L-histidine catabolism in Pseudomonas fluorescens GW456-L13

Best path

hisP, hisM, hisQ, hisJ, hutH, hutU, hutI, hutF, hutG'

Also see fitness data for the top candidates

Rules

Overview: Histidine utilization in GapMind is based on MetaCyc pathways L-histidine degradation I (link) or II (link). These pathways are very similar. Other pathways in MetaCyc (III-VI) are not complete or are not reported in prokaryotes, so they are not included.

• all:
  • histidine-transport, hutH, hutU, hutI and hutG
  • or histidine-transport, hutH, hutU, hutI, hutH, hutF and hutG'
  • Comment: In pathway I, hutH deaminates histidine to urocanate, hutU hydrates it to 4-imidazolone-5-propanoate, hutI hydrolyzes it to N-formiminoglutamate, and hutG hydrolyzes it to formamide and glutamate. Formamide can be cleaved to formate and ammonia, but it could also be secreted, so this is not described. Similarly, formate may be oxidized to CO2 or secreted. Pathway II also involves conversion to N-formiminoglutamate, but then it is deaminated to N-formylglutamate by hutF, and hydrolyzed to formate and glutamate by hutG'.
• histidine-transport:
  • hisP, hisM, hisQ and hisJ
  • or PA5503, PA5504 and PA5505
  • or Ac3H11_2562, Ac3H11_2561, Ac3H11_2560, Ac3H11_2555 and Ac3H11_2554
  • or natA, natB, natC, natD and natE
  • or aapJ, aapQ, aapM and aapP
  • or braC, braD, braE, braF and braG
  • or hutV, hutW and hutX
  • or bgtA and bgtB
  • or BPHYT_RS24000, BPHYT_RS24005, BPHYT_RS24010 and BPHYT_RS24015
  • or permease
  • or Ga0059261_1577
  • or S15A3
  • or LAT2
  • or LHT
  • or SLC38A3
  • or PTR2
  • Comment: Transporters were identified using query: transporter:histidine:L-histidine:his

48 steps (37 with candidates)

Or see definitions of steps

Step	Description	Best candidate	2nd candidate
hisP	L-histidine ABC transporter, ATPase component HisP	PfGW456L13_376	PfGW456L13_1967
hisM	L-histidine ABC transporter, permease component 1 (HisM)	PfGW456L13_379	PfGW456L13_385
hisQ	L-histidine ABC transporter, permease component 2 (HisQ)	PfGW456L13_378	PfGW456L13_4636
hisJ	L-histidine ABC transporter, substrate-binding component HisJ	PfGW456L13_377	PfGW456L13_1692
hutH	histidine ammonia-lyase	PfGW456L13_320	PfGW456L13_321
hutU	urocanase	PfGW456L13_326
hutI	imidazole-5-propionate hydrolase	PfGW456L13_317
hutF	N-formiminoglutamate deiminase	PfGW456L13_330
hutG'	N-formylglutamate amidohydrolase	PfGW456L13_316
Alternative steps:
aapJ	L-histidine ABC transporter, substrate-binding component AapJ	PfGW456L13_1698
aapM	L-histidine ABC transporter, permease component 2 (AapM)	PfGW456L13_1700	PfGW456L13_4772
aapP	L-histidine ABC transporter, ATPase component AapP	PfGW456L13_1701	PfGW456L13_4773
aapQ	L-histidine ABC transporter, permease component 1 (AapQ)	PfGW456L13_1699
Ac3H11_2554	ABC transporter for L-Histidine, permease component 2	PfGW456L13_445	PfGW456L13_3607
Ac3H11_2555	L-histidine ABC transporter, substrate-binding component 2	PfGW456L13_444	PfGW456L13_1692
Ac3H11_2560	L-histidine ABC transporter, ATPase component	PfGW456L13_1401	PfGW456L13_2816
Ac3H11_2561	L-histidine ABC transporter, permease component 1	PfGW456L13_1400	PfGW456L13_433
Ac3H11_2562	L-histidine ABC transporter, substrate-binding component 1
bgtA	L-histidine ABC transporter, ATPase component BgtA	PfGW456L13_4639	PfGW456L13_386
bgtB	L-histidine ABC transporter, fused substrate-binding and permease components (BgtB/BgtAB)
BPHYT_RS24000	L-histidine ABC transporter, substrate-binding component	PfGW456L13_3699	PfGW456L13_377
BPHYT_RS24005	L-histidine ABC transporter, permease component 1	PfGW456L13_384	PfGW456L13_378
BPHYT_RS24010	L-histidine ABC transporter, permease component 2	PfGW456L13_1966	PfGW456L13_379
BPHYT_RS24015	L-histidine ABC transporter, ATPase component	PfGW456L13_376	PfGW456L13_1967
braC	ABC transporter for glutamate, histidine, arginine, and other amino acids, substrate-binding component BraC	PfGW456L13_124	PfGW456L13_4606
braD	ABC transporter for glutamate, histidine, arginine, and other amino acids, permease component 1 (BraD)	PfGW456L13_123	PfGW456L13_4608
braE	ABC transporter for glutamate, histidine, arginine, and other amino acids, permease component 2 (BraE)	PfGW456L13_4609	PfGW456L13_122
braF	ABC transporter for glutamate, histidine, arginine, and other amino acids, ATPase component 1 (BraF)	PfGW456L13_121	PfGW456L13_4610
braG	ABC transporter for glutamate, histidine, arginine, and other amino acids, ATPase component 2 (BraG)	PfGW456L13_120	PfGW456L13_4611
Ga0059261_1577	L-histidine transporter
hutG	N-formiminoglutamate formiminohydrolase
hutV	L-histidine ABC transporter, ATPase component HutV	PfGW456L13_322	PfGW456L13_3150
hutW	L-histidine ABC transporter, permease component HutW	PfGW456L13_323	PfGW456L13_1087
hutX	L-histidine ABC transporter, substrate-binding component HutX	PfGW456L13_324	PfGW456L13_3631
LAT2	L-histidine transporter
LHT	L-histidine transporter
natA	L-histidine ABC transporter, ATPase component 1 (NatA)	PfGW456L13_4610	PfGW456L13_84
natB	L-histidine ABC transporter, substrate-binding component NatB
natC	L-histidine ABC transporter, permease component 1 (NatC)
natD	L-histidine ABC transporter, permease component 2 (NatD)	PfGW456L13_4608
natE	L-histidine ABC transporter, ATPase component 2 (NatE)	PfGW456L13_4611	PfGW456L13_120
PA5503	L-histidine ABC transporter, ATPase component	PfGW456L13_602	PfGW456L13_453
PA5504	L-histidine ABC transporter, permease component	PfGW456L13_603	PfGW456L13_454
PA5505	L-histidine ABC transporter, substrate-binding component	PfGW456L13_604	PfGW456L13_464
permease	L-histidine permease	PfGW456L13_318	PfGW456L13_4790
PTR2	L-histidine:H+ symporter
S15A3	L-histidine transporter
SLC38A3	L-histidine:Na+ symporter

Confidence: high confidence medium confidence low confidence
transporter – transporters and PTS systems are shaded because predicting their specificity is particularly challenging.

This GapMind analysis is from Sep 17 2021. The underlying query database was built on Sep 17 2021.