DNA polymerase

spinqualitylabelsall models Family A DNA polymerase I complex with octylglucoside 1taq Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Overview DNA polymerases are enzymes that play a key role in DNA replication. DNA replication is the process of splitting an existing double-stranded DNA molecule into two single strands of DNA, then using DNA polymerases to translate the single strands. The process of translation results in the creation of the complementary DNA strands and results in the creation of two double-stranded DNA molecules that are exact replicas of the original DNA molecule. The complementary strands are created in the 5'-3' direction. Certain DNA polymerases are also responsible for proofreading the newly synthesized DNA strand and using exonuclease to remove and replace any errors that occurred. DNA polymerases are divided into 7 families according to their sequence homology and 3D structure similarities. The families are: Family A - DNA replication and repair (includes DNA Polymerase I, γ) Family B - DNA replication and repair (includes DNA Polymerase II, α, δ, ε) Family C - DNA replication in prokaryotes (includes DNA Polymerase III) Family D - DNA replication in archaea Family X - DNA repair in eukaryotes (includes DNA Polymerase β, λ, μ) Family Y - DNA replication of damaged DNA (includes DNA Polymerase IV, V, η, ι, κ) Family RT - reverse transcriptase (See Reverse transcriptase.) Function DNA polymerases are essential enzymes for DNA Replication.[1] Before DNA polymerases can perform its part in DNA replication, other enzymes must unwind and split the double helical structure of DNA and signal for the initiation of replication. Once DNA primase has placed a primer on the template DNA strand, DNA polymerases can attach. These enzymes use the template strand of DNA to synthesize a complementary strand of DNA using the DNA building blocks called nucleotides. The order of the nucleotides on the complementary strand is determined by the base-pairing rules: cytosine with guanine and adenine with thymine. During DNA synthesis, the DNA polymerases move along the template DNA strand in a 3'-5' direction and adds nucleotides to the new DNA strand in a 5'-3' direction. This causes the elongation of the new strand in a 5'-3' direction. Note that the direction of the newly formed DNA strand is opposite of the template DNA strand. This makes the resulting double-stranded DNA molecule complementary and anti-parallel. DNA polymerases are some of the most accurate enzymes and have about one mistake for every one billion copies. When a mistake is made, many of the DNA polymerases have the ability to proofread the newly synthesized DNA and correct any mistakes made during replication. The enzymes proofread in the 5'-3' direction. When an error is found, the misplaced nucleotide is cut out so the correct nucleotide can be inserted. This process is often referred to as 5'-3'exonuclease activity. Types of DNA Polymerase According to their sequence homology and 3D structure similarities, DNA Polymerases can be divided into 7 families: A, B, C, D, X, Y, and RT. Family Function Species Examples A Replication and Repair Eukaryotes and Prokaryotes Pol I and Pol γ B Replication and Repair Eukaryotes and Prokaryotes Pol II, Pol α, Pol δ, and Pol ε C Replication Prokaryotes Pol III D Replication Archaea Unknown X Replication and Repair Eukaryotes Pol β, Pol μ, and Pol λ Y Replication and Repair Eukaryotes and Prokaryotes Pol IV, Pol V, Pol η, Pol κ, and Pol ι RT Replication and Repair Eukaryotes, Viruses, and Retrovirus Telomerase and Hepatitis B virus Eukaryotic Polymerase Polymerase γ Polymerase γ is considered a Family A polymerase. Pol γ's main function is to replicate and repair mitochondrial DNA (mtDNA). Pol γ can perform proofreading 3'–5' exonuclease activity. Mutations that cause limited or non-functioning Pol γ has a significant effect on mtDNA and is a common cause of autosomal mitochondrial disorders. Polymerase α, Polymerase δ, and Polymerase ε Members of family B, Pol α, Pol δ, and Pol ε are the main polymerases involved in DNA replication. Pol α binds with primase to form a complex. Primase creates and places an RNA primer, allowing Pol α to start replication. Pol δ then takes over the synthesis of the lagging strand from Pol α. It is believed that Pol ε synthesizes the leading strand during replication, while Pol δ primarily replicates the lagging strand. However, there have been some cases where Pol δ has been found to replicate the lagging and leading strand. Pol δ and ε also possess 3'-5' exonuclease activity capabilities. Family X Family X polymerases consist of polymerases like Pol β, Pol μ, and Pol λ. Pol β's main function is short-patch base excision repair, a repair pathway used for repairing alkylated or oxidized bases. Pol λ and Pol μ are essential for rejoining DNA double-strand breaks due to hydrogen peroxide and ionizing radiation, respectively. For more details see DNA polymerase beta. Polymerases η, Polymerase ι, and Polymerase κ Polymerase η, Polymerase ι, and Polymerase κ are Family Y DNA polymerases involved in the DNA repair by translesion synthesis. Polymerases in Family Y are prone to errors during DNA synthesis. Pol η is important for the accurate translesion synthesis of DNA damage resulting from ultraviolet radiation. The function of Pol κ is not completely understood, but it is thought to act as an extender or inserter of a specific base at certain DNA lesions. All three translesion synthesis polymerases are activated by stalled replicative DNA polymerases. Prokaryotic Polymerase DNA Polymerase I DNA Polymerase I is a family A enzyme whose main function is excision repair of DNA strands through 3'-5' and 5'-3' exonuclease. This polymerase also helps with Okazaki fragment maturation. Okazaki fragments are short synthesized strands of DNA that form the lagging strand during DNA replication. When Polymerase I does replicate, it starts adding nucleotides at the RNA primer and moves in the 5'-3' direction. This polymerase is also the major polymerase in E. coli. See also Taq DNA polymerase (Hebrew). Octylglucoside binding site in Family A DNA polymerase I (1taq). Zn coordination site contains 3 Asp residues in Family A DNA polymerase I (1taq). DNA Polymerase II DNA polymerase II belongs to family B. It is responsible for 3'-5' exonuclease activity and restarting replication after the synthesis process has stopped due to damage in the DNA strand. Polymerase II is located at the replication fork in order to help direct the activity of other polymerases. DNA Polymerase III DNA polymerase III is the primary enzyme involved in the replication of DNA. It belongs to family C and is responsible for synthesizing new DNA strands by adding nucleotides to the 3'-OH group of the primer. This enzyme also has 3'-5' exonuclease activity giving it the ability to check the synthesized DNA strand for errors. For more details see Polymerase III homoenzyme beta subunit and Alpha Subunit of Thermus aquaticus DNA Polymerase III. DNA Polymerase IV DNA polymerase IV is involved in non-targeted mutagenesis. Belonging to family Y, this enzyme is activated when synthesis at the replication fork stalls. once activated, Polymerase IV creates a checkpoint, stops replication, and allows time to properly repair lesions in the DNA strand. Polymerase IV is also involved in translesion synthesis, a DNA repair mechanism. However, the enzyme lacks nuclease activity making it prone to errors in DNA replication. DNA Polymerase V DNA polymerase V, in family Y, is highly regulated and only produced when DNA is damaged and requires translesion synthesis. Polymerase V, like polymerase IV, lacks all exonuclease function and is unable to proofread the synthesized DNA strand causing it to be less efficient. Reverse Transcriptase See Reverse transcriptase. Some Dpo terminology: Dpo sliding clamp is made of the complex of Dpo and Proliferating Cell Nuclear Antigen (PCNA) which encircles it. The BRCT domain in Dpo is the C-terminal domain of breast cancer susceptibility protein. Klenow fragment is a large Dpo fragment produced upon cleavage of Dpo by subtilisin. In the E. coli, the EcDpo III subunits β, γ, δ, δ' are named clamp loader. This complex assembles the β subunit sliding clamp unto the DNA. See also User:Karl E. Zahn/RB69 DNA polymerase (gp43)

3D Structures of DNA polymerase

Updated on 07-May-2018

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• DNA polymerase I
  • 1taq – TaDpo I - Thermus aquaticus
    
  • 1jxe – TaDpo I Stoffel fragment
    
  • 1ktq - TaDpo I klenow fragment
    
  • 5ktq – TaDpo I + nucleotide
    
  • 3ojs, 3oju, 1tau, 4dle, 4dlg, 4elt, 4elu, 4elv - TaDpo I + DNA
    
  • 4flt, 4flu, 4flv, 4flw, 4flx, 4fly, 4flz, 4fm0, 4fm1, 4fm2 – Dpo I + DNA – Pyrococcus abyssi
    
  • 1s5j – SsDpo I - Sulfolobus solfataricus
    
  • 3eyz - GsDpo I (mutant) + DNA - Geobacillus stearothermophilus
    
  • 3ez5 - GsDpo I (mutant) + DNA + nucleotide
    
  • 3pv8, 3px0, 3px4, 3px6, 4dqi, 4dqp, 4dqq, 4dqr, 4dqs, 4ds4, 4ds5, 4dse, 4dsf, 4e0d, 4ez6, 4ez9, 4f2r, 4f2s, 4f3o, 4f4k, 4f8r - GkDpo I (mutant) + DNA – Geobacillus kaustophilus
    
• DNA polymerase I klenow fragment
  • 2kzz, 1d8y, 2kzm – EcDpo I - Escherichia coli
    
  • 1qsl - EcDpo I + DNA
    
  • 1kfs, 1krp, 1ksp, 1kln - EcDpo I (mutant) + DNA
    
  • 1kfd, 1dpi - EcDpo I + nucleotide
    
  • 1d9d, 1d9f, 2kfn - EcDpo I + DNA + nucleotide
    
  • 2kfz - EcDpo I (mutant) + DNA + nucleotide
    
  • 1ktq - TaDpo I
    
  • 3po4, 3po5, 3rtv, 3sv3, 3sv4, 3syz, 3sz2, 4c8k, 4c8l, 4c8m, 4c8n, 4c8o, 4cch - TaDpo I + DNA
    
  • 4bwm, 4bwj - TaDpo I + DNA + RNA
    
  • 3py8 - TaDpo I (mutant) + DNA
    
  • 3m8r, 3m8s, 3lwl, 3lwm, 1qss, 1qsy, 1qtm, 2ktq, 3ktq, 4ktq, 3rr7, 3rr8, 3rrg, 3rrh, 3t3f, 4df4, 4df8, 4dfj, 4dfk, 4dfm, 4dfp - TaDpo I + DNA + nucleotide
    
  • 4n56, 4n5s, 4xiu - TaDpo I (mutant) + DNA + nucleotide
    
  • 1xwl - GsDpo I
    
  • 2xo7, 3hp6, 3hpo, 2hhq, 2hhs, 2hht, 2hhu, 2hhv, 2hhw, 2hhx, 2hvh, 2hvi, 2hw3, 1xc9, 1ua0, 1ua1, 1njw, 1njx, 1njy, 1njz, 1nk0, 1nk4, 1nk5, 1nk6, 1nk7, 1nk8, 1nk9, 1nkb, 1nkc, 1nke, 1l3s, 2bdp, 4bdp, 2xy5, 2xy6, 2xy7, 2y1i, 2y1j, 3tan, 3tap, 3taq, 3tar, 3thv, 4b9l, 4b9m, 4b9n, 4b9s, 4b9t, 4b9u, 4b9v - GsDpo I + DNA
    
  • 4dsi, 4dsj, 4dsk, 4dsl, 4dwi - GsDpo I (mutant) + DNA
    
  • 3ht3, 1u45, 1u47, 1u48, 1u49, 1u4b, 1l3t, 1l3u, 1l3v, 1l5u, 1lv5, 3bdp, 3ti0, 4o0i, 4uqg - GsDpo I + DNA + nucleotide
    
• DNA polymerase II
  • 3maq, 3k57, 3k58, 3k59, 3k5l, 3k5m - EcDpo II (mutant) + DNA + nucleotide
    
  • 3k5n - EcDpo II (mutant) + DNA
    
  • 3k5o, 1q8i - EcDpo II (mutant)
    
  • 3o59 - PhDpo II large subunit]] - Pyrococcus horikoshii
    
  • 2kxe - PhDpo II small subunit
    
  • 1qqc – DeDpo II – Desulfurococcus
    
• DNA polymerase III subunit α
  • 2hnh, 2hqa - EcDpo III subunit α catalytic fragment
    
  • 4jom - EcDpo III α subunit catalytic fragment (mutant)
    
  • 2hpi, 2hpm - TaDpo III α subunit
    
  • 3e0d - TaDpo III α subunit + DNA
    
  • 3f2b, 3f2c, 3f2d, 4iqj – GkDpo III α subunit + DNA + nucleotide
    
  • 1zd7, 1zde, 3nzm - SyDpo III α subunit – Synechocystis
    
  • 4gig - SyDpo III α subunit (mutant)
    
  • 2keq, 4kl5, 4kl6 - NpDpo III α subunit – Nostoc punctiforme
    
  • 4lx3 - NpDpo III α subunit + nucleic acid binding tRNA/helicase
    
  • 1ok7 - EcDpo III residues 1-366 + EcDpo IV C-terminal
    
• DNA polymerase III subunit β
  • mmi, 2pol, 4k3s, 4pnv, 4pnw - EcDpo III subunit β
    
  • 2xur, 3f1v, 3pwe - EcDpo III subunit β (mutant)
    
  • 3d1e - EcDpo III subunit β + EcDpo II C-terminal
    
  • 1unn - EcDpo III subunit β + EcDpo IV little finger
    
  • 3d1g, 3qsb, 4k3k, 4k3l, 4mjp, 4mjq, 4mjr, 4n94, 4n95, 4n96, 4n97, 4n98, 4n99, 4n9a, 4ovf, 4ovg, 4ovh, 4pnu - EcDpo III subunit β + inhibitor
    
  • 3bep - EcDpo III subunit β + DNA
    
  • 3d1f, 3q4j, 3q4k, 3q4l, 4k3l, 4k3m, 4k3o, 4k3p, 4k3q, 4k3r, 4k74 - EcDpo III β subunit + polypeptide
    
  • 2avt - Dpo III β subunit – Streptococcus pyogenes
    
  • 2awa - Dpo III β subunit – Streptococcus pneumoniae
    
  • 2p1j – TmDpo III exonuclease domain – Thermotoga maritima
    
  • 1vpk - TmDpo III β subunit
    
  • 4k3s - EcDpo III β subunit
    
  • 3t0p - Dpo III β subunit – Eubacterium rectale
    
  • 1jqj, 1jql - EcDpo III subunit β,δ (mutant)
    
  • 4tr6 - Pol III β subunit – Bacillus subtilis
    
  • 3p16, 3rb9, 4tr7 - Pol III β subunit – Mycobacterrium tuberculosis
    
  • 4tr8 - PaPol III β subunit – Pseudomonas aeruginosa
    
  • 4tsz - PaPol III β subunit + peptide
    
• DNA polymerase III subunit γ
  • 1njf, 1njg - EcDpo III subunit γ N-terminal domains 1-2
    
  • 2gno - TmDpo III γ subunit
    
  • 1xxh, 1jr3 - EcDpo III subunit γ,δ,δ’
    
  • 1xxi - EcDpo III subunit γ,δ,δ’ + nucleotide
    
• DNA polymerase III subunit δ
  • 1jqj, 1jql - EcDpo III subunit β,δ (mutant)
    
  • 1a5t - EcDpo III subunit δ’
    
  • 1xxh, 1jr3 - EcDpo III subunit γ,δ,δ’
    
  • 1xxi - EcDpo III subunit γ,δ,δ’ + nucleotide
    
  • 3glh - EcDpo III subunit δ,δ’,τ
    
  • 3glf - EcDpo III subunit δ,δ’,τ + DNA
    
  • 3gli - EcDpo III subunit δ,δ’,τ,ξ + DNA
    
  • 3glg - EcDpo III subunit δ,δ’,τ (mutant) + DNA
    
• DNA polymerase III subunit ε
  • 2gui – EcDpo III subunit ε N-terminal
    
  • 1j53, 1j54 - EcDpo III subunit ε N-terminal exonuclease domain
    
  • 2ido - EcDpo III subunit ε + HOT protein
    
  • 4gx8 - EcDpo III ε subunit/ EcDpo III α subunit
    
  • 4gx9 - EcDpo III ε subunit/ EcDpo III α subunit (mutant)
    
  • 2xy8 - EcDpo III subunit ε,θ
    
• DNA polymerase III subunit τ
  • 2aya - EcDpo III subunit τ
    
  • 3glh - EcDpo III subunit δ,δ’,τ
    
  • 3glf - EcDpo III subunit δ,δ’,τ + DNA
    
  • 3gli - EcDpo III subunit δ,δ’,τ,ξ + DNA
    
  • 3glg - EcDpo III subunit δ,δ’,τ (mutant) + DNA
    
• DNA polymerase III subunit xi
  • 3gli - EcDpo III subunit δ,δ’,τ,ξ + DNA
    
• DNA polymerase III subunit θ
  • 2xy8 - EcDpo III subunit ε,θ
    
  • 2axd, 2ae9, 1du2 - EcDpo III subunit θ - NMR
    
• DNA polymerase III subunit χ
  • 1em8 - EcDpo III subunit ϕ,χ
    
  • 3sxu - EcDpo III subunit ϕ,χ + peptide
    
• DNA polymerase III subunit φ
  • 1em8 - EcDpo III subunit ϕ,χ
    
  • 3sxu - EcDpo III subunit ϕ,χ + peptide
    
• DNA polymerase IV
  • 4ir1, 4ir9, 4irc, 4ird, 4irk - EcPol IV + DNA
    
  • 4r8u - EcPol IV + DNA + nucleotide
    
  • 2rdi - SsPol IV
    
  • 3pr4, 3pr5, 2r8g, 2r8h, 2r8i, 2uvr, 2uvu, 2uvv, 2uvw - SsPol IV (mutant) + DNA + nucleotide
    
  • 4juz, 4jv0, 4jv1, 4jv2, 4qw8, 4qw9, 4qwa, 4qwb, 4qwc, 4qwd, 4qwe, 4tqr, 4tqs - SsPol IV + DNA + nucleotide
    
  • 2xc9, 3m9m, 3m9n, 3m9o, 2v4q, 2v4r, 2ago, 1ryr, 1rys, 2w9a, 2w9b, 2w9c, 3gii, 3gij, 3gik, 3gil, 3gim, 3qz7, 3qz8, 3pvx, 3pw0, 3pw2, 3pw4, 3pw5, 3pw7, 3raq, 3rax, 3rb0, 3rb3, 3rb4, 3rb6, 3rbd, 3rbe, 4hyk, 4fbt, 4fbu, 4g3i - SsPol IV + DNA
    
  • 2xca, 2xcp, 3khg, 3khh, 3khl, 3khr, 2w8k, 2w8l, 2rdj, 2v9w, 2va2, 2va3, 2ia6, 2ibk, 2jef, 2jeg, 2jei, 2jej, 2imw, 2j6s, 2j6t, 2j6u, 2asd, 2asj, 2asl, 2atl, 2au0, 2c22, 2c28, 2c2d, 2c2e, 2c2r, 2agp, 2agq, 2bqr, 2bqu, 2br0, 2bq3, 1s9f, 1s97, 1s0m, 1s0n, 1s0o, 1s10, 1n48, 1n56, 1jx4, 1jxl, 3t5h, 3t5j, 3t5k, 3t5l, 3v6h, 3v6j, 3v6k, 4gc6, 4gc7 - SsPol IV + DNA + nucleotide
    
  • 3fds – SsPol IV + PCNA B + PCNA C
    
  • 3bq2, 3bq0 – SaPol IV + DNA – Sulfolobus acidocaldarius
    
  • 3bq1, 4f4w, 4f4x, 4f4y, 4f4z, 4f50 - SaPol IV + DNA + nucleotide
    
  • 4nlg - SaPol IV (mutant) + DNA
    
  • 4dez – Pol IV – Mycobacterium smegmatis
    
• DNA polymerase from enterobacteria phage T7
  • 2ajq – T7Dpo (mutant) + thioredoxin (mutant) + DNA
    
  • 1zyq, 1x9m, 1x9s, 1x9w, 1tk0, 1skr, 1sks, 1skw, 1sl0, 1sl1, 1sl2, 1t7p - T7Dpo (mutant) + thioredoxin + DNA + nucleotide
    
  • 1t8e, 1tk5, 1tk8, 1tkd - T7Dpo + thioredoxin + DNA + nucleotide
    
• DNA polymerase
  • 2gv9 – Dpo – Herpes simplex virus
    
  • 1bgx – TaDpo + TP7 antibody
    
  • 1ih7 – EpDpo]] - Enterobacteria phage RB69
    
  • 3cfo, 4i9l – EpDpo (mutant)
    
  • 1waf, 1waj - EpDpo + nucleotide
    
  • 3uiq, 4dtj, 4dtm, 4dtn, 4dto, 4dtp, 4dtr, 4dts, 4dtu, 4dtx, 4du1, 4du3, 4du4 - EpDpo + DNA
    
  • 3nci, 3lds, 3l8b, 3cq8, 3cfp, 3cfr, 3kd1, 3kd5, 4e3s - EpDpo (mutant) + DNA
    
  • 3ndk, 3ne6, 3ngi, 3nhg, 3nae, 3lzj, 3lzi, 2ozs, 2p5g, 2dy4, 1q9x, 1q9y, 1ig9, 3qep, 3rma, 3rmb, 3rmc, 3rmd, 3rwu, 3s9h, 3scx, 3si6, 3sjj, 3snn, 3spy, 3spz, 3sq0, 3sq1, 3sq2, 3sq4, 3sun, 3suo, 3sup, 3suq, 3tab, 3tae, 3taf, 3tag, 4i9q, 4j2a, 4j2b, 4j2d, 4j2e, 4khn, 4khq, 4khs, 4khu, 4khw, 4khy, 4ki4, 4ki6, 4m3r, 4m3t, 4m3u, 4m3w, 4m3x, 4m3y, 4m3z, 4m41, 4m42, 4m45 - EpDpo (mutant) + DNA + nucleotide
    
  • 1clq, 3iuq - EpDpo + DNA + nucleotide
    
  • 2oyq, 2ozm, 2p5o, 2dtu, 3qei, 3qer, 3qes, 3qet, 3qev, 3qew, 3qex, 3qnn, 3qno, 4fj5, 4fj7, 4fj8, 4fj9, 4fjg, 4fjh, 4fji, 4fjj, 4fjk, 4fjl, 4fjm, 4fjn, 4fjx, 4fk0, 4fk2, 4fk4 - EpDpo (mutant) + DNA + nucleotide analog
    
  • 2atq – EpDpo + GP32
    
  • 1noy – T4Dpo + DNA - Enterobacteria phage T4
    
  • 1noz – T4Dpo residues 1-388
    
  • 2ex3 – BpDpo (mutant) + DNA terminal protein – Bacillus phage φ29
    
  • 2py5, 2pzs, 1xhz, 1xi1 – BpDpo (mutant) + DNA
    
  • 2pyj, 2pyl - BpDpo (mutant) + DNA + nucleotide
    
  • 1xhx - BpDpo (mutant)
    
  • 3a2f - PfDpo + PCNA - Pyrococcus furiosus
    
  • 2jgu, 4ahc – PfDpo
    
  • 4ail – PfDpo + DNA
    
  • 1tgo - TgDpo – Thermococcus gorgonarius
    
  • 2vwj, 2xhb – TgDpo (mutant) + DNA
    
  • 2vwk - TgDpo (mutant)
    
  • 1wn7, 1wns – TkDpo B - Thermococcus kodakarensis
    
  • 4k8z - TkDpo (mutant) + DNA
    
  • 1qht - ThDpo (mutant) – Thermococcus
    
  • 4k8x - ThDpo (mutant) + DNA
    
  • 1d5a – DeDpo
    
• DNA polymerase α
  • 4e2i – hDpo α subunit β + large T antigen – human
    
  • 4bpx - hDpo α catalytic subunit + DNA primase small subunit
    
  • 4q5v - hDpo α catalytic subunit + DNA + RNA + aphidicolin
    
  • 4qcl - hDpo α catalytic subunit + DNA + RNA + nucleotide
    
  • 2keb - hDpo αB - NMR
    
  • 1n5g, 1k0p, 1k18 - hDpo α zinc finger domain – NMR
    
• DNA polymerase β
  • 4p4m, 4p4o, 4p4p - Dpo β + DNA + nucleotide – Leishmania infantum
    
  • 4ppx - hDpo β + spiroiminohydantoin + DNA
    
  • 3q8p, 3q8q, 3lk9, 3mby, 3isb, 3isc, 1zjm, 1tv9, 1tva, 1bpx, 1bpz, 1zqa, 1zqb, 1zqc, 1zqd, 1zqf, 1zqg, 1zqh, 1zqi, 1zaj, 1zqk, 1zql, 1zqm, 1zqn, 1zqo, 1zqp, 1zqq, 1zqr, 1zqs, 1zqt, 1zqu, 1zqv, 1zqw, 1zqx, 1zqy, 1zqz, 7ice, 7icf, 7ici, 7icj, 7icl, 7icm, 7icp, 7icr, 7ict, 7icu, 7icv, 8icb, 8icc, 9icj, 9ick, 9icl, 9icm, 9icp, 9icw, 9icx, 9icy, 7icg, 7ich, 7ick, 7icn, 7ico, 7icq, 7ics, 1zqe, 4gxi, 4gxj, 4gxk, 4kld, 4kle, 4klf, 4klg, 4klh, 4kli, 4klj, 4kll, 4klm, 4klo, 4lvs, 4klq, 4kls, 4klt, 4klu, 1zqj, 4lvs, 4m2y, 4m47, 4nlk, 4nln, 4nlz, 4nm1, 4nm2, 3gdx, 3rh4, 3rh5, 3rh6, 4tup, 4tuq, 4tur, 4tus - hDpo β + DNA
    
  • 3jpn, 3jpo, 3jpp, 3jpq, 3jpr, 3jpt, 3jps, 3isd, 3c2k, 3c2l, 3c2m, 2pxi, 2iso, 2isp, 2i9g, 2fmp, 2fmq, 2fms, 1zjn, 1mq2, 1mq3, 1bpy, 8ica, 8ice, 8icf, 8icg, 8ich, 8ici, 8icj, 8ick, 8icl, 8icm, 8icn, 8ico, 8icp, 8icq, 8icr, 8ics, 8ict, 8icu, 8icv, 8icw, 8icx, 8icz, 9ice, 9icg, 9ich, 9ici, 9icq, 9ics, 9ict, 9icu, 9icv, 9icr, 9icn, 9ico, 8icy, 9ica, 9icb, 9icc, 9icf, 4do9, 4doa, 4dob, 4doc, 3rje, 3rjf, 3rjg, 3rjh, 3rji, 3rjj, 3rjk, 3tfr, 3tfs, 4mf2, 4mf8, 4mfa, 4mfc, 4mff, 4nxz, 4ny8, 4o5c, 4o5e, 4o5k, 4o9m, 4p2h, 4pgq, 4pgx, 4pha, 4phd, 4uaw, 4uay, 4uaz, 4ub1, 4ub2, 4ub3, 4ub4, 4ub5, 4ubb, 4ubc - hDpo β + DNA + nucleotide
    
  • 2p66, 4f5n - hDpo β + DNA + nucleotide analog
    
  • 4f5o, 4f5p, 4f5q, 4f5r - hDpo β (mutant) + DNA + nucleotide analog
    
  • 3ogu, 4jwm, 4jwn, 4m9g, 4m9h, 4m9j, 4m9l, 4m9n, 4r63, 4r64, 4r65, 4r66 - hDpo β (mutant) + DNA
    
  • 2v6z - hDpo β N-terminal (mutant)]] - NMR
    
  • 3k75, 3lqc - hDpo β + DNA repair protein XRCC1
    
  • 1rpl, 2bpc, 1bpe, 1bpb, 1bpd, 3uxn - rDpo β – rat
    
  • 2van, 1jn3, 3uxo, 3v7l- rDpo β (mutant)
    
  • 1dk2, 1dk3, 1bno, 1bnp - rDpo β N-terminal – NMR
    
  • 1nom - rDpo β C-terminal
    
  • 1huo, 1huz, 3v7j - rDpo β + DNA
    
  • 3uxp, 3v72, 3v7k - rDpo β (mutant) + DNA
    
  • 1bpe - rDpo β + nucleotide
    
  • 2bpf, 2bpg - rDpo β + DNA + nucleotide
    
  • 3au2 – TtDpo β + GTP – Thermus thermophilus
    
  • 3b0x, 3b0y – TtDpo β (mutant) + GTP
    
  • 3au6, 3auo – TtDpo β + GTP + DNA
    
• DNA polymerase γ
  • 3ikm - hDpo γ1+ γ2
    
  • 3ikl, 2g4c - hDpo γ2
    
  • 2jw5 - hDpo λ BRCT domain
    
  • 1xsl - hDpo λ catalytic domain
    
  • 1nzp - hDpo λ lyase domain - NMR
    
  • 3pmn, 3pnc, 3mda, 2gws, 2bcq, 2bcr, 2bcs, 2bcu, 2bcv, 1xsp, 1rzt - hDpo λ + DNA
    
  • 3mgh, 3c5f, 3c5g, 2pfn - hDpo λ (mutant) + DNA
    
  • 3pml, 3mdc, 1xsn - hDpo λ + DNA + nucleotide
    
  • 4k4g, 4k4h, 4k4i - hDpo λ + DNA + nucleotide analog
    
  • 3mgi, 3hw8, 3hwt, 3hx0, 2pfo, 2pfp, 2pfq - hDpo λ (mutant) + DNA + nucleotide
    
• DNA polymerase δ
  • 3e0j - hDpo δ2+ δ3
    
  • 3upq, 3uq0, 3uq2 - hDpo δ (mutant) + DNA
    
  • 4fo6 - hDpo δ (mutant) + DNA + nucleotide analog
    
• DNA polymerase ζ
  • 3abd, 3abe - hDpo ζ catalytic subunit Rev3 + mitotic spindle assembly checkpoint protein Rev7
    
  • 3vu7, 4gk0 - hDpo ζ catalytic subunit + DNA repair protein Rev1 + MAD2B
    
  • 4fjo, 4gk5 - hDpo κ + hDpo ζ catalytic subunit + DNA repair protein Rev1 + MAD2B
    
• DNA polymerase η
  • 2i5o - hDpo η ubiquitin-binding zinc finger – NMR
    
  • 2lsj, 2lsi - hDpo η + DNA repair protein Rev1
    
  • 4dl2, 4dl3, 4dl4, 4dl5, 4dl6, 4dl7, 4eey, 4ecq, 4ecr, 4ecs, 4ect, 4ecu, 4ecv, 4ecw, 4ecx, 4ecy, 4ecz, 4ed0, 4ed1, 4ed2, 4ed3, 4ed6, 4ed7, 4ed8, 4o3n, 4o3o, 4o3p, 4o3q, 4o3r, 4o3s, 4q8e, 4q8f, 4rnm, 4rnn, 4rno, 4x0p, 4x0q, 3mr2, 3mr3, 3mr5, 3mr6, 3si8 - hDpo η + DNA + nucleotide
    
  • 5aga - hDpo η + nucleotide
    
• DNA polymerase ι
  • 3q8r, 3q8s, 3h4b, 3h4d, 3gv5, 3gv7, 3gv8, 3epg, 3epi, 2fll, 2fln, 2flp, 2dpi, 2dpj, 2alz, 1zet, 1t3n, 4ebc, 4ebd, 4ebe, 4fs1, 4fs2, 4eyh, 4eyi, 3g6v, 3g6x, 3g6y - hDpo ι + DNA + nucleotide
    
  • 3ngd, 3osn, 3h40, 5ulx, 5ulw - hDpo ι catalytic fragment + DNA
    
  • 2ktf - hDpo ι + ubiquitin
    
  • 2l0f, 2l0g - hDpo ι + ubiquitin – NMR
    
  • 2khu - hDpo ι ubiquitin binding motif – NMR
    
  • 2khw - hDpo ι ubiquitin binding motif + ubiquitin – NMR
    
  • 2kwu, 2kwv - mDpo ι C-terminal + ubiquitin - NMR
    
  • 3ai4 - mDpo ι/yEGFP
    
• DNA polymerase κ
  • 1t94 - hDpo κ
    
  • 3in5 - hDpo κ + DNA
    
  • 2w7o, 2w7p, 2oh2, 3pzp - hDpo κ + DNA + nucleotide
    
  • 2lsi - hDpo κ peptide + hRev1
    
  • 2lsk - mDpo κ + DNA repair protein Rev1
    
• DNA polymerase μ
  • 2htf, 2dun - hDpo μ BRCT domain – NMR
    
  • 2ihm - mDpo μ catalytic domain + DNA – mouse
    
• DNA polymerase nu
  • 4xvi, 4xvk, 4xvl, 4xvm – hDpo ν catalytic domain + DNA
    
• DNA polymerase χ
  • 2m2t – AsfvDpo X – African swine fever virus – NMR
    
  • 2m2u, 2m2v – AsfvDpo X + nucleotide – NMR
    
  • 2m2w – AsfvDpo X + nucleotide + DNA – NMR
    
  • 2w9m – Dpo X – Deinococcus radiodurans
    
• DNA polymerase from yeast
  • 3oiq - yDpo α + cell division control protein 13
    
  • 3flo, 3lgb - yDpo α subunits A,B
    
  • 4b08, 4fvm - yDpo α subunit A
    
  • 4fxd, 4fyd - yDpo α subunit A + RNA + DNA
    
  • 3iay - yDpo δ catalytic subunit + DNA
    
  • 3oha, 3ohb, 3mfh - yDpo ε (mutant) + DNA
    
  • 3mfi, 4m8o - yDpo ε (mutant) + DNA + nucleotide
    
  • 2r8j, 2r8k, 4ptf - yDpo ε catalytic domain + DNA + nucleotide
    
  • 2xgp, 2xgq, 2wtf - yDpo ε + DNA
    
  • 1jih – yDpo η catalytic domain
    
  • 3bjy, 2aq4 – yRev1 catalytic domain + DNA + nucleotide
    
• DNA polymerase Rev1
  • 3gqc– hRev1 + DNA + nucleotide
    
  • 2ebw – hRev1 BRCT domain – NMR
    
  • 3bjy, 2aq4 – yRev1 catalytic domain + DNA + nucleotide
    
  • 2lsi - hDpo κ peptide + hRev1
    
  • 4fjo, 4gk5 - hDpo κ + hDpo ζ catalytic subunit + Rev1 + MAD2B
    
  • 2lsj, 2lsi - hDpo η + Rev1
    
  • 2lsk - mDpo κ + Rev1
    
• Terminal deoxynucleotidyl transferase
  • 2coe – TdT BRCT domain – NMR
    
  • 1jms – mTdT catalytic domain + Mg
    
• Terminal deoxynucleotidyl transferase binary complex
  • 4iqt, 4iqu, 4iqv, 4iqw – mTdT catalytic domain + inhibitor
    
  • 4i2i – mTdT catalytic domain + Mg + Zn + adenosine-pentaphosphate
    
  • 4i2j – mTdT catalytic domain + CTP + Zn
    
  • 1kej – mTdT catalytic domain + ATP derivative + Co
    
  • 4i2d – mTdT catalytic domain + ATP derivative + Mg
    
  • 4i29 – mTdT catalytic domain + AMP derivative + Mn
    
  • 4i2b – mTdT catalytic domain + AMPCPP + Mg
    
  • 4i2c – mTdT catalytic domain + AMPCPP + Mn
    
  • 4i2a – mTdT catalytic domain + UMP derivative + Mg
    
• Terminal deoxynucleotidyl transferase ternary complex with DNA
  • 4i2e – mTdT catalytic domain + AMPCPP + Co + DNA
    
  • 4i2h – mTdT catalytic domain + AMPCPP + Zn + Mg + DNA
    
  • 4i27 – mTdT catalytic domain + TTP derivative + TMP + Mg + DNA
    
  • 1kdh – mTdT catalytic domain + UMP derivative + Mg + DNA
    
  • 4i28, 4i2f – mTdT catalytic domain + Mg + Zn + DNA
    
  • 4i2g – mTdT catalytic domain + Mg + Co + DNA
    

Proteopedia Page Contributors and Editors (what is this?)

Alexander Berchansky, Cori Damron, Jaime Prilusky, David Canner, Joel L. Sussman, Emily Bray, Michal Harel