L-histidine catabolism in Skermanella stibiiresistens SB22

Best path

Ac3H11_2562, Ac3H11_2561, Ac3H11_2560, Ac3H11_2555, Ac3H11_2554, hutH, hutU, hutI, hutF, hutG'

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 (36 with candidates)

Or see definitions of steps

Step	Description	Best candidate	2nd candidate
Ac3H11_2562	L-histidine ABC transporter, substrate-binding component 1	N825_RS21880
Ac3H11_2561	L-histidine ABC transporter, permease component 1	N825_RS21875	N825_RS10015
Ac3H11_2560	L-histidine ABC transporter, ATPase component	N825_RS21870	N825_RS10310
Ac3H11_2555	L-histidine ABC transporter, substrate-binding component 2	N825_RS04010
Ac3H11_2554	ABC transporter for L-Histidine, permease component 2	N825_RS30510	N825_RS00130
hutH	histidine ammonia-lyase	N825_RS17445
hutU	urocanase	N825_RS10960	N825_RS31560
hutI	imidazole-5-propionate hydrolase	N825_RS10950
hutF	N-formiminoglutamate deiminase	N825_RS10945	N825_RS26455
hutG'	N-formylglutamate amidohydrolase	N825_RS10955	N825_RS19610
Alternative steps:
aapJ	L-histidine ABC transporter, substrate-binding component AapJ	N825_RS06465
aapM	L-histidine ABC transporter, permease component 2 (AapM)	N825_RS06455	N825_RS04005
aapP	L-histidine ABC transporter, ATPase component AapP	N825_RS06450	N825_RS33165
aapQ	L-histidine ABC transporter, permease component 1 (AapQ)	N825_RS06460	N825_RS14310
bgtA	L-histidine ABC transporter, ATPase component BgtA	N825_RS00145	N825_RS14315
bgtB	L-histidine ABC transporter, fused substrate-binding and permease components (BgtB/BgtAB)
BPHYT_RS24000	L-histidine ABC transporter, substrate-binding component	N825_RS00140
BPHYT_RS24005	L-histidine ABC transporter, permease component 1	N825_RS00135	N825_RS30515
BPHYT_RS24010	L-histidine ABC transporter, permease component 2	N825_RS00130	N825_RS05905
BPHYT_RS24015	L-histidine ABC transporter, ATPase component	N825_RS00145	N825_RS14315
braC	ABC transporter for glutamate, histidine, arginine, and other amino acids, substrate-binding component BraC	N825_RS03285	N825_RS03725
braD	ABC transporter for glutamate, histidine, arginine, and other amino acids, permease component 1 (BraD)	N825_RS03260	N825_RS16515
braE	ABC transporter for glutamate, histidine, arginine, and other amino acids, permease component 2 (BraE)	N825_RS03265	N825_RS05145
braF	ABC transporter for glutamate, histidine, arginine, and other amino acids, ATPase component 1 (BraF)	N825_RS03270	N825_RS24020
braG	ABC transporter for glutamate, histidine, arginine, and other amino acids, ATPase component 2 (BraG)	N825_RS03275	N825_RS15205
Ga0059261_1577	L-histidine transporter
hisJ	L-histidine ABC transporter, substrate-binding component HisJ	N825_RS00140	N825_RS02255
hisM	L-histidine ABC transporter, permease component 1 (HisM)	N825_RS00130	N825_RS30510
hisP	L-histidine ABC transporter, ATPase component HisP	N825_RS00145	N825_RS06450
hisQ	L-histidine ABC transporter, permease component 2 (HisQ)	N825_RS00135	N825_RS30510
hutG	N-formiminoglutamate formiminohydrolase
hutV	L-histidine ABC transporter, ATPase component HutV	N825_RS02000	N825_RS24150
hutW	L-histidine ABC transporter, permease component HutW	N825_RS02005	N825_RS24140
hutX	L-histidine ABC transporter, substrate-binding component HutX
LAT2	L-histidine transporter
LHT	L-histidine transporter
natA	L-histidine ABC transporter, ATPase component 1 (NatA)	N825_RS24020	N825_RS15200
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)	N825_RS24010	N825_RS21455
natE	L-histidine ABC transporter, ATPase component 2 (NatE)	N825_RS03275	N825_RS26765
PA5503	L-histidine ABC transporter, ATPase component	N825_RS09550	N825_RS14315
PA5504	L-histidine ABC transporter, permease component	N825_RS09555
PA5505	L-histidine ABC transporter, substrate-binding component	N825_RS09560	N825_RS24815
permease	L-histidine permease
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 24 2021. The underlying query database was built on Sep 17 2021.