NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|71896525|ref|NP_001025507|]
View 

iroquois-class homeodomain protein IRX-2 [Gallus gallus]

Protein Classification

homeobox domain-containing protein( domain architecture ID 13432705)

homeobox domain-containing protein may be involved in the transcriptional regulation of key eukaryotic developmental processes; similar to Homo sapiens iroquois-class homeodomain protein IRX-6, a transcription factor that binds to the iroquois binding site (IBS) motif of target genes to regulate gene expression; functions as a transcriptional activator or repressor

Gene Ontology:  GO:0003677|GO:0030154|GO:0006357|GO:0000978|GO:0003700
PubMed:  1357790|26464018|27768937|1980756|8768896|11470884

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Homeobox_KN pfam05920
Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to ...
 131-169 6.87e-17

Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to human and plants. They were first identified as TALE homeobox genes in eukaryotes, (including KNOX and MEIS genes). They have been recently classified.


:

Pssm-ID: 428673  Cd Length: 39  Bit Score: 74.09  E-value: 6.87e-17
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 71896525   131 LQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRR 169
Cdd:pfam05920   1 LYEHLHNPYPSEEEKAELAKETGLSRKQISNWFINARRR 39
COG5576 super family cl35021
Homeodomain-containing transcription factor [Transcription];
85-175 3.42e-06

Homeodomain-containing transcription factor [Transcription];


The actual alignment was detected with superfamily member COG5576:

Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 47.05  E-value: 3.42e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71896525  85 YDAHTTGMTgaISYHPYGSPAypyqlnDPAYRKNATRDATATLKawlQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFA 164
Cdd:COG5576  32 VEAADSEMK--LERKQDGSSP------PKSKRRRTTDEQLMVLE---REFEINPYPSSITRIKLSLLLNMPPKSVQIWFQ 100

                        90
                ....*....|.
gi 71896525 165 NARRRLKKENK 175
Cdd:COG5576 101 NKRAKEKKKRS 111
PRK12323 super family cl46901
DNA polymerase III subunit gamma/tau;
286-379 4.74e-03

DNA polymerase III subunit gamma/tau;


The actual alignment was detected with superfamily member PRK12323:

Pssm-ID: 481241 [Multi-domain]  Cd Length: 700  Bit Score: 39.47  E-value: 4.74e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71896525  286 DPPAKPATSSPLAAVEAPLLGHPHADAARSASKAALGGRASPGPPTPASKpklwslAEIATSDLKSQNLGQGCPPAALAS 365
Cdd:PRK12323 382 VAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPE------ALAAARQASARGPGGAPAPAPAPA 455

                         90
                 ....*....|....
gi 71896525  366 ATPASAPHSAAYSP 379
Cdd:PRK12323 456 AAPAAAARPAAAGP 469
 
Name Accession Description Interval E-value
Homeobox_KN pfam05920
Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to ...
 131-169 6.87e-17

Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to human and plants. They were first identified as TALE homeobox genes in eukaryotes, (including KNOX and MEIS genes). They have been recently classified.


Pssm-ID: 428673  Cd Length: 39  Bit Score: 74.09  E-value: 6.87e-17
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 71896525   131 LQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRR 169
Cdd:pfam05920   1 LYEHLHNPYPSEEEKAELAKETGLSRKQISNWFINARRR 39
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 116-174 3.14e-13

Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.


Pssm-ID: 238039 [Multi-domain]  Cd Length: 59  Bit Score: 64.19  E-value: 3.14e-13
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 71896525 116 RKNATRDATATLKAWLQehrKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKEN 174
Cdd:cd00086   4 RTRFTPEQLEELEKEFE---KNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 115-171 4.15e-12

Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key developmental processes


Pssm-ID: 197696 [Multi-domain]  Cd Length: 57  Bit Score: 61.11  E-value: 4.15e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 71896525    115 YRKNATRDATATLKAWLQehrKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLK 171
Cdd:smart00389   4 KRTSFTPEQLEELEKEFQ---KNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
85-175 3.42e-06

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 47.05  E-value: 3.42e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71896525  85 YDAHTTGMTgaISYHPYGSPAypyqlnDPAYRKNATRDATATLKawlQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFA 164
Cdd:COG5576  32 VEAADSEMK--LERKQDGSSP------PKSKRRRTTDEQLMVLE---REFEINPYPSSITRIKLSLLLNMPPKSVQIWFQ 100

                        90
                ....*....|.
gi 71896525 165 NARRRLKKENK 175
Cdd:COG5576 101 NKRAKEKKKRS 111
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
286-379 4.74e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 39.47  E-value: 4.74e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71896525  286 DPPAKPATSSPLAAVEAPLLGHPHADAARSASKAALGGRASPGPPTPASKpklwslAEIATSDLKSQNLGQGCPPAALAS 365
Cdd:PRK12323 382 VAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPE------ALAAARQASARGPGGAPAPAPAPA 455

                         90
                 ....*....|....
gi 71896525  366 ATPASAPHSAAYSP 379
Cdd:PRK12323 456 AAPAAAARPAAAGP 469
DUF3323 pfam11796
Protein of unknown function N-terminus (DUF3323); Proteins in this entry are encoded within a ...
 291-360 6.72e-03

Protein of unknown function N-terminus (DUF3323); Proteins in this entry are encoded within a conserved gene four-gene neighbourhood found sporadically in a phylogenetically broad range of bacteria including: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Beta-proteobacteria).


Pssm-ID: 403103  Cd Length: 209  Bit Score: 37.99  E-value: 6.72e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 71896525   291 PATSSPLAAVEAPLLGHPHA-DAARSASK----AALGGRASPGPPTPASKPKLWSLAEIATSDLKSQNLGQGCPP 360
Cdd:pfam11796 135 PADGVRLPVLAARVTGDPHAlDDGTPLGRlvlrALAALAGEEDPADAEERRELWARAGVLVDDLSSTVLVLGLPA 209
IRO smart00548
Motif in Iroquois-class homeodomain proteins (only). Unknown function;
332-348 8.41e-03

Motif in Iroquois-class homeodomain proteins (only). Unknown function;


Pssm-ID: 214716  Cd Length: 18  Bit Score: 33.70  E-value: 8.41e-03
                           10
                   ....*....|....*..
gi 71896525    332 PASKPKLWSLAEIATSD 348
Cdd:smart00548   2 PAAKPKIWSLADTATSS 18
 
Name Accession Description Interval E-value
Homeobox_KN pfam05920
Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to ...
 131-169 6.87e-17

Homeobox KN domain; This is a homeobox transcription factor KN domain conserved from fungi to human and plants. They were first identified as TALE homeobox genes in eukaryotes, (including KNOX and MEIS genes). They have been recently classified.


Pssm-ID: 428673  Cd Length: 39  Bit Score: 74.09  E-value: 6.87e-17
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 71896525   131 LQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRR 169
Cdd:pfam05920   1 LYEHLHNPYPSEEEKAELAKETGLSRKQISNWFINARRR 39
homeodomain cd00086
Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic ...
 116-174 3.14e-13

Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.


Pssm-ID: 238039 [Multi-domain]  Cd Length: 59  Bit Score: 64.19  E-value: 3.14e-13
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 71896525 116 RKNATRDATATLKAWLQehrKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKEN 174
Cdd:cd00086   4 RTRFTPEQLEELEKEFE---KNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
HOX smart00389
Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key ...
 115-171 4.15e-12

Homeodomain; DNA-binding factors that are involved in the transcriptional regulation of key developmental processes


Pssm-ID: 197696 [Multi-domain]  Cd Length: 57  Bit Score: 61.11  E-value: 4.15e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 71896525    115 YRKNATRDATATLKAWLQehrKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLK 171
Cdd:smart00389   4 KRTSFTPEQLEELEKEFQ---KNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
Homeodomain pfam00046
Homeodomain;
116-172 1.66e-06

Homeodomain;


Pssm-ID: 459649 [Multi-domain]  Cd Length: 57  Bit Score: 45.18  E-value: 1.66e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 71896525   116 RKNATRDATATLKAwlqEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKK 172
Cdd:pfam00046   4 RTTFTPEQLEELEK---EFQENPYPSAEEREELAAQLGLTERQVKVWFQNRRAKWKR 57
COG5576 COG5576
Homeodomain-containing transcription factor [Transcription];
85-175 3.42e-06

Homeodomain-containing transcription factor [Transcription];


Pssm-ID: 227863 [Multi-domain]  Cd Length: 156  Bit Score: 47.05  E-value: 3.42e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71896525  85 YDAHTTGMTgaISYHPYGSPAypyqlnDPAYRKNATRDATATLKawlQEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFA 164
Cdd:COG5576  32 VEAADSEMK--LERKQDGSSP------PKSKRRRTTDEQLMVLE---REFEINPYPSSITRIKLSLLLNMPPKSVQIWFQ 100

                        90
                ....*....|.
gi 71896525 165 NARRRLKKENK 175
Cdd:COG5576 101 NKRAKEKKKRS 111
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
286-379 4.74e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 39.47  E-value: 4.74e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 71896525  286 DPPAKPATSSPLAAVEAPLLGHPHADAARSASKAALGGRASPGPPTPASKpklwslAEIATSDLKSQNLGQGCPPAALAS 365
Cdd:PRK12323 382 VAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPE------ALAAARQASARGPGGAPAPAPAPA 455

                         90
                 ....*....|....
gi 71896525  366 ATPASAPHSAAYSP 379
Cdd:PRK12323 456 AAPAAAARPAAAGP 469
DUF3323 pfam11796
Protein of unknown function N-terminus (DUF3323); Proteins in this entry are encoded within a ...
 291-360 6.72e-03

Protein of unknown function N-terminus (DUF3323); Proteins in this entry are encoded within a conserved gene four-gene neighbourhood found sporadically in a phylogenetically broad range of bacteria including: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Beta-proteobacteria).


Pssm-ID: 403103  Cd Length: 209  Bit Score: 37.99  E-value: 6.72e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 71896525   291 PATSSPLAAVEAPLLGHPHA-DAARSASK----AALGGRASPGPPTPASKPKLWSLAEIATSDLKSQNLGQGCPP 360
Cdd:pfam11796 135 PADGVRLPVLAARVTGDPHAlDDGTPLGRlvlrALAALAGEEDPADAEERRELWARAGVLVDDLSSTVLVLGLPA 209
IRO smart00548
Motif in Iroquois-class homeodomain proteins (only). Unknown function;
332-348 8.41e-03

Motif in Iroquois-class homeodomain proteins (only). Unknown function;


Pssm-ID: 214716  Cd Length: 18  Bit Score: 33.70  E-value: 8.41e-03
                           10
                   ....*....|....*..
gi 71896525    332 PASKPKLWSLAEIATSD 348
Cdd:smart00548   2 PAAKPKIWSLADTATSS 18
 
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