NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|490387359|ref|WP_004266814|]
View 

MULTISPECIES: allophycocyanin subunit beta [Microcystis]

Protein Classification

allophycocyanin subunit beta( domain architecture ID 18823665)

allophycocyanin subunit beta is a light-harvesting photosynthetic tetrapyrrole chromophore-protein from the phycobiliprotein complex

Gene Ontology:  GO:0015979
PubMed:  15238265

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
ApcB COG5685
Allophycocyanin beta chain [Energy production and conversion];
29-193 1.53e-92

Allophycocyanin beta chain [Energy production and conversion];


:

Pssm-ID: 444399 [Multi-domain]  Cd Length: 162  Bit Score: 267.19  E-value: 1.53e-92
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:COG5685    1 MRDAVTSLIKNYDVQGRYLDRNALDKLKAYFASGTARVQAAALINSNAASIVKDAAAKLFAEYPELIRPGGNAYTTRRYA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEAGIADtslIAEPFDHL 188
Cdd:COG5685   81 ACLRDMDYYLRYATYALVAGDASVLDERVLNGLRETYNSLGVPIGPTVRGIQIMKEVVKSMVADAGGAE---VDEYFDHL 157


                 ....*
gi 490387359 189 TRELS 193
Cdd:COG5685  158 IRGLS 162
 
Name Accession Description Interval E-value
ApcB COG5685
Allophycocyanin beta chain [Energy production and conversion];
29-193 1.53e-92

Allophycocyanin beta chain [Energy production and conversion];


Pssm-ID: 444399 [Multi-domain]  Cd Length: 162  Bit Score: 267.19  E-value: 1.53e-92
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:COG5685    1 MRDAVTSLIKNYDVQGRYLDRNALDKLKAYFASGTARVQAAALINSNAASIVKDAAAKLFAEYPELIRPGGNAYTTRRYA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEAGIADtslIAEPFDHL 188
Cdd:COG5685   81 ACLRDMDYYLRYATYALVAGDASVLDERVLNGLRETYNSLGVPIGPTVRGIQIMKEVVKSMVADAGGAE---VDEYFDHL 157


                 ....*
gi 490387359 189 TRELS 193
Cdd:COG5685  158 IRGLS 162
APC_beta cd12126
Allophycocyanin beta subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main ...
 29-192 3.55e-80

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: 235.70  E-value: 3.55e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:cd12126    1 MQDAITSVINRYDVTGKYLDRNAIDKLKAYFDTGELRVQAAKVINANAAEIIKEASAKLFEEYPELLRPGGNAYTTRRYA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMaTEAGIADTSLIAEPFDHL 188
Cdd:cd12126   81 ACLRDMDYYLRYATYAILAGDTSILDERVLNGLKDTYNSLGVPIGPTVRAIQLMKEVVKEL-VGTAIDAGKFVDEPFDYM 159


                 ....
gi 490387359 189 TREL 192
Cdd:cd12126  160 IRGL 163
apcB TIGR01337
allophycocyanin, beta subunit; The alpha and beta subunits of allophycocyanin form ...
 30-197 1.09e-76

allophycocyanin, beta subunit; The alpha and beta subunits of allophycocyanin form heterodimers, six of which associate into larger aggregates as part of the phycobilisome, a light-harvesting complex of phycobiliproteins and linker proteins. This model describes allophycocyanin beta subunit. Other, homologous phyobiliproteins include allophycocyanin alpha chain and the phycocyanin and phycoerythrin alpha and beta chains. [Energy metabolism, Photosynthesis]


Pssm-ID: 273559  Cd Length: 167  Bit Score: 227.39  E-value: 1.09e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359   30 RDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYSA 109
Cdd:TIGR01337   1 QDAITNIINAYDLTGKYLDDNAVTKLKGYFQTGELRLRAAAIINANSATIIKEAAAQLFEEYPELIRPGGNAYTTRRYAA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  110 CLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEAGIAdTSLIAEPFDHLT 189
Cdd:TIGR01337  81 CLRDIDYYLRYATYAIIAGDNSILEERVLNGLKETYNSLGVPIGPTVRAIQIMKEVIISLVGPDNDA-GKEIGEPFDYMC 159


                  ....*...
gi 490387359  190 RELSEVSI 197
Cdd:TIGR01337 160 SGLSENDV 167
apcF CHL00089
allophycocyanin beta 18 subunit
 29-197 1.29e-70

allophycocyanin beta 18 subunit


Pssm-ID: 100206  Cd Length: 169  Bit Score: 211.96  E-value: 1.29e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:CHL00089   1 MQDAITAIINRYDLTGKYLDKNAITQLNSYFSSASDRIKIVEIINAQASNIIKEASAQLFEEQPELLRPGGNAYTTRRYA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEAGIADTSLIAEPFDHL 188
Cdd:CHL00089  81 ACLRDIEYYLRYASYAIVAGDTNILDERVLDGLKDTYNSLGVPIAPTVRSIELLKEIIKEEIKSQNIDAHDYIDEPFQYM 160


                 ....*....
gi 490387359 189 TRELSEVSI 197
Cdd:CHL00089 161 IKNLSEQDL 169
Phycobilisome pfam00502
Phycobilisome protein;
35-192 2.02e-60

Phycobilisome protein;


Pssm-ID: 425723 [Multi-domain]  Cd Length: 155  Bit Score: 185.39  E-value: 2.02e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359   35 SLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYSACLRDM 114
Cdd:pfam00502   1 EVIAAADAEGRYLSDGELEALKGFFQSGEARLEAANALASNADEIVKEAAAQLFQKYPDLTQPGGNAYTTRRTAACLRDI 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 490387359  115 DYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEagiADTSLIAEPFDHLTREL 192
Cdd:pfam00502  81 DYYLRYITYALVAGDTSPLDERGLNGLRETYNSLGVPIGAMVEAIQCMKEAALQLLSP---EAAAEAAPYFDYLINAL 155
 
Name Accession Description Interval E-value
ApcB COG5685
Allophycocyanin beta chain [Energy production and conversion];
29-193 1.53e-92

Allophycocyanin beta chain [Energy production and conversion];


Pssm-ID: 444399 [Multi-domain]  Cd Length: 162  Bit Score: 267.19  E-value: 1.53e-92
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:COG5685    1 MRDAVTSLIKNYDVQGRYLDRNALDKLKAYFASGTARVQAAALINSNAASIVKDAAAKLFAEYPELIRPGGNAYTTRRYA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEAGIADtslIAEPFDHL 188
Cdd:COG5685   81 ACLRDMDYYLRYATYALVAGDASVLDERVLNGLRETYNSLGVPIGPTVRGIQIMKEVVKSMVADAGGAE---VDEYFDHL 157


                 ....*
gi 490387359 189 TRELS 193
Cdd:COG5685  158 IRGLS 162
APC_beta cd12126
Allophycocyanin beta subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main ...
 29-192 3.55e-80

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: 235.70  E-value: 3.55e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:cd12126    1 MQDAITSVINRYDVTGKYLDRNAIDKLKAYFDTGELRVQAAKVINANAAEIIKEASAKLFEEYPELLRPGGNAYTTRRYA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMaTEAGIADTSLIAEPFDHL 188
Cdd:cd12126   81 ACLRDMDYYLRYATYAILAGDTSILDERVLNGLKDTYNSLGVPIGPTVRAIQLMKEVVKEL-VGTAIDAGKFVDEPFDYM 159


                 ....
gi 490387359 189 TREL 192
Cdd:cd12126  160 IRGL 163
apcB TIGR01337
allophycocyanin, beta subunit; The alpha and beta subunits of allophycocyanin form ...
 30-197 1.09e-76

allophycocyanin, beta subunit; The alpha and beta subunits of allophycocyanin form heterodimers, six of which associate into larger aggregates as part of the phycobilisome, a light-harvesting complex of phycobiliproteins and linker proteins. This model describes allophycocyanin beta subunit. Other, homologous phyobiliproteins include allophycocyanin alpha chain and the phycocyanin and phycoerythrin alpha and beta chains. [Energy metabolism, Photosynthesis]


Pssm-ID: 273559  Cd Length: 167  Bit Score: 227.39  E-value: 1.09e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359   30 RDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYSA 109
Cdd:TIGR01337   1 QDAITNIINAYDLTGKYLDDNAVTKLKGYFQTGELRLRAAAIINANSATIIKEAAAQLFEEYPELIRPGGNAYTTRRYAA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  110 CLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEAGIAdTSLIAEPFDHLT 189
Cdd:TIGR01337  81 CLRDIDYYLRYATYAIIAGDNSILEERVLNGLKETYNSLGVPIGPTVRAIQIMKEVIISLVGPDNDA-GKEIGEPFDYMC 159


                  ....*...
gi 490387359  190 RELSEVSI 197
Cdd:TIGR01337 160 SGLSENDV 167
apcF CHL00089
allophycocyanin beta 18 subunit
 29-197 1.29e-70

allophycocyanin beta 18 subunit


Pssm-ID: 100206  Cd Length: 169  Bit Score: 211.96  E-value: 1.29e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:CHL00089   1 MQDAITAIINRYDLTGKYLDKNAITQLNSYFSSASDRIKIVEIINAQASNIIKEASAQLFEEQPELLRPGGNAYTTRRYA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEAGIADTSLIAEPFDHL 188
Cdd:CHL00089  81 ACLRDIEYYLRYASYAIVAGDTNILDERVLDGLKDTYNSLGVPIAPTVRSIELLKEIIKEEIKSQNIDAHDYIDEPFQYM 160


                 ....*....
gi 490387359 189 TRELSEVSI 197
Cdd:CHL00089 161 IKNLSEQDL 169
Phycobilisome pfam00502
Phycobilisome protein;
35-192 2.02e-60

Phycobilisome protein;


Pssm-ID: 425723 [Multi-domain]  Cd Length: 155  Bit Score: 185.39  E-value: 2.02e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359   35 SLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYSACLRDM 114
Cdd:pfam00502   1 EVIAAADAEGRYLSDGELEALKGFFQSGEARLEAANALASNADEIVKEAAAQLFQKYPDLTQPGGNAYTTRRTAACLRDI 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 490387359  115 DYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEagiADTSLIAEPFDHLTREL 192
Cdd:pfam00502  81 DYYLRYITYALVAGDTSPLDERGLNGLRETYNSLGVPIGAMVEAIQCMKEAALQLLSP---EAAAEAAPYFDYLINAL 155
apcB CHL00088
allophycocyanin beta subunit
 29-169 5.02e-48

allophycocyanin beta subunit


Pssm-ID: 164493 [Multi-domain]  Cd Length: 161  Bit Score: 154.38  E-value: 5.02e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIR--LFEEVpelIRAGGNAYTTRR 106
Cdd:CHL00088   1 MQDAITSVINAADVQGKYLDDNSVEKLRSYFQTGELRVRAAATIAANAATIIKEAVAKslLYSDI---TRPGGNMYTTRR 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 490387359 107 YSACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTM 169
Cdd:CHL00088  78 YAACIRDLDYYLRYATYGMLAGDPSILDERVLNGLKETYNSLGVPIGATIQAIQAMKEVTASL 140
CpcB COG5688
Phycocyanin/phycoerythrin beta chain, CpcB/CpeB [Energy production and conversion];
29-196 3.81e-41

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


Pssm-ID: 444402  Cd Length: 172  Bit Score: 137.08  E-value: 3.81e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:COG5688    1 MLDAFSRVVSQADARGEFLSGAQLDALKAFVADGNKRLDAVNRITSNASCIVADAARGLFAEQPGLIQPGGNAYTNRRMA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATE-AGIAD---TSLIAEP 184
Cdd:COG5688   81 ACLRDMEIILRYVTYALLAGDASVLDDRCLNGLRETYQALGVPGASVARGVQKMKAAAVAIANDtNGITQgdcSSLASEV 160

                        170
                 ....*....|..
gi 490387359 185 FDHLTRELSEVS 196
Cdd:COG5688  161 ASYFDRAAAAVS 172
PC_PEC_beta cd14768
Beta subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; ...
 29-164 3.80e-35

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: 121.86  E-value: 3.80e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:cd14768    1 MLDAFTKVVAQADARGEFLSNAQIDALSAMVAEGNKRLDVVNRITSNASTIVSNAARALFAEQPQLIAPGG*AYTNRRMA 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSE 164
Cdd:cd14768   81 ACLRDMEIILRYVTYAVFAGDASVLDDRCLNGLRETYQALGTPGSSVAVGVQKMKE 136
cpcB CHL00171
phycocyanin beta subunit; Reviewed
 29-183 8.93e-35

phycocyanin beta subunit; Reviewed


Pssm-ID: 100271  Cd Length: 172  Bit Score: 120.87  E-value: 8.93e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:CHL00171   1 MLDAFAKVVAQADARGEFLSNTQLDALSKMVAEGNKRLDAVNKINANASTIVTNAARSLFAEQPQLIQPGGNAYTNRRMA 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEAG---IADTS-LIAE 183
Cdd:CHL00171  81 ACLRDMEIVLRYVSYAMIAGDSSVLDDRCLNGLRETYQALGVPGSSVAVAVQKMKEAAVSLANDSSgvtVGDCSaLISE 159
PE-PC-PEC_beta cd12127
Beta subunits of phycocyanin, phycoerythrin and phycoerythrocyanin; phycobilisome rod ...
 29-164 2.65e-32

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: 114.50  E-value: 2.65e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:cd12127    1 MLDAFSRVVVQADAKGEYLSNAQLDALKKFIAEGNKRLDAVNRITSNASCIVADAVRAMICENPQLINPGG*CYTNRRMA 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSE 164
Cdd:cd12127   81 ACLRDGEIILRYVSYALLAGDSSVLDDRCLNGLKETYQALGVPGSSVARAIEKMKE 136
cpeB CHL00172
phycoerythrin beta subunit; Provisional
 29-193 3.83e-30

phycoerythrin beta subunit; Provisional


Pssm-ID: 133617  Cd Length: 177  Bit Score: 109.00  E-value: 3.83e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:CHL00172   1 MLDAFSRVVTNSDAKAAYVGGSDLQALKKFISEGNKRLDSVNSIVSNASCIVSDAVSGMICENPGLISPGGNCYTNRRMA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMI----------QTMATEAG--IA 176
Cdd:CHL00172  81 ACLRDGEIILRYVSYALLAGDPSVLEDRCLNGLKETYIALGVPANSSARAVSIMKASAvafinntasqRKMSTAQGdcSA 160

                        170
                 ....*....|....*..
gi 490387359 177 DTSLIAEPFDHLTRELS 193
Cdd:CHL00172 161 LASEVASYFDRVTAAIS 177
PBP-like cd08919
Phycobiliproteins (PBPs) and related proteins; phycobilisomes (PBSs) are the main ...
 32-192 7.98e-29

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: 104.68  E-value: 7.98e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  32 AVTSLIRKYDVtGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNayttRRYSACL 111
Cdd:cd08919    1 ALTKLIAEADG-GRYLSSSELQALKGYIQSAEARLEAAEKLRENAEEIVKQAVRKLFAENPPLFRPGG*----DRSAKCL 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 112 RDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEagiADTSLIAEPFDHLTRE 191
Cdd:cd08919   76 RDLDYVLRYIAYAMLAGDPDPLDERLLNWLREIYKALGVPLDAYAAAYKDMKEAASQLLTP---EAAKLVRPYLDYAISA 152


                 .
gi 490387359 192 L 192
Cdd:cd08919  153 L 153
apcA CHL00086
allophycocyanin alpha subunit
 33-174 4.14e-28

allophycocyanin alpha subunit


Pssm-ID: 164492 [Multi-domain]  Cd Length: 161  Bit Score: 103.15  E-value: 4.14e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  33 VTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYSACLR 112
Cdd:CHL00086   4 VTKSIVNADAEARYLSPGELDRIKSFVLSGQRRLRIAQILTDNRERIVKQGGQQLFQKRPDIVSPGGNAYGEEMTATCLR 83

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 490387359 113 DMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTM-----ATEAG 174
Cdd:CHL00086  84 DLDYYLRLVTYGIVAGDVTPIEEIGLVGVKEMYNSLGTPISGVAEGVRSMKSVACSLlagedSAEAG 150
ApcA COG5684
Allophycocyanin alpha chain [Energy production and conversion];
33-193 6.64e-28

Allophycocyanin alpha chain [Energy production and conversion];


Pssm-ID: 444398 [Multi-domain]  Cd Length: 161  Bit Score: 102.64  E-value: 6.64e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  33 VTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYSACLR 112
Cdd:COG5684    4 VIQVIQNADDELRYLTDGELEQIKAFLPSGEQRLRIAKTLRDNAKKIVDQARKQLLQKRPDITAPGGNAYGQERAAACLR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 113 DMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEagiADTSLIAEPFDHLTREL 192
Cdd:COG5684   84 DFWHYLRLITYGIAAGDKDPIEEIGLIGVREMYQSLGVPLPAMVEGIRCLKEASLSLLSG---EDAAEAAPYFDYLIQAM 160


                 .
gi 490387359 193 S 193
Cdd:COG5684  161 S 161
PE_beta-like cd14767
Phycoerythrin beta subunit, a component of the phycobilisome rod; and related proteins; ...
 29-162 1.84e-26

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: 99.58  E-value: 1.84e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:cd14767    1 MLDAFSRVVVNADSKAAYVGGSDLQALKTFISDGNKRLDAVNYIVSNASCIVSDAVSGMICENPGLISPGG*CYTNRRMA 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIM 162
Cdd:cd14767   81 ACLRDGEIILRYVSYALLAGDASVLEDRCLNGLKETYIALGVPTNSNIRAVSIM 134
APC_alpha cd12125
Allophycocyanin alpha subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main ...
 33-192 5.42e-26

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: 97.74  E-value: 5.42e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  33 VTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYSACLR 112
Cdd:cd12125    3 VSQIILNADDELRYPSPGELEAIQDFFNTGEQRIRIAKTLAENEKKIVEQASKQLWQRCPDTPSPGGNAYGEKKTALCLR 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 113 DMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEagiADTSLIAEPFDHLTREL 192
Cdd:cd12125   83 DQGWYLRLITYGILAGDVEPLEEIGLIGVREMYNSLGVPLPNMVEAMRCLKEAALALLSP---EDAAEAAPYFDYIIQAM 159
apcD CHL00090
allophycocyanin gamma subunit
 33-193 2.69e-22

allophycocyanin gamma subunit


Pssm-ID: 164494  Cd Length: 161  Bit Score: 88.30  E-value: 2.69e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  33 VTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYSACLR 112
Cdd:CHL00090   4 VSQIILNADDELRYPTIGELESIQDYLKTGEKRIRIATILRDNEKEIIQKASKQLFQIHPEYIAPGGNASGSRQRSLCLR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 113 DMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIQTMATEagiaDTSLIAEP-FDHLTRE 191
Cdd:CHL00090  84 DYGWYLRLITYGVLAGDKNSIEKIGIIGVREMYNSLGVPIIGMVDSIQCLKEAALEVLSP----EDVKIIEPyFDYIIQG 159


                 ..
gi 490387359 192 LS 193
Cdd:CHL00090 160 MS 161
PE-PC-PEC_alpha cd12129
Alpha subunits of phycoerythrin, phycocyanin and phycoerythrocyanin; phycobilisome rod ...
 33-151 1.11e-12

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: 63.01  E-value: 1.11e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  33 VTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAY--TTRRYSAC 110
Cdd:cd12129    4 ITEAIAAADAAGRFLSNTELQAVQGRFQRAAARLEAARALANNHEAVVKEAADAVYQKFPYTTNMQGPQYasTPEGKAKC 83

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 490387359 111 LRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVP 151
Cdd:cd12129   84 YRDIDHYLRLINYCLVVGGTGPLDEYGIAGLREVNSALNLS 124
cpeA CHL00173
phycoerythrin alpha subunit; Provisional
 29-193 1.35e-11

phycoerythrin alpha subunit; Provisional


Pssm-ID: 100273  Cd Length: 164  Bit Score: 60.14  E-value: 1.35e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:CHL00173   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRAAARLEAAEKLASNHEAVVKEAGDACFAKYSYLKNPGEAGDSQEKVN 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMI---QTMATEAGIADTSLIaepf 185
Cdd:CHL00173  81 KCYRDVDHYMRLVNYCLVVGGTGPVDEWGIAGAREVYRTLNLPTSAYVASFAFARDRLcvpRDMSAQAGVEYAGNL---- 156


                 ....*...
gi 490387359 186 DHLTRELS 193
Cdd:CHL00173 157 DYIINSLC 164
Apl cd12130
Allophycocyanin-like globins; phycobilisomes (PBSs) are the main light-harvesting complex in ...
 35-192 2.18e-11

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: 59.22  E-value: 2.18e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  35 SLIRKYDVTGRYLDRDAIDNLKQyfASGTARLAAAALINANSAaLVRGAAIRLFEEVPELIRAGGNAYTTRRYSACLRDM 114
Cdd:cd12130    3 ALLQAADDERRYLTDEELQAICQ--LSGVDAAPARQLRDQAHE-LVDQARATLLAQFPGITEPGGALYPPERAEACWRDC 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 490387359 115 DYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMIqtmATEAGIADTSLIAEPFDHLTREL 192
Cdd:cd12130   80 WHFLRCITYGIAGGQTDFTSPEGLGAMRLLYQELQVPLPAMLLALEGLKTLS---LKRFSGEEAALLAPYFDHLIEQL 154
PC-PEC_alpha cd14770
Alpha subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; ...
 29-143 4.36e-11

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: 58.70  E-value: 4.36e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGN--AYTTRR 106
Cdd:cd14770    1 MKTPLTEAIAAADSQGRFLSNTELQAAFGRFRRATASLEAARALTSNADSLISGAAQAVYNKFPYTTQMQGPqyASTQTG 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 490387359 107 YSACLRDMDYYLRYASYALVAADTNVLDERVLQGLRE 143
Cdd:cd14770   81 KAKCARDIGYYLRMVTYCLVAGGTGPMDEYLIAGLDE 117
Globin-like cd01067
Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety ...
 86-188 5.94e-11

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: 57.46  E-value: 5.94e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  86 RLF--EEVPELIRAGGnayttrRYSACLRDMDYYLRYASYALVAADTnvlDERVLQGLRETYNSLGVPIGPTVRGIQIMS 163
Cdd:cd01067   19 RLFalPSLSELFSPPG------RLAKCIRKQMHFLRYALYGLVDGDS---IEEGLAGLGEAHKSLGVPISYFIAALNVMK 89

                         90       100
                 ....*....|....*....|....*.
gi 490387359 164 EMIQTMATEAGIADTSLIAEP-FDHL 188
Cdd:cd01067   90 DVLTELLGDKFTPAAGEAWTKiFDYI 115
PE_alpha cd14769
Phycoerythrin alpha subunit, a phycobilisome rod component; phycobilisomes (PBSs) are the main ...
 29-193 2.50e-10

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: 56.83  E-value: 2.50e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRYS 108
Cdd:cd14769    1 MKSVITTVISAADAAGRFPSSSDLESVQGNIQRAAARLEAAEKLAANHEAVVKEAGDACFAKYPYLKNPGEAGENQEKIN 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 109 ACLRDMDYYLRYASYALVAADTNVLDERVLQGLRETYNSLGVPIGPTVRGIQIMSEMI---QTMATEAGIADTSLIaepf 185
Cdd:cd14769   81 KCYRDIDHYMRLINYCLVVGGTGPLDEWGIAGAREVYRALNLPTSAYVAAFAFTRDRLcvpRDMSAQAGVEFSTAL---- 156


                 ....*...
gi 490387359 186 DHLTRELS 193
Cdd:cd14769  157 DYVINSLS 164
cpcA CHL00170
phycocyanin alpha subunit; Reviewed
 29-143 5.51e-09

phycocyanin alpha subunit; Reviewed


Pssm-ID: 100270  Cd Length: 162  Bit Score: 53.08  E-value: 5.51e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  29 MRDAVTSLIRKYDVTGRYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLFEEVPELIRAGGNAYTTRRY- 107
Cdd:CHL00170   1 MKTPITEAIASADSQGRFLSNGELQACNGRFQRAAASLEAARSLTSNAQRLIDGAAQAVYTKFPYTTQMPGPTYASSAIg 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 490387359 108 -SACLRDMDYYLRYASYALVAADTNVLDERVLQGLRE 143
Cdd:CHL00170  81 kAKCARDIGYYLRMVTYCLVAGGTGPMDEYLVAGLEE 117
PBP_PBS-LCM cd12128
Phycobiliprotein-like domain of the phycobilisome core-membrane linker polypeptide; ...
 102-143 2.16e-07

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: 48.86  E-value: 2.16e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 490387359 102 YTTRRYSACLRDMDYYLRYASYALVAADTNVLDERVlQGLRE 143
Cdd:cd12128   85 YGPSNMKKSLRDLDWFLRYVTYAIVAGDPSILVVNT-RGLRE 125
ApcE COG5693
Phycobilisome linker protein ApcE [Energy production and conversion];
45-143 4.86e-07

Phycobilisome linker protein ApcE [Energy production and conversion];


Pssm-ID: 444407 [Multi-domain]  Cd Length: 904  Bit Score: 49.35  E-value: 4.86e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359  45 RYLDRDAIDNLKQYFASGTARLAAAALINANSAALVRGAAIRLF-------------EEVPELIRAGGNAYTTR------ 105
Cdd:COG5693   33 RFLGRGELNELASYFRSGAKRLEIAQTLTQNSDLIVSRAANRIFtggspmaflekprEEEMAMVGAGGGSGDVQegmklg 112

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490387359 106 -------------------------------------RY-----SACLRDMDYYLRYASYALVAADTNVLDERVlQGLRE 143
Cdd:COG5693  113 tvtyvesgggfleglrslfsasgsgpipagfrpinvsRYgpsnmQKSLRDLSWFLRYVTYAIVAGDPNIIVVNV-RGLRE 191
apcE CHL00091
phycobillisome linker protein
 102-143 2.10e-06

phycobillisome linker protein


Pssm-ID: 164495 [Multi-domain]  Cd Length: 877  Bit Score: 47.52  E-value: 2.10e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 490387359 102 YTTRRYSACLRDMDYYLRYASYALVAADTNVLDERVlQGLRE 143
Cdd:CHL00091 138 YGTTRMRKSLRDLDWFLRYLTYAIVAGDPNILSVNI-RGLRE 178
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH