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Table 1 HIV-1 integrase interacting proteins identified by mass spectrometry

From: Histone deacetylase 1 interacts with HIV-1 Integrase and modulates viral replication

Identified proteinGene nameAccession noMW (KDa)Total scorepeptide no% coverageMain biological function
Band 1
 RNA helicase II/Gu proteinDDX21gi|11,890,75580.2106582127rRNA processing
 Transducin beta-like 3TBL3gi|16,307,37990.3476051625Signalling, rRNA processing
 DEAD (Asp-Glu-Ala-Asp) box polypeptide 1DDX1gi|31,565,47583.3494621220Transcription, mRNA processing
 ATP-dependent DNA helicase II (Ku80)XRCC5gi|10,863,94583.2224611118DNA repair, Transcription
 Transcription factor NF-AT 90 K chain – humanILF3gi|1,082,85673.977302917Transcription
Band 2
 RNA helicase II/Gu proteinDDX21gi|11,890,75580.21042313ndrRNA processing
 HnRNP R proteinHNRNPRgi|12,655,18571.4564139ndmRNA splicing, processing
 Structure specific recognition protein 1SSRP1gi|4,507,24181.367298510DNA repair, Transcription
 Metastasis-associated proteinMTA1gi|2,498,58981.4221634ndSignal transduction
Band 3
 DEAD (Asp-Glu-Ala-Asp) box polypeptide 5DDX5gi|4,758,13869.6189994336mRNA processing
 Heat shock protein (HSP70–1/2)HSPA1Agi|386,78570.1105711220Stress response
 Fused in sarcomaFUSgi|48,145,61153.6225252223Nuclear mRNA splicing
 DEAD (Asp-Glu-Ala-Asp) box polypeptide 17DDX17gi|47,678,39573.1384641816RNA processing
 HNop56NOP56gi|2,230,87867.2064511023rRNA processing
Band 4
 DEAD (Asp-Glu-Ala-Asp) box polypeptide 5DDX5gi|4,758,13869.61875821ndmRNA processing
 Paraspeckle component 1PSPC1gi|57,209,12958.8207192528Transcription regulation
 HnRNP R proteinHNRNPRgi|12,655,18571.4564231916mRNA splicing, processing
 HnRNP LHNRNPLgi|11,527,77764.6174041023Nuclear mRNA splicing
 DEAD (Asp-Glu-Ala-Asp) box polypeptide 17DDX17gi|47,678,39573.1383109ndRNA processing
Band 5
 Unnamed protein product (homologue to hnRNP L)HNRNPLgi|32,35660.7198123245Nuclear mRNA splicing
 Poly(ADP-ribose) polymerasePARP1gi|190,167113.81032778DNA repair, Transcription
 Histone deacetylase 1HDAC1gi|13,128,86055.638319922Transcription
 Telomeric repeat binding factor 2TERF2gi|5,032,16955.688302620Cell cycle
 Transcription factor LSFTFCP2gi|476,09957.7332445ndTranscription
Band 6
 NF45ILF2gi|532,31344.8984691118Transcription
 Flap structure-specific endonuclease 1FEN1gi|54,695,91842.9084531331DNA repair
 Vaccinia related kinase 1VRK1gi|4,507,90345.79043912ndCell cycle
 DEAD (Asp-Glu-Ala-Asp) box polypeptide 48EIF4A3gi|13,177,79047.1264221027mRNA metabolism, rRNA processing
 HnRNP DHNRNPDgi|870,74330.5233941229Transcription
Band 7
 Apurinic endonucleaseAPEX1gi|178,74335.9594881440DNA repair, Transcription
 Protein phosphatase 1, catalytic subunit, alpha isoform 1PPP1CAgi|4,506,00338.2294659ndCell cycle, Carbohydrate metabolism
 protein phosphatase-1 gamma 1PPP1CCgi|484,31637.271456929Cell cycle, Carbohydrate metabolism
 ELAV-like 1ELAVL1gi|38,201,71436.2403931030mRNA stabilization
 B23 nucleophosmin (280 AA)NPM1gi|825,67131.0903321321Ribosome assembly, signal transduction, intracellular protein transport
Band 8
 Ribosomal protein L7aRPL7Agi|49,522,23230.1484218nd60S ribosomal constituent
 N-methylpurine-DNA glycosylase; MPGMPGgi|233,96830.005392933DNA repair
 Histone H1HIST1H1Dgi|22,770,67522.3363236ndNucleosome structure
 Homolog of Yeast RRP4EXOSC2gi|12,653,90932.9963126ndrRNA processing
 Ribosomal protein S2RPS2gi|23,491,73325.87422751940S ribosomal constituent
Band 9
 High-mobility group box 2HMGB2gi|54,696,42824.0613892044DNA repair and recombination
 Ribosomal protein L14RPL14gi|1,620,02223.90225262560S ribosomal constituent
 Ribosomal protein L13RPL13gi|15,431,29724.30422552760S ribosomal constituent
 High mobility group protein B1HMGB1gi|48,145,84325.03521413ndDNA repair and recombination, transcription.
 Ras-related nuclear proteinRANgi|48,734,88424.609176522Cell cycle, protein transport
Band 10
 HMGB3 proteinHMGB3gi|47,124,34123.1375553548DNA recombination
 Cleavage and polyadenylation specific factor 5NUDT21gi|12,655,10326.2684661330mRNA processing
 Splicing factor, arginine/serine-rich 9SRSF9gi|4,506,90325.64038613ndmRNA splicing, processing
 HnRNP A1 (Helix-destabilizing protein)HNRNPA1gi|47,939,61834.27335220ndmRNA splicing, processing and transport
 Protein C2fEMG1gi|2,276,39626.4742364ndRibosome biogenesis
Band 11
 RNA polymerase II subunitPOLR2Hgi|1,017,82317.203198727Transcription
 Ribosomal protein S19RPS19gi|12,652,56316.0511884nd40S ribosomal constituent
 Histone H1bHIST1H1Bgi|356,16821.7211583ndNucleosome assembly
 HIST1H2BN proteinHIST1H2BNgi|68,532,40713.928156926Nucleosome assembly
Band 12
 Histone H1HIST1H1Dgi|22,770,67522.3363236ndNucleosome structure
 HIST1H4I proteinHIST1H4Igi|45,767,73111.332249840Nucleosome assembly
 Histone H4HIST4H4gi|223,58211.230235839Nucleosome
 HIST1H2BN proteinHIST1H2BNgi|68,532,40713.928984ndNucleosome