3TMM,4NNU,3TQ6,6ERP,6HC3,6HB4


Conserved Protein Domain Family
HMG-box_TFAM_rpt2

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cd21987: HMG-box_TFAM_rpt2 
Click on image for an interactive view with Cn3D
second high mobility group (HMG)-box found in mitochondrial transcription factor A (TFA) and similar proteins
TFA, also called TFAM, mitochondrial transcription factor 1 (TF1), transcription factor 6 (TCF-6), or transcription factor 6-like 2, binds to the mitochondrial light strand promoter and functions in mitochondrial transcription regulation. It is a component of the mitochondrial transcription initiation complex, composed of at least TFB2M, TFAM and POLRMT that is required for basal transcription of mitochondrial DNA. TFA is required for accurate and efficient promoter recognition by the mitochondrial RNA polymerase. It can unwind DNA. It bends the mitochondrial light strand promoter DNA into a U-turn shape via its HMG boxes. TFA is required for maintenance of normal levels of mitochondrial DNA and may play a role in organizing and compacting mitochondrial DNA. TFA contains two HMG-box domains. This model corresponds to the second one.
Statistics
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PSSM-Id: 438803
Aligned: 17 rows
Threshold Bit Score: 155.654
Created: 8-Apr-2019
Updated: 17-Oct-2022
Structure
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Program:
Drawing:
Aligned Rows:
 
DNA binding
Conserved site includes 27 residues -Click on image for an interactive view with Cn3D
Feature 1:DNA binding site [nucleic acid binding site]
Evidence:
  • Comment:TFA forces promoter DNA to undergo a U-turn, reversing the direction of the DNA helix..
  • Structure:3TMM; Homo sapiens TFA binds DNA through its tandem HMG-box domains, contacts at 4A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1          # ##  ## ##  #     ## ## ##  ##  #       ##  #   #  #                  #  #   
3TMM_A       127 DKHLKRKAXTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGdSPQEKLKTVKENWKNLSDsEKELYIQHAKEDETRYHNE 206 human
6HB4_A        94 DKHLKRKAMTKKKELTLLGKPKRPRSAYNVYVAERFQEAKGdSPQEKLKTVKENWKNLSDsEKELYIQHAKEDETRYHNE 173 human
AAA91456     166 QRLAKRKSVRKKRELTALGRPKRPRSPFNIFMSEHFQDAKGtSSQTKMKSLRDEWERLHNtQKQTYNHLAQDDKIRYENE 245 African clawed ...
NP_001070857 132 QRVAKRKAIRKKKELNNLGKPKRPRSTFNIFMAEHFVEAKGtTTQAKLKSLRDDWNRLSDtQKQMYIQLAEDDKVRYKNE 211 zebrafish
XP_006004778 158 QKMAKRKLIRRKRELTMLGKPKRPRSAFNIFMAEHFEEAKGaTMQAKMKTLFEDWNNFHTsQKQMYLQLAEDDKIRYENE 237 coelacanth
BAB78468     132 KRLAKRRSFRIKRELTVLGKPKRPRSGFNIFVSENFQQSKGlSPTAKLKQLFETWQNLSSsQKQPYLQLAQDDKVRYQNE 211 chicken
XP_007895218  97 KKLTRRRIMRQKRKLTMLGKPKRSRTAFNIFMSEHFDEAKGsTVQAKLKNLQDEWHRLPEsQKKMYTQLAEDDKIRYQNE 176 elephant shark
XP_014464861 129 KKKASRELKRKKKELXMFGKPKKPYNSFNFFMAERFQEAKGtSAPAKIKWLGDEWQNLSSsEKQNYVQLAEDDKIRYANE 208 American alligator
XP_001507982 125 EKQAKSRASKKKRELTVFGKPKETRLPQNIFVSEHYQGAKGdSWQEKIKSLFEAWKNLPSsQKQVYFQLAQEDKIRYENE 204 platypus
BAN82193     129 IRRQIRKEARIKKELTAFGKPKKCRSSFNIFVSEHFQEVKGtSNKEKFHALCEEWKNLPSsQKQVYSQLAEDDKIRYENE 208 himehabu
Feature 1                         ###
3TMM_A       207 XKSWEEQxIEVGRKDLLRRT 226 human
6HB4_A       174 MKSWEEQmIEVGRKDLLRRT 193 human
AAA91456     246 MKSWEEQmIEIGRGDLIRLN 265 African clawed frog
NP_001070857 212 IKSWEEHmMEIGREDLLRRK 231 zebrafish
XP_006004778 238 MKSWEEHmIDIGREDLIRVK 257 coelacanth
BAB78468     212 MKSWEAKmVELGREDLIRSR 231 chicken
XP_007895218 177 IKSWEEQmIEAGHEDLVRMK 196 elephant shark
XP_014464861 209 MKLWKEQmIEAGREDLLSSE 228 American alligator
XP_001507982 205 MKIWEKQmIDIGRKDLLYVK 224 platypus
BAN82193     209 MRSWEQQmKASGRGDILNYK 228 himehabu

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