULATOR/ ZINC ION BINDING
AT4G17020

Predicted

Co-purification

Reconstituted Complex

FSW = 0.1445

Class C:

nucleus

 TRANSCRIPTION FACTOR-RELATED
AT5G08180

Predicted

two hybrid

two hybrid

FSW = 0.0584

Class C:

nucleus

 RIBOSOMAL PROTEIN L7AE/L30E/S12E/GADD45 FAMILY PROTEIN
AT5G60440

Predicted

two hybrid

in vitro

in vivo

in vivo

in vitro

two hybrid

FSW = 0.0243

Class C:

nucleus

 AGL62 (AGAMOUS-LIKE 62) DNA BINDING / TRANSCRIPTION FACTOR
AT1G01530

Predicted

two hybrid

in vivo

in vitro

in vitro

in vivo

two hybrid

FSW = 0.0220

Class C:

nucleus

 AGL28 (AGAMOUS-LIKE 28) DNA BINDING / TRANSCRIPTION FACTOR
AT1G18340

Predicted

Co-purification

FSW = 0.1471

Class C:

nucleus

 BASAL TRANSCRIPTION FACTOR COMPLEX SUBUNIT-RELATED
AT4G20810

Predicted

Co-purification

Reconstituted Complex

FSW = 0.1919

Class C:

nucleus

 TRANSCRIPTION INITIATION FACTOR IIE (TFIIE) ALPHA SUBUNIT FAMILY PROTEIN / GENERAL TRANSCRIPTION FACTOR TFIIE FAMILY PROTEIN
AT2G41630

Predicted

Synthetic Rescue

in vitro

Synthetic Rescue

FSW = 0.1917

Class C:

nucleus

 TFIIB (TRANSCRIPTION FACTOR II B) RNA POLYMERASE II TRANSCRIPTION FACTOR/ PROTEIN BINDING / TRANSCRIPTION REGULATOR/ TRANSLATION INITIATION FACTOR/ ZINC ION BINDING
AT1G55520

Predicted

Co-purification

Reconstituted Complex

FSW = 0.1241

Class C:

nucleus

 TBP2 (TATA BINDING PROTEIN 2) DNA BINDING / RNA POLYMERASE II TRANSCRIPTION FACTOR/ TATA-BINDING PROTEIN BINDING
AT1G07470

Predicted

in vitro

FSW = 0.1515

Class C:

nucleus

 TRANSCRIPTION FACTOR IIA LARGE SUBUNIT PUTATIVE / TFIIA LARGE SUBUNIT PUTATIVE
AT1G07480

Predicted

in vitro

FSW = 0.1563

Class C:

nucleus

 TRANSCRIPTION FACTOR IIA LARGE SUBUNIT / TFIIA LARGE SUBUNIT (TFIIA-L)
AT2G34210

Predicted

Affinity Capture-MS

FSW = 0.1134

Class C:

nucleus

 STRUCTURAL CONSTITUENT OF RIBOSOME / TRANSCRIPTION ELONGATION REGULATOR/ TRANSCRIPTION INITIATION FACTOR
AT5G59230

Predicted

in vitro

FSW = 0.1010

Class C:

nucleus

 TRANSCRIPTION FACTOR-RELATED
AT2G15430

Predicted

interaction prediction

FSW = 0.1215

Class C:

nucleus

 NRPB3 DNA BINDING / DNA-DIRECTED RNA POLYMERASE/ PROTEIN DIMERIZATION
AT1G53750

Predicted

in vivo

Affinity Capture-MS

FSW = 0.0265

Unknown

 RPT1A (REGULATORY PARTICLE TRIPLE-A 1A) ATPASE
AT2G18040

Predicted

Affinity Capture-MS

interaction prediction

FSW = 0.1202

Unknown

 PIN1AT (PEPTIDYLPROLYL CIS/TRANS ISOMERASE NIMA-INTERACTING 1) PEPTIDYL-PROLYL CIS-TRANS ISOMERASE
AT1G75510

Predicted

Co-purification

Affinity Capture-Western

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

in vivo

in vitro

Affinity Capture-MS

Affinity Capture-Western

Co-purification

synthetic growth defect

Enriched domain pair

FSW = 0.2643

Unknown

 TRANSCRIPTION INITIATION FACTOR IIF BETA SUBUNIT (TFIIF-BETA) FAMILY PROTEIN
AT5G59180

Predicted

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

FSW = 0.3448

Unknown

 NRPB7 DNA-DIRECTED RNA POLYMERASE/ RNA BINDING
AT3G52090

Predicted

Affinity Capture-MS

FSW = 0.3103

Unknown

 NRPB11 DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT4G26840

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.0255

Unknown

 SUMO1 (SMALL UBIQUITIN-LIKE MODIFIER 1) PROTEIN BINDING / PROTEIN TAG
AT4G21710

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.1925

Unknown

 NRPB2 DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT2G15400

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-Western

FSW = 0.3027

Unknown

 NRPE3B DNA BINDING / DNA-DIRECTED RNA POLYMERASE/ PROTEIN DIMERIZATION
AT3G12280

Predicted

Phenotypic Enhancement

FSW = 0.0088

Unknown

 RBR1 (RETINOBLASTOMA-RELATED 1) TRANSCRIPTION FACTOR BINDING
AT1G20000

Predicted

Co-purification

Reconstituted Complex

FSW = 0.0988

Unknown

 TAF11B (TBP-ASSOCIATED FACTOR 11B) DNA BINDING / RNA POLYMERASE II TRANSCRIPTION FACTOR/ TRANSCRIPTION INITIATION FACTOR
AT1G53780

Predicted

in vivo

Affinity Capture-MS

FSW = 0.0409

Unknown

 ATP BINDING / ATPASE/ HYDROLASE/ NUCLEOSIDE-TRIPHOSPHATASE/ NUCLEOTIDE BINDING / PEPTIDYL-PROLYL CIS-TRANS ISOMERASE
AT3G52270Predicted

in vivo

in vitro

Affinity Capture-MS

FSW = 0.1837

Unknown

 ATP BINDING / RNA POLYMERASE II TRANSCRIPTION FACTOR
AT1G32750

Predicted

in vitro

in vitro

in vitro

in vivo

in vivo

in vivo

in vivo

in vitro

FSW = 0.0429

Unknown

 HAF01 DNA BINDING / HISTONE ACETYLTRANSFERASE
AT3G19040

Predicted

in vitro

in vitro

in vitro

in vivo

in vivo

in vivo

in vivo

in vitro

FSW = 0.1029

Unknown

 HAF2 (HISTONE ACETYLTRANSFERASE OF THE TAFII250 FAMILY 2) DNA BINDING / HISTONE ACETYLTRANSFERASE/ TRANSCRIPTION COFACTOR
AT4G20330

Predicted

in vitro

in vitro

Co-purification

FSW = 0.2384

Unknown

 TRANSCRIPTION INITIATION FACTOR-RELATED
AT4G20280

Predicted

Co-purification

Reconstituted Complex

FSW = 0.0263

Unknown

 TAF11 (TBP-ASSOCIATED FACTOR 11) DNA BINDING / RNA POLYMERASE II TRANSCRIPTION FACTOR/ TRANSCRIPTION INITIATION FACTOR
AT5G46410

Predicted

Affinity Capture-MS

FSW = 0.0357

Unknown

 NLI INTERACTING FACTOR (NIF) FAMILY PROTEIN
AT1G03530

Predicted

Affinity Capture-MS

FSW = 0.0136

Unknown

 NAF1 (NUCLEAR ASSEMBLY FACTOR 1)
AT3G22320

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.2157

Unknown

 NRPB5 DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT1G11475

Predicted

Affinity Capture-MS

FSW = 0.1845

Unknown

 NRPB10 DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT2G04630

Predicted

Affinity Capture-MS

FSW = 0.2266

Unknown

 NRPB6B DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT2G04930

Predicted

two hybrid

in vitro

in vitro

two hybrid

FSW = 0.0513

Unknown

 NLI INTERACTING FACTOR (NIF) FAMILY PROTEIN
AT1G20320

Predicted

Reconstituted Complex

Reconstituted Complex

FSW = 0.1071

Unknown

 NLI INTERACTING FACTOR (NIF) FAMILY PROTEIN
AT2G44150

Predicted

Synthetic Lethality

FSW = 0.0749

Unknown

 ASHH3 (HISTONE-LYSINE N-METHYLTRANSFERASE ASHH3) HISTONE-LYSINE N-METHYLTRANSFERASE
AT3G17550

Predicted

interaction prediction

FSW = 0.0769

Unknown

 NLI INTERACTING FACTOR (NIF) FAMILY PROTEIN

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Fasta sequences:

Proteins

DNA

Quick help

Experimental: This means that the indicated PPI was experimentally demonstrated using Arabidopsis thaliana proteins as model of study. The experiment indicated links to the publication of which this interaction was annotated from
Predicted: The indicated PPI was proposed based on ortholgs studies. The experiment indicated links to the publication of the orthologous PPI was annotated from

FSW

FSW is the Functional Similarity Weight. It represents the proportion of interaction partners that two proteins have in common

Learn more - FSWeight top ranked cut offs

C3

Class A: The PPI is a direct evidence (experimental), the subcellular location was experimentally demonstrated and both, target and source, were indicated as expressed in same cellular compartment
Class B: The PPI is a direct evidence (experimental), the subcellular location was experimentally demonstrated but both, target and source, were indicated as expressed in different cellular compartment
Class C: Same as Class A but the PPI is predicted
Class D: Same as Class A but subcellular location was predicted. P(exp|pred) indicates the probability of this particular predicted location be experimentally demonstrated given all data available on AtPINDB
Unknown: There is no available data to calculate the C3 or the data does not fit onto any class previously described

PEP

PEP is the posterior probability of this particular PPI be experimentally demonstrated once it was predicted. For this release p = 0.0030. If they share same cell compartment p = 0.0029

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How to cite

If you find AtPIN interesting and want to use it in your work please cite us

AtPIN: Arabidopsis thaliana Protein Interaction Network
Marcelo M Brandao, Luiza L Dantas and Marcio C Silva-Filho
BMC Bioinformatics 2009, 10:454

DOI:1471-2105/10/454

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