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Literature summary for 1.3.1.24 extracted from

  • Takao, H.; Hirabayashi, K.; Nishigaya, Y.; Kouriki, H.; Nakaniwa, T.; Hagiwara, Y.; Harada, J.; Sato, H.; Yamazaki, T.; Sakakibara, Y.; Suiko, M.; Asada, Y.; Takahashi, Y.; Yamamoto, K.; Fukuyama, K.; Sugishima, M.; Wada, K.
    A substrate-bound structure of cyanobacterial biliverdin reductase identifies stacked substrates as critical for activity (2017), Nat. Commun., 8, 14397.
    View publication on PubMedView publication on EuropePMC
Search for more literature for 1.3.1.24

Cloned(Commentary)

Cloned (Comment) Organism
expressed in Escherichia coli BL21(DE3) cells Rattus norvegicus
expressed in Escherichia coli BL21(DE3) cells Homo sapiens
expressed in Escherichia coli C41(DE3) cells Synechocystis sp. PCC 6803

Crystallization (Commentary)

Crystallization (Comment) Organism
apo-, NADP+-bound and biliverdin-NADP+ complex forms of the enzyme, hanging drop vapor diffusion method, using 15% (w/v) PEG 4,000, 50 mM Tris-HCl (pH 7.25), 0.2 M sodium acetate and 0.2 mM Cymal-2 Homo sapiens
apo-, NADP+-bound and biliverdin-NADP+ complex forms of the enzyme, hanging drop vapor diffusion method, using 15% (w/v) PEG 4,000, 50mM Tris-HCl (pH 7.25), 0.2M sodium acetate and 0.2mM Cymal-2 Rattus norvegicus
apo-, NADP+-bound and biliverdin-NADP+ complex forms of the enzyme, hanging drop vapor diffusion method, using 15% (w/v) PEG 4,000, 50mM Tris-HCl (pH 7.25), 0.2M sodium acetate and 0.2mM Cymal-2 Synechocystis sp. PCC 6803

Protein Variants

Protein Variants Comment Organism
K237A the mutant shows increased catalytic efficiency compared to the wild type enzyme Synechocystis sp. PCC 6803
R171A the mutant shows strongly reduced catalytic efficiency compared to the wild type enzyme Rattus norvegicus
R171E the mutant shows strongly reduced catalytic efficiency compared to the wild type enzyme Rattus norvegicus
R171K the mutant shows strongly reduced catalytic efficiency compared to the wild type enzyme Rattus norvegicus
R172A the mutant shows strongly reduced catalytic efficiency compared to the wild type enzyme Homo sapiens
R172E inactive Homo sapiens
R172K inactive Homo sapiens
R185A the mutant shows reduced catalytic efficiency compared to the wild type enzyme Synechocystis sp. PCC 6803
R185K the mutant shows strongly reduced catalytic efficiency compared to the wild type enzyme Synechocystis sp. PCC 6803
R188A the mutant shows increased catalytic efficiency compared to the wild type enzyme Synechocystis sp. PCC 6803
R246A the mutant shows reduced catalytic efficiency compared to the wild type enzyme Synechocystis sp. PCC 6803
S184A the mutant shows increased catalytic efficiency compared to the wild type enzyme Synechocystis sp. PCC 6803
T169A the mutant shows wild type catalytic efficiency Synechocystis sp. PCC 6803
Y102F the mutant shows reduced catalytic efficiency compared to the wild type enzyme Synechocystis sp. PCC 6803
Y97F the mutant shows strongly reduced catalytic efficiency compared to the wild type enzyme Rattus norvegicus
Y98F the mutant shows about wild type catalytic efficiency Rattus norvegicus
Y98F the mutant shows about wild type catalytic efficiency Homo sapiens

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.0018
-
 Biliverdin wild type enzyme, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.0019
-
 Biliverdin mutant enzyme S184A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.0033
-
 Biliverdin mutant enzyme R188A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.0034
-
 Biliverdin mutant enzyme T169A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.0038
-
 Biliverdin mutant enzyme Y98F, at pH 8.9, temperature not specified in the publication Homo sapiens
0.004
-
 Biliverdin mutant enzyme Y102F, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.0046
-
 Biliverdin wild type enzyme, at pH 8.9, temperature not specified in the publication Rattus norvegicus
0.0048
-
 Biliverdin mutant enzyme K237A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.0051
-
 Biliverdin mutant enzyme R246A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.0069
-
 Biliverdin mutant enzyme R185A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.0117
-
 Biliverdin mutant enzyme Y97F, at pH 8.9, temperature not specified in the publication Rattus norvegicus
0.0126
-
 Biliverdin mutant enzyme R185K, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.0207
-
 Biliverdin wild type enzyme, at pH 8.9, temperature not specified in the publication Homo sapiens
0.0244
-
 Biliverdin mutant enzyme R171A, at pH 8.9, temperature not specified in the publication Rattus norvegicus
0.0457
-
 Biliverdin mutant enzyme R171E, at pH 8.9, temperature not specified in the publication Rattus norvegicus
0.0877
-
 Biliverdin mutant enzyme R172A, at pH 8.9, temperature not specified in the publication Homo sapiens
0.1633
-
 Biliverdin mutant enzyme R171K, at pH 8.9, temperature not specified in the publication Rattus norvegicus

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
biliverdin + NADH + H+ Rattus norvegicus
-
 bilirubin + NAD+
-
 r
biliverdin + NADH + H+ Homo sapiens
-
 bilirubin + NAD+
-
 r
biliverdin + NADH + H+ Synechocystis sp. PCC 6803
-
 bilirubin + NAD+
-
 r
biliverdin + NADPH + H+ Rattus norvegicus
-
 bilirubin + NADP+
-
 r
biliverdin + NADPH + H+ Homo sapiens
-
 bilirubin + NADP+
-
 r
biliverdin + NADPH + H+ Synechocystis sp. PCC 6803
-
 bilirubin + NADP+
-
 r

Organism

Organism UniProt Comment Textmining
Homo sapiens P53004
-
-
Rattus norvegicus P06762
-
-
Synechocystis sp. PCC 6803 P72782
-
-

Purification (Commentary)

Purification (Comment) Organism
nickel affinity gel chromatography and Sephacryl S-200 gel filtration Rattus norvegicus
nickel affinity gel chromatography and Sephacryl S-200 gel filtration Homo sapiens
nickel affinity gel chromatography and Sephacryl S-200 gel filtration Synechocystis sp. PCC 6803

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
biliverdin + NADH + H+
-
 Rattus norvegicus bilirubin + NAD+
-
 r
biliverdin + NADH + H+
-
 Homo sapiens bilirubin + NAD+
-
 r
biliverdin + NADH + H+
-
 Synechocystis sp. PCC 6803 bilirubin + NAD+
-
 r
biliverdin + NADPH + H+
-
 Rattus norvegicus bilirubin + NADP+
-
 r
biliverdin + NADPH + H+
-
 Homo sapiens bilirubin + NADP+
-
 r
biliverdin + NADPH + H+
-
 Synechocystis sp. PCC 6803 bilirubin + NADP+
-
 r

Synonyms

Synonyms Comment Organism
BVR
-
 Rattus norvegicus
BVR
-
 Homo sapiens
BVR
-
 Synechocystis sp. PCC 6803

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.7
-
 Biliverdin mutant enzyme R171E, at pH 8.9, temperature not specified in the publication Rattus norvegicus
0.7
-
 Biliverdin mutant enzyme R185A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
0.9
-
 Biliverdin mutant enzyme R185K, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
2 3.7 Biliverdin mutant enzyme K237A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
2.7
-
 Biliverdin mutant enzyme Y102F, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
6
-
 Biliverdin mutant enzyme R171A, at pH 8.9, temperature not specified in the publication Rattus norvegicus
7.1
-
 Biliverdin wild type enzyme, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
11
-
 Biliverdin mutant enzyme R246A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
11.3
-
 Biliverdin mutant enzyme S184A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
13.1
-
 Biliverdin mutant enzyme T169A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
13.4
-
 Biliverdin mutant enzyme R188A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
13.6
-
 Biliverdin mutant enzyme Y97F, at pH 8.9, temperature not specified in the publication Rattus norvegicus
14.7
-
 Biliverdin mutant enzyme R171K, at pH 8.9, temperature not specified in the publication Rattus norvegicus
16.8
-
 Biliverdin mutant enzyme Y98F, at pH 8.9, temperature not specified in the publication Homo sapiens
17.9
-
 Biliverdin mutant enzyme R172A, at pH 8.9, temperature not specified in the publication Homo sapiens
69.3
-
 Biliverdin wild type enzyme, at pH 8.9, temperature not specified in the publication Rattus norvegicus
94.8
-
 Biliverdin wild type enzyme, at pH 8.9, temperature not specified in the publication Homo sapiens

Cofactor

Cofactor Comment Organism Structure
NADH
-
 Rattus norvegicus
NADH
-
 Homo sapiens
NADH
-
 Synechocystis sp. PCC 6803
NADPH
-
 Rattus norvegicus
NADPH
-
 Homo sapiens
NADPH
-
 Synechocystis sp. PCC 6803

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
20
-
 Biliverdin mutant enzyme R171E, at pH 8.9, temperature not specified in the publication Rattus norvegicus
70
-
 Biliverdin mutant enzyme R185K, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
100
-
 Biliverdin mutant enzyme R171K, at pH 8.9, temperature not specified in the publication Rattus norvegicus
100
-
 Biliverdin mutant enzyme R185A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
200
-
 Biliverdin mutant enzyme R171A, at pH 8.9, temperature not specified in the publication Rattus norvegicus
200
-
 Biliverdin mutant enzyme R172A, at pH 8.9, temperature not specified in the publication Homo sapiens
700
-
 Biliverdin mutant enzyme Y102F, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
1200
-
 Biliverdin mutant enzyme Y97F, at pH 8.9, temperature not specified in the publication Rattus norvegicus
2200
-
 Biliverdin mutant enzyme R246A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
3900
-
 Biliverdin mutant enzyme T169A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
3900
-
 Biliverdin wild type enzyme, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
4100
-
 Biliverdin mutant enzyme R188A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
4400
-
 Biliverdin mutant enzyme Y98F, at pH 8.9, temperature not specified in the publication Homo sapiens
4600
-
 Biliverdin wild type enzyme, at pH 8.9, temperature not specified in the publication Homo sapiens
4900
-
 Biliverdin mutant enzyme K237A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
5900
-
 Biliverdin mutant enzyme S184A, at pH 5.8, temperature not specified in the publication Synechocystis sp. PCC 6803
15100
-
 Biliverdin wild type enzyme, at pH 8.9, temperature not specified in the publication Rattus norvegicus