General information
PDB ID 1CKT
Title CRYSTAL STRUCTURE OF HMG1 DOMAIN A BOUND TO A CISPLATIN-MODIFIED DNA DUPLEX
PDB header GENE REGULATION/DNA
Date 1999-04-23
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.5
Kind dna
Organism RATTUS NORVEGICUS
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
 PDIdb 
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb1ckt.pdb A BC 0
Biounits:
1ckt.pdb1.pdb A BC 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
HMG_box_2 Domain P63159_8-78 1.2e-27 1 CL0114 A 7 77 BC  H-Bb H-Mj H-Mn L-Bb 
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Class: All alpha proteins
  Fold: HMG-box
    Superfamily: HMG-box
      Family: HMG-box
High mobility group protein 1, HMG1 A N/A N/A BC  H-Bb H-Mn L-Bb 
GO terms
Protein chains: GO type: GO description:
A=8-78 C alphav-beta3 integrin-HMGB1 complex
A=8-78 C cell surface
A=8-78 C condensed chromosome
A=8-78 C cytoplasm
A=8-78 C cytosol
A=8-78 C early endosome
A=8-78 C endoplasmic reticulum-Golgi intermediate compartment
A=8-78 C extracellular space
A=8-78 C membrane raft
A=8-78 C neuron projection
A=8-78 C nuclear chromatin
A=8-78 C nucleus
A=8-78 C transcription repressor complex
A=8-78 F 5S rRNA binding
A=8-78 F bent DNA binding
A=8-78 F bubble DNA binding
A=8-78 F C-X-C chemokine binding
A=8-78 F calcium-dependent protein kinase regulator activity
A=8-78 F chromatin binding
A=8-78 F crossed form four-way junction DNA binding
A=8-78 F cytokine activity
A=8-78 F damaged DNA binding
A=8-78 F DNA binding, bending
A=8-78 F DNA polymerase binding
A=8-78 F double-stranded DNA binding
A=8-78 F double-stranded RNA binding
A=8-78 F four-way junction DNA binding
A=8-78 F glycolipid binding
A=8-78 F heparin binding
A=8-78 F integrin binding
A=8-78 F lipopolysaccharide binding
A=8-78 F lyase activity
A=8-78 F open form four-way junction DNA binding
A=8-78 F peptide binding
A=8-78 F phosphatidylserine binding
A=8-78 F protein kinase activator activity
A=8-78 F RAGE receptor binding
A=8-78 F repressing transcription factor binding
A=8-78 F single-stranded DNA binding
A=8-78 F single-stranded RNA binding
A=8-78 F supercoiled DNA binding
A=8-78 F transcription coactivator activity
A=8-78 F transcription factor binding
A=8-78 F transcription regulatory region sequence-specific DNA binding
A=8-78 P actin cytoskeleton reorganization
A=8-78 P activation of innate immune response
A=8-78 P apoptotic cell clearance
A=8-78 P autophagy
A=8-78 P base-excision repair
A=8-78 P cell chemotaxis
A=8-78 P cell morphogenesis
A=8-78 P cellular response to interleukin-1
A=8-78 P cellular response to interleukin-7
A=8-78 P cellular response to lipopolysaccharide
A=8-78 P chemotaxis
A=8-78 P chromatin assembly
A=8-78 P chromatin remodeling
A=8-78 P chromatin silencing
A=8-78 P circadian rhythm
A=8-78 P developmental process
A=8-78 P DNA geometric change
A=8-78 P DNA recombination
A=8-78 P endothelial cell chemotaxis
A=8-78 P endothelial cell proliferation
A=8-78 P eye development
A=8-78 P induction of positive chemotaxis
A=8-78 P inflammatory response
A=8-78 P inflammatory response to antigenic stimulus
A=8-78 P lung development
A=8-78 P macrophage activation involved in immune response
A=8-78 P male-specific defense response to bacterium
A=8-78 P myeloid dendritic cell activation
A=8-78 P myoblast proliferation
A=8-78 P negative regulation of apoptotic cell clearance
A=8-78 P negative regulation of blood vessel endothelial cell migration
A=8-78 P negative regulation of CD4-positive, alpha-beta T cell differentiation
A=8-78 P negative regulation of DNA replication
A=8-78 P negative regulation of interferon-gamma production
A=8-78 P negative regulation of RNA polymerase II transcription preinitiation complex assembly
A=8-78 P negative regulation of transcription by RNA polymerase II
A=8-78 P nervous system development
A=8-78 P neuron projection development
A=8-78 P neutrophil clearance
A=8-78 P plasmacytoid dendritic cell activation
A=8-78 P positive regulation of activated T cell proliferation
A=8-78 P positive regulation of apoptotic process
A=8-78 P positive regulation of autophagy
A=8-78 P positive regulation of blood vessel endothelial cell migration
A=8-78 P positive regulation of cell death
A=8-78 P positive regulation of cell migration
A=8-78 P positive regulation of cell population proliferation
A=8-78 P positive regulation of chemokine (C-X-C motif) ligand 2 production
A=8-78 P positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
A=8-78 P positive regulation of cytosolic calcium ion concentration
A=8-78 P positive regulation of dendritic cell differentiation
A=8-78 P positive regulation of DNA binding
A=8-78 P positive regulation of DNA ligation
A=8-78 P positive regulation of ERK1 and ERK2 cascade
A=8-78 P positive regulation of glycogen catabolic process
A=8-78 P positive regulation of innate immune response
A=8-78 P positive regulation of interferon-alpha production
A=8-78 P positive regulation of interferon-beta production
A=8-78 P positive regulation of interleukin-1 beta production
A=8-78 P positive regulation of interleukin-1 production
A=8-78 P positive regulation of interleukin-10 production
A=8-78 P positive regulation of interleukin-12 production
A=8-78 P positive regulation of interleukin-6 production
A=8-78 P positive regulation of interleukin-8 production
A=8-78 P positive regulation of JNK cascade
A=8-78 P positive regulation of macrophage inflammatory protein 1 alpha production
A=8-78 P positive regulation of MAPK cascade
A=8-78 P positive regulation of mesenchymal cell proliferation
A=8-78 P positive regulation of mismatch repair
A=8-78 P positive regulation of mitotic cell cycle
A=8-78 P positive regulation of monocyte chemotactic protein-1 production
A=8-78 P positive regulation of monocyte chemotaxis
A=8-78 P positive regulation of myeloid cell apoptotic process
A=8-78 P positive regulation of myeloid cell differentiation
A=8-78 P positive regulation of myoblast differentiation
A=8-78 P positive regulation of neuron projection development
A=8-78 P positive regulation of NIK/NF-kappaB signaling
A=8-78 P positive regulation of protein phosphorylation
A=8-78 P positive regulation of smooth muscle cell migration
A=8-78 P positive regulation of sprouting angiogenesis
A=8-78 P positive regulation of toll-like receptor 2 signaling pathway
A=8-78 P positive regulation of toll-like receptor 4 signaling pathway
A=8-78 P positive regulation of toll-like receptor 9 signaling pathway
A=8-78 P positive regulation of transcription by RNA polymerase II
A=8-78 P positive regulation of tumor necrosis factor production
A=8-78 P positive regulation of vascular endothelial cell proliferation
A=8-78 P positive regulation of wound healing
A=8-78 P protein-containing complex assembly
A=8-78 P regulation of inflammatory response
A=8-78 P regulation of nucleotide-excision repair
A=8-78 P regulation of restriction endodeoxyribonuclease activity
A=8-78 P regulation of signaling receptor activity
A=8-78 P regulation of T cell mediated immune response to tumor cell
A=8-78 P regulation of tolerance induction
A=8-78 P regulation of transcription by RNA polymerase II
A=8-78 P regulation of transcription, DNA-templated
A=8-78 P response to drug
A=8-78 P response to glucocorticoid
A=8-78 P response to glucose
A=8-78 P response to heat
A=8-78 P response to insulin
A=8-78 P response to interferon-gamma
A=8-78 P response to lipopolysaccharide
A=8-78 P T-helper 1 cell activation
A=8-78 P T-helper 1 cell differentiation
A=8-78 P tumor necrosis factor secretion
A=8-78 P V(D)J recombination
Sequences
Download file with secondary structure created by Stride  
1ckt.pdb1.pdb:   [ download sequences in FASTA format ]
B (dna): 
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C (dna): 
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A (protein): 
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