NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1733551954|dbj|GER01374|]
View 

hypothetical protein JCM17845_19970 [Iodidimonas gelatinilytica]

Protein Classification

YbbN family protein( domain architecture ID 1002892)

YbbN family protein may contain thioredoxin-like and TPR-like domains

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
CnoX super family cl34555
Chaperedoxin CnoX, contains thioredoxin-like and TPR-like domains, YbbN/TrxSC family ...
101-193 4.96e-03

Chaperedoxin CnoX, contains thioredoxin-like and TPR-like domains, YbbN/TrxSC family [Posttranslational modification, protein turnover, chaperones];


The actual alignment was detected with superfamily member COG3118:

Pssm-ID: 442352 [Multi-domain]  Cd Length: 105  Bit Score: 35.57  E-value: 4.96e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1733551954 101 QIGRVLKHVQKEHHKAPVHAAIfigdaceeNADELCHLASELGIRHVP-VFVFQEGrdptatiafKEIARLSGGAwapfd 179
Cdd:COG3118    35 MLAPVLEELAAEYGGKVKFVKV--------DVDENPELAAQFGVRSIPtLLLFKDG---------QPVDRFVGAL----- 92
                          90
                  ....*....|....
gi 1733551954 180 mnSPAQLRDLLKAV 193
Cdd:COG3118    93 --PKEQLREFLDKV 104
 
Name Accession Description Interval E-value
CnoX COG3118
Chaperedoxin CnoX, contains thioredoxin-like and TPR-like domains, YbbN/TrxSC family ...
101-193 4.96e-03

Chaperedoxin CnoX, contains thioredoxin-like and TPR-like domains, YbbN/TrxSC family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 442352 [Multi-domain]  Cd Length: 105  Bit Score: 35.57  E-value: 4.96e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1733551954 101 QIGRVLKHVQKEHHKAPVHAAIfigdaceeNADELCHLASELGIRHVP-VFVFQEGrdptatiafKEIARLSGGAwapfd 179
Cdd:COG3118    35 MLAPVLEELAAEYGGKVKFVKV--------DVDENPELAAQFGVRSIPtLLLFKDG---------QPVDRFVGAL----- 92
                          90
                  ....*....|....
gi 1733551954 180 mnSPAQLRDLLKAV 193
Cdd:COG3118    93 --PKEQLREFLDKV 104
TRX_family cd02947
TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a ...
101-191 9.90e-03

TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox state of target proteins via the reversible oxidation of an active site dithiol, present in a CXXC motif, partially exposed at the protein's surface. TRX reduces protein disulfide bonds, resulting in a disulfide bond at its active site. Oxidized TRX is converted to the active form by TRX reductase, using reducing equivalents derived from either NADPH or ferredoxins. By altering their redox state, TRX regulates the functions of at least 30 target proteins, some of which are enzymes and transcription factors. It also plays an important role in the defense against oxidative stress by directly reducing hydrogen peroxide and certain radicals, and by serving as a reductant for peroxiredoxins. At least two major types of functional TRXs have been reported in most organisms; in eukaryotes, they are located in the cytoplasm and the mitochondria. Higher plants contain more types (at least 20 TRX genes have been detected in the genome of Arabidopsis thaliana), two of which (types f amd m) are located in the same compartment, the chloroplast. Also included in the alignment are TRX-like domains which show sequence homology to TRX but do not contain the redox active CXXC motif. Group II proteins, in addition to either a redox active TRX or a TRX-like domain, also contain additional domains, which may or may not possess homology to known proteins.


Pssm-ID: 239245 [Multi-domain]  Cd Length: 93  Bit Score: 34.46  E-value: 9.90e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1733551954 101 QIGRVLKHVQKEHHKAPVhaaIFIgdaceeNADELCHLASELGIRHVPVFVFQEGRdptatiafKEIARLSGGawapfdm 180
Cdd:cd02947    27 AIAPVLEELAEEYPKVKF---VKV------DVDENPELAEEYGVRSIPTFLFFKNG--------KEVDRVVGA------- 82
                          90
                  ....*....|.
gi 1733551954 181 NSPAQLRDLLK 191
Cdd:cd02947    83 DPKEELEEFLE 93
 
Name Accession Description Interval E-value
CnoX COG3118
Chaperedoxin CnoX, contains thioredoxin-like and TPR-like domains, YbbN/TrxSC family ...
101-193 4.96e-03

Chaperedoxin CnoX, contains thioredoxin-like and TPR-like domains, YbbN/TrxSC family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 442352 [Multi-domain]  Cd Length: 105  Bit Score: 35.57  E-value: 4.96e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1733551954 101 QIGRVLKHVQKEHHKAPVHAAIfigdaceeNADELCHLASELGIRHVP-VFVFQEGrdptatiafKEIARLSGGAwapfd 179
Cdd:COG3118    35 MLAPVLEELAAEYGGKVKFVKV--------DVDENPELAAQFGVRSIPtLLLFKDG---------QPVDRFVGAL----- 92
                          90
                  ....*....|....
gi 1733551954 180 mnSPAQLRDLLKAV 193
Cdd:COG3118    93 --PKEQLREFLDKV 104
TRX_family cd02947
TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a ...
101-191 9.90e-03

TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox state of target proteins via the reversible oxidation of an active site dithiol, present in a CXXC motif, partially exposed at the protein's surface. TRX reduces protein disulfide bonds, resulting in a disulfide bond at its active site. Oxidized TRX is converted to the active form by TRX reductase, using reducing equivalents derived from either NADPH or ferredoxins. By altering their redox state, TRX regulates the functions of at least 30 target proteins, some of which are enzymes and transcription factors. It also plays an important role in the defense against oxidative stress by directly reducing hydrogen peroxide and certain radicals, and by serving as a reductant for peroxiredoxins. At least two major types of functional TRXs have been reported in most organisms; in eukaryotes, they are located in the cytoplasm and the mitochondria. Higher plants contain more types (at least 20 TRX genes have been detected in the genome of Arabidopsis thaliana), two of which (types f amd m) are located in the same compartment, the chloroplast. Also included in the alignment are TRX-like domains which show sequence homology to TRX but do not contain the redox active CXXC motif. Group II proteins, in addition to either a redox active TRX or a TRX-like domain, also contain additional domains, which may or may not possess homology to known proteins.


Pssm-ID: 239245 [Multi-domain]  Cd Length: 93  Bit Score: 34.46  E-value: 9.90e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1733551954 101 QIGRVLKHVQKEHHKAPVhaaIFIgdaceeNADELCHLASELGIRHVPVFVFQEGRdptatiafKEIARLSGGawapfdm 180
Cdd:cd02947    27 AIAPVLEELAEEYPKVKF---VKV------DVDENPELAEEYGVRSIPTFLFFKNG--------KEVDRVVGA------- 82
                          90
                  ....*....|.
gi 1733551954 181 NSPAQLRDLLK 191
Cdd:cd02947    83 DPKEELEEFLE 93
 
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