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Conserved domains on  [gi|2490667246|gb|WGG26771|]
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phycocyanin subunit beta, partial [Synechococcus sp.]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CpcB COG5688
Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];
1-167 9.90e-102

Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];


:

Pssm-ID: 444402  Cd Length: 172  Bit Score: 289.24  E-value: 9.90e-102
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:COG5688     6 SRVVSQADARGEFLSGAQLDALKAFVADGNKRLDAVNRITSNASCIVADAARGLFAEQPGLIQPGGNAYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGITQGDCSALISEIGTYFD 160
Cdd:COG5688    86 MEIILRYVTYALLAGDASVLDDRCLNGLRETYQALGVPGASVARGVQKMKAAAVAIANDTNGITQGDCSSLASEVASYFD 165


                  ....*..
gi 2490667246 161 RAAAAVG 167
Cdd:COG5688   166 RAAAAVS 172
 
Name Accession Description Interval E-value
CpcB COG5688
Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];
1-167 9.90e-102

Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];


Pssm-ID: 444402  Cd Length: 172  Bit Score: 289.24  E-value: 9.90e-102
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:COG5688     6 SRVVSQADARGEFLSGAQLDALKAFVADGNKRLDAVNRITSNASCIVADAARGLFAEQPGLIQPGGNAYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGITQGDCSALISEIGTYFD 160
Cdd:COG5688    86 MEIILRYVTYALLAGDASVLDDRCLNGLRETYQALGVPGASVARGVQKMKAAAVAIANDTNGITQGDCSSLASEVASYFD 165


                  ....*..
gi 2490667246 161 RAAAAVG 167
Cdd:COG5688   166 RAAAAVS 172
PC_PEC_beta cd14768
Beta subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; ...
 1-166 1.83e-94

Beta subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271301  Cd Length: 171  Bit Score: 270.94  E-value: 1.83e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:cd14768     6 TKVVAQADARGEFLSNAQIDALSAMVAEGNKRLDVVNRITSNASTIVSNAARALFAEQPQLIAPGG*AYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGITQGDCSALISEIGTYFD 160
Cdd:cd14768    86 MEIILRYVTYAVFAGDASVLDDRCLNGLRETYQALGTPGSSVAVGVQKMKEAALAIVNDPNGITPGDCSALMSEIATYFD 165


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:cd14768   166 RAAAAV 171
phycocy_beta TIGR01339
phycocyanin, beta subunit; This model describes the phycocyanin beta subunit. Other, ...
 1-166 2.95e-94

phycocyanin, beta subunit; This model describes the phycocyanin beta subunit. Other, homologous phycobiliproteins of the phycobilisome include phycocyanin beta chain and the allophycocyanin and phycoerythrin alpha and beta chains. This model excludes the closely related phycoerythrocyanin beta subunit. [Energy metabolism, Photosynthesis]


Pssm-ID: 273560  Cd Length: 171  Bit Score: 270.70  E-value: 2.95e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:TIGR01339   5 TRVVSQADARGEFISSDKIDALKKVVSEGNKRSDAVSRITNNASSIVTNAARQLFADQPQLIAPGGNAYTSRRMAACLRD 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGITQGDCSALISEIGTYFD 160
Cdd:TIGR01339  85 MEIILRYVTYATFTGDASVLEDRCLNGLRETYLALGTPGASVAAGVRAMKDAALAIVNDPAGITSGDCSSLQQEIETYFD 164


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:TIGR01339 165 RAAAAV 170
cpcB CHL00171
phycocyanin beta subunit; Reviewed
 1-166 1.10e-84

phycocyanin beta subunit; Reviewed


Pssm-ID: 100271  Cd Length: 172  Bit Score: 246.45  E-value: 1.10e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:CHL00171    6 AKVVAQADARGEFLSNTQLDALSKMVAEGNKRLDAVNKINANASTIVTNAARSLFAEQPQLIQPGGNAYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGITQGDCSALISEIGTYFD 160
Cdd:CHL00171   86 MEIVLRYVSYAMIAGDSSVLDDRCLNGLRETYQALGVPGSSVAVAVQKMKEAAVSLANDSSGVTVGDCSALISELASYFD 165


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:CHL00171  166 RAAVAV 171
Phycobilisome pfam00502
Phycobilisome protein;
2-166 9.88e-63

Phycobilisome protein;


Pssm-ID: 425723 [Multi-domain]  Cd Length: 155  Bit Score: 190.01  E-value: 9.88e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   2 KVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRDM 81
Cdd:pfam00502   1 EVIAAADAEGRYLSDGELEALKGFFQSGEARLEAANALASNADEIVKEAAAQLFQKYPDLTQPGGNAYTTRRTAACLRDI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  82 DIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGitqgdcsaliSEIGTYFDR 161
Cdd:pfam00502  81 DYYLRYITYALVAGDTSPLDERGLNGLRETYNSLGVPIGAMVEAIQCMKEAALQLLSPEAA----------AEAAPYFDY 150


                  ....*
gi 2490667246 162 AAAAV 166
Cdd:pfam00502 151 LINAL 155
 
Name Accession Description Interval E-value
CpcB COG5688
Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];
1-167 9.90e-102

Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];


Pssm-ID: 444402  Cd Length: 172  Bit Score: 289.24  E-value: 9.90e-102
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:COG5688     6 SRVVSQADARGEFLSGAQLDALKAFVADGNKRLDAVNRITSNASCIVADAARGLFAEQPGLIQPGGNAYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGITQGDCSALISEIGTYFD 160
Cdd:COG5688    86 MEIILRYVTYALLAGDASVLDDRCLNGLRETYQALGVPGASVARGVQKMKAAAVAIANDTNGITQGDCSSLASEVASYFD 165


                  ....*..
gi 2490667246 161 RAAAAVG 167
Cdd:COG5688   166 RAAAAVS 172
PC_PEC_beta cd14768
Beta subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; ...
 1-166 1.83e-94

Beta subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271301  Cd Length: 171  Bit Score: 270.94  E-value: 1.83e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:cd14768     6 TKVVAQADARGEFLSNAQIDALSAMVAEGNKRLDVVNRITSNASTIVSNAARALFAEQPQLIAPGG*AYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGITQGDCSALISEIGTYFD 160
Cdd:cd14768    86 MEIILRYVTYAVFAGDASVLDDRCLNGLRETYQALGTPGSSVAVGVQKMKEAALAIVNDPNGITPGDCSALMSEIATYFD 165


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:cd14768   166 RAAAAV 171
phycocy_beta TIGR01339
phycocyanin, beta subunit; This model describes the phycocyanin beta subunit. Other, ...
 1-166 2.95e-94

phycocyanin, beta subunit; This model describes the phycocyanin beta subunit. Other, homologous phycobiliproteins of the phycobilisome include phycocyanin beta chain and the allophycocyanin and phycoerythrin alpha and beta chains. This model excludes the closely related phycoerythrocyanin beta subunit. [Energy metabolism, Photosynthesis]


Pssm-ID: 273560  Cd Length: 171  Bit Score: 270.70  E-value: 2.95e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:TIGR01339   5 TRVVSQADARGEFISSDKIDALKKVVSEGNKRSDAVSRITNNASSIVTNAARQLFADQPQLIAPGGNAYTSRRMAACLRD 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGITQGDCSALISEIGTYFD 160
Cdd:TIGR01339  85 MEIILRYVTYATFTGDASVLEDRCLNGLRETYLALGTPGASVAAGVRAMKDAALAIVNDPAGITSGDCSSLQQEIETYFD 164


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:TIGR01339 165 RAAAAV 170
cpcB CHL00171
phycocyanin beta subunit; Reviewed
 1-166 1.10e-84

phycocyanin beta subunit; Reviewed


Pssm-ID: 100271  Cd Length: 172  Bit Score: 246.45  E-value: 1.10e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:CHL00171    6 AKVVAQADARGEFLSNTQLDALSKMVAEGNKRLDAVNKINANASTIVTNAARSLFAEQPQLIQPGGNAYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGITQGDCSALISEIGTYFD 160
Cdd:CHL00171   86 MEIVLRYVSYAMIAGDSSVLDDRCLNGLRETYQALGVPGSSVAVAVQKMKEAAVSLANDSSGVTVGDCSALISELASYFD 165


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:CHL00171  166 RAAVAV 171
PE-PC-PEC_beta cd12127
Beta subunits of phycocyanin, phycoerythrin and phycoerythrocyanin; phycobilisome rod ...
 1-166 9.54e-77

Beta subunits of phycocyanin, phycoerythrin and phycoerythrocyanin; phycobilisome rod components; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC). This family also includes the beta subunits of Cryptophyte phycobiliproteins which represent another type of biliprotein antenna with different structure and organization. The beta subunits of cryptophyte PBPs share a high degree of sequence identity with both the alpha and beta subunits of the cyanobacterial and red algal PBPs, however the alpha cryptophyte subunits are shorter, and unrelated. There is only one type of PBP present in a single species, either phycocyanin or phycoerythrin, but not allophycocyanin. Structurally, phycoerythrin in cryptophytes is an alpha1alpha2betabeta dimer and not a trimer as in the PBS.


Pssm-ID: 381266  Cd Length: 174  Bit Score: 226.21  E-value: 9.54e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:cd12127     6 SRVVVQADAKGEYLSNAQLDALKKFIAEGNKRLDAVNRITSNASCIVADAVRAMICENPQLINPGG*CYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNG---ITQGDCSALISEIGT 157
Cdd:cd12127    86 GEIILRYVSYALLAGDSSVLDDRCLNGLKETYQALGVPGSSVARAIEKMKEAAVAIANDTNGgrsGTKGDCSDLASEAAS 165


                  ....*....
gi 2490667246 158 YFDRAAAAV 166
Cdd:cd12127   166 YFDRAIAAV 174
ApcB COG5685
Allophycocyanin beta chain [Energy production and conversion];
1-166 3.97e-63

Allophycocyanin beta chain [Energy production and conversion];


Pssm-ID: 444399 [Multi-domain]  Cd Length: 162  Bit Score: 191.31  E-value: 3.97e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:COG5685     6 TSLIKNYDVQGRYLDRNALDKLKAYFASGTARVQAAALINSNAASIVKDAAAKLFAEYPELIRPGGNAYTTRRYAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGitqgdcsaliSEIGTYFD 160
Cdd:COG5685    86 MDYYLRYATYALVAGDASVLDERVLNGLRETYNSLGVPIGPTVRGIQIMKEVVKSMVADAGG----------AEVDEYFD 155


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:COG5685   156 HLIRGL 161
Phycobilisome pfam00502
Phycobilisome protein;
2-166 9.88e-63

Phycobilisome protein;


Pssm-ID: 425723 [Multi-domain]  Cd Length: 155  Bit Score: 190.01  E-value: 9.88e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   2 KVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRDM 81
Cdd:pfam00502   1 EVIAAADAEGRYLSDGELEALKGFFQSGEARLEAANALASNADEIVKEAAAQLFQKYPDLTQPGGNAYTTRRTAACLRDI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  82 DIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGitqgdcsaliSEIGTYFDR 161
Cdd:pfam00502  81 DYYLRYITYALVAGDTSPLDERGLNGLRETYNSLGVPIGAMVEAIQCMKEAALQLLSPEAA----------AEAAPYFDY 150


                  ....*
gi 2490667246 162 AAAAV 166
Cdd:pfam00502 151 LINAL 155
cpeB CHL00172
phycoerythrin beta subunit; Provisional
 1-166 5.46e-61

phycoerythrin beta subunit; Provisional


Pssm-ID: 133617  Cd Length: 177  Bit Score: 186.43  E-value: 5.46e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:CHL00172    6 SRVVTNSDAKAAYVGGSDLQALKKFISEGNKRLDSVNSIVSNASCIVSDAVSGMICENPGLISPGGNCYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIAND-----RNGITQGDCSALISEI 155
Cdd:CHL00172   86 GEIILRYVSYALLAGDPSVLEDRCLNGLKETYIALGVPANSSARAVSIMKASAVAFINNtasqrKMSTAQGDCSALASEV 165

                         170
                  ....*....|.
gi 2490667246 156 GTYFDRAAAAV 166
Cdd:CHL00172  166 ASYFDRVTAAI 176
PE_beta-like cd14767
Phycoerythrin beta subunit, a component of the phycobilisome rod; and related proteins; ...
 1-166 1.56e-56

Phycoerythrin beta subunit, a component of the phycobilisome rod; and related proteins; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC). This subfamily also includes the beta subunits of Cryptophyte phycobiliproteins which represent another type of biliprotein antenna with different structure and organization. The beta subunits of cryptophyte PBPs share a high degree of sequence identity with both the alpha and beta subunits of the cyanobacterial and red algal PBPs, however the alpha cryptophyte subunits are shorter, and unrelated. There is only one type of PBP present in a single species, either phycocyanin or phycoerythrin, but not allophycocyanin. Structurally, phycoerythrin in cryptophytes is an alpha1alpha2betabeta dimer and not a trimer as in the PBS.


Pssm-ID: 271300  Cd Length: 176  Bit Score: 175.08  E-value: 1.56e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:cd14767     6 SRVVVNADSKAAYVGGSDLQALKTFISDGNKRLDAVNYIVSNASCIVSDAVSGMICENPGLISPGG*CYTNRRMAACLRD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIAND-----RNGITQGDCSALISEI 155
Cdd:cd14767    86 GEIILRYVSYALLAGDASVLEDRCLNGLKETYIALGVPTNSNIRAVSIMKATAVAFINNtasqrKLETPQGDCSALASEA 165

                         170
                  ....*....|.
gi 2490667246 156 GTYFDRAAAAV 166
Cdd:cd14767   166 ASYFDKVTAAI 176
APC_beta cd12126
Allophycocyanin beta subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main ...
 1-130 2.27e-44

Allophycocyanin beta subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271281 [Multi-domain]  Cd Length: 163  Bit Score: 143.63  E-value: 2.27e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:cd12126     6 TSVINRYDVTGKYLDRNAIDKLKAYFDTGELRVQAAKVINANAAEIIKEASAKLFEEYPELLRPGGNAYTTRRYAACLRD 85

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMK 130
Cdd:cd12126    86 MDYYLRYATYAILAGDTSILDERVLNGLKDTYNSLGVPIGPTVRAIQLMK 135
PBP-like cd08919
Phycobiliproteins (PBPs) and related proteins; phycobilisomes (PBSs) are the main ...
 1-166 6.91e-43

Phycobiliproteins (PBPs) and related proteins; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC). This family also contains allophycocyanin-like (Apl) proteins, which conserve the residues critical for chromophore interactions, but may not maintain the proper alpha-beta subunit interactions and tertiary structure of PBPs. The genes encoding the Apl proteins cluster with light-responsive regulatory components, so these may have photoresponsive regulatory role(s). Included in this family is the PBP-like domain of the core-membrane linker polypeptide (LCM). The LCM serves both as a terminal energy acceptor and as a linker polypeptide. Its single phycocyanobilin (PCB) chromophore is one of two terminal energy transmitters, and transfers excitations from the hundreds of chromophores of the PBS to the RCs. This family also includes some proteins which have glutathione-S-transferases (GST) domains N-terminal to this PBP-like domain.


Pssm-ID: 381259  Cd Length: 153  Bit Score: 139.73  E-value: 6.91e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADArGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNaytsRRMAACLRD 80
Cdd:cd08919     3 TKLIAEADG-GRYLSSSELQALKGYIQSAEARLEAAEKLRENAEEIVKQAVRKLFAENPPLFRPGG*----DRSAKCLRD 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAaiaiandrngITQGDCSALISEIGTYFD 160
Cdd:cd08919    78 LDYVLRYIAYAMLAGDPDPLDERLLNWLREIYKALGVPLDAYAAAYKDMKEA----------ASQLLTPEAAKLVRPYLD 147


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:cd08919   148 YAISAL 153
apcA CHL00086
allophycocyanin alpha subunit
 1-166 1.15e-36

allophycocyanin alpha subunit


Pssm-ID: 164492 [Multi-domain]  Cd Length: 161  Bit Score: 124.33  E-value: 1.15e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:CHL00086    5 TKSIVNADAEARYLSPGELDRIKSFVLSGQRRLRIAQILTDNRERIVKQGGQQLFQKRPDIVSPGGNAYGEEMTATCLRD 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAiaiandrNGITQGDCSAlisEIGTYFD 160
Cdd:CHL00086   85 LDYYLRLVTYGIVAGDVTPIEEIGLVGVKEMYNSLGTPISGVAEGVRSMKSVA-------CSLLAGEDSA---EAGFYFD 154


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:CHL00086  155 YTIGAM 160
apcF CHL00089
allophycocyanin beta 18 subunit
 1-130 7.83e-36

allophycocyanin beta 18 subunit


Pssm-ID: 100206  Cd Length: 169  Bit Score: 122.21  E-value: 7.83e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:CHL00089    6 TAIINRYDLTGKYLDKNAITQLNSYFSSASDRIKIVEIINAQASNIIKEASAQLFEEQPELLRPGGNAYTTRRYAACLRD 85

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMK 130
Cdd:CHL00089   86 IEYYLRYASYAIVAGDTNILDERVLDGLKDTYNSLGVPIAPTVRSIELLK 135
ApcA COG5684
Allophycocyanin alpha chain [Energy production and conversion];
1-166 5.92e-35

Allophycocyanin alpha chain [Energy production and conversion];


Pssm-ID: 444398 [Multi-domain]  Cd Length: 161  Bit Score: 119.58  E-value: 5.92e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:COG5684     5 IQVIQNADDELRYLTDGELEQIKAFLPSGEQRLRIAKTLRDNAKKIVDQARKQLLQKRPDITAPGGNAYGQERAAACLRD 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDrngitqgdcsALISEIGTYFD 160
Cdd:COG5684    85 FWHYLRLITYGIAAGDKDPIEEIGLIGVREMYQSLGVPLPAMVEGIRCLKEASLSLLSG----------EDAAEAAPYFD 154


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:COG5684   155 YLIQAM 160
APC_alpha cd12125
Allophycocyanin alpha subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main ...
 1-160 6.50e-35

Allophycocyanin alpha subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 381265 [Multi-domain]  Cd Length: 159  Bit Score: 119.69  E-value: 6.50e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:cd12125     4 SQIILNADDELRYPSPGELEAIQDFFNTGEQRIRIAKTLAENEKKIVEQASKQLWQRCPDTPSPGGNAYGEKKTALCLRD 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAiaiandrngitqgdcSALIS-----EI 155
Cdd:cd12125    84 QGWYLRLITYGILAGDVEPLEEIGLIGVREMYNSLGVPLPNMVEAMRCLKEAA---------------LALLSpedaaEA 148


                  ....*
gi 2490667246 156 GTYFD 160
Cdd:cd12125   149 APYFD 153
apcB CHL00088
allophycocyanin beta subunit
 1-167 1.75e-32

allophycocyanin beta subunit


Pssm-ID: 164493 [Multi-domain]  Cd Length: 161  Bit Score: 113.54  E-value: 1.75e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNA-ARDLFEAQpaLTAPGGNAYTSRRMAACLR 79
Cdd:CHL00088    6 TSVINAADVQGKYLDDNSVEKLRSYFQTGELRVRAAATIAANAATIIKEAvAKSLLYSD--ITRPGGNMYTTRRYAACIR 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  80 DMDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNGitqgdcsaliSEIGTYF 159
Cdd:CHL00088   84 DLDYYLRYATYGMLAGDPSILDERVLNGLKETYNSLGVPIGATIQAIQAMKEVTASLVGPDAG----------KEMGVYF 153


                  ....*...
gi 2490667246 160 DRAAAAVG 167
Cdd:CHL00088  154 DYICSGLS 161
apcD CHL00090
allophycocyanin gamma subunit
 1-166 1.47e-26

allophycocyanin gamma subunit


Pssm-ID: 164494  Cd Length: 161  Bit Score: 98.31  E-value: 1.47e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:CHL00090    5 SQIILNADDELRYPTIGELESIQDYLKTGEKRIRIATILRDNEKEIIQKASKQLFQIHPEYIAPGGNASGSRQRSLCLRD 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAAAIAIANDRNgitqgdcsalISEIGTYFD 160
Cdd:CHL00090   85 YGWYLRLITYGVLAGDKNSIEKIGIIGVREMYNSLGVPIIGMVDSIQCLKEAALEVLSPED----------VKIIEPYFD 154


                  ....*.
gi 2490667246 161 RAAAAV 166
Cdd:CHL00090  155 YIIQGM 160
PE-PC-PEC_alpha cd12129
Alpha subunits of phycoerythrin, phycocyanin and phycoerythrocyanin; phycobilisome rod ...
 1-120 2.25e-15

Alpha subunits of phycoerythrin, phycocyanin and phycoerythrocyanin; phycobilisome rod components; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271284  Cd Length: 161  Bit Score: 69.18  E-value: 2.25e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAY--TSRRMAACL 78
Cdd:cd12129     5 TEAIAAADAAGRFLSNTELQAVQGRFQRAAARLEAARALANNHEAVVKEAADAVYQKFPYTTNMQGPQYasTPEGKAKCY 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2490667246  79 RDMDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGT 120
Cdd:cd12129    85 RDIDHYLRLINYCLVVGGTGPLDEYGIAGLREVNSALNLSPS 126
PC-PEC_alpha cd14770
Alpha subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; ...
 1-110 2.64e-14

Alpha subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271303  Cd Length: 162  Bit Score: 66.41  E-value: 2.64e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGN--AYTSRRMAACL 78
Cdd:cd14770     6 TEAIAAADSQGRFLSNTELQAAFGRFRRATASLEAARALTSNADSLISGAAQAVYNKFPYTTQMQGPqyASTQTGKAKCA 85

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2490667246  79 RDMDIILRYITYAIFNGDASVLEDRCLNGLRE 110
Cdd:cd14770    86 RDIGYYLRMVTYCLVAGGTGPMDEYLIAGLDE 117
Apl cd12130
Allophycocyanin-like globins; phycobilisomes (PBSs) are the main light-harvesting complex in ...
 2-118 4.16e-14

Allophycocyanin-like globins; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC). This subfamily contains allophycocyanin-like proteins (Apls), which have conserved the residues critical for chromophore interactions, but may not maintain the proper alpha-beta subunit interactions and tertiary structure of phycobiliproteins. Indeed AplA isolated from Fremyella diplosiphon was not detected in phycobilisomes. As the genes encoding Apls cluster with light-responsive regulatory components, Apls may have photoresponsive regulatory role(s).


Pssm-ID: 381268  Cd Length: 154  Bit Score: 65.77  E-value: 4.16e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   2 KVVAQADARGEFINAGQIDALAAMVSESNKRMDavnRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRDM 81
Cdd:cd12130     3 ALLQAADDERRYLTDEELQAICQLSGVDAAPAR---QLRDQAHELVDQARATLLAQFPGITEPGGALYPPERAEACWRDC 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2490667246  82 DIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVP 118
Cdd:cd12130    80 WHFLRCITYGIAGGQTDFTSPEGLGAMRLLYQELQVP 116
apcE CHL00091
phycobillisome linker protein
 3-110 1.07e-13

phycobillisome linker protein


Pssm-ID: 164495 [Multi-domain]  Cd Length: 877  Bit Score: 67.55  E-value: 1.07e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   3 VVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLF----------EAQPALTAPGGNA---- 68
Cdd:CHL00091   24 TISQAEQQDRFLQLGELDQLVTYLNSGNKRLEIADILTKNANLIVSRAADRIFvggspisyleRPQAAVTLTGDQSsqtk 103

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2490667246  69 ----------------------------------YTSRRMAACLRDMDIILRYITYAIFNGDASVLEDRcLNGLRE 110
Cdd:CHL00091  104 iqslsgniqgnffrslfnaggatpagfkpinvvrYGTTRMRKSLRDLDWFLRYLTYAIVAGDPNILSVN-IRGLRE 178
Globin-like cd01067
Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety ...
 35-166 2.28e-12

Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety of all-helical proteins that bind porphyrins, phycobilins, and other non-heme cofactors, and play various roles in all three kingdoms of life, including sensors or transporters of oxygen. It includes the M/myoglobin-like, S/sensor globin, and T/truncated globin (TrHb) families, and the phycobiliproteins (PBPs). The M family includes chimeric (FHbs/flavohemoglobins) and single-domain globins: FHbs, Ngbs/neuroglobins, Cygb/cytoglobins, GbE/avian eye specific globin E, GbX/globin X, amphibian GbY/globin Y, Mb/myoglobin, HbA/hemoglobin-alpha, HbB/hemoglobin-beta, SDgbs/single-domain globins related to FHbs, and Adgb/androglobin. The S family includes GCS/globin-coupled sensors, Pgbs/protoglobins, and SSDgbs/sensor single domain globins. The T family is classified into three main groups: TrHb1s (N), TrHb2s (O) and TrHb3s (P). The M- and S families exhibit the canonical secondary structure of hemoglobins, a 3-over-3 alpha-helical sandwich structure (3/3 Mb-fold), built by eight alpha-helical segments (named A through H). For M family Adgbs, this globin domain is permuted, such that C-H are followed by A-B. The T family globins adopt a 2-on-2 alpha-helical sandwich structure, resulting from extensive and complex modifications of the canonical 3-on-3 alpha-helical sandwich that are distributed throughout the whole protein molecule. PBPs bind the linear tetrapyrrole chromophore, phycobilin, a prosthetic group chemically and metabolically related to iron protoporphyrin IX/protoheme. Examples of other globin-like domains which bind non-heme cofactors include those of the Bacillus anthracis sporulation inhibitors pXO1-118 and pXO2-61 which bind fatty acid and halide in vitro, and the globin-like domain of Bacillus subtilis RsbRA which is presumed to channel sensory input to the C-terminal sulfate transporter/ anti-sigma factor antagonist (STAT) domain. RsbRA is a component of the sigma B-activating stressosome, and a regulator of the RNA polymerase sigma factor subunit sigma (B).


Pssm-ID: 381255 [Multi-domain]  Cd Length: 119  Bit Score: 60.16  E-value: 2.28e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  35 AVNRITSNASKIVTNAARDLF--EAQPALTAPGGnaytsrRMAACLRDMDIILRYITYAIFNGDAsvlEDRCLNGLRETY 112
Cdd:cd01067     1 AWGYLEENQEEIVDDFYDRLFalPSLSELFSPPG------RLAKCIRKQMHFLRYALYGLVDGDS---IEEGLAGLGEAH 71

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2490667246 113 LALGVPGTSVAEGVRKMKAAAIAIANDRNgitqgdCSALISEIGTYFDRAAAAV 166
Cdd:cd01067    72 KSLGVPISYFIAALNVMKDVLTELLGDKF------TPAAGEAWTKIFDYIISSM 119
cpcA CHL00170
phycocyanin alpha subunit; Reviewed
 1-166 4.10e-12

phycocyanin alpha subunit; Reviewed


Pssm-ID: 100270  Cd Length: 162  Bit Score: 60.79  E-value: 4.10e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRM--AACL 78
Cdd:CHL00170    6 TEAIASADSQGRFLSNGELQACNGRFQRAAASLEAARSLTSNAQRLIDGAAQAVYTKFPYTTQMPGPTYASSAIgkAKCA 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  79 RDMDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMKAaaiaiandrngiTQGDCSALISEIGTY 158
Cdd:CHL00170   86 RDIGYYLRMVTYCLVAGGTGPMDEYLVAGLEEINRSFDLSPSWYVEALKYIKA------------SHGLSGQAANEANAY 153


                  ....*...
gi 2490667246 159 FDRAAAAV 166
Cdd:CHL00170  154 LDYAINAL 161
PE_alpha cd14769
Phycoerythrin alpha subunit, a phycobilisome rod component; phycobilisomes (PBSs) are the main ...
 1-130 7.91e-12

Phycoerythrin alpha subunit, a phycobilisome rod component; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae. In general, they consist of a central core and surrounding rods and function to harvest and channel light energy toward the photosynthetic reaction centers within the membrane. They are comprised of phycobiliproteins/chromophorylated proteins (PBPs) maintained together by linker polypeptides. PBPs have different numbers of chromophores, and the basic monomer component (alpha/beta heterodimers) can further oligomerize to ring-shaped trimers (heterohexamers) and hexamers (heterododecamers). Stacked PBP hexamers form both the core and the rods of the PBS; the core is mainly made up by allophycocyanin (APC) while the rods can be composed of the PBPs phycoerythrin (PE), phycocyanin (PC) and phycoerythrocyanin (PEC).


Pssm-ID: 271302  Cd Length: 164  Bit Score: 59.92  E-value: 7.91e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:cd14769     6 TTVISAADAAGRFPSSSDLESVQGNIQRAAARLEAAEKLAANHEAVVKEAGDACFAKYPYLKNPGEAGENQEKINKCYRD 85

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTSVAEGVRKMK 130
Cdd:cd14769    86 IDHYMRLINYCLVVGGTGPLDEWGIAGAREVYRALNLPTSAYVAAFAFTR 135
ApcE COG5693
Phycobilisome linker protein ApcE [Energy production and conversion];
4-110 1.39e-10

Phycobilisome linker protein ApcE [Energy production and conversion];


Pssm-ID: 444407 [Multi-domain]  Cd Length: 904  Bit Score: 58.59  E-value: 1.39e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   4 VAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLF-------------EAQPALTAPGGNA-- 68
Cdd:COG5693    25 ISQAEQQDRFLGRGELNELASYFRSGAKRLEIAQTLTQNSDLIVSRAANRIFtggspmaflekprEEEMAMVGAGGGSgd 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246  69 ----------------------------------------------YTSRRMAACLRDMDIILRYITYAIFNGDASVLed 102
Cdd:COG5693   105 vqegmklgtvtyvesgggfleglrslfsasgsgpipagfrpinvsrYGPSNMQKSLRDLSWFLRYVTYAIVAGDPNII-- 182

                         170
                  ....*....|
gi 2490667246 103 rCLN--GLRE 110
Cdd:COG5693   183 -VVNvrGLRE 191
cpeA CHL00173
phycoerythrin alpha subunit; Provisional
 1-121 3.57e-10

phycoerythrin alpha subunit; Provisional


Pssm-ID: 100273  Cd Length: 164  Bit Score: 55.52  E-value: 3.57e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2490667246   1 TKVVAQADARGEFINAGQIDALAAMVSESNKRMDAVNRITSNASKIVTNAARDLFEAQPALTAPGGNAYTSRRMAACLRD 80
Cdd:CHL00173    6 TTTISAADAAGRFPSSSDLESVQGNIQRAAARLEAAEKLASNHEAVVKEAGDACFAKYSYLKNPGEAGDSQEKVNKCYRD 85

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2490667246  81 MDIILRYITYAIFNGDASVLEDRCLNGLRETYLALGVPGTS 121
Cdd:CHL00173   86 VDHYMRLVNYCLVVGGTGPVDEWGIAGAREVYRTLNLPTSA 126
PBP_PBS-LCM cd12128
Phycobiliprotein-like domain of the phycobilisome core-membrane linker polypeptide; ...
 69-110 1.17e-08

Phycobiliprotein-like domain of the phycobilisome core-membrane linker polypeptide; phycobilisomes (PBSs) are the main light-harvesting complex in cyanobacteria and red algae, they consist of a central core and radiating rods and function to harvest and channel light energy toward the photosynthetic reaction centers (RCs) within the membrane. They are comprised of phycobiliproteins or chromophorylated proteins (PBPs) maintained together by linker polypeptides. LCM is a chromophore-bearing PBS linker protein; it facilitates PBS assembly and functionally connects the PBS to the chlorophyll-containing core-complexes in the photosynthetic membrane. In addition to being a linker polypeptide that stabilizes the PBS architecture, the LCM also serves as a terminal energy acceptor. The single phycocyanobilin (PCB) chromophore of LCM are one of two terminal energy transmitters that transfer excitations from the hundreds of chromophores of the PBS to the RCs within the membrane.


Pssm-ID: 381267 [Multi-domain]  Cd Length: 172  Bit Score: 51.55  E-value: 1.17e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2490667246  69 YTSRRMAACLRDMDIILRYITYAIFNGDASVLEDRCLnGLRE 110
Cdd:cd12128    85 YGPSNMKKSLRDLDWFLRYVTYAIVAGDPSILVVNTR-GLRE 125
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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