L-histidine catabolism in Paraburkholderia bryophila 376MFSha3.1

Best path

BPHYT_RS24000, BPHYT_RS24005, BPHYT_RS24010, BPHYT_RS24015, 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 (36 with candidates)

Or see definitions of steps

Step	Description	Best candidate	2nd candidate
BPHYT_RS24000	L-histidine ABC transporter, substrate-binding component	H281DRAFT_05290	H281DRAFT_01522
BPHYT_RS24005	L-histidine ABC transporter, permease component 1	H281DRAFT_05291	H281DRAFT_06474
BPHYT_RS24010	L-histidine ABC transporter, permease component 2	H281DRAFT_05292	H281DRAFT_05299
BPHYT_RS24015	L-histidine ABC transporter, ATPase component	H281DRAFT_05293	H281DRAFT_00221
hutH	histidine ammonia-lyase	H281DRAFT_04873	H281DRAFT_05294
hutU	urocanase	H281DRAFT_04871
hutI	imidazole-5-propionate hydrolase	H281DRAFT_04869
hutF	N-formiminoglutamate deiminase	H281DRAFT_04868
hutG'	N-formylglutamate amidohydrolase	H281DRAFT_04867
Alternative steps:
aapJ	L-histidine ABC transporter, substrate-binding component AapJ
aapM	L-histidine ABC transporter, permease component 2 (AapM)	H281DRAFT_05402	H281DRAFT_04268
aapP	L-histidine ABC transporter, ATPase component AapP	H281DRAFT_04267	H281DRAFT_02565
aapQ	L-histidine ABC transporter, permease component 1 (AapQ)	H281DRAFT_02572	H281DRAFT_03349
Ac3H11_2554	ABC transporter for L-Histidine, permease component 2	H281DRAFT_03349	H281DRAFT_00383
Ac3H11_2555	L-histidine ABC transporter, substrate-binding component 2	H281DRAFT_03350	H281DRAFT_02615
Ac3H11_2560	L-histidine ABC transporter, ATPase component	H281DRAFT_00837	H281DRAFT_00233
Ac3H11_2561	L-histidine ABC transporter, permease component 1
Ac3H11_2562	L-histidine ABC transporter, substrate-binding component 1
bgtA	L-histidine ABC transporter, ATPase component BgtA	H281DRAFT_00221	H281DRAFT_03348
bgtB	L-histidine ABC transporter, fused substrate-binding and permease components (BgtB/BgtAB)
braC	ABC transporter for glutamate, histidine, arginine, and other amino acids, substrate-binding component BraC	H281DRAFT_02405	H281DRAFT_01194
braD	ABC transporter for glutamate, histidine, arginine, and other amino acids, permease component 1 (BraD)	H281DRAFT_04062	H281DRAFT_02378
braE	ABC transporter for glutamate, histidine, arginine, and other amino acids, permease component 2 (BraE)	H281DRAFT_04061	H281DRAFT_05513
braF	ABC transporter for glutamate, histidine, arginine, and other amino acids, ATPase component 1 (BraF)	H281DRAFT_04060	H281DRAFT_02383
braG	ABC transporter for glutamate, histidine, arginine, and other amino acids, ATPase component 2 (BraG)	H281DRAFT_04059	H281DRAFT_02384
Ga0059261_1577	L-histidine transporter	H281DRAFT_02180
hisJ	L-histidine ABC transporter, substrate-binding component HisJ	H281DRAFT_00224	H281DRAFT_01522
hisM	L-histidine ABC transporter, permease component 1 (HisM)	H281DRAFT_00222	H281DRAFT_06475
hisP	L-histidine ABC transporter, ATPase component HisP	H281DRAFT_05293	H281DRAFT_06476
hisQ	L-histidine ABC transporter, permease component 2 (HisQ)	H281DRAFT_06474	H281DRAFT_00223
hutG	N-formiminoglutamate formiminohydrolase	H281DRAFT_03347
hutV	L-histidine ABC transporter, ATPase component HutV	H281DRAFT_00987	H281DRAFT_02450
hutW	L-histidine ABC transporter, permease component HutW	H281DRAFT_02451	H281DRAFT_00988
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)	H281DRAFT_04060	H281DRAFT_02383
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)	H281DRAFT_04062	H281DRAFT_06397
natE	L-histidine ABC transporter, ATPase component 2 (NatE)	H281DRAFT_02384	H281DRAFT_04059
PA5503	L-histidine ABC transporter, ATPase component	H281DRAFT_03906	H281DRAFT_03194
PA5504	L-histidine ABC transporter, permease component	H281DRAFT_03195	H281DRAFT_03905
PA5505	L-histidine ABC transporter, substrate-binding component	H281DRAFT_03904	H281DRAFT_01982
permease	L-histidine permease	H281DRAFT_04042	H281DRAFT_01668
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.