Family Search for PF13680 (DUF4152)

PF13680 hits 7 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

Q8TZE9 exodeoxyribonuclease I (EC 3.1.11.1); poly(A)-specific ribonuclease (EC 3.1.13.4) from Pyrococcus furiosus (see 2 papers)
PF2046 hypothetical protein from Pyrococcus furiosus DSM 3638
Aligns to 1:225 / 229 (98.3%), covers 100.0% of PF13680, 478.4 bits

• Processing of A-form ssDNA by cryptic RNase H fold exonuclease PF2046
  Kim, Archives of biochemistry and biophysics 2016 (PubMed)
  • “...RNase H fold exonuclease PF2046 Archives of Biochemistry and Biophysics Journal 00039861 606 143 150 143-150 text/plain 2016-09-15 15 September 2016 ...”
  • “...Lee, Woo Cheol Abstract RNase H fold protein PF2046 of Pyrococcus furiosus is a 3 -5 ssDNA exonuclease that cleaves after the second nucleotide from...”
• A novel single-strand specific 3'-5' exonuclease found in the hyperthermophilic archaeon, Pyrococcus furiosus
  Tori, PloS one 2013
  • “...Pyrococcus furiosus, and identified a protein with the target activity. The purified protein, encoded by PF2046, is composed of 229 amino acids with a molecular weight of 25,596, and displayed single-strand specific 35 exonuclease activity. The protein, designated as PfuExo I, forms a stable trimeric complex...”
  • “...As shown in Fig. 1C , the heat extract of the E. coli transformant containing PF2046 clearly expressed the nuclease activity. 10.1371/journal.pone.0058497.g001 Figure 1 Screening and identification of the gene responsible for the DNA cleavage activity. (A) The E. coli cells, transformed with pUC118 containing each...”
• Crystal structure of a novel non-Pfam protein PF2046 solved using low resolution B-factor sharpening and multi-crystal averaging methods
  Su, Protein & cell 2010
  • “...a novel non-Pfam protein PF2046 solved using low resolution B-factor sharpening and multi-crystal averaging methods Jing Su1*, Yang Li1*, Neil Shaw1*, Weihong...”
  • “...Crystals of a 25.6 kDa non-Pfam, hypothetical protein, PF2046, diffracted X-rays to 3.38 A resolution. A combination of SeMet derived heavy atom positions with...”

5chiA / Q8TZE9 Crystal structure of pf2046 in complex with ssdna
Aligns to 2:226 / 230 (97.8%), covers 100.0% of PF13680, 478.4 bits

• Ligands: dna; magnesium ion (5chiA)

TK1646 hypothetical protein from Thermococcus kodakaraensis KOD1
Aligns to 1:224 / 227 (98.7%), covers 100.0% of PF13680, 477.2 bits

• Effect of Y50H and S187G substitutions on thermostability and exonuclease activity of TK1646 from Thermococcus kodakarensis
  Saeed, Protein expression and purification 2021 (PubMed)
  • “...thermostability and exonuclease activity of TK1646 from Thermococcus kodakarensis Protein Expression and Purification Journal fla 10465928 179 105799 105799...”
  • “...Muhammad Sulaiman Siddiqui, Masood Ahmed Rashid, Naeem TK1646 is a highly thermostable single strand specific 3 -5 exonuclease. Exonucleases play...”
• Characterization of TK1646, a highly thermostable 3'-5' single strand specific exonuclease from Thermococcus kodakarensis
  Saeed, International journal of biological macromolecules 2019 (PubMed)
  • “...TK1646, a highly thermostable 3 5 single strand specific exonuclease from Thermococcus kodakarensis International Journal of Biological Macromolecules Journal fla 01418130 140 1194 1201...”
  • “...exonucleases. Here we report molecular cloning of TK1646, a putative exonuclease from the hyperthermophilic archaeon Thermococcus kodakarensis, and expression...”
• A novel single-strand specific 3'-5' exonuclease found in the hyperthermophilic archaeon, Pyrococcus furiosus
  Tori, PloS one 2013
  • “...we could make a deletion mutant of the homolog of PfuExo I in T. kodakarensis (TK1646) and characterize it. This experiment is now underway. P. furiosus cells with high transformation efficiency have been described recently [42] , [43] , and therefore, the creation of PF2046-disrupted cells...”
  • “...The other sequences were picked up from the database as follows. PF2046; NP_5797751, PAB2293; NP_125767.1, TK1646; YP_184059.1. The authors thank Dr. T. Yamagami at Kyushu University for the technical assistance and helpful discussions. References 1 Lindahl T , Wood RD ( 1999 ) Quality control by...”

4yorA / A0A060P168 Crystal structure of a trimeric exonuclease phoexo i from pyrococcus horikoshii ot3 at 1.52a resolution. (see paper)
Aligns to 1:225 / 227 (99.1%), covers 100.0% of PF13680, 426.3 bits

• Ligand: magnesium ion (4yorA)

PAB2293 hypothetical protein from Pyrococcus abyssi GE5
Aligns to 1:227 / 231 (98.3%), covers 100.0% of PF13680, 405.1 bits

• A novel single-strand specific 3'-5' exonuclease found in the hyperthermophilic archaeon, Pyrococcus furiosus
  Tori, PloS one 2013
  • “...the comparison. The other sequences were picked up from the database as follows. PF2046; NP_5797751, PAB2293; NP_125767.1, TK1646; YP_184059.1. The authors thank Dr. T. Yamagami at Kyushu University for the technical assistance and helpful discussions. References 1 Lindahl T , Wood RD ( 1999 ) Quality...”

4youB / A0A060P168 Crystal structure of a trimeric exonuclease phoexo i from pyrococcus horikoshii ot3 at 2.20a resolution. (see paper)
2 alignments in 1:196 / 199 (98.5%), covering up to 51.1% of PF13680, 324.0 bits

• Ligand: magnesium ion (4youB)

PH0067 hypothetical protein from Pyrococcus horikoshii OT3
Aligns to 11:192 / 192 (94.8%), covers 79.6% of PF13680, 323.3 bits

• A novel single-strand specific 3'-5' exonuclease found in the hyperthermophilic archaeon, Pyrococcus furiosus
  Tori, PloS one 2013
  • “...P. horikoshii lacked one nucleotide at 514 th from the start site of the ORF (PH0067, accession number; NP_142085.2), and this deletion caused a frame shift in the downstream of the ORF. Therefore, we used our own sequence data, which codes for the amino acid sequence...”

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