Arabidopsis thaliana protein interaction network
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
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AT3G16980 - ( NRPB9A DNA binding / DNA-directed RNA polymerase/ nucleic acid binding / transcription regulator/ zinc ion binding )

66 Proteins interacs with AT3G16980
LocusMethodFSW Cellular Compartment Classification (C3)Description
AT2G16390

Experimental

Affinity Capture-MS

FSW = 0.0474

Class A:

nucleus

DRD1 (DEFECTIVE IN RNA-DIRECTED DNA METHYLATION 1) ATP BINDING / DNA BINDING / HELICASE/ NUCLEIC ACID BINDING
AT4G12610

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

synthetic growth defect

interaction prediction

FSW = 0.2054

Class C:

nucleus

TRANSCRIPTION INITIATION FACTOR IIF ALPHA SUBUNIT (TFIIF-ALPHA) FAMILY PROTEIN
AT4G07950

Predicted

Enriched domain pair

Phylogenetic profile method

FSW = 0.1004

Class C:

nucleus

DNA-DIRECTED RNA POLYMERASE III FAMILY PROTEIN
AT3G10330

Predicted

Synthetic Rescue

FSW = 0.0935

Class C:

nucleus

TRANSCRIPTION INITIATION FACTOR IIB-2 / GENERAL TRANSCRIPTION FACTOR TFIIB-2 (TFIIB2)
AT3G54610

Predicted

Synthetic Lethality

Synthetic Lethality

FSW = 0.0540

Class C:

nucleus

GCN5 DNA BINDING / H3 HISTONE ACETYLTRANSFERASE/ HISTONE ACETYLTRANSFERASE
AT1G03280

Predicted

two hybrid

Synthetic Lethality

FSW = 0.0853

Class C:

nucleus

TRANSCRIPTION INITIATION FACTOR IIE (TFIIE) ALPHA SUBUNIT FAMILY PROTEIN / GENERAL TRANSCRIPTION FACTOR TFIIE FAMILY PROTEIN
AT1G01210

Predicted

Enriched domain pair

Phylogenetic profile method

FSW = 0.0556

Class C:

nucleus

DNA-DIRECTED RNA POLYMERASE III FAMILY PROTEIN
AT5G09920

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-Western

Co-purification

Synthetic Lethality

interaction prediction

FSW = 0.4176

Class C:

nucleus

NRPB4 DNA-DIRECTED RNA POLYMERASE
AT5G09860

Predicted

Synthetic Rescue

FSW = 0.0907

Class C:

nucleus

NUCLEAR MATRIX PROTEIN-RELATED
AT2G41630

Predicted

Synthetic Rescue

FSW = 0.0858

Class C:

nucleus

TFIIB (TRANSCRIPTION FACTOR II B) RNA POLYMERASE II TRANSCRIPTION FACTOR/ PROTEIN BINDING / TRANSCRIPTION REGULATOR/ TRANSLATION INITIATION FACTOR/ ZINC ION BINDING
AT2G15430

Predicted

Co-purification

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-Western

Co-purification

Reconstituted Complex

interaction prediction

FSW = 0.2877

Class C:

nucleus

NRPB3 DNA BINDING / DNA-DIRECTED RNA POLYMERASE/ PROTEIN DIMERIZATION
AT2G18760

Predicted

Phenotypic Enhancement

FSW = 0.0554

Class C:

nucleus

CHR8 (CHROMATIN REMODELING 8) ATP BINDING / DNA BINDING / HELICASE/ NUCLEIC ACID BINDING
AT2G36740

Predicted

synthetic growth defect

FSW = 0.0918

Class C:

nucleus

SWC2 DNA BINDING / TRANSCRIPTION FACTOR
AT2G38560

Predicted

interologs mapping

Affinity Capture-MS

Affinity Capture-MS

Phenotypic Enhancement

Enriched domain pair

Co-expression

FSW = 0.2332

Class C:

nucleus

TFIIS (TRANSCRIPT ELONGATION FACTOR IIS) DNA BINDING / RNA POLYMERASE II TRANSCRIPTION ELONGATION FACTOR/ TRANSCRIPTION FACTOR
AT4G08350

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.1142

Class C:

nucleus

GTA2 (GLOBAL TRANSCRIPTION FACTOR GROUP A2) STRUCTURAL CONSTITUENT OF RIBOSOME / TRANSCRIPTION ELONGATION REGULATOR/ TRANSCRIPTION FACTOR
AT2G34210

Predicted

Affinity Capture-MS

FSW = 0.1240

Class C:

nucleus

STRUCTURAL CONSTITUENT OF RIBOSOME / TRANSCRIPTION ELONGATION REGULATOR/ TRANSCRIPTION INITIATION FACTOR
AT5G14040

Predicted

interaction prediction

FSW = 0.0321

Unknown

MITOCHONDRIAL PHOSPHATE TRANSPORTER
AT1G53760

Predicted

two hybrid

FSW = 0.0464

Unknown

UNKNOWN PROTEIN
AT1G02130

Predicted

two hybrid

interaction prediction

FSW = 0.0080

Unknown

ARA-5 (ARABIDOPSIS RAS 5) GTP BINDING
AT1G07770

Predicted

two hybrid

interaction prediction

FSW = 0.0044

Unknown

RPS15A (RIBOSOMAL PROTEIN S15A) STRUCTURAL CONSTITUENT OF RIBOSOME
AT4G35800

Predicted

two hybrid

Co-purification

Co-crystal Structure

Co-crystal Structure

Affinity Capture-Western

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

Enriched domain pair

Co-expression

FSW = 0.2893

Unknown

NRPB1 (RNA POLYMERASE II LARGE SUBUNIT) DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT5G20080

Predicted

interaction prediction

two hybrid

FSW = 0.0152

Unknown

NADH-CYTOCHROME B5 REDUCTASE PUTATIVE
AT2G44950

Predicted

Synthetic Lethality

FSW = 0.0983

Unknown

HUB1 (HISTONE MONO-UBIQUITINATION 1) PROTEIN BINDING / PROTEIN HOMODIMERIZATION/ UBIQUITIN-PROTEIN LIGASE/ ZINC ION BINDING
AT3G61530

Predicted

interaction prediction

FSW = 0.0257

Unknown

PANB2 3-METHYL-2-OXOBUTANOATE HYDROXYMETHYLTRANSFERASE
AT2G46110

Predicted

two hybrid

FSW = 0.0343

Unknown

KPHMT1 (KETOPANTOATE HYDROXYMETHYLTRANSFERASE 1) 3-METHYL-2-OXOBUTANOATE HYDROXYMETHYLTRANSFERASE
AT3G48850

Predicted

two hybrid

FSW = 0.0312

Unknown

MITOCHONDRIAL PHOSPHATE TRANSPORTER PUTATIVE
AT1G75510

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

FSW = 0.3772

Unknown

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

Predicted

Co-purification

Affinity Capture-Western

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Co-purification

Affinity Capture-MS

interaction prediction

FSW = 0.4777

Unknown

NRPB7 DNA-DIRECTED RNA POLYMERASE/ RNA BINDING
AT3G52090

Predicted

Co-purification

Affinity Capture-Western

Affinity Capture-MS

Affinity Capture-MS

Co-expression

FSW = 0.4365

Unknown

NRPB11 DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT4G16420

Predicted

Synthetic Lethality

FSW = 0.0093

Unknown

ADA2B (HOMOLOG OF YEAST ADA2 2B) DNA BINDING / TRANSCRIPTION COACTIVATOR/ TRANSCRIPTION FACTOR
AT5G19910

Predicted

Synthetic Lethality

FSW = 0.1510

Unknown

SOH1 FAMILY PROTEIN
AT4G21710

Predicted

Co-purification

Co-crystal Structure

Affinity Capture-Western

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

Enriched domain pair

Co-expression

FSW = 0.3344

Unknown

NRPB2 DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT1G61700

Predicted

Affinity Capture-MS

Affinity Capture-Western

Affinity Capture-MS

FSW = 0.2682

Unknown

DNA-DIRECTED RNA POLYMERASE II PUTATIVE (RPB10)
AT2G15400

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-Western

Co-purification

FSW = 0.4181

Unknown

NRPE3B DNA BINDING / DNA-DIRECTED RNA POLYMERASE/ PROTEIN DIMERIZATION
AT5G41910

Predicted

Affinity Capture-MS

FSW = 0.2467

Unknown

RNA POLYMERASE II MEDIATOR COMPLEX PROTEIN-RELATED
AT1G22240

Predicted

Affinity Capture-MS

FSW = 0.0045

Unknown

APUM8 (ARABIDOPSIS PUMILIO 8) RNA BINDING / BINDING
AT1G51720

Predicted

Affinity Capture-MS

FSW = 0.0290

Unknown

GLUTAMATE DEHYDROGENASE PUTATIVE
AT1G52740

Predicted

Synthetic Lethality

FSW = 0.1115

Unknown

HTA9 (HISTONE H2A PROTEIN 9) DNA BINDING
AT1G54250

Predicted

Co-purification

Affinity Capture-Western

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.3854

Unknown

NRPB8A DNA-DIRECTED RNA POLYMERASE
AT2G06040

Predicted

Phenotypic Enhancement

FSW = 0.0479

Unknown

FUNCTIONS IN MOLECULAR_FUNCTION UNKNOWN INVOLVED IN BIOLOGICAL_PROCESS UNKNOWN LOCATED IN CELLULAR_COMPONENT UNKNOWN EXPRESSED IN 17 PLANT STRUCTURES EXPRESSED DURING 10 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S LEUCINE-RICH REPEAT CYSTEINE-CONTAINING SUBTYPE (INTERPROIPR006553) BEST ARABIDOPSIS THALIANA PROTEIN MATCH IS UNKNOWN PROTEIN (TAIRAT5G219001) HAS 3642 BLAST HITS TO 1885 PROTEINS IN 175 SPECIES ARCHAE - 0 BACTERIA - 109 METAZOA - 2066 FUNGI - 492 PLANTS - 697 VIRUSES - 0 OTHER EUKARYOTES - 278 (SOURCE NCBI BLINK)
AT2G47760

Predicted

Affinity Capture-MS

FSW = 0.0034

Unknown

ALG3 ALPHA-13-MANNOSYLTRANSFERASE/ CATALYTIC
AT1G15780

Predicted

two hybrid

FSW = 0.1658

Unknown

UNKNOWN PROTEIN
AT1G54140

Predicted

Synthetic Lethality

Co-expression

FSW = 0.0733

Unknown

TAFII21 (TATA BINDING PROTEIN ASSOCIATED FACTOR 21KDA SUBUNIT) DNA BINDING / TRANSCRIPTION INITIATION FACTOR
AT2G02760

Predicted

Synthetic Lethality

FSW = 0.0661

Unknown

ATUBC2 (UBIQUITING-CONJUGATING ENZYME 2) UBIQUITIN-PROTEIN LIGASE
AT2G39260

Predicted

synthetic growth defect

FSW = 0.0070

Unknown

RNA BINDING / BINDING / PROTEIN BINDING
AT2G44150

Predicted

Affinity Capture-MS

FSW = 0.1983

Unknown

ASHH3 (HISTONE-LYSINE N-METHYLTRANSFERASE ASHH3) HISTONE-LYSINE N-METHYLTRANSFERASE
AT3G22320

Predicted

Co-purification

Affinity Capture-Western

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

synthetic growth defect

interaction prediction

FSW = 0.3267

Unknown

NRPB5 DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT5G51940

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-Western

Co-purification

interaction prediction

Co-expression

FSW = 0.2874

Unknown

NRPB6A DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT5G23290

Predicted

Synthetic Lethality

FSW = 0.0298

Unknown

PDF5 (PREFOLDIN 5) UNFOLDED PROTEIN BINDING
AT5G41010

Predicted

Affinity Capture-Western

FSW = 0.2698

Unknown

NRPB12 DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT5G50320

Predicted

Synthetic Lethality

FSW = 0.1125

Unknown

ELO3 (ELONGATA 3) HISTONE ACETYLTRANSFERASE
AT5G60040

Predicted

two hybrid

interaction prediction

FSW = 0.1208

Unknown

NRPC1 DNA BINDING / DNA-DIRECTED RNA POLYMERASE/ RIBONUCLEOSIDE BINDING / ZINC ION BINDING
AT5G63670

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.2114

Unknown

SPT42 (SPT4 HOMOLOG 2) POSITIVE TRANSCRIPTION ELONGATION FACTOR/ ZINC ION BINDING
AT5G58003

Predicted

Affinity Capture-MS

FSW = 0.3344

Unknown

CPL4 (C-TERMINAL DOMAIN PHOSPHATASE-LIKE 4) PHOSPHOPROTEIN PHOSPHATASE
AT5G08565

Predicted

Affinity Capture-MS

FSW = 0.2091

Unknown

POSITIVE TRANSCRIPTION ELONGATION FACTOR/ ZINC ION BINDING
AT1G11475

Predicted

Affinity Capture-MS

Affinity Capture-Western

FSW = 0.2570

Unknown

NRPB10 DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT2G04630

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-Western

Co-purification

FSW = 0.2992

Unknown

NRPB6B DNA BINDING / DNA-DIRECTED RNA POLYMERASE
AT3G05670

Predicted

Affinity Capture-MS

interaction prediction

FSW = 0.1394

Unknown

PHD FINGER FAMILY PROTEIN
AT4G15475

Predicted

Phenotypic Enhancement

FSW = 0.0493

Unknown

F-BOX FAMILY PROTEIN (FBL4)
AT1G55255Predicted

Synthetic Lethality

FSW = 0.0559

Unknown

F-BOX FAMILY PROTEIN (FBL4)
AT1G14400

Predicted

Synthetic Lethality

FSW = 0.0556

Unknown

UBC1 (UBIQUITIN CARRIER PROTEIN 1) UBIQUITIN-PROTEIN LIGASE
AT3G07740

Predicted

Synthetic Lethality

FSW = 0.0323

Unknown

ADA2A (HOMOLOG OF YEAST ADA2 2A) DNA BINDING / TRANSCRIPTION FACTOR
AT4G18460

Predicted

two hybrid

interaction prediction

FSW = 0.0148

Unknown

D-TYR-TRNA(TYR) DEACYLASE FAMILY PROTEIN
AT5G15770

Predicted

interaction prediction

two hybrid

FSW = 0.0064

Unknown

ATGNA1 (ARABIDOPSIS THALIANA GLUCOSE-6-PHOSPHATE ACETYLTRANSFERASE 1) N-ACETYLTRANSFERASE/ GLUCOSAMINE 6-PHOSPHATE N-ACETYLTRANSFERASE
AT3G18430

Predicted

interaction prediction

two hybrid

FSW = 0.0047

Unknown

CALCIUM-BINDING EF HAND FAMILY PROTEIN
AT4G16265

Predicted

Gene fusion method

Phylogenetic profile method

Co-expression

FSW = 0.0421

Unknown

NRPB9B DNA BINDING / DNA-DIRECTED RNA POLYMERASE/ NUCLEIC ACID BINDING / TRANSCRIPTION REGULATOR/ ZINC ION BINDING

Downloads

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

Learn more

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