dbCAN-PUL

PUL ID	PUL0651
PubMed	33691998, Food Chem. 2021 Aug 1;352:128685. doi: 10.1016/j.foodchem.2020.128685. Epub 2020 Nov 19.
Characterization method	enzyme activity assay,NMR
Genomic accession number	NZ_KB898707.1
Nucelotide position range	82900-184489
Substrate	agar
Loci	D568_RS0106305-D568_RS0106625
Species	Gilvimarinus chinensis DSM 19667/396005
Degradation or Biosynthesis	degradation

Gene Name	Locus Tag	Protein ID	Gene Position	GenBank Contig Range	EC Number
-	D568_RS0106305	WP_020208740.1	0 - 1764 (+)	NZ_KB898707.1:82900-84664	-
-	D568_RS0106310	WP_020208741.1	1856 - 4049 (-)	NZ_KB898707.1:84756-86949	-
-	D568_RS0106315	WP_020208742.1	4218 - 6537 (+)	NZ_KB898707.1:87118-89437	3.2.1.23
-	D568_RS0106320	WP_020208743.1	6619 - 8998 (-)	NZ_KB898707.1:89519-91898	-
-	D568_RS0106325	WP_020208744.1	8999 - 9698 (-)	NZ_KB898707.1:91899-92598	-
-	D568_RS21010	WP_020208745.1	9718 - 10375 (-)	NZ_KB898707.1:92618-93275	-
-	D568_RS0106335	WP_020208746.1	10393 - 13834 (-)	NZ_KB898707.1:93293-96734	-
-	D568_RS0106340	WP_020208747.1	14180 - 17864 (+)	NZ_KB898707.1:97080-100764	-
-	D568_RS0106345	WP_020208748.1	17936 - 19925 (+)	NZ_KB898707.1:100836-102825	-
-	D568_RS0106350	WP_020208749.1	20052 - 21585 (+)	NZ_KB898707.1:102952-104485	-
-	D568_RS0106355	WP_020208750.1	21617 - 23003 (+)	NZ_KB898707.1:104517-105903	-
-	D568_RS21015	WP_020208751.1	23266 - 24706 (+)	NZ_KB898707.1:106166-107606	-
-	D568_RS0106365	WP_020208752.1	24895 - 26221 (+)	NZ_KB898707.1:107795-109121	-
-	D568_RS0106370	WP_020208753.1	26410 - 27394 (-)	NZ_KB898707.1:109310-110294	-
-	D568_RS0106375	WP_020208754.1	27480 - 28374 (+)	NZ_KB898707.1:110380-111274	-
-	D568_RS0106380	WP_040516421.1	28370 - 30659 (-)	NZ_KB898707.1:111270-113559	-
-	D568_RS0106385	WP_051084022.1	30701 - 32270 (-)	NZ_KB898707.1:113601-115170	-
-	D568_RS21020	WP_020208757.1	32244 - 32814 (-)	NZ_KB898707.1:115144-115714	-
-	D568_RS0106395	WP_020208758.1	32813 - 35123 (-)	NZ_KB898707.1:115713-118023	-
-	D568_RS0106400	WP_020208759.1	35119 - 36352 (-)	NZ_KB898707.1:118019-119252	-
-	D568_RS0106405	WP_020208760.1	36351 - 38031 (-)	NZ_KB898707.1:119251-120931	-
-	D568_RS0106410	WP_020208761.1	38093 - 39302 (-)	NZ_KB898707.1:120993-122202	-
-	D568_RS0106415	WP_020208762.1	39568 - 41056 (-)	NZ_KB898707.1:122468-123956	-
-	D568_RS0106420	WP_020208763.1	41230 - 41602 (-)	NZ_KB898707.1:124130-124502	-
-	D568_RS0106425	WP_020208764.1	41661 - 44028 (-)	NZ_KB898707.1:124561-126928	-
-	D568_RS0106430	WP_020208765.1	44039 - 45491 (-)	NZ_KB898707.1:126939-128391	-
-	D568_RS0106435	WP_020208766.1	45521 - 46292 (-)	NZ_KB898707.1:128421-129192	-
-	D568_RS0106440	WP_020208767.1	46302 - 47439 (-)	NZ_KB898707.1:129202-130339	-
-	D568_RS0106445	WP_020208768.1	47435 - 48578 (-)	NZ_KB898707.1:130335-131478	2.8.3.-
-	D568_RS0106450	WP_020208769.1	48574 - 49735 (-)	NZ_KB898707.1:131474-132635	-
-	D568_RS0106455	WP_020208770.1	49914 - 50694 (+)	NZ_KB898707.1:132814-133594	-
-	D568_RS0106460	WP_020208771.1	50741 - 51896 (+)	NZ_KB898707.1:133641-134796	-
-	D568_RS0106465	WP_020208772.1	51892 - 52579 (+)	NZ_KB898707.1:134792-135479	-
-	D568_RS0106470	WP_020208773.1	52777 - 54985 (+)	NZ_KB898707.1:135677-137885	3.2.1.23
-	D568_RS21025	WP_083915318.1	55185 - 56934 (-)	NZ_KB898707.1:138085-139834	-
-	D568_RS0106480	WP_020208775.1	56881 - 57526 (-)	NZ_KB898707.1:139781-140426	-
-	D568_RS19500	WP_020208776.1	58027 - 59617 (+)	NZ_KB898707.1:140927-142517	-
-	D568_RS0106490	WP_157497726.1	59794 - 61444 (+)	NZ_KB898707.1:142694-144344	-
-	D568_RS0106495	WP_020208778.1	61521 - 63021 (-)	NZ_KB898707.1:144421-145921	-
-	D568_RS0106500	WP_020208779.1	63147 - 65988 (-)	NZ_KB898707.1:146047-148888	-
-	D568_RS0106505	WP_020208780.1	66330 - 67740 (-)	NZ_KB898707.1:149230-150640	-
-	D568_RS0106510	WP_020208781.1	67819 - 69802 (-)	NZ_KB898707.1:150719-152702	-
-	D568_RS0106515	WP_020208782.1	69822 - 71376 (-)	NZ_KB898707.1:152722-154276	-
-	D568_RS0106520	WP_020208783.1	71511 - 72252 (-)	NZ_KB898707.1:154411-155152	-
-	D568_RS0106525	WP_020208784.1	72391 - 74644 (-)	NZ_KB898707.1:155291-157544	-
-	D568_RS0106530	WP_020208785.1	74655 - 75120 (-)	NZ_KB898707.1:157555-158020	-
-	D568_RS0106535	WP_020208786.1	75116 - 75350 (-)	NZ_KB898707.1:158016-158250	-
-	D568_RS0106540	WP_020208787.1	75773 - 76373 (-)	NZ_KB898707.1:158673-159273	-
-	D568_RS0106545	WP_020208788.1	76362 - 77391 (-)	NZ_KB898707.1:159262-160291	-
-	D568_RS0106550	WP_020208789.1	77366 - 79820 (-)	NZ_KB898707.1:160266-162720	-
-	D568_RS0106555	WP_020208790.1	79949 - 80807 (-)	NZ_KB898707.1:162849-163707	-
-	D568_RS0106560	WP_020208791.1	80946 - 82062 (+)	NZ_KB898707.1:163846-164962	-
-	D568_RS0106565	WP_020208792.1	82072 - 82879 (+)	NZ_KB898707.1:164972-165779	-
-	D568_RS0106570	WP_020208793.1	83106 - 83712 (+)	NZ_KB898707.1:166006-166612	-
-	D568_RS0106575	WP_245551611.1	83828 - 87884 (-)	NZ_KB898707.1:166728-170784	-
-	D568_RS0106580	WP_020208795.1	88263 - 90603 (-)	NZ_KB898707.1:171163-173503	-
-	D568_RS0106585	WP_020208796.1	90603 - 92952 (-)	NZ_KB898707.1:173503-175852	3.2.1.23
aldA	D568_RS0106590	WP_020208797.1	93051 - 94494 (-)	NZ_KB898707.1:175951-177394	1.2.1.-
kduD	D568_RS0106595	WP_020208798.1	94499 - 95264 (-)	NZ_KB898707.1:177399-178164	1.1.1.127
-	D568_RS0106600	WP_020208799.1	95263 - 96286 (-)	NZ_KB898707.1:178163-179186	-
-	D568_RS0106605	WP_157497728.1	96294 - 97443 (-)	NZ_KB898707.1:179194-180343	-
-	D568_RS0106610	WP_020208801.1	97485 - 99078 (-)	NZ_KB898707.1:180385-181978	-
-	D568_RS0106625	WP_169334789.1	99582 - 101590 (+)	NZ_KB898707.1:182482-184490	-

Cluster number	1
Gene name	Gene position	Gene type	Found by CGCFinder?
-	1 - 1764 (+)	CAZyme: GH16_16\|CBM6\| CBM6\| GH16_16	Yes
-	1857 - 4049 (-)	TC: gnl\|TC-DB\|P07658\|3.D.1.9.2	Yes
-	4219 - 6537 (+)	CAZyme: GH50\|GH50	Yes
-	6620 - 8998 (-)	other	Yes
-	9000 - 9698 (-)	other	Yes
-	9719 - 10375 (-)	other	Yes
-	10394 - 13834 (-)	other	Yes
-	14181 - 17864 (+)	TC: gnl\|TC-DB\|Q9AAZ6\|1.B.14.12.2	Yes
-	17937 - 19925 (+)	other	Yes
-	20053 - 21585 (+)	other	Yes
-	21618 - 23003 (+)	other	Yes
-	23267 - 24706 (+)	CAZyme: CBM6\| CBM6	Yes
-	24896 - 26221 (+)	CAZyme: CBM13\| CBM13\|GH16_16\| GH16_16	Yes
-	26411 - 27394 (-)	TC: gnl\|TC-DB\|P62723\|2.A.98.1.3	Yes
-	27481 - 28374 (+)	TF: DBD-Pfam\|HTH_1	Yes
-	28371 - 30659 (-)	CAZyme: GH50\|GH50	Yes
-	30702 - 32270 (-)	STP: STP\|FecR	Yes
-	32245 - 32814 (-)	STP: STP\|Sigma70_r2,STP\|Sigma70_r4	Yes
-	32814 - 35123 (-)	STP: STP\|Pyr_redox_2	Yes
-	35120 - 36352 (-)	CAZyme: GH117\|GH117	Yes
-	36352 - 38031 (-)	TC: gnl\|TC-DB\|A3UWQ1\|2.A.21.3.11	Yes
-	38094 - 39302 (-)	CAZyme: GH16\|GH16_3	Yes
-	39569 - 41056 (-)	other	Yes
-	41231 - 41602 (-)	other	Yes
-	41662 - 44028 (-)	CAZyme: GH2\| GH2	Yes
-	44040 - 45491 (-)	other	Yes
-	45522 - 46292 (-)	other	Yes
-	46303 - 47439 (-)	other	Yes
-	47436 - 48578 (-)	other	Yes
-	48575 - 49735 (-)	STP: STP\|SBP_bac_1	Yes
-	49915 - 50694 (+)	TF: DBD-SUPERFAMILY\|0040266	Yes
-	50742 - 51896 (+)	other	Yes
-	51893 - 52579 (+)	other	Yes
-	52778 - 54985 (+)	CAZyme: GH50\|GH50	Yes
-	55186 - 56934 (-)	STP: STP\|SBP_bac_3,STP\|HATPase_c	Yes
-	56882 - 57526 (-)	TF: DBD-Pfam\|GerE	Yes
-	58028 - 59617 (+)	other	Yes
-	59795 - 61444 (+)	other	Yes
-	61522 - 63021 (-)	other	Yes
-	63148 - 65988 (-)	other	Yes
-	66331 - 67740 (-)	other	Yes
-	67820 - 69802 (-)	CAZyme: GH127\|GH127	Yes
-	69823 - 71376 (-)	TC: gnl\|TC-DB\|P96710\|2.A.1.1.55	Yes
-	71512 - 72252 (-)	TF: DBD-Pfam\|GntR,DBD-SUPERFAMILY\|0037767	Yes
-	72392 - 74644 (-)	other	Yes
-	74656 - 75120 (-)	other	Yes
-	75117 - 75350 (-)	other	Yes
-	75774 - 76373 (-)	other	Yes
-	76363 - 77391 (-)	other	Yes
-	77367 - 79820 (-)	CAZyme: GH167\|GH167	Yes
-	79950 - 80807 (-)	TF: DBD-Pfam\|HTH_AraC,DBD-Pfam\|HTH_AraC,DBD-SUPERFAMILY\|0036286,DBD-SUPERFAMILY\|0035607	Yes
-	80947 - 82062 (+)	other	Yes
-	82073 - 82879 (+)	CAZyme: CE1	Yes
-	83107 - 83712 (+)	TF: DBD-Pfam\|GntR,DBD-SUPERFAMILY\|0039384	Yes
-	83829 - 87884 (-)	CAZyme: GH86\| GH86\|CBM6\| CBM6	Yes
-	88264 - 90603 (-)	other	Yes
-	90604 - 92952 (-)	CAZyme: GH50\|GH50	Yes
aldA	93052 - 94494 (-)	other	Yes
kduD	94500 - 95264 (-)	other	Yes
-	95264 - 96286 (-)	other	Yes
-	96295 - 97443 (-)	other	Yes
-	97486 - 99078 (-)	TC: gnl\|TC-DB\|P46333\|2.A.1.1.106	Yes
-	99583 - 101590 (+)	CAZyme: GH86\|3.2.1.81\| GH86	Yes

PUL ID	PUL0651
PubMed	33691998, Food Chem. 2021 Aug 1;352:128685. doi: 10.1016/j.foodchem.2020.128685. Epub 2020 Nov 19.
Title	Agarase cocktail from agar polysaccharide utilization loci converts homogenized Gelidium amansii into neoagarooligosaccharides.
Author	Song T, Wang X, Wu M, Zhao K, Wang X, Chu Y, Lin J
Abstract	Neoagarooligosaccharides (NAOs) are drawing more and more attention because of their numerous bioactivities, yet limited number of agarases impedes NAOs production from red algae. In this study, predicted agar polysaccharide utilization loci (agar-PUL) were firstly used as inventory for agarase. 6 agarases were identified from agar-PULs and two of them were successfully expressed and analyzed. Then enzyme cocktail (GH16-1:GH16-2:Aga50D = 2:1:1) was proved to have highest synergistic effect. Finally homogenization was applied to G. amansii and proved to be an efficient way to release agar from tissues. When liquid-to-solid ratio was 9 g/150 mL, homogenization time was 20 min, and enzyme cocktail loading was 150 U/150 mL, maximum NAOs production (90.2 mg per 9 g wet G. amansii) could be achieved. Enzyme supported one-step process (ESOP) proposed in study is environment-friendly, time saving, cost saving and none-destructive, therefore has a potential industrial application in red algae utilization.

PUL General Information

Literature Information

Genomic Location Information

CGCFinder Result

Homologus Loci

Nucelotide position range

Substrate

Loci

Species

Degradation or Biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

Cluster number

Gene name

Gene position

Gene type

Found by CGCFinder?