1J46,1I11,1O4X,3F27,3U2B,4EUW,4Y60


Conserved Protein Domain Family
HMG-box_SOX

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cd22004: HMG-box_SOX 
Click on image for an interactive view with Cn3D
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.
Statistics
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PSSM-Id: 438820
Aligned: 47 rows
Threshold Bit Score: 110.327
Created: 11-Apr-2019
Updated: 17-Oct-2022
Structure
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Program:
Drawing:
Aligned Rows:
 
DNA binding
Conserved site includes 29 residues -Click on image for an interactive view with Cn3D
Feature 1:DNA binding site [nucleic acid binding site]
Evidence:
  • Structure:1O4X; Homo sapiens SOX-2 binds DNA, contacts at 4A.
  • Structure:1J46; Homo sapiens SRY binds DNA, contacts at 4A.
  • Structure:3F27; Mus musculus SOX-17 binds DNA, contacts at 4A.
  • Structure:3U2B; Mus musculus SOX-4 binds DNA, contacts at 4A.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1        # ## #####  ##  ##  #   #  ###  ##  #  ##      #          #          ## ###
1J46_A         4 RVKRPMNAFIVWSRDQRRKMALENPrmRNSEISKQLGYQWKMLTeaEKWPFFQEAQKLQAMHREKYPNYKYRPRR 78  human
1O4X_B         7 RVKRPMNAFMVWSRGQRRKMAQENPkmHNSEISKRLGAEWKLLSetEKRPFIDEAKRLRALHMKEHPDYKYRPRR 81  human
O94993       336 HVKRPMNAFMVWARIHRPALAKANPaaNNAEISVQLGLEWNKLSeeQKKPYYDEAQKIKEKHREEFPGWVYQPRP 410 human
EEC09839       8 HIKRPLNAFMLWSRLQRRRFVHANPgmQHPEVSKLLGVMWRQLPmtAKRPYIVEAGRLSSHHAEQHPTYRYKNRR 82  black-legged tick
XP_002156236  41 SVKRPMNAFMLWAKDRRRFLMENNPtlHNADISKILGSEWRDMPdeKKNPFWKEAHILMVQHKFDHPEYHYKPRR 115 Hydra vulgaris
AFO66693      26 HVKRPMNAFMVWAKTERRQLAMRLPgmPNSEVSKILGDMWRRLPdeQKEQYRSESEKIRRKHKAEHPDYRYHPKR 100 Leucosolenia complicata
KXJ22898      12 HIKRPLNSFMVWAKEKRRIMNKNNPkmRNADISKILGEEWRKMPekDKQPYVQQAVYLRXQHKIDYPNYRYRPRR 86  Exaiptasia pallida
PAA85416      27 HIKRPMNPFMVWAQTRRKVIAAENPklHNSDISRRLGEEWRTLPdkEKQPFRDEASRLKSEHRAAHPDYKYQPKC 101 Macrostomum lignano
PFX28696      35 HVKRPMNCFMVWSREKRYHILKEHPgiNNAEVSKALGAAWRKLSeaDKEPYVEEARRLTEQHKTDNPGYKYQPKR 109 Stylophora pistillata
RNA08988      32 HVKRPMNAFMVWSRSARKTISQNSQplPSNQLSKTLGDMWNRLTyeQKLPFIEEANRLKQEHSRQNPGYKYQPKR 106 Brachionus plicatilis

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