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


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