Protein Info for PS417_24275 in Pseudomonas simiae WCS417

Annotation: diguanylate phosphodiesterase

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

• TIGR00229: PAS domain S-box protein
  • amino acids 451 to 582 (132 residues), 30.2 bits, E=4.1e-11
  • amino acids 583 to 722 (140 residues), 38.8 bits, E=9.3e-14
  • amino acids 727 to 843 (117 residues), 66.3 bits, E=2.9e-22
• PF13426: PAS_9
  • amino acids 474 to 574 (101 residues), 15.3 bits, E=6.9e-06
  • amino acids 600 to 714 (115 residues), 25.3 bits, E=5.5e-09
  • amino acids 735 to 836 (102 residues), 62.4 bits, E=1.5e-20
• PF08447: PAS_3
  • amino acids 478 to 569 (92 residues), 33.9 bits, 1.1e-11
• PF00989: PAS
  • amino acids 727 to 834 (108 residues), 39.2 bits, E=2.2e-13
• PF13188: PAS_8
  • amino acids 727 to 763 (37 residues), 21.7 bits, see alignment (E = 5.3e-08)
• PF08448: PAS_4
  • amino acids 729 to 838 (110 residues), 34.9 bits, E=5.4e-12
• TIGR00254: diguanylate cyclase (GGDEF) domain
  • amino acids 845 to 1011 (167 residues), 138 bits, E=2.5e-44
• PF00990: GGDEF
  • amino acids 848 to 1009 (162 residues), 167.9 bits, E=5.8e-53
• PF00563: EAL
  • amino acids 1030 to 1264 (235 residues), 260.7 bits, E=4e-81

Best Hits

KEGG orthology group: None (inferred from 96% identity to pfs:PFLU5329)

Predicted SEED Role

"Serine hydroxymethyltransferase (EC 2.1.2.1)" in subsystem Folate Biosynthesis or Glycine Biosynthesis or Glycine and Serine Utilization or LMPTP YwlE cluster or Photorespiration (oxidative C2 cycle) or Serine-glyoxylate cycle or Serine Biosynthesis (EC 2.1.2.1)

MetaCyc Pathways

• folate transformations III (E. coli) (9/9 steps found)
• folate transformations II (plants) (10/11 steps found)
• glycine betaine degradation III (7/7 steps found)
• superpathway of L-serine and glycine biosynthesis I (4/4 steps found)
• dTMP de novo biosynthesis (mitochondrial) (3/3 steps found)
• glycine degradation (3/3 steps found)
• folate polyglutamylation (4/5 steps found)
• glycine biosynthesis I (1/1 steps found)
• glycine betaine degradation I (6/8 steps found)
• folate transformations I (9/13 steps found)
• photorespiration II (6/10 steps found)
• purine nucleobases degradation II (anaerobic) (16/24 steps found)
• photorespiration I (5/9 steps found)
• photorespiration III (5/9 steps found)
• glycine betaine degradation II (mammalian) (1/4 steps found)
• formaldehyde assimilation I (serine pathway) (6/13 steps found)

KEGG Metabolic Maps

• Cyanoamino acid metabolism
• Glycine, serine and threonine metabolism
• Methane metabolism
• One carbon pool by folate

Isozymes

Compare fitness of predicted isozymes for: 2.1.2.1

Use Curated BLAST to search for 2.1.2.1

Sequence Analysis Tools

See A0A1N7UFB8 at UniProt or InterPro

Protein Sequence (1283 amino acids)

>PS417_24275 diguanylate phosphodiesterase (Pseudomonas simiae WCS417)
MSKVTPPTPLRAAHIAPRAPLHGTLKGALATLVLMLLALLFWQLLDQLQQNQKNQQQYTI
DYSADLAEQISLNMALSAKIALNLLPMVEPPRDSEQQQALMRTLQRSLPELRSIALLAPS
GAMISDSAADSQDAAWLAELVQRSRAQSYYLSNSNDGTIIYLLLHQPSGGSRMYWALRLA
PNYLANLTRQDIQGQRPLWVIENRINHRVVSRDSGMPAQWASALTPDELNKSVLVTPLSK
SDWQLRGLFDRTAVLEQLLPAFIGKCLLGLAFSLIPVIVLLNMRRRQRQVHEGRRRYQDI
FEGTGVALCVLDLMGLNAFFDKTRLETREQLHAWLQDHPNERQQLLKELRITEVNQVAVR
LLNVGSCEEAWERLIDDCPRNVTSIGHQIVEAVLTQQHQLELEIQLKDVAGNEQYLWLVM
RLPEQPDDFKAVILSISDITSRKLIELSLVERESFWSDVVRTVPDHLYVQDVISQRMIFS
NHHLGHTLGYNKAELQQMGEYFWEILLHPEDAEHYHDLRQQQRQIGYTTQLQCQLRFRHR
NNQWRRFDIREQALARDKTTQISRIIGVAKDITDQIEASESLRDSEQRYRMLAESISDVI
CSTDSQLALNYISPSVNAVLGYDVDWVFKNGWQSIIANPQQLTGIYSLMEEVSRALGDPE
ALNKLRDEIQTQLFLFDCLRADGRKVPIELRMVLVWDEHGAFEGILGVGRDISQQRRAEK
DLRMAATVFEHSTSAILITDPAGYIVQANEAFSRVSGYAVSDVLDQLPNMLTVDEQQEAH
LRYVLKQLHQHSTWEGEVWLKRRNGEHYPAWVGITAVFDDEGDLASYVCFFSDISERKAS
EQRIHRLAYYDALTHLPNRTLFQDRLHTALQAAERQKSWVVLMFLDLDRFKPINDSLGHA
AGDRMLKEMATRLLGCVAEDDTVARMGGDEFTLLLQPRVNREMALNRAIHVAEQILASLV
KPFVLEGREFFVTASIGIALSPQDGNELSQLMKNADTAMYHAKERGKNNFQFYQADMNAS
ALERLELESDLRHALEQNEFVLYYQPQFSGDGKRLTGAEALLRWRHPRRGLVPPGDFIPV
LEELGLVVDVGDWVISEACRQLKTWHQNKVRVPKVSVNISARQFSDGQLGTRIATILKDT
GLPPACLELELTESILMREVNEAMQILDSLKNLGLSIAVDDFGTGYSSLNYLKQFPIDVL
KIDRTFVDGLPSGEQDAQIARAIIAMAHSLNLAVIAEGVETHEQLDFLREHGCDEVQGYL
FGRPMPANRFEAQFSNDALFMFD