Protein Info for LRK55_RS11520 in Rhodanobacter denitrificans MT42

Annotation: bifunctional (p)ppGpp synthetase/guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase

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 50 100 150 200 250 300 350 400 450 500 550 600 650 721 transmembrane" amino acids 277 to 297 (21 residues), see Phobius details PF13328: HD_4" amino acids 40 to 189 (150 residues), 177.6 bits, see alignment E=5.4e-56 TIGR00691: RelA/SpoT family protein" amino acids 40 to 710 (671 residues), 757 bits, see alignment E=9.6e-232 PF01966: HD" amino acids 59 to 158 (100 residues), 40.5 bits, see alignment E=1.1e-13 PF04607: RelA_SpoT" amino acids 249 to 358 (110 residues), 133.2 bits, see alignment E=1.7e-42 PF02824: TGS" amino acids 402 to 461 (60 residues), 62.9 bits, see alignment 8.2e-21 PF19296: RelA_AH_RIS" amino acids 473 to 561 (89 residues), 31.4 bits, see alignment E=7.2e-11 PF13291: ACT_4" amino acids 642 to 718 (77 residues), 54.8 bits, see alignment E=4.4e-18 PF01842: ACT" amino acids 648 to 709 (62 residues), 27.7 bits, see alignment 6.7e-10

Best Hits

Swiss-Prot: 52% identical to SPOT_VIBCH: Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (spoT) from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

KEGG orthology group: K01139, guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase [EC: 3.1.7.2] (inferred from 65% identity to xac:XAC3393)

Predicted SEED Role

"GTP pyrophosphokinase (EC 2.7.6.5), (p)ppGpp synthetase II / Guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (EC 3.1.7.2)" in subsystem Stringent Response, (p)ppGpp metabolism (EC 2.7.6.5, EC 3.1.7.2)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.7.6.5

Use Curated BLAST to search for 2.7.6.5 or 3.1.7.2

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 (721 amino acids)

>LRK55_RS11520 bifunctional (p)ppGpp synthetase/guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (Rhodanobacter denitrificans MT42)
MTAATPSATVDLSALPPYALALKERIAYLPEAQIDRVLRAFQLGAQAHAGQERKSGEPYI
THPVAVAGILAELGLDAETIIAAILHDTLEDTELSRETLATEFGEVVAELVDGVTKLDKM
RFGSRQEADAESFRKMLLAMARDIRVILIKLADRLHNMRTLGAKDAPSRRRIARETLEIF
APIAQRLGMNKFKAELQDLGFRALYPDRYRVISERIRAALGNRREAMGKIEAALSARLAA
DHLPARVVGRIKSPWSIYSKMRNDHKSFAQLMDVYGFRVVVDSAMSCYMALGVVHALYKP
VDRRFKDFIAIPKANGYQSLHTVLLGPFGAPIEVQIRTAEMDSVAERGVAAHWAYKTDSG
PANSAQARAREWLSSLVDSSASTVSSSEFIENVKIDLFPDEVYLFTPRGDILSLPRNATA
LDFAYAVHTDVGDHAVAARVDKKLLPLRAKLESGQLVEIITAPSAVPNPAWLEVVVTGKA
RTAIRQYLKHLQHEDAVDFGHRMLDRALDAQGSSLDGIPPAVLDRFLETSKLKRLEELLS
DIALGNRMPDVVASQLLASRGRKAGKPQASAHAHEKIRITGAERGVLSFANCCHPLPGDE
IIGYLSSGKGIVVHREECPNVVELRKSPERCVAIEWDRDVQGDYRAELRIEVINRPGVLA
TVAAAIAAADSNIENVEYVERDAAAATLLFAMEVKSRKHLADVIRRVRRTGVVSGAYRYP
L