1AAF | Genus

Total Genus 4

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

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

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The Resolver thinks Pdb

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reading 55 atoms

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1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

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55 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

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

Genus data interpretation

Chord Diagram

molecule tags	Viral protein
source organism	Human immunodeficiency virus 1
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
molecule keywords	HIV-1 NUCLEOCAPSID PROTEIN
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	Class	Architecture	Topology	Homology	Domain
4.10.60.10	Few Secondary Structures	Irregular	HIV-1 Nucleocapsid Protein	Zinc finger, CCHC-type	1aafA00

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

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

...loading similar chains, please wait...
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)
...loading similar chains, please wait...

1AAFA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations