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Conserved domains on  [gi|1958770447|ref|XP_038963878|]
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basic helix-loop-helix ARNT-like protein 2 isoform X6 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PAS_11 super family cl37882
PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), ...
 148-250 2.59e-25

PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), which binds to an LXXLL motif in the C-terminal region of STAT6 (Signal transducer and activator of transcription 6).


The actual alignment was detected with superfamily member pfam14598:

Pssm-ID: 464214 [Multi-domain]  Cd Length: 110  Bit Score: 99.29  E-value: 2.59e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958770447 148 EFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQSKEKILTDSYKFRVKDGSFVTLKS 227
Cdd:pfam14598   3 QFTTRHDIDGKIISCDTRAPFSLGYEKDELVGRSIYDLVHPQDLRTAKSHLREIIQTRGRATSPSYRLRLRDGDFLSVHT 82

                          90       100
                  ....*....|....*....|...
gi 1958770447 228 KWFSFTNPWTKKLEYIVSVNTLV 250
Cdd:pfam14598  83 KSKLFLNQNSNQQPFIMCTHTIL 105
 
Name Accession Description Interval E-value
PAS_11 pfam14598
PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), ...
 148-250 2.59e-25

PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), which binds to an LXXLL motif in the C-terminal region of STAT6 (Signal transducer and activator of transcription 6).


Pssm-ID: 464214 [Multi-domain]  Cd Length: 110  Bit Score: 99.29  E-value: 2.59e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958770447 148 EFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQSKEKILTDSYKFRVKDGSFVTLKS 227
Cdd:pfam14598   3 QFTTRHDIDGKIISCDTRAPFSLGYEKDELVGRSIYDLVHPQDLRTAKSHLREIIQTRGRATSPSYRLRLRDGDFLSVHT 82

                          90       100
                  ....*....|....*....|...
gi 1958770447 228 KWFSFTNPWTKKLEYIVSVNTLV 250
Cdd:pfam14598  83 KSKLFLNQNSNQQPFIMCTHTIL 105
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 147-246 7.11e-17

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 75.75  E-value: 7.11e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958770447 147 AEFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQsKEKILTDSYKFRVKDGSFVTLK 226
Cdd:cd00130     2 PDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLS-GGEPVTLEVRLRRKDGSVIWVL 80

                          90       100
                  ....*....|....*....|
gi 1958770447 227 SKWFSFTNPWTKKLEYIVSV 246
Cdd:cd00130    81 VSLTPIRDEGGEVIGLLGVV 100
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 148-203 5.18e-10

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 55.10  E-value: 5.18e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1958770447  148 EFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQ 203
Cdd:smart00091  12 DGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRERVQEALQRLLS 67
PAS COG2202
PAS domain [Signal transduction mechanisms];
148-225 2.33e-06

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 48.87  E-value: 2.33e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958770447 148 EFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQSKEKILTDSYKFRVKDGSFVTL 225
Cdd:COG2202   148 DGIFVLDLDGRILYVNPAAEELLGYSPEELLGKSLLDLLHPEDRERLLELLRRLLEGGRESYELELRLKDGDGRWVWV 225
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 156-221 1.72e-04

PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. [Regulatory functions, Small molecule interactions]


Pssm-ID: 272971 [Multi-domain]  Cd Length: 124  Bit Score: 41.12  E-value: 1.72e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1958770447 156 NGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQSKEKILTDSYKFRVKDGS 221
Cdd:TIGR00229  22 EGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERRLEGEPEPVSEERRVRRKDGS 87
 
Name Accession Description Interval E-value
PAS_11 pfam14598
PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), ...
 148-250 2.59e-25

PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), which binds to an LXXLL motif in the C-terminal region of STAT6 (Signal transducer and activator of transcription 6).


Pssm-ID: 464214 [Multi-domain]  Cd Length: 110  Bit Score: 99.29  E-value: 2.59e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958770447 148 EFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQSKEKILTDSYKFRVKDGSFVTLKS 227
Cdd:pfam14598   3 QFTTRHDIDGKIISCDTRAPFSLGYEKDELVGRSIYDLVHPQDLRTAKSHLREIIQTRGRATSPSYRLRLRDGDFLSVHT 82

                          90       100
                  ....*....|....*....|...
gi 1958770447 228 KWFSFTNPWTKKLEYIVSVNTLV 250
Cdd:pfam14598  83 KSKLFLNQNSNQQPFIMCTHTIL 105
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 147-246 7.11e-17

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 75.75  E-value: 7.11e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958770447 147 AEFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQsKEKILTDSYKFRVKDGSFVTLK 226
Cdd:cd00130     2 PDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLS-GGEPVTLEVRLRRKDGSVIWVL 80

                          90       100
                  ....*....|....*....|
gi 1958770447 227 SKWFSFTNPWTKKLEYIVSV 246
Cdd:cd00130    81 VSLTPIRDEGGEVIGLLGVV 100
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 148-203 5.18e-10

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 55.10  E-value: 5.18e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1958770447  148 EFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQ 203
Cdd:smart00091  12 DGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRERVQEALQRLLS 67
PAS_3 pfam08447
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 159-247 1.14e-09

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya.


Pssm-ID: 430001 [Multi-domain]  Cd Length: 89  Bit Score: 55.04  E-value: 1.14e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958770447 159 FVYVDQRATAILGYLPQELLGT--SCYEYFHQDDHSNLSDKHKAVLQSKEKILTDsYKFRVKDGSFVTLKSKWFSFTNpW 236
Cdd:pfam08447   1 IIYWSPRFEEILGYTPEELLGKgeSWLDLVHPDDRERVREALWEALKGGEPYSGE-YRIRRKDGEYRWVEARARPIRD-E 78

                          90
                  ....*....|.
gi 1958770447 237 TKKLEYIVSVN 247
Cdd:pfam08447  79 NGKPVRVIGVA 89
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 156-244 3.06e-09

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 54.35  E-value: 3.06e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958770447 156 NGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQSKEKILTDSYKFRVKDGSFVTLKSKWFSFTNP 235
Cdd:pfam00989  20 DGRILYVNAAAEELLGLSREEVIGKSLLDLIPEEDDAEVAELLRQALLQGEESRGFEVSFRVPDGRPRHVEVRASPVRDA 99


                  ....*....
gi 1958770447 236 WTKKLEYIV 244
Cdd:pfam00989 100 GGEILGFLG 108
PAS COG2202
PAS domain [Signal transduction mechanisms];
148-225 2.33e-06

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 48.87  E-value: 2.33e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958770447 148 EFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQSKEKILTDSYKFRVKDGSFVTL 225
Cdd:COG2202   148 DGIFVLDLDGRILYVNPAAEELLGYSPEELLGKSLLDLLHPEDRERLLELLRRLLEGGRESYELELRLKDGDGRWVWV 225
PAS COG2202
PAS domain [Signal transduction mechanisms];
147-223 1.44e-05

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 46.17  E-value: 1.44e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958770447 147 AEFITRFAMNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQSkEKILTDSYKFRVKDGSFV 223
Cdd:COG2202    21 PDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDLLPPEDDDEFLELLRAALAG-GGVWRGELRNRRKDGSLF 96
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 156-221 1.72e-04

PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. [Regulatory functions, Small molecule interactions]


Pssm-ID: 272971 [Multi-domain]  Cd Length: 124  Bit Score: 41.12  E-value: 1.72e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1958770447 156 NGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSDKHKAVLQSKEKILTDSYKFRVKDGS 221
Cdd:TIGR00229  22 EGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERRLEGEPEPVSEERRVRRKDGS 87
PAS_9 pfam13426
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ...
 156-221 2.26e-03

PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463873 [Multi-domain]  Cd Length: 93  Bit Score: 37.06  E-value: 2.26e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1958770447 156 NGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHSNLSdkhKAVLQSKEKILTDSYKFRVKDGS 221
Cdd:pfam13426   1 DGRIIYVNDAALRLLGYTREELLGKSITDLFAEPEDSERL---REALREGKAVREFEVVLYRKDGE 63
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 156-224 3.88e-03

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 443041 [Multi-domain]  Cd Length: 448  Bit Score: 39.37  E-value: 3.88e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1958770447 156 NGKFVYVDQRATAILGYLPQELLGTSCYEYFHqddhsnlSDKHKAVLQSKEKILTDSYKFRVKDGSFVT 224
Cdd:COG3829    30 DGRITYVNRAAERILGLPREEVIGKNVTELIP-------NSPLLEVLKTGKPVTGVIQKTGGKGKTVIV 91
 
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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