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IPR006134 is a DNA-directed DNA polymerase, family B, multifunctional domain.
<p>DNA is the biological information that instructs cells how to exist in an ordered fashion: accurate replication is thus one of the most important events in the life cycle of a cell. This function is performed by DNA- directed DNA-polymerases [ec:2.7.7.7]) by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA, using a complementary DNA chain as a template. Small RNA molecules are generally used as primers for chain elongation, although terminal proteins may also be used for the de novo synthesis of a DNA chain. Even though there are 2 different methods of priming, these are mediated by 2 very similar polymerases classes, A and B, with similar methods of chain elongation. A number of DNA polymerases have been grouped under the designation of DNA polymerase family B. Six regions of similarity (numbered from I to VI) are found in all or a subset of the B family polymerases. The most conserved region (I) includes a conserved tetrapeptide with two aspartate residues. Its function is not yet known, however, it has been suggested that it may be involved in binding a magnesium ion. All sequences in the B family contain a characteristic DTDS motif, and possess many functional domains, including a 5'-3' elongation domain, a 3'-5' exonuclease domain [[cite:PUB00000436]], a DNA binding domain, and binding domains for both dNTP's and pyrophosphate [[cite:PUB00010600]].</p> <p>This domain of DNA polymerase B appears to consist of more than one activities, possibly including elongation, DNA-binding and dNTP binding [[cite:PUB00010600]].</p>
This description is obtained from EB-eye REST.
GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on , while the GO metadata was last updated on .
| GO term | Namespace | Name | Definition | Relationships |
|---|---|---|---|---|
| Molecular function | Nucleotide binding | Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose. | ||
| Molecular function | DNA binding | Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). |
| Transcript | Name | Description | Predicted domains | Domain count |
|---|---|---|---|---|
| – | PREDICTED: DNA polymerase alpha catalytic subunit-like [Vitis vinifera] gi|359480801|ref|XP_002277947.2| | 11 | ||
| – | PREDICTED: DNA polymerase alpha catalytic subunit-like [Cicer arietinum] gi|502160825|ref|XP_004511916.1| | 18 | ||
| – | PREDICTED: DNA polymerase zeta catalytic subunit-like [Cicer arietinum] gi|502114426|ref|XP_004494955.1| | 23 | ||
| – | PREDICTED: DNA polymerase delta catalytic subunit-like [Cicer arietinum] gi|502137074|ref|XP_004502958.1| | 11 | ||
| – | PREDICTED: DNA polymerase delta catalytic subunit-like [Cicer arietinum] gi|502137074|ref|XP_004502958.1| | 14 | ||
| – | PREDICTED: DNA polymerase delta catalytic subunit-like [Cicer arietinum] gi|502137074|ref|XP_004502958.1| | 13 | ||
| – | PREDICTED: DNA polymerase alpha catalytic subunit-like [Cicer arietinum] gi|502160825|ref|XP_004511916.1| | 25 | ||
| – | DNA polymerase [Medicago truncatula] gi|357482859|ref|XP_003611716.1| | 8 | ||
| – | PREDICTED: DNA polymerase epsilon catalytic subunit A-like [Cicer arietinum] gi|502145356|ref|XP_004505995.1| | 18 | ||
| – | PREDICTED: DNA polymerase epsilon catalytic subunit A-like [Cicer arietinum] gi|502145356|ref|XP_004505995.1| | 18 | ||
| – | DNA polymerase; TAIR: AT5G63960.1 DNA polymerase delta subunit 1; Swiss-Prot: sp|Q9LRE6|DPOD1_ORYSJ DNA polymerase delta catalytic subunit; TrEMBL-Plants: tr|A0A151ST09|A0A151ST09_CAJCA DNA polymerase; Found in the gene: LotjaGi1g1v0321600 | 29 | ||
| – | DNA polymerase; TAIR: AT5G63960.1 DNA polymerase delta subunit 1; Swiss-Prot: sp|O48901|DPOD1_SOYBN DNA polymerase delta catalytic subunit; TrEMBL-Plants: tr|A0A151ST09|A0A151ST09_CAJCA DNA polymerase; Found in the gene: LotjaGi1g1v0321600 | 26 | ||
| – | DNA polymerase; TAIR: AT5G63960.1 DNA polymerase delta subunit 1; Swiss-Prot: sp|O48901|DPOD1_SOYBN DNA polymerase delta catalytic subunit; TrEMBL-Plants: tr|A0A151ST09|A0A151ST09_CAJCA DNA polymerase; Found in the gene: LotjaGi1g1v0321600 | 26 | ||
| – | DNA polymerase; TAIR: AT1G67500.1 recovery protein 3; Swiss-Prot: sp|Q766Z3|REV3_ARATH DNA polymerase zeta catalytic subunit; TrEMBL-Plants: tr|I1JRC1|I1JRC1_SOYBN DNA polymerase; Found in the gene: LotjaGi1g1v0772700 | 28 | ||
| – | DNA polymerase; TAIR: AT1G67500.1 recovery protein 3; Swiss-Prot: sp|Q766Z3|REV3_ARATH DNA polymerase zeta catalytic subunit; TrEMBL-Plants: tr|I1JRC1|I1JRC1_SOYBN DNA polymerase; Found in the gene: LotjaGi1g1v0772700 | 27 | ||
| – | DNA polymerase; TAIR: AT5G67100.1 DNA-directed DNA polymerase; Swiss-Prot: sp|Q9FHA3|DPOLA_ARATH DNA polymerase alpha catalytic subunit; TrEMBL-Plants: tr|G7K6L8|G7K6L8_MEDTR DNA polymerase; Found in the gene: LotjaGi2g1v0402600 | 34 | ||
| – | DNA polymerase; TAIR: AT5G67100.1 DNA-directed DNA polymerase; Swiss-Prot: sp|Q9FHA3|DPOLA_ARATH DNA polymerase alpha catalytic subunit; TrEMBL-Plants: tr|G7K6L8|G7K6L8_MEDTR DNA polymerase; Found in the gene: LotjaGi3g1v0127800 | 34 | ||
| – | DNA polymerase epsilon, catalytic subunit, putative; TAIR: AT1G08260.1 DNA polymerase epsilon catalytic subunit; Swiss-Prot: sp|F4HW04|DPOE1_ARATH DNA polymerase epsilon catalytic subunit A; TrEMBL-Plants: tr|G7JKW4|G7JKW4_MEDTR DNA polymerase epsilon catalytic subunit A; Found in the gene: LotjaGi3g1v0479600 | 24 | ||
| – | DNA polymerase epsilon catalytic subunit A; TAIR: AT1G08260.1 DNA polymerase epsilon catalytic subunit; Swiss-Prot: sp|F4HW04|DPOE1_ARATH DNA polymerase epsilon catalytic subunit A; TrEMBL-Plants: tr|G7JKW4|G7JKW4_MEDTR DNA polymerase epsilon catalytic subunit A; Found in the gene: LotjaGi3g1v0479600 | 15 | ||
| – | DNA polymerase epsilon, catalytic subunit, putative; TAIR: AT1G08260.1 DNA polymerase epsilon catalytic subunit; Swiss-Prot: sp|F4HW04|DPOE1_ARATH DNA polymerase epsilon catalytic subunit A; TrEMBL-Plants: tr|G7JKW4|G7JKW4_MEDTR DNA polymerase epsilon catalytic subunit A; Found in the gene: LotjaGi3g1v0479600 | 24 | ||
| – | DNA polymerase epsilon, catalytic subunit, putative; TAIR: AT1G08260.2 DNA polymerase epsilon catalytic subunit; Swiss-Prot: sp|F4HW04|DPOE1_ARATH DNA polymerase epsilon catalytic subunit A; TrEMBL-Plants: tr|G7JKW4|G7JKW4_MEDTR DNA polymerase epsilon catalytic subunit A; Found in the gene: LotjaGi3g1v0479600 | 24 | ||
| – | DNA polymerase epsilon, catalytic subunit, putative; TAIR: AT1G08260.1 DNA polymerase epsilon catalytic subunit; Swiss-Prot: sp|F4HW04|DPOE1_ARATH DNA polymerase epsilon catalytic subunit A; TrEMBL-Plants: tr|G7JKW4|G7JKW4_MEDTR DNA polymerase epsilon catalytic subunit A; Found in the gene: LotjaGi3g1v0479600 | 24 |
A list of co-occurring predicted domains within the L. japonicus gene space:
| Predicted domain | Source | Observations | Saturation (%) |
|---|---|---|---|
| mobidb-lite | MobiDBLite | 1 | 4.55 |