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Conserved domains on  [gi|490298044|ref|WP_004193483|]
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MULTISPECIES: group III truncated hemoglobin [Burkholderia]

Protein Classification

group III truncated hemoglobin( domain architecture ID 10172365)

group III truncated hemoglobin similar to Campylobacter jejuni Group 3 truncated hemoglobin ctb, which may be involved in cytochrome c peroxidase or P450-like oxygen chemistry or cyanide detoxification

CATH:  1.10.490.10
Gene Ontology:  GO:0019825|GO:0020037|GO:0046872|GO:0005344
PubMed:  32863222|16061809|19281958|26788940|11696555
SCOP:  3000554

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TrHb3_P cd08916
Truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 3 (P); The M- and S families exhibit ...
 21-130 1.06e-47

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: 151.15  E-value: 1.06e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490298044  21 TPENIRALVDAFYDRVRDDALLGPVFESKLAGRWDQHLPKMGEFWSSLVLGTKSYRGNVQAAHQPLDGLEPVHFSRWLAL 100
Cdd:cd08916    5 TREDIELLVDTFYAKVRQDPLLGPIFNAVIGVDWPEHLPKMYDFWSSVLLGTGRYKGNPMPKHLALPPLTPEHFERWLAL 84

                         90       100       110
                 ....*....|....*....|....*....|
gi 490298044 101 FLKTVEARYEPAAAVRFMEPALRIAQSLQL 130
Cdd:cd08916   85 FRETLDELFEGEAAEEAKERARRIAESLQM 114
 
Name Accession Description Interval E-value
TrHb3_P cd08916
Truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 3 (P); The M- and S families exhibit ...
 21-130 1.06e-47

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: 151.15  E-value: 1.06e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490298044  21 TPENIRALVDAFYDRVRDDALLGPVFESKLAGRWDQHLPKMGEFWSSLVLGTKSYRGNVQAAHQPLDGLEPVHFSRWLAL 100
Cdd:cd08916    5 TREDIELLVDTFYAKVRQDPLLGPIFNAVIGVDWPEHLPKMYDFWSSVLLGTGRYKGNPMPKHLALPPLTPEHFERWLAL 84

                         90       100       110
                 ....*....|....*....|....*....|
gi 490298044 101 FLKTVEARYEPAAAVRFMEPALRIAQSLQL 130
Cdd:cd08916   85 FRETLDELFEGEAAEEAKERARRIAESLQM 114
YjbI COG2346
Truncated hemoglobin YjbI [Inorganic ion transport and metabolism];
23-128 7.71e-29

Truncated hemoglobin YjbI [Inorganic ion transport and metabolism];


Pssm-ID: 441915  Cd Length: 120  Bit Score: 103.41  E-value: 7.71e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490298044  23 ENIRALVDAFYDRVRDDALLGPVFEsklAGRWDQHLPKMGEFWSSLVLGTKSYRGN-VQAAHQPLdGLEPVHFSRWLALF 101
Cdd:COG2346   14 EAIRALVDRFYDRVRADPLLGPIFP---EADLEEHREKLADFLSQVLGGPGLYSGRrMRARHAPL-PITEEHFDRWLELM 89

                         90       100
                 ....*....|....*....|....*...
gi 490298044 102 LKTV-EARYEPAAAVRFMEPALRIAQSL 128
Cdd:COG2346   90 REALdELGVPPELAEELLARLERIADDM 117
 
Name Accession Description Interval E-value
TrHb3_P cd08916
Truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 3 (P); The M- and S families exhibit ...
 21-130 1.06e-47

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: 151.15  E-value: 1.06e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490298044  21 TPENIRALVDAFYDRVRDDALLGPVFESKLAGRWDQHLPKMGEFWSSLVLGTKSYRGNVQAAHQPLDGLEPVHFSRWLAL 100
Cdd:cd08916    5 TREDIELLVDTFYAKVRQDPLLGPIFNAVIGVDWPEHLPKMYDFWSSVLLGTGRYKGNPMPKHLALPPLTPEHFERWLAL 84

                         90       100       110
                 ....*....|....*....|....*....|
gi 490298044 101 FLKTVEARYEPAAAVRFMEPALRIAQSLQL 130
Cdd:cd08916   85 FRETLDELFEGEAAEEAKERARRIAESLQM 114
YjbI COG2346
Truncated hemoglobin YjbI [Inorganic ion transport and metabolism];
23-128 7.71e-29

Truncated hemoglobin YjbI [Inorganic ion transport and metabolism];


Pssm-ID: 441915  Cd Length: 120  Bit Score: 103.41  E-value: 7.71e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490298044  23 ENIRALVDAFYDRVRDDALLGPVFEsklAGRWDQHLPKMGEFWSSLVLGTKSYRGN-VQAAHQPLdGLEPVHFSRWLALF 101
Cdd:COG2346   14 EAIRALVDRFYDRVRADPLLGPIFP---EADLEEHREKLADFLSQVLGGPGLYSGRrMRARHAPL-PITEEHFDRWLELM 89

                         90       100
                 ....*....|....*....|....*...
gi 490298044 102 LKTV-EARYEPAAAVRFMEPALRIAQSL 128
Cdd:COG2346   90 REALdELGVPPELAEELLARLERIADDM 117
TrHb cd14756
Truncated Mb-fold globins, T family; The M- and S families exhibit the canonical secondary ...
 23-113 5.93e-13

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: 62.04  E-value: 5.93e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490298044  23 ENIRALVDAFYDRVRDDALLGPVFESKlagRWDQHLPKMGEFWSSLVLGTKSYRG-NVQAAHQPLdGLEPVHFSRWLALF 101
Cdd:cd14756    7 EAIEALVEIFYEKVLADPRLKPIFPNT---DMKEHKAKQGDFLAGYLGGPNDHGGpMMRRRHLGL-PITNEHFDAWLSLL 82

                         90
                 ....*....|..
gi 490298044 102 LKTVEARYEPAA 113
Cdd:cd14756   83 ADALDEVGVNPE 94
TrHb1_N cd00454
truncated hemoglobins (TrHbs, 2/2Hb, 2/2 globins); group 1 (N); The M- and S families exhibit ...
 23-107 2.29e-07

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: 47.15  E-value: 2.29e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490298044  23 ENIRALVDAFYDRVRDDALLGPVFE-SKLagrwDQHLPKMGEFWSSLVLGTKSYRG-NVQAAHQPLdGLEPVHFSRWLAL 100
Cdd:cd00454    7 EGIEAVVDDFYDRVLADPRIKPFFAgVDM----ARLKKKQTEFLCEAFGGPCEYTGrDMKEAHAGL-NITDEHFDAFVEH 81


                 ....*..
gi 490298044 101 FLKTVEA 107
Cdd:cd00454   82 LKEALEE 88
TrHb2_O-like cd14775
Truncated hemoglobins, group 2 (O); uncharacterized subgroup; The M- and S families exhibit ...
 22-126 2.87e-06

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: 44.16  E-value: 2.87e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490298044  22 PENIRALVDAFYDRVRDDALLGPVFesklAGRWDQHLPKMGEFWSSlVLG-----TKSYRG--NVQAAHQPLdGLEPVHF 94
Cdd:cd14775    7 EEALRRLTEAFYARVLADPLLAPVF----AHMSPDHVEHVAAFLAE-VFGgparyTDELGGheHMLRHHAGL-GITEEQR 80

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 490298044  95 SRWLALFLKTVEARYEP------AAAVRFMEPALRIAQ 126
Cdd:cd14775   81 RRWVELMLEAADEAGLPddpefrSAFVGYLEWGSRIAV 118
TrHb2_Bs-trHb-like_O cd14772
Truncated hemoglobins, group 2 (O); Bacillus subtilis TrHb like; The M- and S families exhibit ...
 22-50 4.72e-04

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: 38.16  E-value: 4.72e-04
                         10        20
                 ....*....|....*....|....*....
gi 490298044  22 PENIRALVDAFYDRVRDDALLGPVFESKL 50
Cdd:cd14772    7 EETLSRLVEAFYPRVAAHPLLAPIFPDDL 35
 
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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