1AAFA

Nucleocapsid zinc fingers detected in retroviruses: exafs studies on intact viruses and the solution-state structure of the nucleocapsid protein from hiv-1
Total Genus 4
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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
4
sequence length
55
structure length
55
Chain Sequence
MQRGNFRNQRKIIKCFNCGKEGHIAKNCRAPRKRGCWKCGKEGHQMKDCTERQAN
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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 HIV-1 NUCLEOCAPSID PROTEIN
publication title Nucleocapsid zinc fingers detected in retroviruses: EXAFS studies of intact viruses and the solution-state structure of the nucleocapsid protein from HIV-1.
pubmed rcsb
source organism Human immunodeficiency virus 1
total genus 4
structure length 55
sequence length 55
ec nomenclature ec 2.7.7.49: RNA-directed DNA polymerase.
pdb deposition date 1992-04-06

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 1aafA00
1A6BB 3NYBB 1WWEA 1AAFA 3TS0A 2L4LA 2CQFA 2YSAA 1U6PA 2EC7A 2IHXA 1A1TA 2JZWA 2LI8A 1WWGA 1ESKA 1F6UA 1WWDA 1MFSA 3TRZA 2M3ZA 1Q3YA 1BJ6A 1WWFA 2EXFA 1Q3ZA 3TS2A
chains in the Genus database with same CATH superfamily
1A6BB 3NYBB 1WWEA 1AAFA 3TS0A 2L4LA 2CQFA 2YSAA 1U6PA 2EC7A 2IHXA 1A1TA 2JZWA 2LI8A 1WWGA 1ESKA 1F6UA 1WWDA 1MFSA 3TRZA 2M3ZA 1Q3YA 1BJ6A 1WWFA 2EXFA 1Q3ZA 3TS2A
chains in the Genus database with same CATH topology
1A6BB 3NYBB 1WWEA 1AAFA 3TS0A 2L4LA 2CQFA 2YSAA 1U6PA 2EC7A 2IHXA 1A1TA 2JZWA 2LI8A 1WWGA 1ESKA 1F6UA 1WWDA 1MFSA 3TRZA 2M3ZA 1Q3YA 1BJ6A 1WWFA 2EXFA 1Q3ZA 3TS2A
chains in the Genus database with same CATH homology


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