Protein Info for GFF4953 in Variovorax sp. SCN45

Annotation: Beta-galactosidase (EC 3.2.1.23)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 100 200 300 400 500 600 700 800 900 1000 1100 1200 1300 1400 1500 1570 signal peptide" amino acids 1 to 25 (25 residues), see Phobius details PF13205: Big_5" amino acids 433 to 537 (105 residues), 68.8 bits, see alignment 2.8e-22 PF13385: Laminin_G_3" amino acids 595 to 738 (144 residues), 65.8 bits, see alignment E=2.2e-21 PF00801: PKD" amino acids 770 to 818 (49 residues), 44.6 bits, see alignment (E = 5.4e-15) PF18911: PKD_4" amino acids 774 to 819 (46 residues), 40.8 bits, see alignment (E = 8.6e-14) PF00652: Ricin_B_lectin" amino acids 1440 to 1566 (127 residues), 64.7 bits, see alignment E=4.4e-21 PF14200: RicinB_lectin_2" amino acids 1449 to 1513 (65 residues), 35.3 bits, see alignment (E = 6.9e-12) amino acids 1523 to 1567 (45 residues), 30.4 bits, see alignment (E = 2.3e-10)

Best Hits

KEGG orthology group: None (inferred from 88% identity to vpe:Varpa_0387)

Predicted SEED Role

"Beta-galactosidase (EC 3.2.1.23)" in subsystem Galactosylceramide and Sulfatide metabolism or Lactose and Galactose Uptake and Utilization or Lactose utilization (EC 3.2.1.23)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

No predicted isozymes

Use Curated BLAST to search for 3.2.1.23

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

Find the best match in UniProt

Protein Sequence (1570 amino acids)

>GFF4953 Beta-galactosidase (EC 3.2.1.23) (Variovorax sp. SCN45)
MRIRYYLMAFLLPFVTLLTHAALTGVSPVTTLNNMAAAVSAAVADPLPLQGPGLGNLTYT
SAELFKPVSMITSAAHPLDPAHSNAYESREVPATYPGRKDYGMNAGIMINGYFLTSFAPD
SGLGPGGFLLYDVSNPRQIQLVKKIYEPEGRTKEFRETHSFGTAKIAGKTYVVLPSINGV
EFWDFTDINDVKQIKKLALPGVSGGDYENVAWQLWWQAPYLYVASAGRGVFIVDATDPAN
AVIANRGAGKPNPVPTGELGGFRIGPIFTMGNHMVLTAMESNGGFASLDISDPLNPKVLD
SIVGTTPFYYATCFDGRNLHVSTRNSGAKMYSYDLSDRSRFVAEDNRLVIDEQLYCATQD
NYVIQGAQTRIHKVDVSNPLNHVEVGRGSILREDDPNFSHSDNGQVAMFGNLVFVGNDHG
SGSGFIVHSVDPDTTKPEVKQVSPASGAKQQALTSRIGLGMTDNIRPESVNANTFIVRPV
GGNTLAGTYSVQLGIINFSPDQPLQPGTSYEVFLPANGVKDYAGNAIAADYKSVFHTGNA
SDISLMHHWTLAGSLSDQIGANNGTPATGDAFESIGLNFANRTAGVPLKNDSVATVLGGT
ASLSFYMKTTQAGAANSWTAPGIFGRDQSGGADDVFWGWLDGSGRIKLSVGNDAGTASSA
AVNDGNWHHVVLTRDAASGAQAVYVDGVKTTSAGLTGTKGLANKFQLLGQIQGNAALFKG
TLAEVRVYGRVLSDADVATLRGQAVIGDPGIGGGPKLVNGQLVFNPATLGASGAQYRWNF
GNGTQTSFSNQPNYTYTYTTPGHYTVTLTVRDAQGRETYYTYNLTVIAPVTARAPTHTTN
IAGDANSVYSVNPDSGTVAAIDAQTLAKRWETRVGDEPKTLAVGPDGRIWVPVHGEDKLV
ALNPADGTVSATVALAYGSGPYGVVFTPDGGRGLLTLESRSVLMSFDPANGNTTGAVALE
GDLRGIAVAADSQVAYVTRFKSKMTGNQLHKVNLQSMSGMGAIALPVDTTTVDTESRARG
VANYTAQVVISPDGTRAVLPSKKDNIVRGKFRDGTNLVHDQTVRSILSQVDLQAAAHKFD
EQIDFDDRAPARAALFSPAGDYIFVAQMEGNRVAIVDTYSRSIRGEINASSAPHGLYLDA
ARKRLFVNNFLARSVSVHDVASVLSSETNAPSFLQNVQTVAVEPLAAAALRGKQVFYNAS
DRRMSKDNYLSCASCHADGGDDGMVWDFTQRGEGLRRTISLQGRRGTGHGKLHWTANFDE
VQDFENDIRNEFGGTGFLSNADFAATSDPLGAPKAGKNAQLDDMAAYLNSLSKFMRSPAR
NADGSLSADAVRGQTLFNTTAQCATCHSGGTFRDGLRHDVGTIQASSGKGSNQPLAGVGF
DTPTLSGTWNTTAFFHNGQAATLQDVLASGHGNASSLPPNDVVALREYVRSLDTAPAVVT
RIRSDLNPTMCVNIKGALNTSGTTAVQWPCGNANNEKFTITTLTGGYVQFVAEHSGLCLA
QNGTATTNAPVVQLACSAGNTTQWNVIGSTIRNRASGSCLDIPNSATAQDTALITWTCNG
GNNQNWTQMP