General information
PDB ID 3GUT
Title CRYSTAL STRUCTURE OF A HIGHER-ORDER COMPLEX OF P50:RELA BOUND TO THE HIV-1 LTR
PDB header TRANSCRIPTION/DNA
Date 2009-03-30
Experimental method X-RAY DIFFRACTION
Resolution (A) 3.59
Kind dna
Organism HOMO SAPIENS, HUMAN IMMUNODEFICIENCY VIRUS
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb3gut.pdb ABCDEFGH XYIJ 0
Biounits:
3gut.pdb1.pdb ABCD XY 1
3gut.pdb2.pdb EFGH IJ 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
RHD_DNA_bind Domain Q04206_21-186 6.9e-70 1 CL0073 A 21 186 XY  S-Mj L-Bb L-Mj 
RHD_dimer Domain Q04206_195-291 2.1e-37 1 CL0159 A 195 291   
RHD_DNA_bind Domain P19838_44-242 7.2e-74 1 CL0073 B 342 540 XY  H-Bb H-Mj S-Mj L-Bb L-Mj 
RHD_dimer Domain P19838_251-352 5.5e-42 1 CL0159 B 549 650 Y  L-Bb 
RHD_DNA_bind Domain Q04206_21-186 6.9e-70 1 CL0073 C 21 186 XY  S-Mj L-Bb L-Mj 
RHD_dimer Domain Q04206_195-291 2.1e-37 1 CL0159 C 195 291 X  L-Bb 
RHD_DNA_bind Domain P19838_44-242 7.2e-74 1 CL0073 D 342 540 XY  H-Bb H-Mj S-Mj L-Bb L-Mj 
RHD_dimer Domain P19838_251-352 5.5e-42 1 CL0159 D 549 650 Y  L-Bb 
RHD_DNA_bind Domain Q04206_21-186 6.9e-70 1 CL0073 E 21 186 IJ  S-Mj L-Bb L-Mj 
RHD_dimer Domain Q04206_195-291 2.1e-37 1 CL0159 E 195 291   
RHD_DNA_bind Domain P19838_44-242 7.2e-74 1 CL0073 F 342 540 IJ  H-Bb H-Mj S-Mj L-Bb L-Mj 
RHD_dimer Domain P19838_251-352 5.5e-42 1 CL0159 F 549 650 J  L-Bb 
RHD_DNA_bind Domain Q04206_21-186 6.9e-70 1 CL0073 G 21 186 IJ  L-Bb L-Mj 
RHD_dimer Domain Q04206_195-291 2.1e-37 1 CL0159 G 195 291 I  S-Bb L-Bb 
RHD_DNA_bind Domain P19838_44-242 7.2e-74 1 CL0073 H 342 540 IJ  H-Bb H-Mj S-Mj L-Bb L-Mj 
RHD_dimer Domain P19838_251-352 5.5e-42 1 CL0159 H 549 650 J  L-Bb 
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
A/C/E/G=20-291 C transcription factor complex
A/C/E/G=20-291 C cytosol
A/C/E/G=20-291 F RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity
A/C/E/G=20-291 F phosphate ion binding
A/C/E/G=20-291 F chromatin binding
A/C/E/G=20-291 F transcription regulatory region DNA binding
A/C/E/G=20-291 P regulation of inflammatory response
A/C/E/G=20-291 P toll-like receptor 1 signaling pathway
A/C/E/G=20-291 P MyD88-dependent toll-like receptor signaling pathway
A/C/E/G=20-291 P toll-like receptor 2 signaling pathway
A/C/E/G=20-291 P defense response to virus
A/C/E/G=20-291 P toll-like receptor 3 signaling pathway
A/C/E/G=20-291 P anti-apoptosis
A/C/E/G=20-291 P positive regulation of NF-kappaB transcription factor activity
A/C/E/G=20-291 P response to UV-B
A/C/E/G=20-291 P Toll signaling pathway
A/C/E/G=20-291 P negative regulation of transcription, DNA-dependent
A/C/E/G=20-291 P nucleotide-binding oligomerization domain containing 2 signaling pathway
A/C/E/G=20-291 P virus-host interaction
A/C/E/G=20-291 P positive regulation of type I interferon production
A/C/E/G=20-291 P toll-like receptor 4 signaling pathway
A/C/E/G=20-291 P cellular response to tumor necrosis factor
A/C/E/G=20-291 P inflammatory response
A/C/E/G=20-291 P cellular response to interleukin-1
A/C/E/G=20-291 P cytokine-mediated signaling pathway
A/C/E/G=20-291 P cellular defense response
A/C/E/G=20-291 P T cell receptor signaling pathway
A/C/E/G=20-291 P TRIF-dependent toll-like receptor signaling pathway
A/C/E/G=20-291 P membrane protein intracellular domain proteolysis
A/C/E/G=20-291 P positive regulation of transcription from RNA polymerase II promoter
A/C/E/G=20-291 P nerve growth factor receptor signaling pathway
A/C/E/G=20-291 P positive regulation of I-kappaB kinase/NF-kappaB cascade
A/C/E/G=20-291 P innate immune response
B/D/F/H=41-352 C nucleoplasm
B/D/F/H=41-352 C I-kappaB/NF-kappaB complex
B/D/F/H=41-352 C mitochondrion
B/D/F/H=41-352 F sequence-specific DNA binding transcription factor activity
B/D/F/H=41-352 F double-stranded DNA binding
B/D/F/H=41-352 F transcription regulatory region sequence-specific DNA binding
B/D/F/H=41-352 P negative regulation of cellular protein metabolic process
B/D/F/H=41-352 P positive regulation of hyaluronan biosynthetic process
B/D/F/H=41-352 P positive regulation of lipid storage
B/D/F/H=41-352 P response to copper ion
B/D/F/H=41-352 P negative regulation of calcidiol 1-monooxygenase activity
B/D/F/H=41-352 P cellular response to mechanical stimulus
B/D/F/H=41-352 P negative regulation of cytokine production
B/D/F/H=41-352 P positive regulation of canonical Wnt receptor signaling pathway
B/D/F/H=41-352 P negative regulation of cholesterol transport
B/D/F/H=41-352 P response to bacterium
B/D/F/H=41-352 P negative regulation of transcription from RNA polymerase II promoter
B/D/F/H=41-352 P apoptotic process
B/D/F/H=41-352 P positive regulation of macrophage derived foam cell differentiation
B/D/F/H=41-352 P positive regulation of transcription, DNA-dependent
B/D/F/H=41-352 P negative regulation of vitamin D biosynthetic process
B/D/F/H=41-352 P negative regulation of interleukin-12 biosynthetic process
B/D/F/H=41-352 P transcription from RNA polymerase II promoter
B/D/F/H=41-352 P response to oxidative stress
Sequences
Download file with secondary structure created by Stride  
3gut.pdb1.pdb:   [ download sequences in FASTA format ]
X (dna): 
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Y (dna): 
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A (protein): 
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B (protein): 
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C (protein): 
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D (protein): 
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3gut.pdb2.pdb:   [ download sequences in FASTA format ]
I (dna): 
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J (dna): 
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E (protein): 
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F (protein): 
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G (protein): 
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H (protein): 
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