Regulog Cobalamin - Desulfovibrionales
| Regulator type: | RNA regulatory element |
| Name: | Cobalamin |
| RFAM: | RF00174 |
| Regulation mode: | |
| Biological process: | Cobalamin biosynthesis |
| Effector: | Adenosylcobalamin |
| Phylum: | Proteobacteria/delta |
Member of regulog collections
- By taxonomy - Desulfovibrionales
- By RNA motif - Cobalamin
- By effector - Adenosylcobalamin
- By pathway - Cobalamin biosynthesis
| Genome | Genes | Operons |
|---|---|---|
| Desulfovibrio vulgaris Hildenborough | 8 | 3 |
| Desulfovibrio vulgaris str. Miyazaki F | 7 | 2 |
| Desulfovibrio desulfuricans G20 | 8 | 3 |
| Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774 | 6 | 3 |
| Desulfovibrio piger ATCC 29098 | 7 | 3 |
| Desulfovibrio salexigens DSM 2638 | 10 | 4 |
| Desulfovibrio magneticus RS-1 | 7 | 2 |
| Lawsonia intracellularis PHE/MN1-00 | ||
| Desulfomicrobium baculatum DSM 4028 | 12 | 2 |
| Desulfohalobium retbaense DSM 5692 | 2 | 1 |
| Genes | Function | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| CRON 1. | |||||||||||
| cbiK |
*
Desulfovibrio vulgaris Hildenborough Site: position = -318 score = 92.98 sequence = GCCTATGCCGCACGA... Gene: DVU0650: Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
*
Desulfovibrio vulgaris str. Miyazaki F Site: position = -382 score = 95.02 sequence = CTATCCATGAACCTT... Gene: DvMF_1496: Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
*
Desulfovibrio desulfuricans G20 Site: position = -103 score = 99.22 sequence = TAACCCGAATCGATT... Gene: Dde_3103: Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
|
|
*
Desulfovibrio salexigens DSM 2638 Site: position = -306 score = 76.17 sequence = ATATTTAGCCTTTGC... Gene: Desal_2307: Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
*
Desulfovibrio magneticus RS-1 Site: position = -291 score = 83.92 sequence = CTCCCCGGAAATCGA... Gene: DMR_15530: Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
|
*
Desulfomicrobium baculatum DSM 4028 Site: position = -266 score = 92.2 sequence = GCGTCTTTTCCACTT... Gene: Dbac_1710: Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
|
Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
| btuC |
Gene: DVU0649: Vitamin B12 ABC transporter, permease component BtuC |
Gene: DvMF_1497: Vitamin B12 ABC transporter, permease component BtuC |
Gene: Dde_3104: Vitamin B12 ABC transporter, permease component BtuC |
*
Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774 Site: position = -548 score = 77.38 sequence = AAAGTATGCGCGGCA... Gene: Ddes_0796: Vitamin B12 ABC transporter, permease component BtuC |
*
Desulfovibrio piger ATCC 29098 Site: position = -106 score = 83.07 sequence = TAGAGTAGCGCGTCC... Gene: DESPIG_00414: Vitamin B12 ABC transporter, permease component BtuC |
Gene: Desal_2306: Vitamin B12 ABC transporter, permease component BtuC |
Gene: DMR_15520: Vitamin B12 ABC transporter, permease component BtuC |
|
Gene: Dbac_1711: Vitamin B12 ABC transporter, permease component BtuC |
|
Vitamin B12 ABC transporter, permease component BtuC |
| btuD |
Gene: DVU0648: Vitamin B12 ABC transporter, ATPase component BtuD |
Gene: DvMF_1498: Vitamin B12 ABC transporter, ATPase component BtuD |
Gene: Dde_3105: Vitamin B12 ABC transporter, ATPase component BtuD |
Gene: Ddes_0797: Vitamin B12 ABC transporter, ATPase component BtuD |
Gene: DESPIG_00415: Vitamin B12 ABC transporter, ATPase component BtuD |
Gene: Desal_2305: Vitamin B12 ABC transporter, ATPase component BtuD |
Gene: DMR_15510: Vitamin B12 ABC transporter, ATPase component BtuD |
|
Gene: Dbac_1712: Vitamin B12 ABC transporter, ATPase component BtuD |
|
Vitamin B12 ABC transporter, ATPase component BtuD |
| btuF |
Gene: DVU0647: Vitamin B12 ABC transporter, B12-binding component BtuF |
Gene: DvMF_1499: Vitamin B12 ABC transporter, B12-binding component BtuF |
Gene: Dde_3106: Vitamin B12 ABC transporter, B12-binding component BtuF |
Gene: Ddes_0798: Vitamin B12 ABC transporter, B12-binding component BtuF |
Gene: DESPIG_00416: Vitamin B12 ABC transporter, B12-binding component BtuF |
Gene: Desal_2304: Vitamin B12 ABC transporter, B12-binding component BtuF |
Gene: DMR_15500: Vitamin B12 ABC transporter, B12-binding component BtuF |
|
Gene: Dbac_1713: Vitamin B12 ABC transporter, B12-binding component BtuF |
Gene: Dret_0029: Vitamin B12 ABC transporter, B12-binding component BtuF |
Vitamin B12 ABC transporter, B12-binding component BtuF |
| cbiL |
Gene: DVU0646: Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) |
Gene: DvMF_1500: Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) |
Gene: Dde_3107: Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) |
Gene: Ddes_0799: Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) |
Gene: DESPIG_00417: Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) |
Gene: Desal_2303: Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) |
Gene: DMR_15490: Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) |
|
Gene: Dbac_1714: Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) |
|
Cobalt-precorrin-2 C20-methyltransferase (EC 2.1.1.130) |
| cbiA |
Gene: DVU3086: Cobyrinic acid A,C-diamide synthase |
Gene: DvMF_2254: Cobyrinic acid A,C-diamide synthase |
Gene: Dde_0343: Cobyrinic acid A,C-diamide synthase |
|
|
Gene: Desal_0269: Cobyrinic acid A,C-diamide synthase |
Gene: DMR_11850: Cobyrinic acid A,C-diamide synthase |
|
Gene: Dbac_1715: Cobyrinic acid A,C-diamide synthase |
|
Cobyrinic acid A,C-diamide synthase |
| cbiD |
Gene: DVU2750: Cobalt-precorrin-6 synthase, anaerobic |
Gene: DvMF_1174: Cobalt-precorrin-6 synthase, anaerobic |
Gene: Dde_0804: Cobalt-precorrin-6 synthase, anaerobic |
Gene: Ddes_1978: Cobalt-precorrin-6 synthase, anaerobic |
Gene: DESPIG_00350: Cobalt-precorrin-6 synthase, anaerobic |
Gene: Desal_0267: Cobalt-precorrin-6 synthase, anaerobic |
Gene: DMR_11840: Cobalt-precorrin-6 synthase, anaerobic |
|
Gene: Dbac_1716: Cobalt-precorrin-6 synthase, anaerobic |
|
Cobalt-precorrin-6 synthase, anaerobic |
| cbiET |
Gene: DVU2749: Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) |
Gene: DvMF_1175: Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) |
Gene: Dde_0803: Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) |
Gene: Ddes_1979: Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) |
Gene: DESPIG_02409: Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) |
Gene: Desal_0265: Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) |
Gene: DMR_11880: Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) |
|
Gene: Dbac_1717: Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) |
|
Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) |
| cbiG |
Gene: DVU3169: Cobalamin biosynthesis protein CbiG |
Gene: DvMF_2501: Cobalamin biosynthesis protein CbiG |
Gene: Dde_3181: Cobalamin biosynthesis protein CbiG |
Gene: Ddes_2015: Cobalamin biosynthesis protein CbiG |
Gene: DESPIG_02930: Cobalamin biosynthesis protein CbiG |
Gene: Desal_0754: Cobalamin biosynthesis protein CbiG |
Gene: DMR_02540: Cobalamin biosynthesis protein CbiG |
|
Gene: Dbac_1718: Cobalamin biosynthesis protein CbiG |
|
Cobalamin biosynthesis protein CbiG |
| cbiH |
Gene: DVU3170: Cobalt-precorrin-3b C17-methyltransferase |
Gene: DvMF_2500: Cobalt-precorrin-3b C17-methyltransferase |
|
Gene: Ddes_2014: Cobalt-precorrin-3b C17-methyltransferase |
|
Gene: Desal_0755: Cobalt-precorrin-3b C17-methyltransferase |
Gene: DMR_02550: Cobalt-precorrin-3b C17-methyltransferase |
|
Gene: Dbac_1719: Cobalt-precorrin-3b C17-methyltransferase |
|
Cobalt-precorrin-3b C17-methyltransferase |
| btuB |
|
|
|
|
|
|
|
|
|
*
Desulfohalobium retbaense DSM 5692 Site: position = -302 score = 108.92 sequence = GTTGTATCCTGCCCC... Gene: Dret_0028: Outer membrane vitamin B12 receptor BtuB |
Outer membrane vitamin B12 receptor BtuB |
| CRON 2. | |||||||||||
| nrdD |
Gene: DVU0299: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
Gene: DvMF_1819: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
Gene: Dde_0277: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
|
*
Desulfovibrio piger ATCC 29098 Site: position = -330 score = 71.63 sequence = CATCTTGAGCGGGCA... Gene: DESPIG_00246: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
Gene: Desal_2955: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
*2
Desulfovibrio magneticus RS-1 Gene: DMR_44720: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) Site: position = -388 score = 79.47 sequence = AAGAGGGAATCCGGT... Gene: DMR_44320: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
|
Gene: Dbac_3397: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
Gene: Dret_0068: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
| DESPIG_00247 |
|
|
|
|
Gene: DESPIG_00247: Hypothetical protein |
|
|
|
|
|
Hypothetical protein |
| nrdG |
Gene: DVU0300: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
Gene: DvMF_1818: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
Gene: Dde_0278: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
Gene: Ddes_1073: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
Gene: DESPIG_00248: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
Gene: Desal_2954: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
2
Desulfovibrio magneticus RS-1 Gene: DMR_44710: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) Gene: DMR_44330: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
|
*
Desulfomicrobium baculatum DSM 4028 Site: position = -236 score = 55.65 sequence = GTCCTAATACTTAAC... Gene: Dbac_3396: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
Gene: Dret_0069: Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) |
| CRON 3. | |||||||||||
| nrdD |
*
Desulfovibrio vulgaris Hildenborough Site: position = -348 score = 56.34 sequence = TTCCCCGTCTGCTAT... Gene: DVU2947: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
*
Desulfovibrio vulgaris str. Miyazaki F Site: position = -372 score = 26.93 sequence = CAAAGGGAATCCGGT... Gene: DvMF_1473: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
*
Desulfovibrio desulfuricans G20 Site: position = -265 score = 15.74 sequence = AACCGGTGTAATTCC... Gene: Dde_3016: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
|
|
*
Desulfovibrio salexigens DSM 2638 Site: position = -420 score = 40.74 sequence = ACTTCAGGAATCCGT... Gene: Desal_3514: Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
|
|
|
|
Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) |
| DVU2946 |
Gene: DVU2946: Hypothetical protein |
Gene: DvMF_1472: Hypothetical protein |
Gene: Dde_3015: Hypothetical protein |
|
|
Gene: Desal_3513: Hypothetical protein |
|
|
|
|
Hypothetical protein |
| CRON 4. | |||||||||||
| metE |
*
Desulfovibrio vulgaris Hildenborough Site: position = -322 score = 58.99 sequence = TATCAATATGGAGTG... Gene: DVU3371: 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase (EC 2.1.1.14) |
Gene: DvMF_2035: 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase (EC 2.1.1.14) |
*
Desulfovibrio desulfuricans G20 Site: position = -297 score = 79.25 sequence = TTGAATATTGATGAA... Gene: Dde_2328: 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase (EC 2.1.1.14) |
|
|
*
Desulfovibrio salexigens DSM 2638 Site: position = -265 score = 58.56 sequence = TATATTGAATTTGAT... Gene: Desal_0813: 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase (EC 2.1.1.14) |
|
|
|
|
5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase (EC 2.1.1.14) |
| metF |
Gene: DVU0997: 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) |
Gene: DvMF_3034: 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) |
Gene: Dde_2525: 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) |
Gene: Ddes_2008: 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) |
Gene: DESPIG_02490: 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) |
Gene: Desal_0814: 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) |
|
|
|
|
5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) |
| CRON 5. | |||||||||||
| cbiK2 |
|
|
|
*
Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774 Site: position = -255 score = 55.61 sequence = TGACATTTACCGCGC... Gene: Ddes_2334: Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
*
Desulfovibrio piger ATCC 29098 Site: position = -220 score = 47.83 sequence = CCCAAACCGTTTCTG... Gene: DESPIG_01756: Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
|
|
|
|
|
Sirohydrochlorin cobaltochelatase CbiK (EC 4.99.1.3) |
| CRON 6. | |||||||||||
| Ddes_1071 |
|
|
|
*
Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774 Site: position = -138 score = 102.72 sequence = ATTTTCTAGACATTG... Gene: Ddes_1071: Hypothetical protein |
|
|
|
|
|
|
Hypothetical protein |
| CRON 7. | |||||||||||
| nrdA |
|
|
|
|
|
*
Desulfovibrio salexigens DSM 2638 Site: position = -393 score = 38.6 sequence = TCGTTGTGTTTTCAC... Gene: Desal_0826: Ribonucleotide reductase of class Ia (aerobic), alpha subunit (EC 1.17.4.1) |
|
|
|
|
Ribonucleotide reductase of class Ia (aerobic), alpha subunit (EC 1.17.4.1) |
Bluish color - the gene is in regulated operon. Different regulated operons are shown in different shades of blue.
Red color - the gene is in non-regulated operon.
Gray color - the orthologous gene is absent.
The star symbol - the TFBS is located in upstream region of this gene.
The number - the numeber of homologs (shown only if it is greater than one).
|
Regulated Genes | [ Tab delimited format ] | DOWNLOAD |
|
Regulatory Sites | [ FASTA format ] | DOWNLOAD |