Score = 68.6 bits (166), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/76 (43%), Positives = 47/76 (61%), Gaps = 2/76 (2%)
Query: 6 RSLSMFVSAGPYTQSDTLSYKPLEDLIALTVQQEPDVLILIGPLLDTSHPLLLNGSLAET 65
R L V++GP+T S L Y+PL DL+ PDVL+L GP LD H ++ G LAET
Sbjct: 358 RELQFVVASGPFTDSTDLFYEPLHDLLKYLKDHRPDVLVLTGPFLDADHKMV--GELAET 415
Query: 66 FEDFYVKLIDSIVQPL 81
F+ F+ K+I I++ +
Sbjct: 416 FDTFFEKMIGGIMESI 431
May play an essential role at the early stage of chromosomal DNA replication by coupling the polymerase alpha/primase complex to the cellular replication machinery. Drosophila melanogaster (taxid: 7227)
>sp|P33611|DPOA2_MOUSE DNA polymerase alpha subunit B OS=Mus musculus GN=Pola2 PE=1 SV=2
Score = 68.2 bits (165), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 45/74 (60%)
Query: 12 VSAGPYTQSDTLSYKPLEDLIALTVQQEPDVLILIGPLLDTSHPLLLNGSLAETFEDFYV 71
V+ GPYT SD+++Y PL DLIA+ + +PDV IL GP LD H + N L FED +
Sbjct: 344 VACGPYTTSDSITYDPLLDLIAIINRDQPDVCILFGPFLDAKHEQVENCKLTSPFEDVFK 403
Query: 72 KLIDSIVQPLEKPG 85
+ + ++++ G
Sbjct: 404 QCLRTVIEGTRSSG 417
May play an essential role at the early stage of chromosomal DNA replication by coupling the polymerase alpha/primase complex to the cellular replication machinery.
Mus musculus (taxid: 10090)
>sp|Q14181|DPOA2_HUMAN DNA polymerase alpha subunit B OS=Homo sapiens GN=POLA2 PE=1 SV=2
Score = 66.6 bits (161), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 44/76 (57%)
Query: 10 MFVSAGPYTQSDTLSYKPLEDLIALTVQQEPDVLILIGPLLDTSHPLLLNGSLAETFEDF 69
+ V+ GPYT SD+++Y PL DLIA+ PDV IL GP LD H + N L FED
Sbjct: 342 VLVACGPYTTSDSITYDPLLDLIAVINHDRPDVCILFGPFLDAKHEQVENCLLTSPFEDI 401
Query: 70 YVKLIDSIVQPLEKPG 85
+ + + +I++ G
Sbjct: 402 FKQCLRTIIEGTRSSG 417
May play an essential role at the early stage of chromosomal DNA replication by coupling the polymerase alpha/primase complex to the cellular replication machinery.
Homo sapiens (taxid: 9606)
>sp|O89043|DPOA2_RAT DNA polymerase alpha subunit B OS=Rattus norvegicus GN=Pola2 PE=2 SV=2
Score = 65.5 bits (158), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 43/76 (56%)
Query: 10 MFVSAGPYTQSDTLSYKPLEDLIALTVQQEPDVLILIGPLLDTSHPLLLNGSLAETFEDF 69
+ V+ GPYT SD+++Y PL DLI+ PDV IL GP LD H + N L FED
Sbjct: 342 VLVACGPYTTSDSITYDPLLDLISTINHDRPDVCILFGPFLDAKHEQVENCKLTSPFEDI 401
Query: 70 YVKLIDSIVQPLEKPG 85
+ + + ++++ G
Sbjct: 402 FKQCLRTVIEGTRSSG 417
May play an essential role at the early stage of chromosomal DNA replication by coupling the polymerase alpha/primase complex to the cellular replication machinery.
Rattus norvegicus (taxid: 10116)
>sp|Q58D13|DPOA2_BOVIN DNA polymerase alpha subunit B OS=Bos taurus GN=POLA2 PE=2 SV=1
May play an essential role at the early stage of chromosomal DNA replication by coupling the polymerase alpha/primase complex to the cellular replication machinery.
Bos taurus (taxid: 9913)
>sp|O74946|DPOA2_SCHPO DNA polymerase alpha subunit B OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pol12 PE=1 SV=1
May play an essential role at the early stage of chromosomal DNA replication by coupling the polymerase alpha/primase complex to the cellular replication machinery.
Non-catalytic component of DNA polymerase alpha, which in a complex with DNA primase (DNA polymerase alpha:primase) constitutes a replicative polymerase. POL12 may play an essential role at the early stage of chromosomal DNA replication by coupling DNA polymerase alpha to the cellular replication machinery (By similarity). Interacts with MCM10.
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 43/79 (54%), Gaps = 4/79 (5%)
Query: 4 TRRSLSMFVSAGPYTQSDTLSYKPLEDLIALTVQQEPDVLILIGPLLDTSHPLL----LN 59
T + ++ + GPYT +D Y+ L +L+ V ++PD+L+L GP +D + L N
Sbjct: 317 TDTTKEIWFACGPYTATDNCGYEHLCELLDKVVAEKPDILMLAGPFVDKKNTFLNKPTFN 376
Query: 60 GSLAETFEDFYVKLIDSIV 78
+ ED +K+ +++V
Sbjct: 377 ITYDNLLEDLLLKVKETLV 395
May play an essential role at the early stage of chromosomal DNA replication by coupling the polymerase alpha/primase complex to the cellular replication machinery.
Caenorhabditis elegans (taxid: 6239)
>sp|Q54S08|DPOA2_DICDI DNA polymerase alpha subunit B OS=Dictyostelium discoideum GN=polA2 PE=3 SV=2
May play an essential role at the early stage of chromosomal DNA replication by coupling the polymerase alpha/primase complex to the cellular replication machinery.
Dictyostelium discoideum (taxid: 44689)
Close Homologs in the Non-Redundant Database Detected by BLAST
Score = 40.4 bits (95), Expect = 2e-05
Identities = 18/52 (34%), Positives = 28/52 (53%)
Query: 27 PLEDLIALTVQQEPDVLILIGPLLDTSHPLLLNGSLAETFEDFYVKLIDSIV 78
L DL+ PD LIL GP L H L+ + + T++ ++KL+D I+
Sbjct: 2 LLRDLLDGYNAAPPDRLILAGPFLSAPHNLIASSKVNLTYDFLFLKLLDGIL 53
This family contains a number of DNA polymerase subunits. The B subunit of the DNA polymerase alpha plays an essential role at the initial stage of DNA replication in S. cerevisiae and is phosphorylated in a cell cycle-dependent manner. DNA polymerase epsilon is essential for cell viability and chromosomal DNA replication in budding yeast. In addition, DNA polymerase epsilon may be involved in DNA repair and cell-cycle checkpoint control. The enzyme consists of at least four subunits in mammalian cells as well as in yeast. The largest subunit of DNA polymerase epsilon is responsible for polymerase epsilon is responsible for polymerase activity. In mouse, the DNA polymerase epsilon subunit B is the second largest subunit of the DNA polymerase. A part of the N-terminal was found to be responsible for the interaction with SAP18. Experimental evidence suggests that this subunit may recruit histone deacetylase to the replication fork to modify the chromatin structure. Length = 189
>PF04042 DNA_pol_E_B: DNA polymerase alpha/epsilon subunit B; InterPro: IPR007185 DNA polymerase epsilon is essential for cell viability and chromosomal DNA replication in budding yeast
In addition, DNA polymerase epsilon may be involved in DNA repair and cell-cycle checkpoint control. The enzyme consists of at least four subunits in mammalian cells as well as in yeast. The largest subunit of DNA polymerase epsilon is responsible for polymerase activity. In mouse, the DNA polymerase epsilon subunit B is the second largest subunit of the DNA polymerase. A part of the N-terminal was found to be responsible for the interaction with SAP18. Experimental evidence suggests that this subunit may recruit histone deacetylase to the replication fork to modify the chromatin structure [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3E0J_C 3FLO_G.
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61
The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
>cd00408 DHDPS-like Dihydrodipicolinate synthase family
A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases
The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
>cd07385 MPP_YkuE_C Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain
YkuE is an uncharacterized Bacillus subtilis protein with a C-terminal metallophosphatase domain and an N-terminal twin-arginine (RR) motif. An RR-signal peptide derived from the Bacillus subtilis YkuE protein can direct Tat-dependent secretion of agarase in Streptomyces lividans. This is an indication that YkuE is transported by the Bacillus subtilis Tat (Twin-arginine translocation) pathway machinery. YkuE belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-dia
5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid)
It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
TMEM62 (transmembrane protein 62) is an uncharacterized Homo sapiens transmembrane protein with an N-terminal metallophosphatase domain. TMEM62 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
>3b4u_A Dihydrodipicolinate synthase; structural genomics, PSI-2, MC protein structure initiative, midwest center for structural genomics; 1.20A {Agrobacterium tumefaciens str}
>2ehh_A DHDPS, dihydrodipicolinate synthase; structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.90A {Aquifex aeolicus}
