5KH2A

Crystal structure of steptococcus pneumoniae undecaprenyl pyrophosphate synthase (upps)
Total Genus 84

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
84
sequence length
229
structure length
224
Chain Sequence
QVPAHIGIIMDGNGRWAKKRMQPRVFGHKAGMEALQTVTKAANKLGVKVITVYAFSRPDQEVKFIMNLPVEFYDNYVPELHANNVKIQMIGETDRLPKQTFEALTKAEELTKNNTGLILNFALNYGGRAEITQALKLISQDVLDAKINPGDITEELIGNYLFTQHLPKDLRDPDLIIRTSGELRLSNFLPWQGAYSELYFTDTLWPDFDEAALQEAILAYNRRH

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
EMPTYTVIII2 (167-170)S1 (22-27)AH1 (30-37)AH2 (41-62)AH3 (80-105)TIV1 (114-117)S2 (66-71)S3 (108-112)AH4 (120-133)AH5 (149-166)S4 (140-144)TI2 (133-136)TI5 (189-192)3H1 (171-173)TVIII3 (195-198)TI3 (183-186)TI4 (185-188)TI6 (190-193)TI'1 (207-210)TIV3 (209-212)TI7 (212-215)TI8 (213-216)S6 (219-222)TI1 (115-118)AH6 (176-182)TIV4 (211-214)TI9 (215-218)TVIII1 (20-23)TIV2 (144-147)S5 (197-200)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 84
structure length 224
sequence length 229
chains with identical sequence B, C, D
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 5kh2A00
2D2RA 4H3AA 1X08A 4H2OA 1X09A 1F75A 1V7UA 2VG3A 4CMWA 2E9AA 2E98A 3QASA 3TH8A 3WYIA 5HXTA 3SGVA 4Q9MA 2VG4A 5HXQA 5KH4A 2VG0A 5HXPA 2E9CA 1JP3A 4KT8A 5CQJA 4CMVA 5HXOA 3WYJA 2VFWA 4H3CA 3UGSA 5HC8A 5CQBA 5KH5A 3SGTA 1UEHA 4ONCA 2E9DA 2VG2A 4CMXA 3WQLA 2VG1A 2DTNA 4H2MA 4H38A 3SGXA 3WQMA 5KH2A 5HC6A 1X07A 4Q9OA 3WQNA 4H2JA 5HXNA 1X06A 5HC7A 4H8EA 3SH0A 3WQKA 4U82A 2E99A
chains in the Genus database with same CATH superfamily
2D2RA 4H3AA 1X08A 4H2OA 1X09A 1F75A 1V7UA 2VG3A 4CMWA 2E9AA 2E98A 3QASA 3TH8A 3WYIA 5HXTA 3SGVA 4Q9MA 2VG4A 5HXQA 5KH4A 2VG0A 5HXPA 2E9CA 1JP3A 4KT8A 5CQJA 4CMVA 5HXOA 3WYJA 2VFWA 4H3CA 3UGSA 5HC8A 5CQBA 5KH5A 3SGTA 1UEHA 4ONCA 2E9DA 2VG2A 4CMXA 3WQLA 2VG1A 2DTNA 4H2MA 4H38A 3SGXA 3WQMA 5KH2A 5HC6A 1X07A 4Q9OA 3WQNA 4H2JA 5HXNA 1X06A 5HC7A 4H8EA 3SH0A 3WQKA 4U82A 2E99A
chains in the Genus database with same CATH topology
2D2RA 4H3AA 1X08A 4H2OA 1X09A 1F75A 1V7UA 2VG3A 4CMWA 2E9AA 2E98A 3QASA 3TH8A 3WYIA 5HXTA 3SGVA 4Q9MA 2VG4A 5HXQA 5KH4A 2VG0A 5HXPA 2E9CA 1JP3A 4KT8A 5CQJA 4CMVA 5HXOA 3WYJA 2VFWA 4H3CA 3UGSA 5HC8A 5CQBA 5KH5A 3SGTA 1UEHA 4ONCA 2E9DA 2VG2A 4CMXA 3WQLA 2VG1A 2DTNA 4H2MA 4H38A 3SGXA 3WQMA 5KH2A 5HC6A 1X07A 4Q9OA 3WQNA 4H2JA 5HXNA 1X06A 5HC7A 4H8EA 3SH0A 3WQKA 4U82A 2E99A
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...

Application loaded.