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Conserved domains on  [gi|777211865|emb|CKH01061|]
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bacterial globin-like protein [Staphylococcus aureus]

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

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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 ...
 6-120 3.62e-42

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 cd08917:

Pssm-ID: 473869  Cd Length: 116  Bit Score: 134.77  E-value: 3.62e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   6 YDIIGKEALYDMIDYFYTLVEKDERLNHLFP-GDFAETSRKQKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTITEFERD 84
Cdd:cd08917    1 YEAIGEETFRKLVRRFYERVAKDPELRALYPeEDLAPAEERLYLFLVQYFGGPPTYSEQRGHPMLRARHFPFPIDGKARE 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 777211865  85 AWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVN 120
Cdd:cd08917   81 AWLACMRTAMDDIDLDQEVREEMMAYFEKVANHMVN 116
 
Name Accession Description Interval E-value
TrHb2_O cd08917
Truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 2 (O); The M- and S families exhibit ...
 6-120 3.62e-42

Truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 2 (O); 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. TrHbs are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P). TrHb2s include the dimeric Arabidopsis thaliana TrHb2 AtGLB3. GLB3 is likely to have a function distinct from other plant globins: it exhibits a low O2 affinity, an unusual concentration-independent binding of O2 and CO, and does not respond to any of the treatments that induce plant 3-on-3 globins. Other TrHb2's include Bacillus subtilis trHb (Bs-trHb) which exhibits an extremely high oxygen affinity, and Pseudoalteromonas haloplanktis PhHbO (encoded by the PSHAa0030 gene) which appears to be involved in oxidative and nitrosative stress resistance.


Pssm-ID: 381258  Cd Length: 116  Bit Score: 134.77  E-value: 3.62e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   6 YDIIGKEALYDMIDYFYTLVEKDERLNHLFP-GDFAETSRKQKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTITEFERD 84
Cdd:cd08917    1 YEAIGEETFRKLVRRFYERVAKDPELRALYPeEDLAPAEERLYLFLVQYFGGPPTYSEQRGHPMLRARHFPFPIDGKARE 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 777211865  85 AWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVN 120
Cdd:cd08917   81 AWLACMRTAMDDIDLDQEVREEMMAYFEKVANHMVN 116
YjbI COG2346
Truncated hemoglobin YjbI [Inorganic ion transport and metabolism];
1-120 2.22e-34

Truncated hemoglobin YjbI [Inorganic ion transport and metabolism];


Pssm-ID: 441915  Cd Length: 120  Bit Score: 114.97  E-value: 2.22e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   1 MTTTPYD-IIGKEALYDMIDYFYTLVEKDERLNHLFPG-DFAETSRKQKQFLTQFLGGPNIYTEEHghpmLRKRHMDFTI 78
Cdd:COG2346    2 PEPTLYErIGGEEAIRALVDRFYDRVRADPLLGPIFPEaDLEEHREKLADFLSQVLGGPGLYSGRR----MRARHAPLPI 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 777211865  79 TEFERDAWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVN 120
Cdd:COG2346   78 TEEHFDRWLELMREALDELGVPPELAEELLARLERIADDMVN 119
Bac_globin pfam01152
Bacterial-like globin; This family of heme binding proteins are found mainly in bacteria. ...
 4-120 8.57e-24

Bacterial-like globin; This family of heme binding proteins are found mainly in bacteria. However they can also be found in some protozoa and plants as well.


Pssm-ID: 395917  Cd Length: 121  Bit Score: 88.24  E-value: 8.57e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865    4 TPYDIIG-KEALYDMIDYFYTLVEKDE--RLNHLFPGDFAETSR-KQKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTIT 79
Cdd:pfam01152   1 TLYDAIGgEATVRALVDRFYTRVDTDPeeALSRAFHGTDLEGSRqKLYEFLVQWLGGPPLYSQRRGHPRLRGRHAPFPIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 777211865   80 EFERDAWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVN 120
Cdd:pfam01152  81 HRERDAWLRHMARAMADTGVHSIDREIILKLMTFLAHTAQN 121
 
Name Accession Description Interval E-value
TrHb2_O cd08917
Truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 2 (O); The M- and S families exhibit ...
 6-120 3.62e-42

Truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 2 (O); 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. TrHbs are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P). TrHb2s include the dimeric Arabidopsis thaliana TrHb2 AtGLB3. GLB3 is likely to have a function distinct from other plant globins: it exhibits a low O2 affinity, an unusual concentration-independent binding of O2 and CO, and does not respond to any of the treatments that induce plant 3-on-3 globins. Other TrHb2's include Bacillus subtilis trHb (Bs-trHb) which exhibits an extremely high oxygen affinity, and Pseudoalteromonas haloplanktis PhHbO (encoded by the PSHAa0030 gene) which appears to be involved in oxidative and nitrosative stress resistance.


Pssm-ID: 381258  Cd Length: 116  Bit Score: 134.77  E-value: 3.62e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   6 YDIIGKEALYDMIDYFYTLVEKDERLNHLFP-GDFAETSRKQKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTITEFERD 84
Cdd:cd08917    1 YEAIGEETFRKLVRRFYERVAKDPELRALYPeEDLAPAEERLYLFLVQYFGGPPTYSEQRGHPMLRARHFPFPIDGKARE 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 777211865  85 AWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVN 120
Cdd:cd08917   81 AWLACMRTAMDDIDLDQEVREEMMAYFEKVANHMVN 116
TrHb2_Bs-trHb-like_O cd14772
Truncated hemoglobins, group 2 (O); Bacillus subtilis TrHb like; The M- and S families exhibit ...
 6-120 2.01e-41

Truncated hemoglobins, group 2 (O); Bacillus subtilis TrHb like; 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. TrHbs are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P). TrHb2's belonging to this group include monomeric Bacillus subtilis trHb (Bs-trHb), which exhibits an extremely high oxygen affinity, and a dimeric TrHb2 from the thermophilic aerobic spore forming bacterium Geobacillus stearothermophilus(Gs-trHb).


Pssm-ID: 381281  Cd Length: 116  Bit Score: 132.92  E-value: 2.01e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   6 YDII-GKEALYDMIDYFYTLVEKDERLNHLFPGDFAETSRKQKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTITEFERD 84
Cdd:cd14772    1 YERIgGEETLSRLVEAFYPRVAAHPLLAPIFPDDLTETARKQKQFLTQFFGGPPLYTDEYGHPMLRARHLPFPITPTRAE 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 777211865  85 AWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVN 120
Cdd:cd14772   81 AWLACMAEALDEIGLEEPIREELYARLTYTAHHMVN 116
YjbI COG2346
Truncated hemoglobin YjbI [Inorganic ion transport and metabolism];
1-120 2.22e-34

Truncated hemoglobin YjbI [Inorganic ion transport and metabolism];


Pssm-ID: 441915  Cd Length: 120  Bit Score: 114.97  E-value: 2.22e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   1 MTTTPYD-IIGKEALYDMIDYFYTLVEKDERLNHLFPG-DFAETSRKQKQFLTQFLGGPNIYTEEHghpmLRKRHMDFTI 78
Cdd:COG2346    2 PEPTLYErIGGEEAIRALVDRFYDRVRADPLLGPIFPEaDLEEHREKLADFLSQVLGGPGLYSGRR----MRARHAPLPI 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 777211865  79 TEFERDAWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVN 120
Cdd:COG2346   78 TEEHFDRWLELMREALDELGVPPELAEELLARLERIADDMVN 119
TrHb2_PhHbO-like_O cd14773
Truncated hemoglobins, group 2 (O); Pseudoalteromonas haloplanktis PhHbO like; The M- and S ...
 6-120 6.12e-31

Truncated hemoglobins, group 2 (O); Pseudoalteromonas haloplanktis PhHbO like; 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. TrHbs are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P). TrHb2's belonging to this group include Pseudoalteromonas haloplanktis PhHbO (encoded by the PSHAa0030 gene) which appears to be involved in oxidative and nitrosative stress resistance.


Pssm-ID: 381282  Cd Length: 119  Bit Score: 106.48  E-value: 6.12e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   6 YDIIGKEA-LYDMIDYFYTLVEKD---ERLNHLFPGDFAETSRKQKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTITEF 81
Cdd:cd14773    1 YERIGGEEgVRALVDRFYDLMDTLpeaAELRAMHPDDLTPSREKLFEFLSGWLGGPRLYSEKYGHPRLRSRHAPFPIGPA 80

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 777211865  82 ERDAWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVN 120
Cdd:cd14773   81 ERDQWLLCMRKALDEVVLDPDLREYLLAAFARLADHMRN 119
TrHb2_Mt-trHbO-like_O cd14771
Truncated hemoglobins, group 2 (O); Mycobacterium tuberculosis hemoglobin O like; The M- and S ...
 6-121 1.01e-30

Truncated hemoglobins, group 2 (O); Mycobacterium tuberculosis hemoglobin O like; 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. TrHbs are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P). This group includes a Mycobacterium tuberculosis TrHb2, Mt-trHbO, encoded by the Mycobacterium tuberculosis glbO gene, which is expressed throughout the Mycobacterium growth phase. It also includes a TrHb2 from the thermophilic Thermobifida fusca ( Tf-trHb) which has a high thermostability and at the optimal growth temperature for Thermobifida fusca (between 55 and 60 degrees C ), it is capable of efficient O2 binding and release. Tf-trHb shares a relatively slow rate of oxygen binding with Mt-trHbO.


Pssm-ID: 381280  Cd Length: 119  Bit Score: 105.82  E-value: 1.01e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   6 YDIIGKEALYDMIDYFYTLVEKDERLNHLFP-GDFAETSRKQKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTITEFERD 84
Cdd:cd14771    3 EEVGGEDTFRRLVDAFYEGVAADEVLRPMYPeDDLEGAEERLRLFLEQYWGGPTTYSEERGHPRLRMRHAPFPIGPAARD 82

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 777211865  85 AWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVNS 121
Cdd:cd14771   83 RWLEHMAAALDEVELPDPLREELWDYFERAAHAMINR 119
TrHb cd14756
Truncated Mb-fold globins, T family; The M- and S families exhibit the canonical secondary ...
 6-119 6.84e-28

Truncated Mb-fold globins, T family; 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. They are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P). Typical of the TrHb1s (N) group is a protein matrix tunnel. An example of a TrHb1 is Mycobacterium tuberculosis TrHb1/Mt-trHbN which is expressed during the Mycobacterium stationary phase, and plays a specific defense role against nitrosative stress. TrHb2s include the dimeric Arabidopsis thaliana TrHb2 AtGLB3. GLB3 is likely to have a function distinct from other plant globins: it exhibits a low O2 affinity, an unusual concentration-independent binding of O2 and CO, and does not respond to any of the treatments that induce plant 3-on-3 globins. TrHb3s include Campylobacter jejuni Ctb, encoded by Cj0465c, which may play a role in moderating O2 flux within C. jejuni.


Pssm-ID: 381270 [Multi-domain]  Cd Length: 111  Bit Score: 98.25  E-value: 6.84e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   6 YDIIGKEALYDMIDYFYTLVEKDERLNHLFPG-DFAETSRKQKQFLTQFLGGPNiyteEHGHPMLRKRHMDFTITEFERD 84
Cdd:cd14756    1 EKIGGEEAIEALVEIFYEKVLADPRLKPIFPNtDMKEHKAKQGDFLAGYLGGPN----DHGGPMMRRRHLGLPITNEHFD 76

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 777211865  85 AWLENMQTAINRAAFPQGVGDYLFERLRLTANHMV 119
Cdd:cd14756   77 AWLSLLADALDEVGVNPEMRNEILAVIEMTARHMQ 111
Bac_globin pfam01152
Bacterial-like globin; This family of heme binding proteins are found mainly in bacteria. ...
 4-120 8.57e-24

Bacterial-like globin; This family of heme binding proteins are found mainly in bacteria. However they can also be found in some protozoa and plants as well.


Pssm-ID: 395917  Cd Length: 121  Bit Score: 88.24  E-value: 8.57e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865    4 TPYDIIG-KEALYDMIDYFYTLVEKDE--RLNHLFPGDFAETSR-KQKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTIT 79
Cdd:pfam01152   1 TLYDAIGgEATVRALVDRFYTRVDTDPeeALSRAFHGTDLEGSRqKLYEFLVQWLGGPPLYSQRRGHPRLRGRHAPFPIT 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 777211865   80 EFERDAWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVN 120
Cdd:pfam01152  81 HRERDAWLRHMARAMADTGVHSIDREIILKLMTFLAHTAQN 121
TrHb2_HGbIV-like_O cd14774
hell's gate globin IV and similar truncated hemoglobins, group 2 (O); The M- and S families ...
 6-121 9.73e-23

hell's gate globin IV and similar truncated hemoglobins, group 2 (O); 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. TrHbs are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P).


Pssm-ID: 381283  Cd Length: 131  Bit Score: 85.81  E-value: 9.73e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   6 YDIIGKEALYDMIDYFYTLVEKDErLNHLFPGD---FAETSRKQKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTITEFE 82
Cdd:cd14774   13 LQEVGEEGLRKLVSDHYDLLKKSS-IKHLFPQDeeeLEKAKQKSADFFIQICGGPPYYSQNRGHPRMRARHFPFSIDEKA 91

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 777211865  83 RDAWLENMQTAINRAAFPQGVGDYLFERLRLTANHMVNS 121
Cdd:cd14774   92 RDIWLACYKKVLKDLKFPEELKESFWNYIEIFSIWMVNT 130
TrHb1_N cd00454
truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 1 (N); The M- and S families exhibit ...
 10-93 1.37e-14

truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 1 (N); 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. They are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P). Typical of the TrHb1s (N) group is a protein matrix tunnel. It includes a Mycobacterium tuberculosis TrHb1, Mt-trHbN, which is encoded by the glbN gene. Mt-trHbN is expressed during the Mycobacterium stationary phase, and plays a specific defense role against nitrosative stress. The cyanobacterium Synechococcus sp. PCC 7002 TrHb1 GlbN, is constitutively expressed, and likely also protects cells from reactive nitrogen species.


Pssm-ID: 381253  Cd Length: 111  Bit Score: 64.48  E-value: 1.37e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865  10 GKEALYDMIDYFYTLVEKDERLNHLFPG-DFAETSRKQKQFLTQFLGGPNIYTeehGHPMlRKRHMDFTITEFERDAWLE 88
Cdd:cd00454    5 GEEGIEAVVDDFYDRVLADPRIKPFFAGvDMARLKKKQTEFLCEAFGGPCEYT---GRDM-KEAHAGLNITDEHFDAFVE 80


                 ....*
gi 777211865  89 NMQTA 93
Cdd:cd00454   81 HLKEA 85
TrHb2_AtGlb3-like_O cd19755
nonsymbiotic haemoglobin Ahb3 (GLB3) and similar truncated hemoglobins, group 2 (O); The M- ...
 6-94 1.55e-12

nonsymbiotic haemoglobin Ahb3 (GLB3) and similar truncated hemoglobins, group 2 (O); 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. TrHbs are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P). This subfamily includes the dimeric Arabidopsis thaliana TrHb2 AtGLB3. GLB3 is likely to have a function distinct from other plant globins: it exhibits a low O2 affinity, an unusual concentration-independent binding of O2 and CO, and does not respond to any of the treatments that induce plant 3-on-3 globins.


Pssm-ID: 381295  Cd Length: 119  Bit Score: 59.30  E-value: 1.55e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   6 YDIIGKEALYDMIDYFYTLVEKDErlNHLFPGDFAETSRK-----QKQFLTQFLGGPNIYTEEHGHPMLRKRHMDFTITE 80
Cdd:cd19755    1 YERLGEEGFISLSTEFYNRVYADE--EPWFRDIFANSPKEeaiqnQYEFFVQRFGGPPLYSERKGHPALIGRHAPFPVTP 78

                         90
                 ....*....|....
gi 777211865  81 FERDAWLENMQTAI 94
Cdd:cd19755   79 QAAERWLYHMENAL 92
TrHb2_O-like cd14775
Truncated hemoglobins, group 2 (O); uncharacterized subgroup; The M- and S families exhibit ...
 10-100 2.20e-11

Truncated hemoglobins, group 2 (O); uncharacterized subgroup; 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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. TrHbs are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P).


Pssm-ID: 381284  Cd Length: 119  Bit Score: 56.48  E-value: 2.20e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865  10 GKEALYDMIDYFYTLVEKDERLNHLFPGDFAETSRKQKQFLTQFLGGPNIYTEEHG-HPMLRKRHMDFTITEFERDAWLE 88
Cdd:cd14775    6 GEEALRRLTEAFYARVLADPLLAPVFAHMSPDHVEHVAAFLAEVFGGPARYTDELGgHEHMLRHHAGLGITEEQRRRWVE 85

                         90
                 ....*....|..
gi 777211865  89 NMQTAINRAAFP 100
Cdd:cd14775   86 LMLEAADEAGLP 97
Globin-like cd01067
Globin-like protein superfamily; This globin-like domain superfamily contains a wide variety ...
 11-79 1.89e-05

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: 40.90  E-value: 1.89e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 777211865  11 KEALYDMIDYFYTLVEKDERLNHLF--PGDFAETSRKQKQFLTQFLGGPNIY-TEEHGHPMLRKRHMDFTIT 79
Cdd:cd01067    6 EENQEEIVDDFYDRLFALPSLSELFspPGRLAKCIRKQMHFLRYALYGLVDGdSIEEGLAGLGEAHKSLGVP 77
TrHb3_P cd08916
Truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 3 (P); The M- and S families exhibit ...
 7-88 4.57e-04

Truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 3 (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. Truncated hemoglobins (TrHbs, 2/2Hb, or 2/2 globins) or 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. They are classified into three main groups based on their structural properties and named after Mycobacterium sp. genes glbN, glbO, and glbP: TrHb1s (N), TrHb2s (O) and TrHb3s (P). TrHb3s include Campylobacter jejuni Ctb, encoded by Cj0465c, which may play a role in moderating O2 flux within C. jejuni.


Pssm-ID: 381257  Cd Length: 116  Bit Score: 37.13  E-value: 4.57e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 777211865   7 DIIGKEALYDMIDYFYTLVEKDERLNHLF----PGDFAETSRKQKQFLTQFLGGPNIYteeHGHPMLRKRHMD-FTITEF 81
Cdd:cd08916    2 DIITREDIELLVDTFYAKVRQDPLLGPIFnaviGVDWPEHLPKMYDFWSSVLLGTGRY---KGNPMPKHLALPpLTPEHF 78


                 ....*..
gi 777211865  82 ERdaWLE 88
Cdd:cd08916   79 ER--WLA 83
 
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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