NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|165988323|gb|ABY77487|]
View 

phycoerythrin alpha subunit, partial (plastid) [Callithamnion baileyi]

Protein Classification

globin family protein( domain architecture ID 229384)

globin family protein is an all-helical protein that may bind porphyrins, phycobilins, and other non-heme cofactors, and may play various roles including as a sensor or transporter of oxygen

CATH:  1.10.490.10
Gene Ontology:  GO:0019825|GO:0020037
PubMed:  32863222|16061809|19281958
SCOP:  3000554

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Globin-like super family cl21461
Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety ...
 1-124 5.78e-85

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).


The actual alignment was detected with superfamily member cd14769:

Pssm-ID: 473869  Cd Length: 164  Bit Score: 244.81  E-value: 5.78e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:cd14769    1 MKSVITTVISAADAAGRFPSSSDLESVQGNIQRAAARLEAAEKLAANHEAVVKEAGDACFAKYPYLKNPGEAGENQEKIN 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLPS 124
Cdd:cd14769   81 KCYRDIDHYMRLINYCLVVGGTGPLDEWGIAGAREVYRALNLPT 124
 
Name Accession Description Interval E-value
PE_alpha cd14769
Phycoerythrin alpha subunit, a phycobilisome rod component; phycobilisomes (PBSs) are the main ...
 1-124 5.78e-85

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: 244.81  E-value: 5.78e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:cd14769    1 MKSVITTVISAADAAGRFPSSSDLESVQGNIQRAAARLEAAEKLAANHEAVVKEAGDACFAKYPYLKNPGEAGENQEKIN 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLPS 124
Cdd:cd14769   81 KCYRDIDHYMRLINYCLVVGGTGPLDEWGIAGAREVYRALNLPT 124
cpeA CHL00173
phycoerythrin alpha subunit; Provisional
 1-124 2.20e-72

phycoerythrin alpha subunit; Provisional


Pssm-ID: 100273  Cd Length: 164  Bit Score: 213.06  E-value: 2.20e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:CHL00173   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRAAARLEAAEKLASNHEAVVKEAGDACFAKYSYLKNPGEAGDSQEKVN 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLPS 124
Cdd:CHL00173  81 KCYRDVDHYMRLVNYCLVVGGTGPVDEWGIAGAREVYRTLNLPT 124
CpcA COG5687
Phycocyanin alpha chain, CpcA/CpeB [Energy production and conversion];
1-123 2.72e-65

Phycocyanin alpha chain, CpcA/CpeB [Energy production and conversion];


Pssm-ID: 444401  Cd Length: 162  Bit Score: 194.90  E-value: 2.72e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSG--EAGDSQEK 78
Cdd:COG5687    1 MKTPLTEAIAAADSQGRFLSSTELQSVFGRFQRAAARLEAAKALAANADSLAKGAADAVYKKFPYTTQMGgpNYASTARG 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 165988323  79 VNKCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:COG5687   81 KAKCVRDIGYYLRLITYCLVVGGTGPLDEYLIAGLREINRTFELS 125
Phycobilisome pfam00502
Phycobilisome protein;
7-123 2.64e-49

Phycobilisome protein;


Pssm-ID: 425723 [Multi-domain]  Cd Length: 155  Bit Score: 154.19  E-value: 2.64e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323    7 TTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVNKCYRDI 86
Cdd:pfam00502   1 EVIAAADAEGRYLSDGELEALKGFFQSGEARLEAANALASNADEIVKEAAAQLFQKYPDLTQPGGNAYTTRRTAACLRDI 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 165988323   87 DHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:pfam00502  81 DYYLRYITYALVAGDTSPLDERGLNGLRETYNSLGVP 117
 
Name Accession Description Interval E-value
PE_alpha cd14769
Phycoerythrin alpha subunit, a phycobilisome rod component; phycobilisomes (PBSs) are the main ...
 1-124 5.78e-85

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: 244.81  E-value: 5.78e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:cd14769    1 MKSVITTVISAADAAGRFPSSSDLESVQGNIQRAAARLEAAEKLAANHEAVVKEAGDACFAKYPYLKNPGEAGENQEKIN 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLPS 124
Cdd:cd14769   81 KCYRDIDHYMRLINYCLVVGGTGPLDEWGIAGAREVYRALNLPT 124
cpeA CHL00173
phycoerythrin alpha subunit; Provisional
 1-124 2.20e-72

phycoerythrin alpha subunit; Provisional


Pssm-ID: 100273  Cd Length: 164  Bit Score: 213.06  E-value: 2.20e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:CHL00173   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRAAARLEAAEKLASNHEAVVKEAGDACFAKYSYLKNPGEAGDSQEKVN 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLPS 124
Cdd:CHL00173  81 KCYRDVDHYMRLVNYCLVVGGTGPVDEWGIAGAREVYRTLNLPT 124
PE-PC-PEC_alpha cd12129
Alpha subunits of phycoerythrin, phycocyanin and phycoerythrocyanin; phycobilisome rod ...
 2-124 1.43e-69

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: 205.92  E-value: 1.43e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   2 KSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSG--EAGDSQEKV 79
Cdd:cd12129    1 KTPITEAIAAADAAGRFLSNTELQAVQGRFQRAAARLEAARALANNHEAVVKEAADAVYQKFPYTTNMQgpQYASTPEGK 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 165988323  80 NKCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLPS 124
Cdd:cd12129   81 AKCYRDIDHYLRLINYCLVVGGTGPLDEYGIAGLREVNSALNLSP 125
CpcA COG5687
Phycocyanin alpha chain, CpcA/CpeB [Energy production and conversion];
1-123 2.72e-65

Phycocyanin alpha chain, CpcA/CpeB [Energy production and conversion];


Pssm-ID: 444401  Cd Length: 162  Bit Score: 194.90  E-value: 2.72e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSG--EAGDSQEK 78
Cdd:COG5687    1 MKTPLTEAIAAADSQGRFLSSTELQSVFGRFQRAAARLEAAKALAANADSLAKGAADAVYKKFPYTTQMGgpNYASTARG 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 165988323  79 VNKCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:COG5687   81 KAKCVRDIGYYLRLITYCLVVGGTGPLDEYLIAGLREINRTFELS 125
Phycobilisome pfam00502
Phycobilisome protein;
7-123 2.64e-49

Phycobilisome protein;


Pssm-ID: 425723 [Multi-domain]  Cd Length: 155  Bit Score: 154.19  E-value: 2.64e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323    7 TTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVNKCYRDI 86
Cdd:pfam00502   1 EVIAAADAEGRYLSDGELEALKGFFQSGEARLEAANALASNADEIVKEAAAQLFQKYPDLTQPGGNAYTTRRTAACLRDI 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 165988323   87 DHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:pfam00502  81 DYYLRYITYALVAGDTSPLDERGLNGLRETYNSLGVP 117
PBP-like cd08919
Phycobiliproteins (PBPs) and related proteins; phycobilisomes (PBSs) are the main ...
 5-123 3.95e-35

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: 118.16  E-value: 3.95e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   5 ITTTISAADAaGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEagdsQEKVNKCYR 84
Cdd:cd08919    2 LTKLIAEADG-GRYLSSSELQALKGYIQSAEARLEAAEKLRENAEEIVKQAVRKLFAENPPLFRPGG----*DRSAKCLR 76

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 165988323  85 DIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:cd08919   77 DLDYVLRYIAYAMLAGDPDPLDERLLNWLREIYKALGVP 115
PC-PEC_alpha cd14770
Alpha subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; ...
 1-124 1.31e-33

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: 114.56  E-value: 1.31e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSG--EAGDSQEK 78
Cdd:cd14770    1 MKTPLTEAIAAADSQGRFLSNTELQAAFGRFRRATASLEAARALTSNADSLISGAAQAVYNKFPYTTQMQgpQYASTQTG 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 165988323  79 VNKCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNL-PS 124
Cdd:cd14770   81 KAKCARDIGYYLRMVTYCLVAGGTGPMDEYLIAGLDEINRTFDLsPS 127
cpcA CHL00170
phycocyanin alpha subunit; Reviewed
 1-124 9.52e-29

phycocyanin alpha subunit; Reviewed


Pssm-ID: 100270  Cd Length: 162  Bit Score: 102.39  E-value: 9.52e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEA--GDSQEK 78
Cdd:CHL00170   1 MKTPITEAIASADSQGRFLSNGELQACNGRFQRAAASLEAARSLTSNAQRLIDGAAQAVYTKFPYTTQMPGPtyASSAIG 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 165988323  79 VNKCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNL-PS 124
Cdd:CHL00170  81 KAKCARDIGYYLRMVTYCLVAGGTGPMDEYLVAGLEEINRSFDLsPS 127
ApcA COG5684
Allophycocyanin alpha chain [Energy production and conversion];
3-123 6.83e-27

Allophycocyanin alpha chain [Energy production and conversion];


Pssm-ID: 444398 [Multi-domain]  Cd Length: 161  Bit Score: 97.24  E-value: 6.83e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   3 SVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGeaGDS--QEKVN 80
Cdd:COG5684    2 SEVIQVIQNADDELRYLTDGELEQIKAFLPSGEQRLRIAKTLRDNAKKIVDQARKQLLQKRPDITAPG--GNAygQERAA 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:COG5684   80 ACLRDFWHYLRLITYGIAAGDKDPIEEIGLIGVREMYQSLGVP 122
APC_alpha cd12125
Allophycocyanin alpha subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main ...
 3-123 9.15e-25

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: 91.96  E-value: 9.15e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   3 SVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVNKC 82
Cdd:cd12125    1 SIVSQIILNADDELRYPSPGELEAIQDFFNTGEQRIRIAKTLAENEKKIVEQASKQLWQRCPDTPSPGGNAYGEKKTALC 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 165988323  83 YRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:cd12125   81 LRDQGWYLRLITYGILAGDVEPLEEIGLIGVREMYNSLGVP 121
apcA CHL00086
allophycocyanin alpha subunit
 3-123 6.42e-24

allophycocyanin alpha subunit


Pssm-ID: 164492 [Multi-domain]  Cd Length: 161  Bit Score: 90.05  E-value: 6.42e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   3 SVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVNKC 82
Cdd:CHL00086   2 SIVTKSIVNADAEARYLSPGELDRIKSFVLSGQRRLRIAQILTDNRERIVKQGGQQLFQKRPDIVSPGGNAYGEEMTATC 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 165988323  83 YRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:CHL00086  82 LRDLDYYLRLVTYGIVAGDVTPIEEIGLVGVKEMYNSLGTP 122
APC_beta cd12126
Allophycocyanin beta subunit of the phycobilisome core; Phycobilisomes (PBSs) are the main ...
 1-123 4.36e-19

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: 77.38  E-value: 4.36e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:cd12126    1 MQDAITSVINRYDVTGKYLDRNAIDKLKAYFDTGELRVQAAKVINANAAEIIKEASAKLFEEYPELLRPGGNAYTTRRYA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:cd12126   81 ACLRDMDYYLRYATYAILAGDTSILDERVLNGLKDTYNSLGVP 123
ApcB COG5685
Allophycocyanin beta chain [Energy production and conversion];
1-123 1.46e-18

Allophycocyanin beta chain [Energy production and conversion];


Pssm-ID: 444399 [Multi-domain]  Cd Length: 162  Bit Score: 76.13  E-value: 1.46e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:COG5685    1 MRDAVTSLIKNYDVQGRYLDRNALDKLKAYFASGTARVQAAALINSNAASIVKDAAAKLFAEYPELIRPGGNAYTTRRYA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:COG5685   81 ACLRDMDYYLRYATYALVAGDASVLDERVLNGLRETYNSLGVP 123
apcD CHL00090
allophycocyanin gamma subunit
 3-123 5.74e-17

allophycocyanin gamma subunit


Pssm-ID: 164494  Cd Length: 161  Bit Score: 72.12  E-value: 5.74e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   3 SVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKY-TYLKSSGEAGDSQEKvNK 81
Cdd:CHL00090   2 SLVSQIILNADDELRYPTIGELESIQDYLKTGEKRIRIATILRDNEKEIIQKASKQLFQIHpEYIAPGGNASGSRQR-SL 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 165988323  82 CYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:CHL00090  81 CLRDYGWYLRLITYGVLAGDKNSIEKIGIIGVREMYNSLGVP 122
apcB CHL00088
allophycocyanin beta subunit
 1-123 2.35e-16

allophycocyanin beta subunit


Pssm-ID: 164493 [Multi-domain]  Cd Length: 161  Bit Score: 70.40  E-value: 2.35e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAgdacFAK---YTYLKSSGEAGDSQE 77
Cdd:CHL00088   1 MQDAITSVINAADVQGKYLDDNSVEKLRSYFQTGELRVRAAATIAANAATIIKEA----VAKsllYSDITRPGGNMYTTR 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 165988323  78 KVNKCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:CHL00088  77 RYAACIRDLDYYLRYATYGMLAGDPSILDERVLNGLKETYNSLGVP 122
apcF CHL00089
allophycocyanin beta 18 subunit
 1-123 9.42e-15

allophycocyanin beta 18 subunit


Pssm-ID: 100206  Cd Length: 169  Bit Score: 66.36  E-value: 9.42e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:CHL00089   1 MQDAITAIINRYDLTGKYLDKNAITQLNSYFSSASDRIKIVEIINAQASNIIKEASAQLFEEQPELLRPGGNAYTTRRYA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:CHL00089  81 ACLRDIEYYLRYASYAIVAGDTNILDERVLDGLKDTYNSLGVP 123
cpcB CHL00171
phycocyanin beta subunit; Reviewed
 1-123 6.92e-14

phycocyanin beta subunit; Reviewed


Pssm-ID: 100271  Cd Length: 172  Bit Score: 64.25  E-value: 6.92e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:CHL00171   1 MLDAFAKVVAQADARGEFLSNTQLDALSKMVAEGNKRLDAVNKINANASTIVTNAARSLFAEQPQLIQPGGNAYTNRRMA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:CHL00171  81 ACLRDMEIVLRYVSYAMIAGDSSVLDDRCLNGLRETYQALGVP 123
PC_PEC_beta cd14768
Beta subunits of phycoerythrin and phycoerythrocyanin; phycobilisome rod components; ...
 1-123 2.44e-13

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: 62.93  E-value: 2.44e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:cd14768    1 MLDAFTKVVAQADARGEFLSNAQIDALSAMVAEGNKRLDVVNRITSNASTIVSNAARALFAEQPQLIAPGG*AYTNRRMA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:cd14768   81 ACLRDMEIILRYVTYAVFAGDASVLDDRCLNGLRETYQALGTP 123
Globin-like cd01067
Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety ...
 40-123 1.45e-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: 59.39  E-value: 1.45e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323  40 AAEKISTGHEAVVKEAGDACFAK--YTYLKSSGEagdsqeKVNKCYRDIDHYMRLINYSLVVGGTgplDEWGIAGAREVY 117
Cdd:cd01067    1 AWGYLEENQEEIVDDFYDRLFALpsLSELFSPPG------RLAKCIRKQMHFLRYALYGLVDGDS---IEEGLAGLGEAH 71


                 ....*.
gi 165988323 118 RALNLP 123
Cdd:cd01067   72 KSLGVP 77
PE-PC-PEC_beta cd12127
Beta subunits of phycocyanin, phycoerythrin and phycoerythrocyanin; phycobilisome rod ...
 1-123 4.51e-11

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: 56.72  E-value: 4.51e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:cd12127    1 MLDAFSRVVVQADAKGEYLSNAQLDALKKFIAEGNKRLDAVNRITSNASCIVADAVRAMICENPQLINPGG*CYTNRRMA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:cd12127   81 ACLRDGEIILRYVSYALLAGDSSVLDDRCLNGLKETYQALGVP 123
cpeB CHL00172
phycoerythrin beta subunit; Provisional
 1-124 8.19e-08

phycoerythrin beta subunit; Provisional


Pssm-ID: 133617  Cd Length: 177  Bit Score: 48.14  E-value: 8.19e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:CHL00172   1 MLDAFSRVVTNSDAKAAYVGGSDLQALKKFISEGNKRLDSVNSIVSNASCIVSDAVSGMICENPGLISPGGNCYTNRRMA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLPS 124
Cdd:CHL00172  81 ACLRDGEIILRYVSYALLAGDPSVLEDRCLNGLKETYIALGVPA 124
Apl cd12130
Allophycocyanin-like globins; phycobilisomes (PBSs) are the main light-harvesting complex in ...
 7-123 6.95e-07

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: 45.36  E-value: 6.95e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   7 TTISAADAAGRFPSSSDLESVQgniQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVNKCYRDI 86
Cdd:cd12130    3 ALLQAADDERRYLTDEELQAIC---QLSGVDAAPARQLRDQAHELVDQARATLLAQFPGITEPGGALYPPERAEACWRDC 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 165988323  87 DHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLP 123
Cdd:cd12130   80 WHFLRCITYGIAGGQTDFTSPEGLGAMRLLYQELQVP 116
PE_beta-like cd14767
Phycoerythrin beta subunit, a component of the phycobilisome rod; and related proteins; ...
 1-124 1.31e-06

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: 44.88  E-value: 1.31e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 165988323   1 MKSVITTTISAADAAGRFPSSSDLESVQGNIQRSAARLEAAEKISTGHEAVVKEAGDACFAKYTYLKSSGEAGDSQEKVN 80
Cdd:cd14767    1 MLDAFSRVVVNADSKAAYVGGSDLQALKTFISDGNKRLDAVNYIVSNASCIVSDAVSGMICENPGLISPGG*CYTNRRMA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 165988323  81 KCYRDIDHYMRLINYSLVVGGTGPLDEWGIAGAREVYRALNLPS 124
Cdd:cd14767   81 ACLRDGEIILRYVSYALLAGDASVLEDRCLNGLKETYIALGVPT 124
 
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