Protein Info for LRK55_RS08950 in Rhodanobacter denitrificans MT42

Annotation: aminomethyl-transferring glycine dehydrogenase

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

• PF02347: GDC-P
  • amino acids 17 to 437 (421 residues), 591 bits, E=1.4e-181
  • amino acids 468 to 726 (259 residues), 45.8 bits, E=4.2e-16
• TIGR00461: glycine dehydrogenase
  • amino acids 17 to 940 (924 residues), 1406.5 bits, E=0
• PF21478: GcvP2_C
  • amino acids 768 to 889 (122 residues), 187.5 bits, E=7.1e-60

Best Hits

Swiss-Prot: 63% identical to GCSP_BORPD: Glycine dehydrogenase (decarboxylating) (gcvP) from Bordetella petrii (strain ATCC BAA-461 / DSM 12804 / CCUG 43448)

KEGG orthology group: K00281, glycine dehydrogenase [EC: 1.4.4.2] (inferred from 59% identity to avr:B565_1479)

MetaCyc: 57% identical to glycine cleavage system P-protein (Synechocystis sp. PCC 6803)
GCVMULTI-RXN [EC: 1.4.1.27]

Predicted SEED Role

"Glycine dehydrogenase [decarboxylating] (glycine cleavage system P protein) (EC 1.4.4.2)" in subsystem Glycine and Serine Utilization or Glycine cleavage system or Photorespiration (oxidative C2 cycle) (EC 1.4.4.2)

MetaCyc Pathways

• folate transformations III (E. coli) (9/9 steps found)
• folate transformations II (plants) (10/11 steps found)
• glycine biosynthesis II (3/3 steps found)
• glycine cleavage (3/3 steps found)
• glycine degradation (3/3 steps found)
• folate transformations I (8/13 steps found)
• photorespiration I (5/9 steps found)
• photorespiration III (5/9 steps found)
• reductive glycine pathway of autotrophic CO₂ fixation (5/9 steps found)
• photorespiration II (5/10 steps found)

KEGG Metabolic Maps

• Glycine, serine and threonine metabolism

Isozymes

Compare fitness of predicted isozymes for: 1.4.4.2

Use Curated BLAST to search for 1.4.1.27 or 1.4.4.2

Protein Sequence (952 amino acids)

>LRK55_RS08950 aminomethyl-transferring glycine dehydrogenase (Rhodanobacter denitrificans MT42)
MPKPSLSELEYDPFSARHIGPDAADIEHMLRAVGHESLGAFADAIVPDTIKWTATLPSTE
GMSETQALSRLRAMAGRNRTFRNFIGQGYYGSHTPAVILRNILENPAWYTAYTPYQAEIS
QGRLEALMNFQQMCTDLTGMDIANASLLDEATAAAEAMTLAKRSARSRSNLFYVADDVHP
QTIDVLRTRADGLGIDLTVGVPHGAMVADCFGVLLQYPNTFGQIHDHHALVQAVHAKGGL
VVVATDLLALTLIRPPGEWGADIAVGNSQRFGVPLGYGGPHAAFMACRDAYKRSMPGRLV
GVSIDAKGKPAYRLTLQTREQHIRREKATSNVCTAQALLAVMSSMFAVYHGPQGLTRVAR
RVHRLSAILARALRGANLTVGDEFFDTVCVTGIDADAIHAEAEAAGINLRHLDSTRLGVS
LDETTTREDVRALASLFRVDVDIDGLDNEPIDALPAQLLRSSAFLGHPVFNSYHSEHELL
RYMRRLADKDLAMDRTMIPLGSCTMKLNATAEMLPVTWPEFAQIHPLAPASQTQGYQEMI
DSLEAMLADITGYDAVSFQPNSGAQGELAGLLAIRAWHRSRGEGHRNVCLIPESAHGTNP
ASAQMAGMKVVVTRCDTRGNVDLDDIRAQAGKHSKSLAAIMLTYPSTHGVFEEDVVDICR
IVHEHGGQVYTDGANLNALVGLARPGLWGSDISHLNLHKTFCVPHGGGGPGVGPCAAKSH
LARFLPRGHATADGSVGAISGAAHGSAGILPISWMYIAMMGSSGMCRASQVAMLAANYIA
RRLAPYFPTLYTGRNGLVAHECILDLRPLEKTTGITAEDVAKRLMDFGFHAPTLSFPVPG
TLMVEPTESESLDELERFIEAMVQIHGEIRAVEKGLLERDDNPLRNAPHTAESVMAETWT
HAYSRELAAFPVSRLRDSKYWPPVARVDNVHGDKNVFCACIPVHAYETSNDA