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Conserved domains on  [gi|4186021|emb|CAA06920|]
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SOX-20 protein, partial [Homo sapiens]

Protein Classification

HMG-box domain-containing protein( domain architecture ID 228)

HMG (High Mobility Group)-box domain-containing protein binds DNA and may be a chromosomal protein or function as a transcription factor

CATH:  1.10.30.10
Gene Ontology:  GO:0003677|GO:0005515
SCOP:  4000788

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
HMG-box_SF super family cl00082
high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found ...
1-32 3.44e-19

high mobility group (HMG)-box domain superfamily; The High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenetically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4, and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.


The actual alignment was detected with superfamily member cd22028:

Pssm-ID: 469606 [Multi-domain]  Cd Length: 76  Bit Score: 75.85  E-value: 3.44e-19
                        10        20        30
                ....*....|....*....|....*....|..
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRRK 32
Cdd:cd22028  45 EDEKRPFIDEAKRLRAQHMKEHPDYKYRPRRK 76
 
Name Accession Description Interval E-value
HMG-box_SoxA_SoxB_SoxG cd22028
high mobility group (HMG)-box found in group A, group B and group G of SRY-related ...
1-32 3.44e-19

high mobility group (HMG)-box found in group A, group B and group G of SRY-related high-mobility group (HMG) box (Sox) transcription factors; This subfamily includes SoxA, SoxB, and SoxG proteins. SRY is the only member of group A SRY-related high-mobility group (HMG) box (Sox) transcription factors. SRY, also called testis-determining factor, is a transcriptional regulator that controls a genetic switch in male development. It promotes DNA bending and is also involved in pre-mRNA splicing. The SRY HMG box recognizes DNA by partial intercalation in the minor groove. It binds to the DNA consensus sequence 5'-[AT]AACAA[AT]-3'. SoxB transcription factors play critical roles in the regulation of neurogenesis. They can be divided into two main subgroups, SoxB1 (Sox-1/Sox-2/Sox-3) and SoxB2 (SOX-14/SOX-21). SoxB1 proteins suppress neurogenesis by maintaining neural cells in an undifferentiated state. SoxB2 proteins may have the opposite activity and promote neuronal differentiation. SOX-5 is the only member of group G Sox transcription factors. It is also called SOX-12, SOX-20, SOX-26, or SOX-27. SOX-5 is a crucial transcription factor involved in the regulation of embryonic development and in cell fate determination. It binds to the 5'-AACAAT-3' sequence. SOX-15 can be a tumor suppressor in multiple cancer types.


Pssm-ID: 438837 [Multi-domain]  Cd Length: 76  Bit Score: 75.85  E-value: 3.44e-19
                        10        20        30
                ....*....|....*....|....*....|..
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRRK 32
Cdd:cd22028  45 EDEKRPFIDEAKRLRAQHMKEHPDYKYRPRRK 76
HMG_box pfam00505
HMG (high mobility group) box;
1-25 5.65e-05

HMG (high mobility group) box;


Pssm-ID: 459837 [Multi-domain]  Cd Length: 68  Bit Score: 38.75  E-value: 5.65e-05
                          10        20
                  ....*....|....*....|....*
gi 4186021      1 EDEKRPFVEEAKRLRARHLRDYPDY 25
Cdd:pfam00505  44 EEEKKPYEEKAEKEKARYEKEHPEY 68
HMG smart00398
high mobility group;
1-26 3.92e-04

high mobility group;


Pssm-ID: 197700 [Multi-domain]  Cd Length: 70  Bit Score: 36.91  E-value: 3.92e-04
                           10        20
                   ....*....|....*....|....*.
gi 4186021       1 EDEKRPFVEEAKRLRARHLRDYPDYK 26
Cdd:smart00398  45 EEEKAPYEEKAKKDKERYEEEMPEYK 70
 
Name Accession Description Interval E-value
HMG-box_SoxA_SoxB_SoxG cd22028
high mobility group (HMG)-box found in group A, group B and group G of SRY-related ...
1-32 3.44e-19

high mobility group (HMG)-box found in group A, group B and group G of SRY-related high-mobility group (HMG) box (Sox) transcription factors; This subfamily includes SoxA, SoxB, and SoxG proteins. SRY is the only member of group A SRY-related high-mobility group (HMG) box (Sox) transcription factors. SRY, also called testis-determining factor, is a transcriptional regulator that controls a genetic switch in male development. It promotes DNA bending and is also involved in pre-mRNA splicing. The SRY HMG box recognizes DNA by partial intercalation in the minor groove. It binds to the DNA consensus sequence 5'-[AT]AACAA[AT]-3'. SoxB transcription factors play critical roles in the regulation of neurogenesis. They can be divided into two main subgroups, SoxB1 (Sox-1/Sox-2/Sox-3) and SoxB2 (SOX-14/SOX-21). SoxB1 proteins suppress neurogenesis by maintaining neural cells in an undifferentiated state. SoxB2 proteins may have the opposite activity and promote neuronal differentiation. SOX-5 is the only member of group G Sox transcription factors. It is also called SOX-12, SOX-20, SOX-26, or SOX-27. SOX-5 is a crucial transcription factor involved in the regulation of embryonic development and in cell fate determination. It binds to the 5'-AACAAT-3' sequence. SOX-15 can be a tumor suppressor in multiple cancer types.


Pssm-ID: 438837 [Multi-domain]  Cd Length: 76  Bit Score: 75.85  E-value: 3.44e-19
                        10        20        30
                ....*....|....*....|....*....|..
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRRK 32
Cdd:cd22028  45 EDEKRPFIDEAKRLRAQHMKEHPDYKYRPRRK 76
HMG-box_SoxG_SOX15 cd22035
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 15 (SOX15) and ...
1-34 5.42e-18

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 15 (SOX15) and similar proteins; SOX-15, also called SOX-12, SOX-20, SOX-26, or SOX-27, is a crucial transcription factor involved in the regulation of embryonic development and in cell fate determination. It binds to the 5'-AACAAT-3' sequence. SOX-15 can be a tumor suppressor in multiple cancer types. SOX-5 is the only member of group G SRY-related high-mobility group (HMG) box (Sox) transcription factors.


Pssm-ID: 438844 [Multi-domain]  Cd Length: 84  Bit Score: 73.19  E-value: 5.42e-18
                        10        20        30
                ....*....|....*....|....*....|....
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRRKAK 34
Cdd:cd22035  51 EAEKRPFVEEAKRLRARHMRDYPDYKYRPRRKGK 84
HMG-box_SoxB cd01388
high mobility group (HMG)-box found in group B SRY-related high-mobility group (HMG) box (Sox) ...
1-35 7.32e-17

high mobility group (HMG)-box found in group B SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxB transcription factors play critical roles in the regulation of neurogenesis. They can be divided into two main subgroups, SoxB1 (Sox-1/Sox-2/Sox-3) and SoxB2 (SOX-14/SOX-21). SoxB1 proteins suppress neurogenesis by maintaining neural cells in an undifferentiated state. SoxB2 proteins may have the opposite activity and promote neuronal differentiation. SOX-1 is involved in the regulation of embryonic development and cell fate determination. It also acts as a tumor suppressor that plays an anti-tumorigenicity role in different cells and its expression is inhibited in a variety of cancers. SOX-2 plays an important role in various phases of embryonic development, including cell fate and differentiation. Its overexpression and gene amplification may be associated with tumor aggression and metastasis in various cancer types, including breast, prostate, lung, ovarian and colon cancer. SOX-3 is required during the formation of the hypothalamic-pituitary axis. It plays a role in both normal neural development and carcinogenesis. SOX-14, also called SOX-28, acts as a negative regulator of transcription. It is mainly involved in the regulation of neural development. It can also promote proliferation and invasion capacity of cervical cancer cells by activating the Wnt/beta-catenin pathway. SOX-21, also called SOX-A, or SOX-25, promotes the progression of vertebrate neurogenesis.


Pssm-ID: 438790 [Multi-domain]  Cd Length: 80  Bit Score: 70.32  E-value: 7.32e-17
                        10        20        30
                ....*....|....*....|....*....|....*
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRRKAKS 35
Cdd:cd01388  46 EAEKRPFIDEAKRLRALHMKEHPDYKYRPRRKTKT 80
HMG-box_SOX cd22004
high mobility group (HMG)-box found in sex-determining region Y (SRY)-box (SOX) family ...
1-31 8.44e-16

high mobility group (HMG)-box found in sex-determining region Y (SRY)-box (SOX) family transcription factors; The SOX gene family of transcription factors are characterized by the evolutionarily conserved SRY-type HMG box, which is a DNA binding domain that binds the minor groove of DNA on a common consensus site, (A/T)(A/T)CAA(A/T)G but with different levels of efficiency. Members include SRY and its homologs identified in mammals that can be subdivided into 8 groups (A, B1, B2, C, D, E, F, G, H). They are involved in embryonic development, regulating processes such as cell differentiation, maintenance of stemness, sex determination, and development of the central nervous, haematopoietic and other organ systems. The SOX gene family has a crucial role in carcinogenesis and cancer progression.


Pssm-ID: 438820 [Multi-domain]  Cd Length: 75  Bit Score: 67.18  E-value: 8.44e-16
                        10        20        30
                ....*....|....*....|....*....|.
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRR 31
Cdd:cd22004  45 EEEKRPYVEEAERLREEHKKEYPDYKYRPRR 75
HMG-box_SoxC cd22029
high mobility group (HMG)-box found in group C SRY-related high-mobility group (HMG) box (Sox) ...
1-32 2.97e-15

high mobility group (HMG)-box found in group C SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxC transcription factors includes three members: SOX4, SOX11 and SOX12. They play key roles, often in redundancy, in multiple developmental pathways, including neurogenesis and skeletogenesis. SOX-4 is a transcriptional activator that promotes neuronal differentiation both in the adult and embryonic neural progenitors. It binds with high affinity to the T-cell enhancer motif 5'-AACAAAG-3' motif. SOX-4 is abnormally expressed in various cancers. SOX-11 is a neural transcriptional factor involved in precursor survival, neuronal fate determination, migration and morphogenesis. SOX-12, also called SOX-22, is a transcription factor essential for embryonic development and cell fate determination. It binds to the sequence 5'-AACAAT-3'.


Pssm-ID: 438838 [Multi-domain]  Cd Length: 76  Bit Score: 65.92  E-value: 2.97e-15
                        10        20        30
                ....*....|....*....|....*....|..
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRRK 32
Cdd:cd22029  45 DSEKIPFIEEAERLRLLHMQEYPDYKYRPRKK 76
HMG-box_SoxE cd22031
high mobility group (HMG)-box found in group E SRY-related high-mobility group (HMG) box (Sox) ...
1-31 2.28e-14

high mobility group (HMG)-box found in group E SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxE transcription factors includes three members: Sox8, Sox9, and Sox10. They function as important transcriptional regulators of neural differentiation and nervous system development. They regulate mammalian development directing sex determination, gliogenesis, pancreas specification and neural crest development. SOX-8 is specifically expressed by M cells in the intestinal epithelium. It acts as a transcription factor necessary for the maintenance of spermatogenesis. It may play a role in central nervous system, limb and facial development. SOX-9 is involved in cell differentiation, sex determination, and tumorigenesis. It plays a role in chondrocyte differentiation and skeletal development. SOX-10 plays a central role in the development of melanocytes and glial cells from neural crest precursors.


Pssm-ID: 438840 [Multi-domain]  Cd Length: 75  Bit Score: 63.56  E-value: 2.28e-14
                        10        20        30
                ....*....|....*....|....*....|.
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRR 31
Cdd:cd22031  45 ESEKRPFIEEAERLRVQHKKDHPDYKYQPRR 75
HMG-box_SoxF_SOX18 cd22048
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 18 (SOX18) and ...
2-32 2.61e-14

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 18 (SOX18) and similar proteins; SOX-18 is a transcription factor involved in the development of cardiovascular and lymphatic vessels during embryonic development. It binds to the consensus sequence 5'-AACAAAG-3' and is able to trans-activate transcription via this site. SOX-18 belongs to the group F of SRY-related high-mobility group (HMG) box (Sox) transcription factors.


Pssm-ID: 438851 [Multi-domain]  Cd Length: 80  Bit Score: 63.55  E-value: 2.61e-14
                        10        20        30
                ....*....|....*....|....*....|.
gi 4186021    2 DEKRPFVEEAKRLRARHLRDYPDYKYRPRRK 32
Cdd:cd22048  48 AEKRPFVEEAERLRVQHLQDHPNYKYRPRRK 78
HMG-box_SoxF cd22032
high mobility group (HMG)-box found in group F SRY-related high-mobility group (HMG) box (Sox) ...
2-32 5.04e-14

high mobility group (HMG)-box found in group F SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxF transcription factors includes three members: Sox7, Sox17, and Sox18. They regulate endothelial cell fate as well as development and differentiation of the developing heart, blood cells, and lymphatic vessels.


Pssm-ID: 438841 [Multi-domain]  Cd Length: 76  Bit Score: 62.82  E-value: 5.04e-14
                        10        20        30
                ....*....|....*....|....*....|.
gi 4186021    2 DEKRPFVEEAKRLRARHLRDYPDYKYRPRRK 32
Cdd:cd22032  46 AEKRPFVEEAERLRVQHMQDYPNYKYRPRRR 76
HMG-box_SoxF_SOX17 cd22047
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 17 (SOX17) and ...
3-32 2.97e-12

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 17 (SOX17) and similar proteins; SOX-17 is a developmental transcription regulator involved in endoderm formation, angiogenesis, and carcinogenesis. It acts as a tumor suppressor and modulates WNT signaling. SOX-17 binds target promoter DNA and bends the DNA. It binds to the sequences 5'-AACAAT-'3 or 5'-AACAAAG-3'. SOX-17 belongs to the group F of SRY-related high-mobility group (HMG) box (Sox) transcription factors.


Pssm-ID: 438850 [Multi-domain]  Cd Length: 81  Bit Score: 58.56  E-value: 2.97e-12
                        10        20        30
                ....*....|....*....|....*....|
gi 4186021    3 EKRPFVEEAKRLRARHLRDYPDYKYRPRRK 32
Cdd:cd22047  52 EKRPFVEEAERLRVQHMQDHPNYKYRPRRR 81
HMG-box_SoxF_SOX7 cd22046
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 7 (SOX7) and similar ...
3-34 6.33e-12

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 7 (SOX7) and similar proteins; SOX-7 is an endothelial-associated transcription factor that acts as a tumor suppressor in a number of cancer types. It binds the DNA sequence 5'-AACAAT-3'. SOX-7 belongs to the group F of SRY-related high-mobility group (HMG) box (Sox) transcription factors.


Pssm-ID: 438849 [Multi-domain]  Cd Length: 88  Bit Score: 57.78  E-value: 6.33e-12
                        10        20        30
                ....*....|....*....|....*....|..
gi 4186021    3 EKRPFVEEAKRLRARHLRDYPDYKYRPRRKAK 34
Cdd:cd22046  57 QKRPYVEEAERLRVQHMQDYPNYKYRPRRKKQ 88
HMG-box_SoxA_SRY cd22034
high mobility group (HMG)-box found in sex-determining region Y protein (SRY) and similar ...
1-34 1.71e-11

high mobility group (HMG)-box found in sex-determining region Y protein (SRY) and similar proteins; SRY, also called testis-determining factor, is a transcriptional regulator that controls a genetic switch in male development. It promotes DNA bending and is also involved in pre-mRNA splicing. The SRY HMG box recognizes DNA by partial intercalation in the minor groove. It binds to the DNA consensus sequence 5'-[AT]AACAA[AT]-3'. SRY is the only member of group A SRY-related high-mobility group (HMG) box (Sox) transcription factors.


Pssm-ID: 438843 [Multi-domain]  Cd Length: 85  Bit Score: 56.57  E-value: 1.71e-11
                        10        20        30
                ....*....|....*....|....*....|....
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRRKAK 34
Cdd:cd22034  48 EAEKWPFFQEAQKLQAMHREKYPNYKYRPRRKAK 81
HMG-box_SoxC_SOX12 cd22038
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 12 (SOX12) and ...
3-34 5.36e-11

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 12 (SOX12) and similar proteins; SOX-12, also called SOX-22, is a transcription factor essential for embryonic development and cell fate determination. It binds to the sequence 5'-AACAAT-3'. SOX-12 belongs to the group C of SRY-related high-mobility group (HMG) box (Sox) transcription factors.


Pssm-ID: 438847 [Multi-domain]  Cd Length: 88  Bit Score: 55.45  E-value: 5.36e-11
                        10        20        30
                ....*....|....*....|....*....|..
gi 4186021    3 EKRPFVEEAKRLRARHLRDYPDYKYRPRRKAK 34
Cdd:cd22038  57 EKIPFIKEAERLRLKHMADYPDYKYRPRKKSK 88
HMG-box_SoxC_SOX4 cd22036
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 4 (SOX4) and similar ...
1-34 1.54e-10

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 4 (SOX4) and similar proteins; SOX-4 is a transcriptional activator that promotes neuronal differentiation both in the adult and embryonic neural progenitors. It binds with high affinity to the T-cell enhancer motif 5'-AACAAAG-3' motif. SOX-4 is abnormally expressed in various cancers. SOX-4 belongs to group C SRY-related high-mobility group (HMG) box (Sox) transcription factors.


Pssm-ID: 438845 [Multi-domain]  Cd Length: 79  Bit Score: 53.98  E-value: 1.54e-10
                        10        20        30
                ....*....|....*....|....*....|....
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRRKAK 34
Cdd:cd22036  46 DSDKIPFIREAERLRLKHMADYPDYKYRPRKKVK 79
HMG-box_SoxC_SOX11 cd22037
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 11 (SOX11) and ...
1-34 2.02e-09

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 11 (SOX11) and similar proteins; SOX-11 is a neural transcriptional factor involved in precursor survival, neuronal fate determination, migration and morphogenesis. SOX-11 belongs to group C SRY-related high-mobility group (HMG) box (Sox) transcription factors.


Pssm-ID: 438846 [Multi-domain]  Cd Length: 92  Bit Score: 51.25  E-value: 2.02e-09
                        10        20        30
                ....*....|....*....|....*....|....
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRRKAK 34
Cdd:cd22037  55 DSEKIPFIREAERLRLKHMADYPDYKYRPRKKPK 88
HMG-box_ROX1-like cd01389
high mobility group (HMG)-box found in Saccharomyces cerevisiae repressor ROX1 and similar ...
1-29 6.24e-08

high mobility group (HMG)-box found in Saccharomyces cerevisiae repressor ROX1 and similar proteins; This family includes class I members of the HMG-box superfamily of DNA-binding proteins, including Saccharomyces cerevisiae repressor ROX1, Schizosaccharomyces pombe mating-type M-specific polypeptide Mc (mat-Mc), Schizosaccharomyces pombe transcription factor ste11, Podospora anserina MAT+ sexual cell fertilization-promoting factor (FPR1), Podospora anserina sporulation minus regulator 2 (SMR2) and Candida albicans repressor of filamentous growth 1 (RFG1). These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. ROX1, also called heme-dependent repression factor, or hypoxic function repressor, is a transcription factor that represses the expression of HEM13, COX5B, ANB1, CYC7 or AAC3. It binds to the DNA sequence 5'-RRRTAACAAGAG-3'. mat-Mc belongs to the mating type protein family, which contains sequence specific DNA-binding proteins that act as master switches in yeast differentiation by controlling gene expression in a cell type-specific fashion. mat-Mc is a positive regulator of MFM genes and is required for conjugation and efficient meiosis. Its HMG box recognizes the DNA sequence 5'-AACAAAG-3'. Ste11 is a key transcription factor for sexual development. It activates the transcription of the matp, matm, mei2, mfm, ste6 and rgs1 genes. It binds specifically to a DNA fragment carrying a 10-base motif 5'-TTCTTTGTTY-3'. FPR1 controls fertilization, probably by determining the mating type. SMR2 is a transcription factor that is required for post-fertilization events. It is required for the developmental events that occur in the female organ after fertilization. RFG1 is a transcription regulator that functions in both the positive and negative regulation of filamentous growth, depending upon environmental conditions.


Pssm-ID: 438791 [Multi-domain]  Cd Length: 72  Bit Score: 46.81  E-value: 6.24e-08
                        10        20
                ....*....|....*....|....*....
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRP 29
Cdd:cd01389  44 EEEKEPYKELAEEEKEEHKLKYPDYKYQP 72
HMG-box_EGL13-like cd22042
high mobility group (HMG)-box found in Caenorhabditis elegans protein egg laying defective 13 ...
3-32 3.08e-07

high mobility group (HMG)-box found in Caenorhabditis elegans protein egg laying defective 13 (EGL-13) and similar proteins; EGL-13 may act as a transcription factor that is required for uterine cell fate decisions in Caenorhabditis elegans. It controls genes required for the specification and differentiation of O(2) and CO(2)-sensing neurons and for maintaining URX sensory neuronal cell fate.


Pssm-ID: 438848 [Multi-domain]  Cd Length: 78  Bit Score: 45.28  E-value: 3.08e-07
                        10        20        30
                ....*....|....*....|....*....|
gi 4186021    3 EKRPFVEEAKRLRARHLRDYPDYKYRPRRK 32
Cdd:cd22042  48 EKQPYYEEQSRLSKLHMEKHPDYRYRPRPK 77
HMG-box_SoxH_SOX30 cd22033
high mobility group (HMG)-box found in sex determining region Y (SRY)-box 30 (SOX30) and ...
1-31 3.23e-06

high mobility group (HMG)-box found in sex determining region Y (SRY)-box 30 (SOX30) and similar proteins; SOX-30 is a crucial transcription factor that controls the transition from a late meiotic to a post-meiotic gene expression program and subsequent round spermatid development. It specially prevents Wnt-signaling to suppress metastasis. SOX-30 binds to the DNA sequence 5'-ACAAT-3' and shows a preference for guanine residues surrounding this core motif. SOX-30 is the only member of the group H of SRY-related high-mobility group (HMG) box (Sox) transcription factors.


Pssm-ID: 438842 [Multi-domain]  Cd Length: 75  Bit Score: 42.41  E-value: 3.23e-06
                        10        20        30
                ....*....|....*....|....*....|.
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDYPDYKYRPRR 31
Cdd:cd22033  45 EEQKKPYYDEAQKLKEQHRKEHPGWVYQPRP 75
HMG-box_SoxD cd22030
high mobility group (HMG)-box found in group D SRY-related high-mobility group (HMG) box (Sox) ...
3-33 5.66e-06

high mobility group (HMG)-box found in group D SRY-related high-mobility group (HMG) box (Sox) transcription factors; SoxD transcription factors includes three members, Sox5, Sox6, and Sox13. They function as important transcriptional regulators of glial development in the central nervous system. SoxD proteins influence multiple stages of oligodendrocyte development and modulate SoxE protein function. This subfamily also contains SoxD transcription factor homolog EGL-13, which specifies distinct O2 and CO2 sensory neuron fates in Caenorhabditis elegans. SOX-5 plays important roles in various cancer types. It binds specifically to the DNA sequence 5'-AACAAT-3'. SOX-6 plays a key role in cell proliferation, differentiation, and cell fate determination, as well as neurogenesis and skeleton formation. It is a tumor suppressor and downregulated in various cancers. SOX-6 binds specifically to the DNA sequence 5'-AACAAT-3'. SOX-13, also called Islet cell antigen 12 (ICA12), or type 1 diabetes auto-antigen ICA12, modulates T cell specification and is an autoimmune antigen. It binds to the sequence 5'-AACAAT-3'.


Pssm-ID: 438839 [Multi-domain]  Cd Length: 77  Bit Score: 41.92  E-value: 5.66e-06
                        10        20        30
                ....*....|....*....|....*....|.
gi 4186021    3 EKRPFVEEAKRLRARHLRDYPDYKYRPRRKA 33
Cdd:cd22030  47 EKQPYYEEQARLSKQHLEKYPDYKYKPRPKR 77
HMG_box pfam00505
HMG (high mobility group) box;
1-25 5.65e-05

HMG (high mobility group) box;


Pssm-ID: 459837 [Multi-domain]  Cd Length: 68  Bit Score: 38.75  E-value: 5.65e-05
                          10        20
                  ....*....|....*....|....*
gi 4186021      1 EDEKRPFVEEAKRLRARHLRDYPDY 25
Cdd:pfam00505  44 EEEKKPYEEKAEKEKARYEKEHPEY 68
HMG smart00398
high mobility group;
1-26 3.92e-04

high mobility group;


Pssm-ID: 197700 [Multi-domain]  Cd Length: 70  Bit Score: 36.91  E-value: 3.92e-04
                           10        20
                   ....*....|....*....|....*.
gi 4186021       1 EDEKRPFVEEAKRLRARHLRDYPDYK 26
Cdd:smart00398  45 EEEKAPYEEKAKKDKERYEEEMPEYK 70
HMG-box_CMB1-like cd22014
high mobility group (HMG)-box found in Schizosaccharomyces pombe mismatch-binding protein cmb1 ...
1-22 5.67e-03

high mobility group (HMG)-box found in Schizosaccharomyces pombe mismatch-binding protein cmb1 and similar proteins; Cmb1 binds to cytosines in base mismatches and opposite chemically altered guanines. It contains only one HMG-box domain.


Pssm-ID: 438830 [Multi-domain]  Cd Length: 62  Bit Score: 33.50  E-value: 5.67e-03
                        10        20
                ....*....|....*....|..
gi 4186021    1 EDEKRPFVEEAKRLRARHLRDY 22
Cdd:cd22014  41 EDEKQPYIDRAKELLEEYKKQL 62
 
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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