4NH3 | Genus

Total Genus 62

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	62
sequence length	298
structure length	268
Chain Sequence	QPCYLYVIGMVLTTPLPDELNFRRRKLYPPEDTTRCFGILTAKPIPQIPHFPVYTRSGEVTISIELAASGFMLSLQMLELITRLHQYIFSHILRLYCVLPLNVVTLDIDFKFMEDIEKSEARIGIPSTKYTKETPFVFKLEDYQDAVIIPRYRNFDQPHRFYVADVYTDLTPLSKFPSPEYETFAEYYKTKYNLDLTNLNQPLLDVDHTSSRLNLLTPLSSAEKRKAKWESLQNKQILVPELCAIHPIPASLWRKAVCLPSILYRLHC

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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Time for openFile(/file/5d266f96cff28b071b816a2d/pdb.gz): 2585 ms

reading 268 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

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

Default Van der Waals type for model set to Jmol

268 atoms created

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

Time for creating model: 23 ms

Adding embedded #jmolscript: select ({0:267});backbone only;select *;

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

molecule tags	Hydrolase/rna
source organism	Homo sapiens
publication title	A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer. pubmed doi rcsb
molecule keywords	Endoribonuclease Dicer
total genus	62
structure length	268
sequence length	298
ec nomenclature	ec 3.1.26.3: Ribonuclease III.
pdb deposition date	2013-11-04

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF02170	PAZ	PAZ domain

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
2.170.260.10	Mainly Beta	Beta Complex	paz domain	paz domain	4nh3A02

4W5OA 4KRFA 2XFMA 3QIRA 3O7VX 1R6ZA 4W5NA 5KI6A 4OLBA 4Z4EA 4W5TA 4F3TA 5T7BA 4KREA 2L5CA 4NH6A 4W5RA 5JS2A 4W5QA 2L5DA 5JS1A 4Z4CA 1SI3A 4NH3A 3O6EX 1SI2A 2FFLA 4Z4IA 1T2SA 3O7XA 4Z4HA 4NHAA 4Z4FA 2QVWA 4OLAA 4NGDA 4NGFA 1T2RA 4NGBA 1R4KA 1VYNA 4NGGA 4Z4GA 3MJ0A 4NH5A 3O3IX 4NGCA
chains in the Genus database with same CATH superfamily

3HJFA 4W5OA 4KRFA 2XFMA 3QIRA 3DLHA 3O7VX 1R6ZA 1Z26A 3HK2A 2BZEA 4W5NA 3F73A 5KI6A 4OLBA 4Z4EA 4L1PA 4W5TA 4F3TA 1U04A 5T7BA 2L5CA 3HM9A 4NH6A 4W5RA 5JS2A 4W5QA 3HVRA 4KREA 3U1UA 2L5DA 5JS1A 4Z4CA 1SI3A 4NH3A 3DA5A 3O6EX 3DLBA 1SI2A 1Z25A 2FFLA 4Z4IA 3HO1A 1T2SA 3O7XA 4Z4HA 2DB9A 4NHAA 4Z4FA 2QVWA 4L1UA 4OLAA 4NGDA 4NGFA 1T2RA 4NGBA 1R4KA 1VYNA 4NGGA 4Z4GA 3MJ0A 4NH5A 3O3IX 4NGCA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 4W5O A;  4KRF A;  2XFM A;  3QIR A;  3O7V X;  1R6Z A;  4W5N A;  5KI6 A;  4OLB A;  4Z4E A;  4W5T A;  4F3T A;  5T7B A;  4KRE A;  2L5C A;  4NH6 A;  4W5R A;  5JS2 A;  4W5Q A;  2L5D A;  5JS1 A;  4Z4C A;  1SI3 A;  4NH3 A;  3O6E X;  1SI2 A;  2FFL A;  4Z4I A;  1T2S A;  3O7X A;  4Z4H A;  4NHA A;  4Z4F A;  2QVW A;  4OLA A;  4NGD A;  4NGF A;  1T2R A;  4NGB A;  1R4K A;  1VYN A;  4NGG A;  4Z4G A;  3MJ0 A;  4NH5 A;  3O3I X;  4NGC A; 
#chains in the Genus database with same CATH topology
 3HJF A;  4W5O A;  4KRF A;  2XFM A;  3QIR A;  3DLH A;  3O7V X;  1R6Z A;  1Z26 A;  3HK2 A;  2BZE A;  4W5N A;  3F73 A;  5KI6 A;  4OLB A;  4Z4E A;  4L1P A;  4W5T A;  4F3T A;  1U04 A;  5T7B A;  2L5C A;  3HM9 A;  4NH6 A;  4W5R A;  5JS2 A;  4W5Q A;  3HVR A;  4KRE A;  3U1U A;  2L5D A;  5JS1 A;  4Z4C A;  1SI3 A;  4NH3 A;  3DA5 A;  3O6E X;  3DLB A;  1SI2 A;  1Z25 A;  2FFL A;  4Z4I A;  3HO1 A;  1T2S A;  3O7X A;  4Z4H A;  2DB9 A;  4NHA A;  4Z4F A;  2QVW A;  4L1U A;  4OLA A;  4NGD A;  4NGF A;  1T2R A;  4NGB A;  1R4K A;  1VYN A;  4NGG A;  4Z4G A;  3MJ0 A;  4NH5 A;  3O3I X;  4NGC A; 
#chains in the Genus database with same CATH homology
 3HJF A;  4W5O A;  4KRF A;  2XFM A;  3QIR A;  3DLH A;  3O7V X;  1R6Z A;  1Z26 A;  3HK2 A;  2BZE A;  4W5N A;  3F73 A;  5KI6 A;  4OLB A;  4Z4E A;  4L1P A;  4W5T A;  4F3T A;  1U04 A;  5T7B A;  2L5C A;  3HM9 A;  4NH6 A;  4W5R A;  5JS2 A;  4W5Q A;  3HVR A;  4KRE A;  3U1U A;  2L5D A;  5JS1 A;  4Z4C A;  1SI3 A;  4NH3 A;  3DA5 A;  3O6E X;  3DLB A;  1SI2 A;  1Z25 A;  2FFL A;  4Z4I A;  3HO1 A;  1T2S A;  3O7X A;  4Z4H A;  2DB9 A;  4NHA A;  4Z4F A;  2QVW A;  4L1U A;  4OLA A;  4NGD A;  4NGF A;  1T2R A;  4NGB A;  1R4K A;  1VYN A;  4NGG A;  4Z4G A;  3MJ0 A;  4NH5 A;  3O3I X;  4NGC 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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4NH3A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations