Protein Info for HMPREF1078_RS02110 in Parabacteroides merdae CL09T00C40

Annotation: transcription-repair coupling factor

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 1119 PF17757: UvrB_inter" amino acids 144 to 230 (87 residues), 71.9 bits, see alignment 1.1e-23 TIGR00580: transcription-repair coupling factor" amino acids 238 to 1044 (807 residues), 910.9 bits, see alignment E=5.6e-278 PF02559: CarD_TRCF_RID" amino acids 431 to 486 (56 residues), 60 bits, see alignment 5.8e-20 PF00270: DEAD" amino acids 557 to 718 (162 residues), 83.5 bits, see alignment E=4.4e-27 PF04851: ResIII" amino acids 557 to 713 (157 residues), 34.9 bits, see alignment E=4.3e-12 PF00271: Helicase_C" amino acids 753 to 861 (109 residues), 64.6 bits, see alignment E=3e-21 PF03461: TRCF" amino acids 973 to 1063 (91 residues), 82.7 bits, see alignment E=5.9e-27

Best Hits

Predicted SEED Role

"Transcription-repair coupling factor" in subsystem DNA-replication or Transcription factors bacterial

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Search 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 (1119 amino acids)

>HMPREF1078_RS02110 transcription-repair coupling factor (Parabacteroides merdae CL09T00C40)
MEVQDLLKQYAAHPQVAALNTLLKNKTSRNIFLKGLNGSGAAMTIASLFSKRRGSYVCVL
NDLEDAGYFYHDLVQLTGGDGIYFFPSAYRRAIKYGHVDPANEILRTEVLSTLQDPTAPF
IIVTYPEALAEKVISREVLKENTLKISVGERLDNMFVSDVLDEYGFEQVDYVYEPGQYAM
RGSILDVFSFSYEFPYRIDFFGNEVETIRSFDVETQLSKEKLDSIYIVPEMTKGNRTNSS
LLDSLPSETLLASKDMAWVKERIGSIWNEEPIIGDEESFANIEQLRAKLITGEDFLHAAL
GFCRLHFGTRPMEVADATLTFSMEAQPIYHKNFDLVSESFHKYLEDGYTLYILSDVEKQA
TRIRAIFEDRGDDIPFTSVNKTIHEGFADETLRVCLFTDHQLFDRFHKFNLKSDKARSGK
LSLSLKELNQFTTGDYIVHIDHGVGQFGGLVRTEVNGKMQEAIRLIYQNNDIIFVSIHSL
HKLSKYKGKDSGEPPKLSKLGTGAWEKMKERTKSKVKDIARDLILLYSKRKQEKGFAYSP
DSFMQHELEASFIYEDTPDQMKATADVKADMENDRPMDRLICGDVGFGKTEVAIRAAFKA
VSDNKQVAVLVPTTVLAFQHYQTFSERLKDFPCRIEYISRARTAKEIRETLKDLKEGNIN
IIIGTHRIVGKDVTFKDLGLLIIDEEQKFGVSVKEKLRQLKANVDTLTMTATPIPRTLQF
SLMGARDLSSITTPPPNRYPVQTEVERFNPDIIREAINFEMSRNGQVFFINNRIQNIYEM
EALVKREVPDARIAVGHGQMEPEKLEKIILDFVNYEYDVLIATSIVESGIDVPNANTIII
NNAQQFGLSDLHQLRGRVGRSNRKAFCYLLSPPLSSLTQEARRRLQAIENFSELGSGIHI
AMQDLDIRGAGNMLGAEQSGFIADLGYETYQKILEEAVDELKAEEFADLYSNATENRPDT
GSEYVRETYIESDLELMFPPTYIPNDSERVSLYRELDKMEEERDILAFTERLKDRFGKVP
KEGKELIRVVRLRRMAKTLGMEKVILKKGQMSIFLVTNPESPYYESEAFDKLLGFIQKHP
RECTLREQNGKRSIVIKNVPTVEVACNYLDEIGKVQIQK