5KH5A

Crystal structure of steptococcus pneumoniae undecaprenyl pyrophosphate synthase (upps) in complex with ~{n}-(3-azanyl-3-oxidanylidene-propyl)-5-(1-benzothiophen-5-yl)-1-(phenylmethyl)-~{n}-[(4-propan-2-yloxyphenyl)methyl]pyrazole-4-carboxamide
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
232
structure length
230
Chain Sequence
TQVPAHIGIIMDGNGRWAKKRMQPRVFGHKAGMEALQTVTKAANKLGVKVITVYAFSTENRPDQEVKFIMNLPVEFYDNYVPELHANNVKIQMIGETDRLPKQTFEALTKAEELTKNNTGLILNFALNYGGRAEITQALKLISQDVLDAKINPGDITEELIGNYLFTQHLPKDLRDPDLIIRTSGELRLSNFLPWQGAYSELYFTDTLWPDFDEAALQEAILAYNRRHRR

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
EMPTYTI3 (171-174)TIV4 (209-212)S1 (22-27)AH1 (30-37)TI'2 (207-210)AH2 (41-62)S2 (66-71)AH3 (80-87)AH4 (89-105)TIV1 (115-118)S3 (108-112)AH5 (120-133)TIV3 (190-193)AH6 (149-166)TI1 (133-136)TVIII3 (195-198)S4 (140-144)TI2 (170-173)TVIII2 (167-170)AH7 (176-182)S5 (197-200)TI5 (185-188)TI6 (189-192)TI4 (183-186)TI8 (213-216)TIV5 (211-214)S6 (219-222)TI7 (212-215)TVIII1 (20-23)3H1 (227-229)TI'1 (201-204)TI9 (215-218)TIV2 (144-147)Updating...
connected with : NaN
molecule tags Transferase/transferase inhibitor
source organism Streptococcus pneumoniae serotype 4 (strain atcc baa-334 / tigr4)
publication title Discovery and Characterization of a Class of Pyrazole Inhibitors of Bacterial Undecaprenyl Pyrophosphate Synthase.
pubmed doi rcsb
molecule keywords Isoprenyl transferase
total genus 82
structure length 230
sequence length 232
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 5kh5A00
2VG1A 2E9AA 2E98A 5HXOA 3SGXA 2VFWA 4H3CA 5HXQA 5KH5A 1V7UA 5HC7A 2VG2A 4H8EA 3WQMA 1X08A 3QASA 1UEHA 2VG3A 4H2OA 4ONCA 3WYJA 1F75A 2E9CA 5HXTA 5CQBA 4H2JA 3SGTA 5KH4A 4CMWA 4Q9OA 5CQJA 1JP3A 5HXNA 5KH2A 2E99A 1X09A 2VG0A 5HXPA 3WQLA 1X07A 1X06A 2VG4A 4KT8A 4Q9MA 4H38A 3SGVA 2D2RA 4CMVA 4CMXA 5HC8A 2DTNA 3SH0A 3WQNA 4H2MA 3WQKA 4H3AA 3TH8A 2E9DA 3UGSA 3WYIA 5HC6A 4U82A
chains in the Genus database with same CATH superfamily
2VG1A 2E9AA 2E98A 5HXOA 3SGXA 2VFWA 4H3CA 5HXQA 5KH5A 1V7UA 5HC7A 2VG2A 4H8EA 3WQMA 1X08A 3QASA 1UEHA 2VG3A 4H2OA 4ONCA 3WYJA 1F75A 2E9CA 5HXTA 5CQBA 4H2JA 3SGTA 5KH4A 4CMWA 4Q9OA 5CQJA 1JP3A 5HXNA 5KH2A 2E99A 1X09A 2VG0A 5HXPA 3WQLA 1X07A 1X06A 2VG4A 4KT8A 4Q9MA 4H38A 3SGVA 2D2RA 4CMVA 4CMXA 5HC8A 2DTNA 3SH0A 3WQNA 4H2MA 3WQKA 4H3AA 3TH8A 2E9DA 3UGSA 3WYIA 5HC6A 4U82A
chains in the Genus database with same CATH topology
2VG1A 2E9AA 2E98A 5HXOA 3SGXA 2VFWA 4H3CA 5HXQA 5KH5A 1V7UA 5HC7A 2VG2A 4H8EA 3WQMA 1X08A 3QASA 1UEHA 2VG3A 4H2OA 4ONCA 3WYJA 1F75A 2E9CA 5HXTA 5CQBA 4H2JA 3SGTA 5KH4A 4CMWA 4Q9OA 5CQJA 1JP3A 5HXNA 5KH2A 2E99A 1X09A 2VG0A 5HXPA 3WQLA 1X07A 1X06A 2VG4A 4KT8A 4Q9MA 4H38A 3SGVA 2D2RA 4CMVA 4CMXA 5HC8A 2DTNA 3SH0A 3WQNA 4H2MA 3WQKA 4H3AA 3TH8A 2E9DA 3UGSA 3WYIA 5HC6A 4U82A
chains in the Genus database with same CATH homology


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