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


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