Family Search for PF01930 (Cas_Cas4)

April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.

PF01930 hits 66 sequences in PaperBLAST's database above the trusted cutoff. Showing hits to curated sequences only. Or see all hits or try another family.

Q8U1T6 5' to 3' exodeoxyribonuclease (nucleoside 3'-phosphate-forming) (EC 3.1.12.1) from Pyrococcus furiosus (see 2 papers)
Aligns to 12:169 / 169 (93.5%), covers 98.8% of PF01930, 200.0 bits

CAS4_HALVD / D4GQN9 CRISPR-associated exonuclease Cas4; EC 3.1.12.1 from Haloferax volcanii (strain ATCC 29605 / DSM 3757 / JCM 8879 / NBRC 14742 / NCIMB 2012 / VKM B-1768 / DS2) (Halobacterium volcanii) (see paper)
Aligns to 26:183 / 183 (86.3%), covers 100.0% of PF01930, 153.8 bits

• function: CRISPR (clustered regularly interspaced short palindromic repeat) is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). This protein may be a 5' to 3' ssDNA exonuclease. Plasmid targeted by CRISPR locus P1 transform wild-type cells very poorly (PubMed:22767603).
  catalytic activity: exonucleolytic cleavage in the 5'- to 3'-direction to yield nucleoside 3'-phosphates.
  cofactor: Mg(2+) Mn(2+) Cu(2+) (Mg(2+) or Mn(2+) required for ssDNA cleavage activity. Can also utilise Cu(2+).)
  cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit.)
  disruption phenotype: Loss of the 8 Cas genes in this locus (cas1, cas2, cas3, cas4, cas5, cas6, cas7 and cas8b) leads to loss of CRISPR interference against plasmid targeted by this CRISPR locus, i.e. plasmid is not destroyed by CRISPR.

Q6ZEI3 5' to 3' exodeoxyribonuclease (nucleoside 3'-phosphate-forming) (EC 3.1.12.1) from Synechocystis sp. PCC 6803 (see paper)
Aligns to 7:182 / 190 (92.6%), covers 96.9% of PF01930, 76.0 bits

Q9KFY0 5' to 3' exodeoxyribonuclease (nucleoside 3'-phosphate-forming) (EC 3.1.12.1) from Alkalihalobacillus halodurans (see 2 papers)
Aligns to 6:156 / 174 (86.8%), covers 57.1% of PF01930, 64.8 bits

CS4F1_MYXXD / Q1CW50 CRISPR-associated exonuclease Cas4/endonuclease Cas1 fusion; EC 3.1.-.-; EC 3.1.12.1 from Myxococcus xanthus (strain DK1622) (see paper)
Aligns to 33:209 / 568 (31.2%), covers 96.9% of PF01930, 57.9 bits

• function: CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain spacers, sequences complementary to antecedent mobile elements, and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA) (By similarity). The Cas4 region acts as a ssDNA exonuclease, while the Cas1 region acts as a dsDNA endonuclease. Involved in the integration of spacer DNA into the CRISPR cassette (By similarity).
  catalytic activity: exonucleolytic cleavage in the 5'- to 3'-direction to yield nucleoside 3'-phosphates.
  cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit.)
  cofactor: Mg(2+) Mn(2+)
  subunit: Homodimer, forms a heterotetramer with a Cas2 homodimer.

CAS4_FRATN / A0Q5Y6 CRISPR-associated exonuclease Cas4; EC 3.1.12.1 from Francisella tularensis subsp. novicida (strain U112) (see paper)
Aligns to 13:195 / 196 (93.4%), covers 96.9% of PF01930, 54.0 bits

• function: CRISPR (clustered regularly interspaced short palindromic repeat) is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). This may be a 5' to 3' ssDNA exonuclease (By similarity).
  catalytic activity: exonucleolytic cleavage in the 5'- to 3'-direction to yield nucleoside 3'-phosphates.
  cofactor: Mg(2+) (Mg(2+) or Mn(2+) required for ssDNA cleavage activity.)
  cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit. It may be important for protein stability, since mutation of the Cys that binds the cofactor leads to a colorless, insoluble protein.)
  disruption phenotype: No effect on expression of bacterial lipoprotein FTN_1103. Bacteria are as virulent in mice as wild-type bacteria.

CAS4_PYRCJ / A3MTK6 CRISPR-associated exonuclease Cas4; EC 3.1.12.1 from Pyrobaculum calidifontis (strain DSM 21063 / JCM 11548 / VA1) (see 2 papers)
A3MTK6 5' to 3' exodeoxyribonuclease (nucleoside 3'-phosphate-forming) (EC 3.1.12.1) from Pyrobaculum calidifontis (see paper)
Aligns to 54:211 / 213 (74.2%), covers 97.5% of PF01930, 53.4 bits

• function: CRISPR (clustered regularly interspaced short palindromic repeat) is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). A ssDNA exonuclease that has 5' to 3' activity, yielding 5'-OH and 3'-phosphate groups. Has Mn(2+)-dependent endonuclease activity on circular ssDNA. Can unwind dsDNA; unwinding does not require ATP.
  catalytic activity: exonucleolytic cleavage in the 5'- to 3'-direction to yield nucleoside 3'-phosphates.
  cofactor: [2Fe-2S] cluster (Binds 1 [2Fe-2S] cluster per subunit. Not required for nuclease activity, since mutation of the Cys residues leads to a colorless but active protein.)
  cofactor: Mn(2+) Co(2+) (Mn(2+) required for ssDNA cleavage activity. Can also utilize Co(2+) and to a lesser extent Mg(2+).)
  subunit: Monomer.

CAS4_THETK / G4RJY5 CRISPR-associated exonuclease Cas4; EC 3.1.12.1 from Thermoproteus tenax (strain ATCC 35583 / DSM 2078 / JCM 9277 / NBRC 100435 / Kra 1) (see paper)
Aligns to 6:182 / 190 (93.2%), covers 97.5% of PF01930, 51.7 bits

• function: CRISPR (clustered regularly interspaced short palindromic repeat) is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). This may be a 5' to 3' ssDNA exonuclease (By similarity).
  catalytic activity: exonucleolytic cleavage in the 5'- to 3'-direction to yield nucleoside 3'-phosphates.
  cofactor: Mg(2+) Mn(2+) Cu(2+) (Mg(2+) or Mn(2+) required for ssDNA cleavage activity. Can also utilise Cu(2+).)
  cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit. It may be important for protein stability, since mutation of the Cys that bind the cofactor leads to a colorless, insoluble protein.)
  subunit: Can form a Cascis complex with Cas1/2 and Csa1.

CAS4_SACS2 / Q97TX9 CRISPR-associated exonuclease Cas4; EC 3.1.12.1 from Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) (Sulfolobus solfataricus) (see 2 papers)
Q97TX9 5' to 3' exodeoxyribonuclease (nucleoside 3'-phosphate-forming) (EC 3.1.12.1) from Saccharolobus solfataricus (see 3 papers)
Aligns to 22:199 / 202 (88.1%), covers 96.3% of PF01930, 30.6 bits

• function: CRISPR (clustered regularly interspaced short palindromic repeat) is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA) (By similarity). This protein is a 5' to 3' partially processive exonuclease that cleaves off single mononucleotides. Has a marked preference for ssDNA, although in vitro it also acts on dsDNA and ssRNA. Has low endonuclease activity with circular ssDNA. Binds ssDNA and can unwind dsDNA; unwinding does not require ATP.
  catalytic activity: exonucleolytic cleavage in the 5'- to 3'-direction to yield nucleoside 3'-phosphates.
  cofactor: Mg(2+) Mn(2+) Cu(2+) (Mg(2+) or Mn(2+) required for ssDNA cleavage activity. Can also utilise Cu(2+).)
  cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit (PubMed:24171432). It may be important for protein stability, since mutation of the Cys that bind the cofactor leads to a colorless, insoluble protein.)
  subunit: Homodecamer, formed by the assembly of dimers into a decameric toroid, with the active sites oriented towards the central tunnel.

JHS1_ARATH / A0A1P8ASY1 DNA replication ATP-dependent helicase/nuclease JHS1; Protein EMBRYO DEFECTIVE 2411; Protein JING HE SHENG 1; EC 3.1.-.-; EC 3.6.4.12 from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
Aligns to 498:677 / 1331 (13.5%), covers 90.1% of PF01930, 28.6 bits

• function: Essential protein required during embryogenesis (PubMed:15266054). Key enzyme involved in DNA replication and damage repair, shoot apical meristem (SAM) maintenance, and development (PubMed:26951435). Involved in Okazaki fragments processing. Possesses different enzymatic activities, such as single-stranded DNA (ssDNA)- dependent ATPase, 5'-3' helicase and endonuclease activities. While the ATPase and endonuclease activities are well-defined and play a key role in Okazaki fragments processing and DSB repair, the 5'-3' DNA helicase activity is atypical: it cannot load onto its tracking strand internally and has an absolute free 5'-end requirement (By similarity).
  catalytic activity: ATP + H2O = ADP + H(+) + phosphate (RHEA:13065)
  cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster.)
  disruption phenotype: Defective embryo arrested at preglobular/early globular stage with the formation of giant endosperm nuclei (PubMed:15266054). In jhs1, retarded growth, abnormal pattern of shoot apical meristem (SAM) cell division and differentiation, and morphological defects such as fasciation, irregular arrangement of siliques and phyllotaxy, and short roots (PubMed:26951435). Increased sensitivity to DNA damage stress (PubMed:26951435). Increased DNA damage response, including increased expression of genes involved in DNA damage repair and cell cycle regulation, and a higher frequency of homologous recombination (PubMed:26951435). Meristems exhibit a delayed cell cycle progression at the G2 or late S phase, and a misregulation of genes essential for meristem maintenance (PubMed:26951435).

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