Protein: PNKP
Bifunctional polynucleotide phosphatase/kinase (DNA 5'-kinase/3'-phosphatase) (Polynucleotide kinase-3'-phosphatase) [Includes: Polynucleotide 3'-phosphatase (EC 3.1.3.32) (2'(3')-polynucleotidase); Polynucleotide 5'-hydroxyl-kinase (EC 2.7.1.78)]

Gene: PNKP
Organism: Homo sapiens
Interactions: 136
UniProt ID: Q96T60

Gene Ontology (top 5):
GO:0003684 - damaged DNA binding
GO:0003690 - double-stranded DNA binding
GO:0004519 - endonuclease activity
GO:0005524 - ATP binding
GO:0005634 - nucleus

Download interactions: TXT   MITAB-2.5

Interaction Interactor Experiments Homologs Category Interaction
Score
Confidence

1104930

XRCC4
DNA repair protein XRCC4

9

1

Small-scale

0.756

High

617730

XRCC1
DNA repair protein XRCC1

9

2

Small-scale

0.755

High

892610

DNLI3
DNA ligase 3

5

3

Small-scale

0.718

High

446541

DPOLB
DNA polymerase beta

4

1

Small-scale

0.702

High

1137966

TNIP1
TNFAIP3-interacting protein 1

3

1

High-throughput

0.675

High

1403545

ZN639
Zinc finger protein 639

3

1

High-throughput

0.675

High

1398535

CCD43
Coiled-coil domain-containing protein 43

5

2

High-throughput

0.651

High

229358

ZBT14
Zinc finger and BTB domain-containing protein 14

3

0

High-throughput

0.646

High

1104654

IKZF1
DNA-binding protein Ikaros

3

0

High-throughput

0.646

High

999673

HBA
Hemoglobin subunit alpha

2

1

High-throughput

0.628

High

487664

PARP1
Poly [ADP-ribose] polymerase 1

2

3

Small-scale

0.611

High

1065383

SSRP1
FACT complex subunit SSRP1

2

1

Small-scale

0.611

High

323548

TRI37
E3 ubiquitin-protein ligase TRIM37

3

3

High-throughput

0.609

High

226358

SNG1
Synaptogyrin-1

2

1

High-throughput

0.606

High

226492

SNG3
Synaptogyrin-3

2

1

High-throughput

0.606

High

1110291

KCC2B
Calcium/calmodulin-dependent protein kinase type II subunit beta

2

1

High-throughput

0.606

High

1400216

PNMA5
Paraneoplastic antigen-like protein 5

2

2

High-throughput

0.606

High

669978

MCM3
DNA replication licensing factor MCM3

2

1

Small-scale

0.601

High

892718

DNLI4
DNA ligase 4

2

3

Small-scale

0.601

High

1008300

PRKDC
DNA-dependent protein kinase catalytic subunit

2

1

Small-scale

0.595

High

1027683

HNRPU
Heterogeneous nuclear ribonucleoprotein U

1

0

Small-scale

0.586

High

260344

BRD4
Bromodomain-containing protein 4

2

1

High-throughput

0.584

High

980190

H4
Histone H4

2

1

High-throughput

0.584

High

220797

PPIP1
Proline-serine-threonine phosphatase-interacting protein 1

2

0

High-throughput

0.580

High

255475

SNX2
Sorting nexin-2

2

0

High-throughput

0.580

High

659567

CRCM
Colorectal mutant cancer protein

2

0

High-throughput

0.580

High

1036859

SP4
Transcription factor Sp4

2

0

High-throughput

0.580

High

1150687

TRBP2
RISC-loading complex subunit TARBP2

2

0

High-throughput

0.580

High

1287252

TBCD1
TBC1 domain family member 1

2

0

High-throughput

0.580

High

1327940

CISD2
CDGSH iron-sulfur domain-containing protein 2

2

0

High-throughput

0.580

High

1331890

FADS6
Fatty acid desaturase 6

2

0

High-throughput

0.580

High

1336145

MSD4
Myb/SANT-like DNA-binding domain-containing protein 4

2

0

High-throughput

0.580

High

1357633

SFT2A
Vesicle transport protein SFT2A

2

0

High-throughput

0.580

High

1359032

TM239
Transmembrane protein 239

2

0

High-throughput

0.580

High

1403532

MGST2
Microsomal glutathione S-transferase 2

2

0

High-throughput

0.580

High

1403540

RPRM
Protein reprimo

2

0

High-throughput

0.580

High

1403542

THAP1
THAP domain-containing protein 1

2

0

High-throughput

0.580

High

999399

HBB
Hemoglobin subunit beta

2

1

High-throughput

0.574

High

396771

ESR1
Estrogen receptor

2

1

High-throughput

0.571

High

927107

ATX3
Ataxin-3

2

0

Small-scale

0.561

High

219746

FOXO3
Forkhead box protein O3

1

1

High-throughput

0.554

High

1322778

CNTRB
Centrobin

2

1

High-throughput

0.553

High

1403539

PICK1
PRKCA-binding protein

2

1

High-throughput

0.553

High

1048226

EMX2
Homeobox protein EMX2

1

2

High-throughput

0.536

High

1163158

H2B2E
Histone H2B type 2-E

1

2

High-throughput

0.536

High

1403550

KCC2A
Calcium/calmodulin-dependent protein kinase type II subunit alpha

1

1

High-throughput

0.536

High

848928

MAGAB
Melanoma-associated antigen 11

1

0

High-throughput

0.518

High

1403537

MYOZ1
Myozenin-1

1

0

High-throughput

0.518

High

691362

1433T
14-3-3 protein theta

1

1

High-throughput

0.515

High

650371

FGFR3
Fibroblast growth factor receptor 3

1

1

High-throughput

0.515

High

1232534

Q6FHY5
MEOX2 protein

1

1

High-throughput

0.515

High

571631

IRF2
Interferon regulatory factor 2

1

0

High-throughput

0.513

High

977808

ACTA
Actin, aortic smooth muscle

1

0

High-throughput

0.513

High

1102234

ATM
Serine-protein kinase ATM

1

1

Small-scale

0.501

High

262160

NOL3
Nucleolar protein 3

1

0

High-throughput

0.493

High

292203

S2512
Electrogenic aspartate/glutamate antiporter SLC25A12, mitochondrial

1

0

High-throughput

0.493

High

1294717

DAAF5
Dynein axonemal assembly factor 5

1

0

High-throughput

0.493

High

1323441

NUP93
Nuclear pore complex protein Nup93

1

0

High-throughput

0.493

High

1403544

DDX20
Probable ATP-dependent RNA helicase DDX20

1

0

High-throughput

0.493

High

1403552

LAS1L
Ribosomal biogenesis protein LAS1L

1

0

High-throughput

0.493

High

702493

CLAT
Choline O-acetyltransferase

1

0

High-throughput

0.493

High

1403547

UBQL1
Ubiquilin-1

1

0

High-throughput

0.493

High

216523

SUV91
Histone-lysine N-methyltransferase SUV39H1

1

0

High-throughput

0.486

High

246889

KDM1A
Lysine-specific histone demethylase 1A

1

0

High-throughput

0.486

High

1403531

SMAD5
Mothers against decapentaplegic homolog 5

1

0

High-throughput

0.486

High

894111

MEOX2
Homeobox protein MOX-2

1

1

High-throughput

0.481

High

185948

OGT1
UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit

1

0

High-throughput

0.480

High

422953

A4
Amyloid-beta precursor protein

1

0

High-throughput

0.480

High

412480

NTRK1
High affinity nerve growth factor receptor

1

1

High-throughput

0.479

High

558353

XRCC6
X-ray repair cross-complementing protein 6

1

1

Small-scale

0.479

High

559467

XRCC5
X-ray repair cross-complementing protein 5

1

1

Small-scale

0.479

High

754952

H2B1B
Histone H2B type 1-B

1

2

High-throughput

0.479

High

851802

NKX21
Homeobox protein Nkx-2.1

1

2

High-throughput

0.479

High

937865

FOXA1
Hepatocyte nuclear factor 3-alpha

1

1

High-throughput

0.479

High

990642

1433Z
14-3-3 protein zeta/delta

1

1

High-throughput

0.479

High

1141276

BRD3
Bromodomain-containing protein 3

1

1

High-throughput

0.479

High

1368458

CBP
CREB-binding protein

1

1

Small-scale

0.479

High

1292899

Q86WV7
Coiled-coil domain-containing protein 43

1

2

High-throughput

0.470

High

386134

LMNA
Prelamin-A/C [Cleaved into: Lamin-A/C

1

0

High-throughput

0.460

High

1403538

4ET
Eukaryotic translation initiation factor 4E transporter

1

0

High-throughput

0.460

High

130216

PGRC1
Membrane-associated progesterone receptor component 1

1

0

Small-scale

0.458

High

130789

TAF4
Transcription initiation factor TFIID subunit 4

1

0

Small-scale

0.458

High

157760

CTRO
Citron Rho-interacting kinase

1

0

High-throughput

0.458

High

242676

PRKN
E3 ubiquitin-protein ligase parkin

1

0

High-throughput

0.458

High

248055

NUPR1
Nuclear protein 1

1

0

High-throughput

0.458

High

285429

EED
Polycomb protein EED

1

0

High-throughput

0.458

High

419153

H2A1B
Histone H2A type 1-B/E

1

0

High-throughput

0.458

High

530255

TAU
Microtubule-associated protein tau

1

0

High-throughput

0.458

High

559003

LYL1
Protein lyl-1

1

0

High-throughput

0.458

High

589485

RFA2
Replication protein A 32 kDa subunit

1

0

High-throughput

0.458

High

607023

CEBPB
CCAAT/enhancer-binding protein beta

1

0

High-throughput

0.458

High

636135

CD11B
Cyclin-dependent kinase 11B

1

0

Small-scale

0.458

High

667424

RPB1
DNA-directed RNA polymerase II subunit RPB1

1

0

Small-scale

0.458

High

696295

RFA1
Replication protein A 70 kDa DNA-binding subunit

1

0

High-throughput

0.458

High

756022

MCM5
DNA replication licensing factor MCM5

1

0

Small-scale

0.458

High

767311

MERL
Merlin

1

0

High-throughput

0.458

High

768969

RFA3
Replication protein A 14 kDa subunit

1

0

High-throughput

0.458

High

791647

SYUA
Alpha-synuclein

1

0

High-throughput

0.458

High

843897

HD
Huntingtin

1

0

Small-scale

0.458

High

881089

NASP
Nuclear autoantigenic sperm protein

1

0

Small-scale

0.458

High

928214

HAP1
Huntingtin-associated protein 1

1

0

Small-scale

0.458

High

944544

GEMI4
Gem-associated protein 4

1

0

Small-scale

0.458

High

1054775

SUH
Recombining binding protein suppressor of hairless

1

0

High-throughput

0.458

High

1089259

TRI26
Tripartite motif-containing protein 26

1

0

Small-scale

0.458

High

1105077

TCOF
Treacle protein

1

0

Small-scale

0.458

High

1108070

SQSTM
Sequestosome-1

1

0

High-throughput

0.458

High

1134517

NOLC1
Nucleolar and coiled-body phosphoprotein 1

1

0

Small-scale

0.458

High

1203895

NOM1
Nucleolar MIF4G domain-containing protein 1

1

0

High-throughput

0.458

High

1214759

ATD3B
ATPase family AAA domain-containing protein 3B

1

0

High-throughput

0.458

High

1380630

FBX32
F-box only protein 32

1

0

High-throughput

0.458

High

1383231

CLUA1
Clusterin-associated protein 1

1

0

High-throughput

0.458

High

1383979

ARK2N
Protein ARK2N

1

0

Small-scale

0.458

High

1403535

UBE2O
(E3-independent) E2 ubiquitin-conjugating enzyme

1

0

Small-scale

0.458

High

1403548

PPIE
Peptidyl-prolyl cis-trans isomerase E

1

0

High-throughput

0.458

High

1403549

CBPC1
Cytosolic carboxypeptidase 1

1

0

Small-scale

0.458

High

1403551

DCAF1
DDB1- and CUL4-associated factor 1

1

0

Small-scale

0.458

High

1403553

SP16H
FACT complex subunit SPT16

1

0

Small-scale

0.458

High

330283

VENTX
Homeobox protein VENTX

1

3

High-throughput

0.445

High

1255185

TRI67
Tripartite motif-containing protein 67

1

1

High-throughput

0.437

High

1331912

DTX3
Probable E3 ubiquitin-protein ligase DTX3

1

0

High-throughput

0.426

High

1403541

RN146
E3 ubiquitin-protein ligase RNF146

1

0

High-throughput

0.426

High

353736

DRC4
Dynein regulatory complex subunit 4

2

0

High-throughput

0.316

High

469536

SYPH
Synaptophysin

2

0

High-throughput

0.316

High

1193469

CCD14
Coiled-coil domain-containing protein 14

2

0

High-throughput

0.316

High

1199026

KLH12
Kelch-like protein 12

2

0

High-throughput

0.316

High

1225052

KANK2
KN motif and ankyrin repeat domain-containing protein 2

2

0

High-throughput

0.316

High

1371414

DVL3
Segment polarity protein dishevelled homolog DVL-3

2

0

High-throughput

0.316

High

1403534

CAR10
Caspase recruitment domain-containing protein 10

2

0

High-throughput

0.316

High

1403543

FLOWR
Calcium channel flower homolog

2

0

High-throughput

0.316

High

1403546

COHA1
Collagen alpha-1(XVII) chain

2

0

High-throughput

0.316

High

892161

GRAK
Granzyme K

1

0

High-throughput

0.282

High

1403533

KR412
Keratin-associated protein 4-12

1

0

High-throughput

0.282

High

1403536

CF062
Uncharacterized protein C6orf62

1

0

High-throughput

0.279

Low

1219881

OBI1
ORC ubiquitin ligase 1

1

0

High-throughput

0.251

Low

229560

NRDC
Nardilysin

1

0

Small-scale

0.249

Low

142396

PEX7
Peroxisomal targeting signal 2 receptor

1

0

High-throughput

0.232

Low


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Last updated: 11Aug2025