2D2R | Genus

Total Genus 73

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	73
sequence length	225
structure length	215
Chain Sequence	STLKHLAIIMDGNGRWAKLKNKARAYGHKKGVKTLKDITIWCANHKLECLTLYAFEVDFLMKMLKKYLKDERSTYLDNNIRFRAIGDLEGFSKELRDTILQLENDTRHFKDFTQVLALNYGSKNELSRAFKSLLESPPSNISLLESLENEISNRLDTRNLPEVDLLLRTGGEMRLSNFLLWQSSYAELFFTPILWPDFTPKDLENIISDFYKRVR

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 215 atoms

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215 atoms created

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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

publication title	Structure-based inhibitors exhibit differential activities against Helicobacter pylori and Escherichia coli undecaprenyl pyrophosphate synthases. pubmed doi rcsb
molecule keywords	Undecaprenyl Pyrophosphate Synthase
molecule tags	Transferase
source organism	Helicobacter pylori
total genus	73
structure length	215
sequence length	225
chains with identical sequence	B
ec nomenclature	ec 2.5.1.31: Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-
pdb deposition date	2005-09-16

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01255	Prenyltransf	Putative undecaprenyl diphosphate synthase

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

cath code	Class	Architecture	Topology	Homology	Domain
3.40.1180.10	Alpha Beta	3-Layer(aba) Sandwich	Undecaprenyl pyrophosphate synthetase	Decaprenyl diphosphate synthase-like	2d2rA00

4KT8A 5HC6A 5KH2A 4ONCA 2VG3A 1JP3A 4CMXA 3SGXA 3SH0A 2VG4A 4H2JA 5HC7A 3WQNA 5HC8A 3WYIA 4CMVA 2E99A 1X08A 2D2RA 5CQBA 3SGVA 4H38A 1X06A 2E9DA 4H8EA 5HXTA 1V7UA 3WQKA 4CMWA 5KH4A 3QASA 4U82A 2VG2A 2E9CA 5HXOA 3SGTA 2E9AA 2VG0A 4H2MA 1X07A 4H3CA 4Q9MA 5KH5A 1F75A 4H2OA 5CQJA 4H3AA 4Q9OA 2VG1A 2VFWA 3TH8A 5HXNA 5HXPA 2E98A 2DTNA 3UGSA 3WQMA 3WYJA 3WQLA 1UEHA 5HXQA 1X09A
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 4KT8 A;  5HC6 A;  5KH2 A;  4ONC A;  2VG3 A;  1JP3 A;  4CMX A;  3SGX A;  3SH0 A;  2VG4 A;  4H2J A;  5HC7 A;  3WQN A;  5HC8 A;  3WYI A;  4CMV A;  2E99 A;  1X08 A;  2D2R A;  5CQB A;  3SGV A;  4H38 A;  1X06 A;  2E9D A;  4H8E A;  5HXT A;  1V7U A;  3WQK A;  4CMW A;  5KH4 A;  3QAS A;  4U82 A;  2VG2 A;  2E9C A;  5HXO A;  3SGT A;  2E9A A;  2VG0 A;  4H2M A;  1X07 A;  4H3C A;  4Q9M A;  5KH5 A;  1F75 A;  4H2O A;  5CQJ A;  4H3A A;  4Q9O A;  2VG1 A;  2VFW A;  3TH8 A;  5HXN A;  5HXP A;  2E98 A;  2DTN A;  3UGS A;  3WQM A;  3WYJ A;  3WQL A;  1UEH A;  5HXQ A;  1X09 A; 
#chains in the Genus database with same CATH topology
 4KT8 A;  5HC6 A;  5KH2 A;  4ONC A;  2VG3 A;  1JP3 A;  4CMX A;  3SGX A;  3SH0 A;  2VG4 A;  4H2J A;  5HC7 A;  3WQN A;  5HC8 A;  3WYI A;  4CMV A;  2E99 A;  1X08 A;  2D2R A;  5CQB A;  3SGV A;  4H38 A;  1X06 A;  2E9D A;  4H8E A;  5HXT A;  1V7U A;  3WQK A;  4CMW A;  5KH4 A;  3QAS A;  4U82 A;  2VG2 A;  2E9C A;  5HXO A;  3SGT A;  2E9A A;  2VG0 A;  4H2M A;  1X07 A;  4H3C A;  4Q9M A;  5KH5 A;  1F75 A;  4H2O A;  5CQJ A;  4H3A A;  4Q9O A;  2VG1 A;  2VFW A;  3TH8 A;  5HXN A;  5HXP A;  2E98 A;  2DTN A;  3UGS A;  3WQM A;  3WYJ A;  3WQL A;  1UEH A;  5HXQ A;  1X09 A; 
#chains in the Genus database with same CATH homology
 4KT8 A;  5HC6 A;  5KH2 A;  4ONC A;  2VG3 A;  1JP3 A;  4CMX A;  3SGX A;  3SH0 A;  2VG4 A;  4H2J A;  5HC7 A;  3WQN A;  5HC8 A;  3WYI A;  4CMV A;  2E99 A;  1X08 A;  2D2R A;  5CQB A;  3SGV A;  4H38 A;  1X06 A;  2E9D A;  4H8E A;  5HXT A;  1V7U A;  3WQK A;  4CMW A;  5KH4 A;  3QAS A;  4U82 A;  2VG2 A;  2E9C A;  5HXO A;  3SGT A;  2E9A A;  2VG0 A;  4H2M A;  1X07 A;  4H3C A;  4Q9M A;  5KH5 A;  1F75 A;  4H2O A;  5CQJ A;  4H3A A;  4Q9O A;  2VG1 A;  2VFW A;  3TH8 A;  5HXN A;  5HXP A;  2E98 A;  2DTN A;  3UGS A;  3WQM A;  3WYJ A;  3WQL A;  1UEH A;  5HXQ A;  1X09 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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2D2RA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations