Protein Info for GFF2911 in Sphingobium sp. HT1-2

Annotation: DNA-directed RNA polymerase beta subunit (EC 2.7.7.6)

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 1385 TIGR02013: DNA-directed RNA polymerase, beta subunit" amino acids 14 to 1369 (1356 residues), 1914.5 bits, see alignment E=0 PF04563: RNA_pol_Rpb2_1" amino acids 33 to 509 (477 residues), 87.9 bits, see alignment E=2.1e-28 PF04561: RNA_pol_Rpb2_2" amino acids 161 to 232 (72 residues), 27.5 bits, see alignment 7.4e-10 amino acids 361 to 466 (106 residues), 68.5 bits, see alignment 1.9e-22 PF04565: RNA_pol_Rpb2_3" amino acids 525 to 593 (69 residues), 106.9 bits, see alignment 1.5e-34 PF10385: RNA_pol_Rpb2_45" amino acids 603 to 668 (66 residues), 88.8 bits, see alignment 5.8e-29 PF00562: RNA_pol_Rpb2_6" amino acids 730 to 1294 (565 residues), 450.9 bits, see alignment E=1.2e-138 PF04560: RNA_pol_Rpb2_7" amino acids 1296 to 1370 (75 residues), 97.2 bits, see alignment 1.9e-31

Best Hits

Predicted SEED Role

"DNA-directed RNA polymerase beta subunit (EC 2.7.7.6)" in subsystem RNA polymerase bacterial (EC 2.7.7.6)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.7.7.6

Use Curated BLAST to search for 2.7.7.6

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 (1385 amino acids)

>GFF2911 DNA-directed RNA polymerase beta subunit (EC 2.7.7.6) (Sphingobium sp. HT1-2)
MATKALPTINTGAKKRIRKVFGDIHEVVQMPNLIEVQRESYEQFLRSNPAIGYVSGLEKT
LRSVFPIRDFAGTAEMDFVHYELEDPKFDVEECRQRGITYAAPMRVTLRLIVFEVDADTE
TRSVLDIKEQDVYMGDMPLMTQNGTFIVNGTERVIVSQMHRSPGVLFDHDRGKTHSSGKY
LFAARVIPYRGSWLDFEFDAKDIVNVRIDRKRKLPVTALLYALGLTAEEILGQFYNKVTF
VRGEGGWQIPYTAEAWRGLKPAFDIVDAKSGEVVFAAGHKISPRAANKAEKDGLATLLIP
TEEVYGRYSAYDLINEKTGEIYIEAGDEVSPENLEKLDKAGIDRLELLDIDHVTTGPWIR
NTLKADKAEERDQALSDIYRVMRPGEPPTKETAEALFAGLFFDPERYDLSAVGRVKMNMR
LDLDAEDTVTTLRVEDILAVVKELVNLKDGKGEIDDIDNLGNRRVRSVGELLENQYRVGL
LRMERAVKERMSSVDVSTVMPNDLINAKPAVAAVREFFGSSQLSQFMDQTNPLSEVTHKR
RVSALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATFSRVNKYGFIE
TPYRKVIDGKVTNDVVYLSAMEEAKHTIAQANAETNADGTLAEDLISAREAGEFLMAPRD
NITLMDVSPKQLVSVAASLIPFLENDDANRALMGSNMQRQAVPLVRAEAPFVGTGMEGTV
ARDSGAAIAAKRAGIIDQVDATRIVIRATGDVEPGQSGVDIYTLQKFQRSNQDTCINQRP
LVKVGELVQAGDVIADGPSTEFGELALGRNVLVAFMPWNGYNYEDSILISERIVKDDVFT
SIHIEEFEVMARDTKLGPEDITRDIPNVGEEALRNLDEAGIVYIGAEVEPGDILVGKITP
KGESPMTPEEKLLRAIFGEKASDVRDTSLRLPPGVAGTVVEVRVFNRHGIDKDERAMAIE
REEIDRLAKDREDERGILNRATFNRLQEMLIGQTATAAPKGVKKGVVIDEALLGEVERHE
WWKFAVEDDVRQTGIEAVKAQYDEAVKLIVEKFEDRVDKLQRGDELPPGVLKMVKVFVAV
KRKLQPGDKMAGRHGNKGIISRILPAEDMPFLEDGTPVDFVLNPLGVPSRMNVGQIFETH
LGWAARGLGAQIGQALDAWREANPNPEAGQPPEAVKELLKTIYGDNYVAEIEARSPEQIV
ELAQNVRAGVPMATPVFDGAVESDVSAMLKLAGLDESGQVSLFDGRTGDVFDRKVTVGYK
YVLKLHHLVDDKIHARSIGPYSLVTQQPLGGKAQFGGQRFGEMEVWALQAYGAAYTLQEM
LTVKSDDVVGRTKVYEAIVKGDDTFEAGIPESFNVLVKEMRSLGLNVELAAMDEIDDDGM
AAAAE