Summary of Achromobacter xylosoxidans HMSC15D03, version 29.0

Tier 3 Uncurated Organism Database

Database Authors

Pallavi Subhraveti¹, Peter Midford¹, Anamika Kothari¹, Ron Caspi¹, Peter D Karp¹

Summary

This Pathway/Genome Database (PGDB) was generated on 01-June-2022 from the annotated genome of Achromobacter xylosoxidans HMSC15D03, as obtained from RefSeq (see the RefSeq entry for the authors of the original genome sequence). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 26.0) [Karp16, Karp11] using MetaCyc version 26.0 [Caspi20]. It has not undergone any manual curation or review, and may contain errors. Development of this PGDB was supported by grant GM080746 from the National Institutes of Health.

Genome

Contig	Total Genes	Protein Genes	RNA Genes	Pseudogenes	Size (bp)	NCBI Link
NZ_KV787627	185	179	0	6	208,733	RefSeq:NZ_KV787627
NZ_KV787595	142	140	2	0	158,856	RefSeq:NZ_KV787595
NZ_KV787790	143	143	0	0	146,744	RefSeq:NZ_KV787790
NZ_KV787603	153	142	2	9	145,440	RefSeq:NZ_KV787603
NZ_KV787667	134	131	0	3	141,925	RefSeq:NZ_KV787667
NZ_KV787651	84	83	0	1	90,214	RefSeq:NZ_KV787651
NZ_KV787509	74	72	0	2	89,101	RefSeq:NZ_KV787509
NZ_KV787772	82	82	0	0	88,590	RefSeq:NZ_KV787772
NZ_KV787589	82	77	3	2	88,226	RefSeq:NZ_KV787589
NZ_KV787565	104	100	2	2	87,311	RefSeq:NZ_KV787565
NZ_KV787567	69	68	0	1	82,251	RefSeq:NZ_KV787567
NZ_KV787777	79	78	1	0	79,205	RefSeq:NZ_KV787777
NZ_KV787787	66	58	1	7	72,034	RefSeq:NZ_KV787787
NZ_KV787676	70	68	0	2	71,942	RefSeq:NZ_KV787676
NZ_KV787519	75	73	2	0	70,668	RefSeq:NZ_KV787519
NZ_KV787776	63	61	1	1	70,551	RefSeq:NZ_KV787776
NZ_KV787552	58	54	1	3	69,267	RefSeq:NZ_KV787552
NZ_KV787594	65	64	1	0	69,171	RefSeq:NZ_KV787594
NZ_KV787536	59	56	1	2	68,530	RefSeq:NZ_KV787536
NZ_KV787775	60	57	2	1	67,524	RefSeq:NZ_KV787775
NZ_KV787658	67	61	0	6	67,051	RefSeq:NZ_KV787658
NZ_KV787759	65	65	0	0	63,916	RefSeq:NZ_KV787759
NZ_KV787568	50	50	0	0	58,619	RefSeq:NZ_KV787568
NZ_KV787645	52	49	2	1	57,602	RefSeq:NZ_KV787645
NZ_KV787550	42	40	0	2	53,607	RefSeq:NZ_KV787550
NZ_KV787613	49	44	3	2	53,038	RefSeq:NZ_KV787613
NZ_KV787655	50	50	0	0	52,569	RefSeq:NZ_KV787655
NZ_KV787572	44	42	0	2	51,011	RefSeq:NZ_KV787572
NZ_KV787666	48	46	0	2	50,357	RefSeq:NZ_KV787666
NZ_KV787636	44	44	0	0	49,721	RefSeq:NZ_KV787636
NZ_KV787628	41	40	0	1	47,216	RefSeq:NZ_KV787628
NZ_KV787521	45	44	0	1	47,124	RefSeq:NZ_KV787521
NZ_KV787807	42	41	0	1	45,213	RefSeq:NZ_KV787807
NZ_KV787800	42	42	0	0	44,641	RefSeq:NZ_KV787800
NZ_KV787531	38	36	0	2	43,474	RefSeq:NZ_KV787531
NZ_KV787740	34	34	0	0	42,907	RefSeq:NZ_KV787740
NZ_KV787517	38	38	0	0	41,331	RefSeq:NZ_KV787517
NZ_KV787668	34	32	1	1	41,130	RefSeq:NZ_KV787668
NZ_KV787697	44	44	0	0	40,053	RefSeq:NZ_KV787697
NZ_KV787625	40	37	1	2	39,516	RefSeq:NZ_KV787625
NZ_KV787522	39	38	0	1	39,365	RefSeq:NZ_KV787522
NZ_KV787699	37	37	0	0	39,346	RefSeq:NZ_KV787699
NZ_KV787808	35	35	0	0	39,124	RefSeq:NZ_KV787808
NZ_KV787526	35	34	0	1	38,906	RefSeq:NZ_KV787526
NZ_KV787564	33	33	0	0	38,892	RefSeq:NZ_KV787564
NZ_KV787461	29	27	0	2	38,702	RefSeq:NZ_KV787461
NZ_KV787741	34	32	0	2	37,982	RefSeq:NZ_KV787741
NZ_KV787707	33	32	1	0	37,701	RefSeq:NZ_KV787707
NZ_KV787656	37	37	0	0	37,136	RefSeq:NZ_KV787656
NZ_KV787722	36	35	0	1	37,050	RefSeq:NZ_KV787722
NZ_KV787806	24	24	0	0	36,918	RefSeq:NZ_KV787806
NZ_KV787685	28	28	0	0	36,762	RefSeq:NZ_KV787685
NZ_KV787498	34	34	0	0	36,404	RefSeq:NZ_KV787498
NZ_KV787465	36	36	0	0	36,256	RefSeq:NZ_KV787465
NZ_KV787630	28	27	1	0	36,197	RefSeq:NZ_KV787630
NZ_KV787537	27	26	0	1	35,697	RefSeq:NZ_KV787537
NZ_KV787810	32	31	0	1	35,403	RefSeq:NZ_KV787810
NZ_KV787802	17	17	0	0	34,225	RefSeq:NZ_KV787802
NZ_KV787653	31	31	0	0	33,601	RefSeq:NZ_KV787653
NZ_KV787580	31	31	0	0	33,102	RefSeq:NZ_KV787580
NZ_KV787704	29	29	0	0	33,044	RefSeq:NZ_KV787704
NZ_KV787529	30	29	0	1	33,020	RefSeq:NZ_KV787529
NZ_KV787647	29	29	0	0	32,285	RefSeq:NZ_KV787647
NZ_KV787539	38	38	0	0	32,019	RefSeq:NZ_KV787539
NZ_KV787523	33	31	1	1	31,836	RefSeq:NZ_KV787523
NZ_KV787489	31	30	1	0	31,460	RefSeq:NZ_KV787489
NZ_KV787774	35	35	0	0	30,034	RefSeq:NZ_KV787774
NZ_KV787739	29	29	0	0	29,856	RefSeq:NZ_KV787739
NZ_KV787624	24	24	0	0	29,561	RefSeq:NZ_KV787624
NZ_KV787530	29	27	0	2	29,261	RefSeq:NZ_KV787530
NZ_KV787698	29	26	1	2	29,154	RefSeq:NZ_KV787698
NZ_KV787713	30	27	0	3	29,017	RefSeq:NZ_KV787713
NZ_KV787705	28	26	0	2	28,818	RefSeq:NZ_KV787705
NZ_KV787744	19	19	0	0	28,260	RefSeq:NZ_KV787744
NZ_KV787544	31	31	0	0	28,258	RefSeq:NZ_KV787544
NZ_KV787510	35	34	1	0	28,205	RefSeq:NZ_KV787510
NZ_KV787608	23	23	0	0	27,475	RefSeq:NZ_KV787608
NZ_KV787642	26	26	0	0	27,085	RefSeq:NZ_KV787642
NZ_KV787692	23	22	0	1	25,389	RefSeq:NZ_KV787692
NZ_KV787511	20	20	0	0	25,022	RefSeq:NZ_KV787511
NZ_KV787803	17	17	0	0	24,588	RefSeq:NZ_KV787803
NZ_KV787549	25	24	1	0	24,044	RefSeq:NZ_KV787549
NZ_KV787468	26	26	0	0	23,844	RefSeq:NZ_KV787468
NZ_KV787609	23	23	0	0	23,778	RefSeq:NZ_KV787609
NZ_KV787600	27	25	1	1	23,680	RefSeq:NZ_KV787600
NZ_KV787547	22	21	0	1	23,676	RefSeq:NZ_KV787547
NZ_KV787749	24	23	0	1	23,451	RefSeq:NZ_KV787749
NZ_KV787525	21	21	0	0	22,594	RefSeq:NZ_KV787525
NZ_KV787629	16	16	0	0	22,547	RefSeq:NZ_KV787629
NZ_KV787670	22	21	0	1	22,348	RefSeq:NZ_KV787670
NZ_KV787696	18	15	0	3	22,327	RefSeq:NZ_KV787696
NZ_KV787661	16	16	0	0	22,225	RefSeq:NZ_KV787661
NZ_KV787725	17	15	2	0	22,204	RefSeq:NZ_KV787725
NZ_KV787784	19	19	0	0	21,766	RefSeq:NZ_KV787784
NZ_KV787515	17	17	0	0	21,682	RefSeq:NZ_KV787515
NZ_KV787478	21	21	0	0	21,623	RefSeq:NZ_KV787478
NZ_KV787566	16	16	0	0	21,359	RefSeq:NZ_KV787566
NZ_KV787795	21	21	0	0	21,335	RefSeq:NZ_KV787795
NZ_KV787716	21	20	0	1	21,326	RefSeq:NZ_KV787716
NZ_KV787791	16	16	0	0	20,993	RefSeq:NZ_KV787791
NZ_KV787543	21	21	0	0	20,702	RefSeq:NZ_KV787543
NZ_KV787662	17	16	0	1	20,360	RefSeq:NZ_KV787662
NZ_KV787502	19	18	0	1	20,307	RefSeq:NZ_KV787502
NZ_KV787635	21	21	0	0	20,225	RefSeq:NZ_KV787635
NZ_KV787730	20	20	0	0	20,028	RefSeq:NZ_KV787730
NZ_KV787799	13	13	0	0	19,949	RefSeq:NZ_KV787799
NZ_KV787546	16	16	0	0	19,616	RefSeq:NZ_KV787546
NZ_KV787593	17	14	2	1	19,419	RefSeq:NZ_KV787593
NZ_KV787757	16	16	0	0	19,298	RefSeq:NZ_KV787757
NZ_KV787456	18	17	0	1	19,132	RefSeq:NZ_KV787456
NZ_KV787618	17	16	0	1	18,421	RefSeq:NZ_KV787618
NZ_KV787570	18	18	0	0	18,060	RefSeq:NZ_KV787570
NZ_KV787671	14	14	0	0	18,039	RefSeq:NZ_KV787671
NZ_KV787518	11	9	0	2	17,965	RefSeq:NZ_KV787518
NZ_KV787484	14	14	0	0	17,760	RefSeq:NZ_KV787484
NZ_KV787496	15	15	0	0	17,592	RefSeq:NZ_KV787496
NZ_KV787583	15	15	0	0	17,437	RefSeq:NZ_KV787583
NZ_KV787480	17	15	0	2	16,703	RefSeq:NZ_KV787480
NZ_KV787703	14	14	0	0	16,597	RefSeq:NZ_KV787703
NZ_KV787457	17	16	0	1	16,419	RefSeq:NZ_KV787457
NZ_KV787758	11	11	0	0	16,354	RefSeq:NZ_KV787758
NZ_KV787540	19	19	0	0	16,294	RefSeq:NZ_KV787540
NZ_KV787805	12	12	0	0	16,242	RefSeq:NZ_KV787805
NZ_KV787726	16	13	3	0	16,201	RefSeq:NZ_KV787726
NZ_KV787745	12	11	1	0	16,159	RefSeq:NZ_KV787745
NZ_KV787587	16	16	0	0	16,010	RefSeq:NZ_KV787587
NZ_KV787596	15	15	0	0	15,863	RefSeq:NZ_KV787596
NZ_KV787659	12	12	0	0	15,852	RefSeq:NZ_KV787659
NZ_KV787534	18	18	0	0	15,636	RefSeq:NZ_KV787534
NZ_KV787483	17	15	2	0	15,631	RefSeq:NZ_KV787483
NZ_KV787500	17	17	0	0	15,162	RefSeq:NZ_KV787500
NZ_KV787501	13	13	0	0	14,881	RefSeq:NZ_KV787501
NZ_KV787626	16	13	0	3	14,761	RefSeq:NZ_KV787626
NZ_KV787712	17	16	0	1	14,725	RefSeq:NZ_KV787712
NZ_KV787574	14	13	0	1	14,131	RefSeq:NZ_KV787574
NZ_KV787779	11	11	0	0	14,048	RefSeq:NZ_KV787779
NZ_KV787535	12	12	0	0	13,936	RefSeq:NZ_KV787535
NZ_KV787592	12	11	0	1	12,917	RefSeq:NZ_KV787592
NZ_KV787764	12	12	0	0	12,788	RefSeq:NZ_KV787764
NZ_KV787691	10	10	0	0	12,623	RefSeq:NZ_KV787691
NZ_KV787649	13	13	0	0	12,616	RefSeq:NZ_KV787649
NZ_KV787477	11	11	0	0	12,538	RefSeq:NZ_KV787477
NZ_KV787718	12	10	0	2	12,494	RefSeq:NZ_KV787718
NZ_KV787798	11	10	0	1	12,441	RefSeq:NZ_KV787798
NZ_KV787735	13	12	0	1	12,153	RefSeq:NZ_KV787735
NZ_KV787675	11	11	0	0	11,726	RefSeq:NZ_KV787675
NZ_KV787563	17	15	0	2	11,540	RefSeq:NZ_KV787563
NZ_KV787507	15	15	0	0	10,967	RefSeq:NZ_KV787507
NZ_KV787605	14	13	0	1	10,516	RefSeq:NZ_KV787605
NZ_KV787474	11	9	0	2	9,871	RefSeq:NZ_KV787474
206 Undisplayed Contigs/Replicons	788	774	16	86	1,107,096

Total:	5,984	5,719	60	205	6,633,798

Ortholog data available?	No

Database Contents

Genes	5,982
Pathways	303
Enzymatic Reactions	1,601
Transport Reactions	92
Polypeptides	6,091
Protein Complexes	210
Enzymes	1,028
Transporters	780
Compounds	1,157
Transcription Units	4,084
tRNAs	51
Protein Features	7,443
GO Terms	2,398

Database Version

29.0

Sequence Source	GCF_001807115.1
Synonyms	Achromobacter sp. 2789STDY5608606 Achromobacter sp. 2789STDY5608609 Achromobacter sp. 2789STDY5608611 Achromobacter sp. 2789STDY5608612 Achromobacter sp. 2789STDY5608616 Achromobacter sp. 2789STDY5608618 Achromobacter sp. 2789STDY5608619 Achromobacter sp. 2789STDY5608620 Achromobacter sp. 2789STDY5608622 Achromobacter sp. 2789STDY5608623 Achromobacter sp. 2789STDY5608624 Achromobacter sp. 2789STDY5608629 Achromobacter sp. 2789STDY5608630 Achromobacter sp. 2789STDY5608632 Achromobacter sp. 2789STDY5663426 Achromobacter sp. 2789STDY5663429 Achromobacter sp. 2789STDY5663443 Achromobacter sp. 2789STDY5663447 Achromobacter sp. AHJR1 Achromobacter sp. CCUG 2349 Achromobacter sp. CCUG 48135 Achromobacter sp. CCUG 48386 Achromobacter sp. ES-6 Achromobacter sp. GAD3 Achromobacter sp. HMSC056C09 Achromobacter sp. HMSC057D05 Achromobacter sp. HMSC070F04 Achromobacter sp. HMSC15D03 Achromobacter sp. HMSC18C08 Achromobacter xilosoxidans Achromobacter xylosoxidans KF701 Achromobacter xylosoxidans subsp. xylosoxidans Achromobacter xylosoxydans Alcaligenes denitrificans subsp. xylosoxydans Alcaligenes xylosoxidans subsp. xylosoxidans Alcaligenes xylosoxidans Alcaligenes xylosoxydans Flavobacterium sp. 650
Taxonomic Lineage	cellular organisms Bacteria <bacteria> Pseudomonadota Betaproteobacteria Burkholderiales Alcaligenaceae Achromobacter Achromobacter xylosoxidans
Genetic Code Number	11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLE	SAMN03604112
NCBI BioProject	PRJNA224116
NCBI-Taxonomy	85698
Environment	blood
Host	Homo sapiens
Human Microbiome Body Site	blood
Annotation Provider	NCBI RefSeq
Annotation Date	2022-01-13
Annotation Pipeline	NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version	5.3
Annotation Comment	Best-placed reference protein set; GeneMarkS-2+

References

Caspi20: Caspi R, Billington R, Keseler IM, Kothari A, Krummenacker M, Midford PE, Ong WK, Paley S, Subhraveti P, Karp PD (2020). "The MetaCyc database of metabolic pathways and enzymes - a 2019 update." Nucleic Acids Res 48(D1);D445-D453. PMID: 31586394

Karp11: Karp PD, Latendresse M, Caspi R (2011). "The pathway tools pathway prediction algorithm." Stand Genomic Sci 5(3);424-9. PMID: 22675592

Karp16: Karp PD, Latendresse M, Paley SM, Krummenacker M, Ong QD, Billington R, Kothari A, Weaver D, Lee T, Subhraveti P, Spaulding A, Fulcher C, Keseler IM, Caspi R (2016). "Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology." Brief Bioinform 17(5);877-90. PMID: 26454094

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Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC17A.

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