2JZWA

How the hiv-1 nucleocapsid protein binds and destabilises the (-)primer binding site during reverse transcription
Total Genus 5
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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
5
sequence length
44
structure length
44
Chain Sequence
NVKCFNCGKEGHTARNCRAPRKKGCWKCGKEGHQMKDCTERQAN
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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/dna
molecule keywords HIV-1 nucleocapsid protein NCp7(12-55)
publication title How the HIV-1 nucleocapsid protein binds and destabilises the (-)primer binding site during reverse transcription.
pubmed doi rcsb
total genus 5
structure length 44
sequence length 44
ec nomenclature ec 2.7.7.49: RNA-directed DNA polymerase.
pdb deposition date 2008-01-21

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00098 zf-CCHC Zinc knuckle
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
4.10.60.10 Few Secondary Structures Irregular HIV-1 Nucleocapsid Protein Zinc finger, CCHC-type 2jzwA00
1F6UA 2EXFA 2JZWA 3NYBB 1Q3ZA 1Q3YA 1WWDA 1A6BB 3TS2A 2YSAA 1AAFA 1A1TA 2L4LA 1U6PA 2LI8A 1BJ6A 1ESKA 2IHXA 1WWGA 1WWFA 3TS0A 1WWEA 2EC7A 3TRZA 1MFSA 2M3ZA 2CQFA
chains in the Genus database with same CATH superfamily
1F6UA 2EXFA 2JZWA 3NYBB 1Q3ZA 1Q3YA 1WWDA 1A6BB 3TS2A 2YSAA 1AAFA 1A1TA 2L4LA 1U6PA 2LI8A 1BJ6A 1ESKA 2IHXA 1WWGA 1WWFA 3TS0A 1WWEA 2EC7A 3TRZA 1MFSA 2M3ZA 2CQFA
chains in the Genus database with same CATH topology
1F6UA 2EXFA 2JZWA 3NYBB 1Q3ZA 1Q3YA 1WWDA 1A6BB 3TS2A 2YSAA 1AAFA 1A1TA 2L4LA 1U6PA 2LI8A 1BJ6A 1ESKA 2IHXA 1WWGA 1WWFA 3TS0A 1WWEA 2EC7A 3TRZA 1MFSA 2M3ZA 2CQFA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1F6U A;  2EXF A;  2JZW A;  3NYB B;  1Q3Z A;  1Q3Y A;  1WWD A;  1A6B B;  3TS2 A;  2YSA A;  1AAF A;  1A1T A;  2L4L A;  1U6P A;  2LI8 A;  1BJ6 A;  1ESK A;  2IHX A;  1WWG A;  1WWF A;  3TS0 A;  1WWE A;  2EC7 A;  3TRZ A;  1MFS A;  2M3Z A;  2CQF A; 
#chains in the Genus database with same CATH topology
 1F6U A;  2EXF A;  2JZW A;  3NYB B;  1Q3Z A;  1Q3Y A;  1WWD A;  1A6B B;  3TS2 A;  2YSA A;  1AAF A;  1A1T A;  2L4L A;  1U6P A;  2LI8 A;  1BJ6 A;  1ESK A;  2IHX A;  1WWG A;  1WWF A;  3TS0 A;  1WWE A;  2EC7 A;  3TRZ A;  1MFS A;  2M3Z A;  2CQF A; 
#chains in the Genus database with same CATH homology
 1F6U A;  2EXF A;  2JZW A;  3NYB B;  1Q3Z A;  1Q3Y A;  1WWD A;  1A6B B;  3TS2 A;  2YSA A;  1AAF A;  1A1T A;  2L4L A;  1U6P A;  2LI8 A;  1BJ6 A;  1ESK A;  2IHX A;  1WWG A;  1WWF A;  3TS0 A;  1WWE A;  2EC7 A;  3TRZ A;  1MFS A;  2M3Z A;  2CQF 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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#similar chains in the pdb database (?% sequence similarity)
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