2IF9A

Crystal structure of sv40 t-antigen origin binding domain disulfide-linked dimer
Total Genus 28
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
28
sequence length
132
structure length
132
Chain Sequence
GSKVEDPKDFPSELLSFLSHAVFSNRTLACFAIYTTKEKAALLYKKIMEKYSVTFISRHNSYNHNILFFLTPHRHRVSAINNYAQKLCTFSFLICKGVNKEYLMYSALTRDPFSVIEESLPGGLKEHDFNPE
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule tags Viral protein
molecule keywords Large T antigen
publication title The Crystal Structure of the SV40 T-Antigen Origin Binding Domain in Complex with DNA
pubmed doi rcsb
source organism Simian virus 40
total genus 28
structure length 132
sequence length 132
chains with identical sequence B
ec nomenclature
pdb deposition date 2006-09-20

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02217 T_Ag_DNA_bind Origin of replication binding protein
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1310.20 Alpha Beta 3-Layer(aba) Sandwich Replication Protein E1; Chain: A, Replication Protein E1; Chain: A, 2if9A00
3QFQA 1RZ9A 5CYNA 2FUFA 2ITJA 1TBDA 1L2MA 4NBPA 2IF9A 3QK2A 2TBDA 5BYGA 4ZQ9A 4LIFA 4LMDA 4FGNA 2HW0A 5DCXA 2ITLA 1L5IA 1M55A 1Z1DB 1UUTA 2NL8A 5D9IA 4FB3A 4GDFA 4ZO0A 2NTCA 2IPRA 3QN2A
chains in the Genus database with same CATH superfamily
3QFQA 1RZ9A 4U87A 5CYNA 2FUFA 2ITJA 1TBDA 1L2MA 4NBPA 1KSYA 2IF9A 3QK2A 1F08A 2TBDA 5BYGA 4KW3A 4ZQ9A 4LIFA 4LMDA 4FGNA 3DKYA 2HW0A 5DCXA 2ITLA 1L5IA 1M55A 1Z1DB 1UUTA 2NL8A 5D9IA 4FB3A 1R9WA 1KSXA 3DKXA 4GDFA 4ZO0A 2NTCA 2IPRA 3QN2A
chains in the Genus database with same CATH topology
3QFQA 1RZ9A 4U87A 5CYNA 2FUFA 2ITJA 1TBDA 1L2MA 4NBPA 1KSYA 2IF9A 3QK2A 1F08A 2TBDA 5BYGA 4KW3A 4ZQ9A 4LIFA 4LMDA 4FGNA 3DKYA 2HW0A 5DCXA 2ITLA 1L5IA 1M55A 1Z1DB 1UUTA 2NL8A 5D9IA 4FB3A 1R9WA 1KSXA 3DKXA 4GDFA 4ZO0A 2NTCA 2IPRA 3QN2A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3QFQ A;  1RZ9 A;  5CYN A;  2FUF A;  2ITJ A;  1TBD A;  1L2M A;  4NBP A;  2IF9 A;  3QK2 A;  2TBD A;  5BYG A;  4ZQ9 A;  4LIF A;  4LMD A;  4FGN A;  2HW0 A;  5DCX A;  2ITL A;  1L5I A;  1M55 A;  1Z1D B;  1UUT A;  2NL8 A;  5D9I A;  4FB3 A;  4GDF A;  4ZO0 A;  2NTC A;  2IPR A;  3QN2 A; 
#chains in the Genus database with same CATH topology
 3QFQ A;  1RZ9 A;  4U87 A;  5CYN A;  2FUF A;  2ITJ A;  1TBD A;  1L2M A;  4NBP A;  1KSY A;  2IF9 A;  3QK2 A;  1F08 A;  2TBD A;  5BYG A;  4KW3 A;  4ZQ9 A;  4LIF A;  4LMD A;  4FGN A;  3DKY A;  2HW0 A;  5DCX A;  2ITL A;  1L5I A;  1M55 A;  1Z1D B;  1UUT A;  2NL8 A;  5D9I A;  4FB3 A;  1R9W A;  1KSX A;  3DKX A;  4GDF A;  4ZO0 A;  2NTC A;  2IPR A;  3QN2 A; 
#chains in the Genus database with same CATH homology
 3QFQ A;  1RZ9 A;  4U87 A;  5CYN A;  2FUF A;  2ITJ A;  1TBD A;  1L2M A;  4NBP A;  1KSY A;  2IF9 A;  3QK2 A;  1F08 A;  2TBD A;  5BYG A;  4KW3 A;  4ZQ9 A;  4LIF A;  4LMD A;  4FGN A;  3DKY A;  2HW0 A;  5DCX A;  2ITL A;  1L5I A;  1M55 A;  1Z1D B;  1UUT A;  2NL8 A;  5D9I A;  4FB3 A;  1R9W A;  1KSX A;  3DKX A;  4GDF A;  4ZO0 A;  2NTC A;  2IPR A;  3QN2 A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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