1F6UA

Nmr structure of the hiv-1 nucleocapsid protein bound to stem-loop sl2 of the psi-rna packaging signal. implications for genome recognition
Total Genus 9
Loading diagram...

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
9
sequence length
55
structure length
55
Chain Sequence
MQKGNFRNQRKTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTERQAN
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule tags Structural protein/rna
molecule keywords HIV-1 STEM-LOOP SL2 FROM PSI-RNA PACKAGING
publication title NMR structure of the HIV-1 nucleocapsid protein bound to stem-loop SL2 of the psi-RNA packaging signal. Implications for genome recognition.
pubmed doi rcsb
source organism Human immunodeficiency virus 1
total genus 9
structure length 55
sequence length 55
ec nomenclature ec 2.7.7.49: RNA-directed DNA polymerase.
pdb deposition date 2000-06-23

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 1f6uA00
1WWDA 3NYBB 1Q3ZA 1WWFA 1U6PA 1A6BB 2CQFA 2JZWA 1ESKA 1A1TA 1BJ6A 1WWGA 2LI8A 2IHXA 3TS0A 1AAFA 3TS2A 3TRZA 1Q3YA 2L4LA 1F6UA 2M3ZA 2EC7A 1MFSA 2YSAA 2EXFA 1WWEA
chains in the Genus database with same CATH superfamily
1WWDA 3NYBB 1Q3ZA 1WWFA 1U6PA 1A6BB 2CQFA 2JZWA 1ESKA 1A1TA 1BJ6A 1WWGA 2LI8A 2IHXA 3TS0A 1AAFA 3TS2A 3TRZA 1Q3YA 2L4LA 1F6UA 2M3ZA 2EC7A 1MFSA 2YSAA 2EXFA 1WWEA
chains in the Genus database with same CATH topology
1WWDA 3NYBB 1Q3ZA 1WWFA 1U6PA 1A6BB 2CQFA 2JZWA 1ESKA 1A1TA 1BJ6A 1WWGA 2LI8A 2IHXA 3TS0A 1AAFA 3TS2A 3TRZA 1Q3YA 2L4LA 1F6UA 2M3ZA 2EC7A 1MFSA 2YSAA 2EXFA 1WWEA
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...