1X08 | Genus

Total Genus 85

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	85
sequence length	228
structure length	228
Chain Sequence	LPAHGCRHVAIIMAGNGRWAKKQGKIRAFGHKAGAKSVRRAVSFAANNGIEALTLYAFSSENWNRPAQEVSALMELFVWALDSEVKSLHRHNVRLRIIGDTSRFNSRLQERIRKSEALTAGNTGLTLNIAANYGGRWDIVQGVRQLAEKVQQGNLQPDQIDEEMLNQHVCMHELAPVDLVIRTGGEHRISNFLLWQIAYAELYFTDVLWPDFDEQDFEGALNAFANRE

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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reading 228 atoms

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228 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	Crystal structures of undecaprenyl pyrophosphate synthase in complex with magnesium, isopentenyl pyrophosphate, and farnesyl thiopyrophosphate: roles of the metal ion and conserved residues in catalysis. pubmed doi rcsb
molecule keywords	Undecaprenyl pyrophosphate synthetase
molecule tags	Transferase
source organism	Escherichia coli
total genus	85
structure length	228
sequence length	228
ec nomenclature	ec 2.5.1.31: Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-
pdb deposition date	2005-03-15

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	1x08A00

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

#chains in the Genus database with same CATH superfamily
 4CMV A;  5HXN A;  4H8E A;  3SGX A;  2VFW A;  4H3C A;  3WQM A;  5HC8 A;  4ONC A;  2E9C A;  5CQJ A;  3WYI A;  5HXO A;  2VG1 A;  2E9A A;  3QAS A;  3SGT A;  2VG4 A;  2E98 A;  2VG3 A;  3WQL A;  3SH0 A;  1X09 A;  5KH2 A;  2VG0 A;  2E9D A;  4KT8 A;  5HC7 A;  5HC6 A;  5HXT A;  5HXP A;  4U82 A;  1X07 A;  1X06 A;  5KH5 A;  4Q9O A;  2D2R A;  4Q9M A;  3WQK A;  3WQN A;  4H2O A;  4CMW A;  4H38 A;  1V7U A;  3UGS A;  1X08 A;  5CQB A;  3WYJ A;  1UEH A;  2DTN A;  5HXQ A;  2VG2 A;  3TH8 A;  3SGV A;  4H2M A;  4H2J A;  4CMX A;  4H3A A;  5KH4 A;  2E99 A;  1JP3 A;  1F75 A; 
#chains in the Genus database with same CATH topology
 4CMV A;  5HXN A;  4H8E A;  3SGX A;  2VFW A;  4H3C A;  3WQM A;  5HC8 A;  4ONC A;  2E9C A;  5CQJ A;  3WYI A;  5HXO A;  2VG1 A;  2E9A A;  3QAS A;  3SGT A;  2VG4 A;  2E98 A;  2VG3 A;  3WQL A;  3SH0 A;  1X09 A;  5KH2 A;  2VG0 A;  2E9D A;  4KT8 A;  5HC7 A;  5HC6 A;  5HXT A;  5HXP A;  4U82 A;  1X07 A;  1X06 A;  5KH5 A;  4Q9O A;  2D2R A;  4Q9M A;  3WQK A;  3WQN A;  4H2O A;  4CMW A;  4H38 A;  1V7U A;  3UGS A;  1X08 A;  5CQB A;  3WYJ A;  1UEH A;  2DTN A;  5HXQ A;  2VG2 A;  3TH8 A;  3SGV A;  4H2M A;  4H2J A;  4CMX A;  4H3A A;  5KH4 A;  2E99 A;  1JP3 A;  1F75 A; 
#chains in the Genus database with same CATH homology
 4CMV A;  5HXN A;  4H8E A;  3SGX A;  2VFW A;  4H3C A;  3WQM A;  5HC8 A;  4ONC A;  2E9C A;  5CQJ A;  3WYI A;  5HXO A;  2VG1 A;  2E9A A;  3QAS A;  3SGT A;  2VG4 A;  2E98 A;  2VG3 A;  3WQL A;  3SH0 A;  1X09 A;  5KH2 A;  2VG0 A;  2E9D A;  4KT8 A;  5HC7 A;  5HC6 A;  5HXT A;  5HXP A;  4U82 A;  1X07 A;  1X06 A;  5KH5 A;  4Q9O A;  2D2R A;  4Q9M A;  3WQK A;  3WQN A;  4H2O A;  4CMW A;  4H38 A;  1V7U A;  3UGS A;  1X08 A;  5CQB A;  3WYJ A;  1UEH A;  2DTN A;  5HXQ A;  2VG2 A;  3TH8 A;  3SGV A;  4H2M A;  4H2J A;  4CMX A;  4H3A A;  5KH4 A;  2E99 A;  1JP3 A;  1F75 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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1X08A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations