3WQN | Genus

Total Genus 90

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	90
sequence length	297
structure length	292
Chain Sequence	AMNLVSEKEFLDLPLVSVAEIVRCRGPKVSVFPFDGTRRWFHLECDFQQAALRQSIRILKMLFEHGIETVISPIFSDDLLDRGDRYIVQALEGMALLANDEEILSFYKEHEVHVLFYGDYKKRLPSTAQGAAVVKSFDDLTISTSSNTEHRLCFGVFGNDAAESVAQFSISWNETHGKPPTRREIIEGYYGEYVDKADMFIGFGRFSTFDFPLLSSGKTSLYFTVAPSYYMTETTLRRILYDHIYLRHFRPKPDYSAMSADQLNVLRNRYRAQPDRVFGVGCVHDGIWFAEG

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

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Viewer cachePut cache://localLOAD_/file/5d037033bc46f71c1c581ab0/pdb.gz

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The Resolver thinks Pdb

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Time for openFile(/file/5d037033bc46f71c1c581ab0/pdb.gz): 1112 ms

reading 292 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

292 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 25 ms

Adding embedded #jmolscript: select ({0:291});backbone only;select *;

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Hydrolase
source organism	Mycobacterium tuberculosis
publication title	Structure and inhibition of tuberculosinol synthase and decaprenyl diphosphate synthase from Mycobacterium tuberculosis. pubmed doi rcsb
molecule keywords	Diterpene synthase
total genus	90
structure length	292
sequence length	297
ec nomenclature	ec 3.1.7.8: Tuberculosinol synthase.
pdb deposition date	2014-01-28

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.40.1180.10	Alpha Beta	3-Layer(aba) Sandwich	Undecaprenyl pyrophosphate synthetase	Decaprenyl diphosphate synthase-like	3wqnA01

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

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

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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3WQNA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN