5KH4A

Crystal structure of steptococcus pneumoniae undecaprenyl pyrophosphate synthase (upps) with farnesyl diphosphate
Total Genus 82

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
82
sequence length
231
structure length
231
Chain Sequence
EVPTQVPAHIGIIMDGNGRWAKKRMQPRVFGHKAGMEALQTVTKAANKLGVKVITVYAFSTENWTRPDQEVKFIMNLPVEFYDNYVPELHANNVKIQMIGETDRLPKQTFEALTKAEELTKNNTGLILNFALNYGGRAEITQALKLISQDVLDAKINPGDITEELIGNYLFTQHLPKDLRDPDLIIRTSGELRLSNFLPWQGAYSELYFTDTLWPDFDEAALQEAILAYNR

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
EMPTYTIV5 (211-214)TI7 (213-216)TVIII1 (20-23)S1 (22-26)AH1 (30-37)AH2 (41-62)S2 (66-73)AH4 (120-133)3H1 (76-78)TI1 (73-76)S3 (108-112)TI2 (115-118)TIV1 (114-117)S4 (140-147)TI3 (133-136)TVIII3 (195-198)AH5 (149-166)3H2 (171-173)TVIII2 (167-170)TI'1 (201-204)AH6 (176-182)TI4 (183-186)TIV3 (207-210)TI5 (185-188)TIV4 (209-212)3H3 (190-192)TI8 (215-218)AH3 (81-105)S5 (197-200)S6 (219-222)3H4 (227-229)Updating...
connected with : NaN
publication title Discovery and Characterization of a Class of Pyrazole Inhibitors of Bacterial Undecaprenyl Pyrophosphate Synthase.
pubmed doi rcsb
molecule keywords Isoprenyl transferase
molecule tags Transferase
source organism Streptococcus pneumoniae serotype 4 (strain atcc baa-334 / tigr4)
total genus 82
structure length 231
sequence length 231
chains with identical sequence B
ec nomenclature ec 2.5.1.-:
pdb deposition date 2016-06-14

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
ClassArchitectureTopologyHomologyDomain
3.40.1180.10 Alpha Beta 3-Layer(aba) Sandwich Undecaprenyl pyrophosphate synthetase Decaprenyl diphosphate synthase-like 5kh4A00
5HXQA 2VG2A 3SH0A 4H3CA 4H3AA 5HXNA 2E9CA 2E9DA 4H8EA 3WQLA 4CMVA 4H2OA 3WQKA 3WYJA 4CMWA 1JP3A 2D2RA 2DTNA 1V7UA 4H2JA 5CQBA 2E98A 5KH4A 2E9AA 5HXPA 3WQNA 2E99A 4ONCA 5CQJA 4CMXA 1X09A 3QASA 3SGVA 1F75A 1X06A 4H38A 2VG3A 5KH2A 4H2MA 2VG0A 4KT8A 1X07A 5HXTA 4Q9MA 3SGTA 5HC7A 4U82A 3WYIA 2VFWA 5KH5A 5HC8A 3TH8A 3UGSA 3WQMA 2VG4A 3SGXA 1X08A 1UEHA 5HXOA 2VG1A 4Q9OA 5HC6A
chains in the Genus database with same CATH superfamily
5HXQA 2VG2A 3SH0A 4H3CA 4H3AA 5HXNA 2E9CA 2E9DA 4H8EA 3WQLA 4CMVA 4H2OA 3WQKA 3WYJA 4CMWA 1JP3A 2D2RA 2DTNA 1V7UA 4H2JA 5CQBA 2E98A 5KH4A 2E9AA 5HXPA 3WQNA 2E99A 4ONCA 5CQJA 4CMXA 1X09A 3QASA 3SGVA 1F75A 1X06A 4H38A 2VG3A 5KH2A 4H2MA 2VG0A 4KT8A 1X07A 5HXTA 4Q9MA 3SGTA 5HC7A 4U82A 3WYIA 2VFWA 5KH5A 5HC8A 3TH8A 3UGSA 3WQMA 2VG4A 3SGXA 1X08A 1UEHA 5HXOA 2VG1A 4Q9OA 5HC6A
chains in the Genus database with same CATH topology
5HXQA 2VG2A 3SH0A 4H3CA 4H3AA 5HXNA 2E9CA 2E9DA 4H8EA 3WQLA 4CMVA 4H2OA 3WQKA 3WYJA 4CMWA 1JP3A 2D2RA 2DTNA 1V7UA 4H2JA 5CQBA 2E98A 5KH4A 2E9AA 5HXPA 3WQNA 2E99A 4ONCA 5CQJA 4CMXA 1X09A 3QASA 3SGVA 1F75A 1X06A 4H38A 2VG3A 5KH2A 4H2MA 2VG0A 4KT8A 1X07A 5HXTA 4Q9MA 3SGTA 5HC7A 4U82A 3WYIA 2VFWA 5KH5A 5HC8A 3TH8A 3UGSA 3WQMA 2VG4A 3SGXA 1X08A 1UEHA 5HXOA 2VG1A 4Q9OA 5HC6A
chains in the Genus database with same CATH homology


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

 
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