All phycobilin lyases and related proteins
Description
This list allows users to retrieve any sequence from any organism included in the database by its locus tag/orf id or Genbank number when available.
Showing only unsure genes
| Gene | Locus tag | Genbank | Species | Strain | PBP in rods | Pigment type | Remark | Length | Last change |
|---|---|---|---|---|---|---|---|---|---|
| CpcE/RpcE family | WH7805_06756 | ZP_01123351.1 | Synechococcus sp. | WH7805 | PC+PEI | 2 | The R-PC-III present in this strain has a PCB:PEB ratio of 2:1 (Sidler, 1994). It is unclear whether WH7805 has CpcE/F or RpcE/F but the presence of CpcT (and not RpcT) however argues for the following pigmentation: alpha-84=PEB; beta-84=PCB; beta-155=PCB. | 265 | 09-19-2012 |
| CpcE/RpcE family | SynRCC307_2066 | YP_001228322.1 | Synechococcus sp. | RCC307 | PC+PEI+PEII | 3eA | Unclear whether this strain has CpcE/F or RpcE/F | 274 | 12-06-2011 |
| CpcE/RpcE family | S7335_2363 | ZP_05035931.1 | Synechococcus sp. | PCC7335 | PC+PEI | CA3 | CpcEII or RpcE | 274 | 12-06-2011 |
| CpcE-I subfamily | N9414_13270 | ZP_01632751.1 | Nodularia spumigena | CCY9414 | PC | 1 | Sequence incomplete: lacks C-term (end of contig) | 158 | 01-10-2012 |
| CpcE-I subfamily | CYB_2736 | YP_478924.1 | Synechococcus sp. | JA-2-3B'a(2-13) | PC | 1 | This is a second copy of cpcE (cpcE-2) NOT associated with a cpcF | 276 | 12-06-2011 |
| CpcE-I subfamily | CYA_2040 | YP_475443.1 | Synechococcus sp. | JA-3-3Ab | PC | 1 | This is a second copy of cpcE (cpcE-2) NOT associated with a cpcF | 275 | 12-06-2011 |
| CpcE-I subfamily | CMJ043C | Cyanidioschyzon merolae | 10D | PC | 1 | Distantly related to cyanobacterial CpcE : many insertions in matching sequences and much longer N-term, found by tblastn | 516 | 02-21-2012 | |
| CpcE-I subfamily | CWATWH0003_3128t1 | EHJ12159.1 | Crocosphaera watsonii | WH0003 | PC+PEI | Incomplete (end of contig) | 212 | 02-22-2012 | |
| CpcE-I subfamily | ZP_18907676 | ZP_18907676.1 | Leptolyngbya sp. | PCC7375 | PC+PEI | 2 | Low protomatch score | 279 | 06-20-2013 |
| CpcE-I subfamily | Pse7367_3924 | YP_007083576.1 | Pseudanabaena sp. | PCC7367 | PC+PEI | 2 copies? | 303 | 06-20-2013 | |
| CpcE-I subfamily | Pse7367_2387 | YP_007103076.1 | Pseudanabaena sp. | PCC7367 | PC+PEI | 2 copies? | 273 | 06-20-2013 | |
| CpcF/RpcF family | WH7805_06761 | ZP_01123352.1 | Synechococcus sp. | WH7805 | PC+PEI | 2 | Unclear whether this strain has CpcE/F or RpcE/F. Two possibilities: a-84 and b-84 = PCB; b-155 = PEB a-84 = PEB,b-84 and b-155 = PCB |
212 | 12-06-2011 |
| CpcF/RpcF family | SynRCC307_2067 | YP_001228323.1 | Synechococcus sp. | RCC307 | PC+PEI+PEII | 3eA | Unclear whether this strain has CpcE/F or RpcE/F | 218 | 12-06-2011 |
| CpcF/RpcF family | S7335_4405 | ZP_05037964.1 | Synechococcus sp. | PCC7335 | PC+PEI | CA3 | CpcFII or RpcF | 225 | 12-06-2011 |
| CpcF-I subfamily | CMJ044C | Cyanidioschyzon merolae | 10D | PC | 1 | found by tblastn | 312 | 02-21-2012 | |
| PecF family | Aazo_0293 | YP_003720001.1 | Anabaena (Nostoc) azollae | 0708 | PC+PEC | Sequence with an N-term shorter than others (seemingly lacks about 22 otherwise conserved aa) but no obvious problem in genome sequence. The missing N-term contains 3 or 4 His in other strains. | 151 | 08-28-2012 | |
| CpeF family | S7335_4282 | ZP_05037842.1 | Synechococcus sp. | PCC7335 | PC+PEI | CA3 | Low blast and protomatch score. | 332 | 01-02-2012 |
| CpeF family | Tery_0978 | YP_720832.1 | Trichodesmium erythraeum | IMS101 | PC+PEI | N-term shortened (24 aa removed) | 310 | 08-30-2012 | |
| CpeF family | Tery_0987 | YP_720840.1 | Trichodesmium erythraeum | IMS101 | PC+PEI | Best BlastP hit on CpeF (but lower than Tery_0978) | 285 | 08-30-2012 | |
| CpeF family | CWATWH0003_5310t4 | EHJ09925.1 | Crocosphaera watsonii | WH0003 | PC+PEI | incomplete n-term (start of contig) | 262 | 02-22-2012 | |
| CpeY family | CwatDRAFT_0665 | ZP_00518425.1 | Crocosphaera watsonii | WH8501 | PC+PEI | There is another partial CpeY sequence in this genome almost 100% identical to this one (possibly an assembly error). | 419 | 08-27-2012 | |
| CpeY family | CwatDRAFT_5980 | ZP_00514215.1 | Crocosphaera watsonii | WH8501 | PC+PEI | Sequence incomplete. N-term extended (35 aa added) but still incomplete. | 282 | 08-27-2012 | |
| CpeZ family | CwatDRAFT_0406 | ZP_00518848.1 | Crocosphaera watsonii | WH8501 | PC+PEI | Low score, similar to Tery_0980 (IMS101) | 219 | 12-02-2011 | |
| CpeZ family | Tery_0980 | YP_720834.1 | Trichodesmium erythraeum | IMS101 | PC+PEI | Blastp hit on cpeZ (but lower than >Tery_0995) | 219 | 09-26-2011 | |
| CpeZ family | CAJ73184.1| | CAJ73184.1 | Guillardia theta | CCMP2712 | Cr-PE 545 | n.a. | Low protoscan score | 229 | 10-28-2011 |
| CpeZ family | CWATWH0003_5315a1 | EHJ09924.1 | Crocosphaera watsonii | WH0003 | PC+PEI | Incomplete, 2nd copy? | 186 | 02-22-2012 | |
| L8106_11777 homologs family | AplaP_010100002137 | ZP_06380464.1 | Arthrospira (Spirulina) platensis | Paraca | PC | 1 | Incomplete n-term (end of contig). Almost identical to homologs in other Arthrospira species. | 179 | 08-27-2012 |
| L8106_22089 homologs family | CwatDRAFT_0171 | ZP_00519405.1 | Crocosphaera watsonii | WH8501 | PC+PEI | split between 3 different contigs: ZP_00517336.1 (CwatDRAFT_2581), ZP_00513741.1 (CwatDRAFT_6637) and ZP_00519405.1 (CwatDRAFT_0171) | 107 | 08-29-2012 | |
| L8106_22089 homologs family | IPF_5551 | CAO86824.1 | Microcystis aeruginosa | PCC7806 | PC | 1 | Incomplete sequence. Another chunk is in IPF_6118 (CAO87604.1) | 325 | 01-10-2012 |
| L8106_22089 homologs family | IPF_6118 | CAO87604.1 | Microcystis aeruginosa | PCC7806 | PC | 1 | Shorter than other L8106_22089 homologs | 251 | 04-24-2013 |
| MC7420_3535 homologs family | alr2986 | NP_487026.1 | Anabaena (Nostoc) sp. | PCC7120 | PC+PEC | 885 | 12-07-2011 | ||
| MC7420_3535 homologs family | AmaxDRAFT_0188 | ZP_03271372.1 | Arthrospira (Spirulina) maxima | CS-328 | PC | 1 | 786 | 12-07-2011 | |
| MC7420_3535 homologs family | PCC7424_1763 | YP_002377065.1 | Cyanothece sp. | PCC7424 | PC+PEI | 2 | 1475 | 12-07-2011 | |
| MC7420_3535 homologs family | PCC8801_0753 | YP_002370992.1 | Cyanothece sp. | PCC8801 | PC+PEI | 2 | 838 | 12-07-2011 | |
| MC7420_3535 homologs family | L8106_24365 | ZP_01619849.1 | Lyngbya aestuarii | CCY9616 (PCC8106/CCY8106) | PC | 1 | 1044 | 12-07-2011 | |
| MC7420_3535 homologs family | MC7420_2915 | ZP_05024179.1 | Microcoleus chthonoplastes | PCC7420 | PC+PEC | 1355 | 12-07-2011 | ||
| MC7420_3535 homologs family | IPF_2635 | CAO90934.1 | Microcystis aeruginosa | PCC7806 | PC | 1 | Much shorter than other MC7420_3535 homologs | 263 | 12-07-2011 |
| MC7420_3535 homologs family | LYNGBM3L_40770 | ZP_08429450.1 | Lyngbya majuscula | 3L | PC+PEI | 2 | 1273 | 12-07-2011 | |
| MC7420_3535 homologs family | OSCI_440025 | ZP_07108865.1 | Oscillatoria sp. | PCC6506 (PCC9029/ATCC29081 /UTEX 1547) | PC | 1 | 992 | 12-07-2011 | |
| MC7420_4701 homologs family | MC7420_1061 | ZP_05028540.1 | Microcoleus chthonoplastes | PCC7420 | PC+PEC | This sequence has a much shorter N-term than others. But not a frameshift. | 173 | 09-11-2012 | |
| CotB homologs 1 family | Cyan7425_3615 | YP_002484296.1 | Cyanothece sp. | PCC7425 | PC | 1 | 221 | 09-26-2011 | |
| CotB homologs 1 family | Synpcc7942_2325 | YP_401342.1 | Synechococcus elongatus | PCC7942 | PC | 1 | N-term shortened (30 aa removed : MASAIAKLSAAPASVTPCGSVKDERLSCAS) | 225 | 08-28-2012 |
| CotB homologs 1 family | syc1777_d | YP_172487.1 | Synechococcus elongatus | PCC6301 (ATCC 27144) | PC | 1 | 225 | 09-26-2011 | |
| CotB homologs 2 family | AM1_0043 | YP_001514445.1 | Acaryochloris marina | MBIC11017 (AM1) | PC | 1 | 221 | 09-26-2011 | |
| CotB homologs 2 family | gvip128 | NP_923927.1 | Gloeobacter violaceus | PCC7421 | PC+PEI | 2 | 233 | 11-24-2011 | |
| CotB homologs 2 family | gvip219 | NP_924521.1 | Gloeobacter violaceus | PCC7421 | PC+PEI | 2 | 234 | 11-24-2011 | |
| CotB homologs 2 family | CMS328C | Cyanidioschyzon merolae | 10D | PC | 1 | on contig c19f0009, found by tblastn | 332 | 02-21-2012 | |
| CotB homologs 2 family | CMM226C | Cyanidioschyzon merolae | 10D | PC | 1 | on contig c13f0002, found by tblastn | 420 | 02-21-2012 | |
| CotB homologs 2 family | ACCM5_010100026572 | ZP_09250884.1 | Acaryochloris sp. | CCMEE5410 | APC only | 221 | 01-24-2012 | ||
| CotB homologs 2 family | AplaP_010100006817 | ZP_06381377.1 | Arthrospira (Spirulina) platensis | Paraca | PC | 1 | Incomplete - lacks C-term (end of contig) | 154 | 09-13-2012 |
| CpcS family | AM1_4215 | YP_001518512.1 | Acaryochloris marina | MBIC11017 (AM1) | PC | 1 | 1st copy, strange position in phylogeny. By blast: closer from CpcSI. | 197 | 08-20-2012 |
| CpcS family | AM1_C0217 | YP_001521653.1 | Acaryochloris marina | MBIC11017 (AM1) | PC | 1 | 2nd copy,strange position in phylogeny. By blast: closer from CpcSI. Located on preb3 plasmid. | 208 | 08-20-2012 |
| CpcS family | CMR092C | Cyanidioschyzon merolae | 10D | PC | 1 | long N-term compared to cyanobacterial CpcS sequences, found by tblastn | 405 | 02-21-2012 | |
| CpcS-I subfamily | gvip161 | NP_924137.1 | Gloeobacter violaceus | PCC7421 | PC+PEI | 2 | strange position in phylogenetic trees | 201 | 01-18-2018 |
| CpcS-I subfamily | Npun_F3809 | YP_001867136.1 | Nostoc punctiforme | ATCC29133 (PCC73102) | PC+PEI | 2 | CpcSIII in Schluchter et al., 2010? | 206 | 09-26-2011 |
| CpcS-I subfamily | ACCM5_010100032969 | ZP_09252138.1 | Acaryochloris sp. | CCMEE5410 | APC only | 196 | 08-24-2012 | ||
| CpcS-III subfamily | Mic7113_0798 | YP_007120112.1 | Microcoleus sp. | PCC7113 | PC+PEI | 2 | Found both CpcS-I and CpcS-III in this strain? | 188 | 06-20-2013 |
| CpcU-I subfamily | AM1_5938 | YP_001520196.1 | Acaryochloris marina | MBIC11017 (AM1) | PC | 1 | N-term extended (22 aa added). Low blast and protomatch score with other CpcU-I sequences. | 184 | 09-16-2012 |
| CpcU-I subfamily | LYNGBM3L_17960 | ZP_08426426.1 | Lyngbya majuscula | 3L | PC+PEI | 2 | Protomata tells it is CpcU. Blast tells it is CpcSIII (but with a 17aa gap) |
190 | 10-19-2011 |
| CpcU-I subfamily | ACCM5_010100021921 | ZP_09249963.1 | Acaryochloris sp. | CCMEE5410 | APC only | 184 | 01-24-2012 | ||
| CpcU-I subfamily | Dacsa_0519 | YP_007170660.1 | Dactylococcopsis salina | PCC8305 | 190 | 06-20-2013 | |||
| CpcU-I subfamily | PCC7418_3771 | YP_007170089.1 | Halothece sp. | PCC7418 | PC | 179 | 06-20-2013 | ||
| CpcU-II subfamily | CPCC7001_xx | Cyanobium sp. | PCC7001 | PC | 1 | Found using tblastn. Orf not detected in refseq. | 166 | 02-21-2012 | |
| CpeS-I subfamily | gi|145967347|gb|ABP99029.1| | ABP99029.1 | Fremyella diplosiphon (Tolypothrix sp. / Calothrix sp.) | Fd33 (UTEX481/PCC7601) | PC+PEI | CA3 | N-term shortened (6 aa removed: METKVL). C-term much longer than in other CpeS-I sequences and also includes a specific sequence at between aa 103-112. | 215 | 09-17-2012 |
| CpcT family | CMK263C | Cyanidioschyzon merolae | 10D | PC | 1 | found by tblastn | 263 | 02-21-2012 | |
| CpcT family | GTHECHR1104 | XP_001713602.1 | Guillardia theta | CCMP2712 | Cr-PE 545 | n.a. | Low protoscan score but best BLASTP match to the CpcT family. This cpcT-like gene was characterized by complementation of Synechocystis sp. PCC6803 cpcT (Bolte et al. 2008). However, since G. theta possesses PE (Cr-PE 545) not PC, the function of this gene (despite its closest similarity to cpcT than cpeT families) must likely be to attach a PEB at Cys-159 of beta-PE. | 222 | 09-28-2012 |
| CpcT family | HAN_1g134 | XP_001712298.1 | Hemiselmis andersenii | CCMP644 | Cr-PE 555 | n.a. | 221 | 01-24-2012 | |
| CpcT family | Pse7367_2699 | YP_007103382.1 | Pseudanabaena sp. | PCC7367 | PC+PEI | Low protomatch score | 202 | 06-20-2013 | |
| CpeT family | CwatDRAFT_5720 | ZP_00514725.1 | Crocosphaera watsonii | WH8501 | PC+PEI | Similar to CpeT, but with a 51 aa deletion in the middle. N- and C-term closely related to WH0003 cpeT sequence. | 149 | 09-26-2012 | |
| T homologs family | Syn6312_3060 | YP_007062655.1 | Synechococcus sp. | PCC6312 | PC | 192 | 06-12-2013 |
Model strains, Marine strains
Last update: 15 Oct 2012 10:39:49
