Selected Cell
Cell:
Value:
Metadata
SEDML
cfeMnNoRec
cfeMnNoRec2
A
B
C
D
E
F
G
H
I
J
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
| Metadata | Values (examples) | ||||||||
| Asset Title | Cell Free Extract analysis | ||||||||
| Uploader | Jacky Snoep | ||||||||
| Uploader SEEK ID | 49 | ||||||||
| Project | Computational pathway design for biotechnology | ||||||||
| ASSAY | |||||||||
| Assay SEEK ID | 994 | ||||||||
| Assay Title | Cell Free Extract analysis | ||||||||
| Assay_type | enzymaticAssay | ||||||||
| Technology_type | Cell Free Extract analysis | ||||||||
| Description | Cell Free Extract analysis for the Weimberg pathway in Caulobacter crescentus, with Mn (0.15 mM), but no NAD recycling, metabolites measured enzymatically. | ||||||||
| Experimentalist | Lu Shen | ||||||||
| Date | |||||||||
| SOP | |||||||||
| Publication (optional) | |||||||||
| Experimental_conditions | |||||||||
| Item | temperature | ||||||||
| Compound (if concentration) | |||||||||
| Unit | degrees celcius | ||||||||
| Start_value (optional) | 37 | ||||||||
| End_value (optional) | 37 | ||||||||
| Comments | |||||||||
| Culture growth | CultureGrowth | ||||||||
| FACTORS_STUDIED | |||||||||
| Item | concentration | concentration | |||||||
| Compound (if concentration) | Xyl | NAD | |||||||
| Unit | mM | mM | |||||||
| Start_value (optional) | 5 | 12 | |||||||
| End_value (optional) | |||||||||
| SD (optional) | |||||||||
| Comments | |||||||||
| ENZYME IDENTITY | |||||||||
| Enzyme Name (IUBMB) | Xylose dehydrogenase | D-Xylono-1,4-lactonase | D-Xylonate dehydratase | 2-keto-3-deoxy-D-xylonate dehydratase | α-ketoglutarate semialdehyde dehydrogenase | ||||
| EC Number | 1.1.1.175 | 3.1.1.68 | 4.2.1.82 | ||||||
A
B
C
D
E
F
G
H
I
J
K
L
M
N
O
P
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
| time | NADH | XYL | KGSA | KDX | XA | PYR | KG | NADH2 | XYL2 | KGSA2 | KDX2 | XA2 | PYR2 | KG2 | |
| min | mM | mM | mM | mM | mM | mM | mM | mM | mM | mM | mM | mM | mM | mM | |
| 0 | 0.00386944788221074 | 5.2674051770985875 | 0.003613204772903309 | -0.0016589818400615866 | 0.001307498961569769 | 0.020254627560023913 | 0.00386944788221074 | 5.174795786084702 | 0.007100125030257684 | -0.007135668258150322 | -0.005881362107457079 | 0.011229296313955429 | |||
| 8 | 2.323351165354118 | 3.1901361696659247 | 1.524610261278695 | 2.998059860887465 | |||||||||||
| 16 | 4.16554515607264 | 1.4710381414233036 | 3.595103522500101 | 1.7863683876978718 | |||||||||||
| 24 | 5.228801836423031 | 0.5301428738172406 | 4.85955319627656 | 0.8485405118290853 | |||||||||||
| 30 | 5.773328639108968 | 0.2690923789155964 | 0.0444069244481701 | 0.028764908020253093 | 4.485026728887684 | 5.541197121229678 | 0.37962661613992515 | 0.14488248922088784 | 0.026884629463085508 | 3.6274927713055387 | |||||
| 60 | 6.5528264978692485 | 0.0010684975595230788 | 6.627014724267015E-4 | 0.07979969655672356 | 3.67960557106938 | -0.01446766502879282 | 6.4176774213888885 | -0.0019683252945125393 | 0.07854294034840326 | 0.05325034435508066 | 3.51267415560263 | 0.07683223091400543 | |||
| 100 | 6.82649177157756 | 0.0010684975595230753 | 0.18624380456682424 | 0.06495324781447559 | 3.134925601376066 | 0.3170138957944733 | 7.292453329024601 | -0.0382567273542976 | 0.034316363207246244 | 0.1485074314459414 | 2.7812365506069074 | 0.260638318445102 | |||
| 150 | 7.092866907878114 | 0.0013496813483426483 | 0.08549974895464849 | 0.16795060694881372 | 2.33692780619745 | 0.7600695050011079 | 8.165525521289188 | -0.08758623297924795 | 0.015605231144491721 | 0.26927958340810354 | 1.8609856912637506 | 0.70685574806892 | |||
| 165 | 6.684050976748743 | 7.89229995589725 | |||||||||||||
| 230 | 6.990802978629648 | 3.374213845747792E-4 | 0.10670896144357418 | 0.31363174818710093 | 1.0721936898194768 | 1.1617477155394025 | 8.316055816712797 | -0.07794713806358938 | 0.037718456347219986 | 0.41131469075940125 | 0.8250658196683925 | 1.361111133727058 | |||
| 260 | 6.602176148803741 | 3.936589803299889E-4 | 0.15708098924966202 | 0.304352683156055 | 0.7372199814461198 | 1.2756944590903543 | |||||||||
A
B
C
D
E
F
G
H
I
J
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
| time (min) | NADH (mM) | D-xylose (mM) | KGSA (mM) | KDX (mM) | D-xylonate (mM) | Pyruvate (mM) | KG (mM) | ||
| 0 | 0.00386944788221074 | 5.2674051770985875 | 0.003613204772903309 | -0.0016589818400615866 | 0.001307498961569769 | 0.020254627560023913 | |||
| 8 | 2.323351165354118 | 3.1901361696659247 | |||||||
| 16 | 4.16554515607264 | 1.4710381414233036 | |||||||
| 24 | 5.228801836423031 | 0.5301428738172406 | |||||||
| 30 | 5.773328639108968 | 0.2690923789155964 | 0.0444069244481701 | 0.028764908020253093 | 4.485026728887684 | ||||
| 60 | 6.5528264978692485 | 0.0010684975595230788 | 6.627014724267015E-4 | 0.07979969655672356 | 3.67960557106938 | -0.01446766502879282 | |||
| 100 | 6.82649177157756 | 0.0010684975595230753 | 0.18624380456682424 | 0.06495324781447559 | 3.134925601376066 | 0.3170138957944733 | |||
| 150 | 7.092866907878114 | 0.0013496813483426483 | 0.08549974895464849 | 0.16795060694881372 | 2.33692780619745 | 0.7600695050011079 | |||
| 165 | 6.684050976748743 | ||||||||
| 230 | 6.990802978629648 | 3.374213845747792E-4 | 0.10670896144357418 | 0.31363174818710093 | 1.0721936898194768 | 1.1617477155394025 | |||
| 260 | 6.602176148803741 | 3.936589803299889E-4 | 0.15708098924966202 | 0.304352683156055 | 0.7372199814461198 | 1.2756944590903543 | |||
A
B
C
D
E
F
G
H
I
J
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
| Time min | NADH | D-xylose | KGSA | KDX | D-xylonate | Pyruvate | KG | ||
| 0 | 0.00386944788221074 | 5.174795786084702 | 0.007100125030257684 | -0.007135668258150322 | -0.005881362107457079 | 0.011229296313955429 | |||
| 8 | 1.524610261278695 | 2.998059860887465 | |||||||
| 16 | 3.595103522500101 | 1.7863683876978718 | |||||||
| 24 | 4.85955319627656 | 0.8485405118290853 | |||||||
| 30 | 5.541197121229678 | 0.37962661613992515 | 0.14488248922088784 | 0.026884629463085508 | 3.6274927713055387 | ||||
| 60 | 6.4176774213888885 | -0.0019683252945125393 | 0.07854294034840326 | 0.05325034435508066 | 3.51267415560263 | 0.07683223091400543 | |||
| 100 | 7.292453329024601 | -0.0382567273542976 | 0.034316363207246244 | 0.1485074314459414 | 2.7812365506069074 | 0.260638318445102 | |||
| 150 | 8.165525521289188 | -0.08758623297924795 | 0.015605231144491721 | 0.26927958340810354 | 1.8609856912637506 | 0.70685574806892 | |||
| 165 | 7.89229995589725 | ||||||||
| 230 | 8.316055816712797 | -0.07794713806358938 | 0.037718456347219986 | 0.41131469075940125 | 0.8250658196683925 | 1.361111133727058 | |||
