3LMS | Genus

Total Genus 18

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	18
sequence length	74
structure length	74
Chain Sequence	NECVSKGFGCLPQSDCPQEARLSYGGCSTVCCDLSKLTGCKGKGGECNPLDRQCKELQAESASCGKGQKCCVWL

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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The Resolver thinks Pdb

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Time for openFile(/file/5cff7b10a34e31529bb9fe7e/pdb.gz): 986 ms

reading 74 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

74 atoms created

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

Time for creating model: 16 ms

Adding embedded #jmolscript: select ({0:73});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/hydrolase inhibitor
source organism	Rhipicephalus bursa
publication title	Insights into the molecular inactivation mechanism of human activated thrombin-activatable fibrinolysis inhibitor pubmed doi rcsb
molecule keywords	Carboxypeptidase B2
total genus	18
structure length	74
sequence length	74
ec nomenclature
pdb deposition date	2010-02-01

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

cath code	Class	Architecture	Topology	Homology	Domain
2.20.20.10	Mainly Beta	Single Sheet	Anthopleurin-A	Anthopleurin-A	3lmsB02
2.20.20.50	Mainly Beta	Single Sheet	Anthopleurin-A	Anthopleurin-A	3lmsB01

1ATXA 1WXNA 1SH1A 2MN3A 2BDSA 2RNGA 1Z99A 1D6BA 2JTOA 3D4UB 1ZLIB 2K2XA 2SH1A 1B8WA 1APFA 3LMSB 1SHIA 1ZUFA 1BDSA 4GV5A 1ZLHB 1ZUEA 2H9XA 1AHLA 2MUBA 1WQKA 1H5OA
chains in the Genus database with same CATH superfamily

2DLAA 2QSFA 2HJEA 1ATXA 1WXNA 1EL6A 1SH1A 2MN3A 2BDSA 2XXLA 3KEZA 2IKEA 1Z99A 2RNGA 3C38A 2JR3A 3MYVA 4YIRA 3IF4A 2B9KA 1D6BA 2JTOA 2QSGA 2QSHA 3D4UB 1ZLIB 2K2XA 2SH1A 1B8WA 3C30A 1APFA 1GKUB 3LMSB 2HJ9C 1SHIA 1ZUFA 1BDSA 4GV5A 1ZLHB 1ZUEA 1ZHHB 2H9XA 1AHLA 2MUBA 1GL9B 3MCXA 1WQKA 2IKDA 1H5OA
chains in the Genus database with same CATH topology

2DLAA 2QSFA 2HJEA 1ATXA 1WXNA 1SH1A 2MN3A 2BDSA 2XXLA 3KEZA 2IKEA 1Z99A 2RNGA 3C38A 2JR3A 3MYVA 4YIRA 2B9KA 1D6BA 2JTOA 2QSGA 2QSHA 3D4UB 1ZLIB 2K2XA 2SH1A 1B8WA 3C30A 1APFA 3LMSB 2HJ9C 1SHIA 1ZUFA 1BDSA 4GV5A 1ZLHB 1ZUEA 1ZHHB 2H9XA 1AHLA 2MUBA 3MCXA 1WQKA 2IKDA 1H5OA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 1ATX A;  1WXN A;  1SH1 A;  2MN3 A;  2BDS A;  2RNG A;  1Z99 A;  1D6B A;  2JTO A;  3D4U B;  1ZLI B;  2K2X A;  2SH1 A;  1B8W A;  1APF A;  3LMS B;  1SHI A;  1ZUF A;  1BDS A;  4GV5 A;  1ZLH B;  1ZUE A;  2H9X A;  1AHL A;  2MUB A;  1WQK A;  1H5O A; 
#chains in the Genus database with same CATH topology
 2DLA A;  2QSF A;  2HJE A;  1ATX A;  1WXN A;  1EL6 A;  1SH1 A;  2MN3 A;  2BDS A;  2XXL A;  3KEZ A;  2IKE A;  1Z99 A;  2RNG A;  3C38 A;  2JR3 A;  3MYV A;  4YIR A;  3IF4 A;  2B9K A;  1D6B A;  2JTO A;  2QSG A;  2QSH A;  3D4U B;  1ZLI B;  2K2X A;  2SH1 A;  1B8W A;  3C30 A;  1APF A;  1GKU B;  3LMS B;  2HJ9 C;  1SHI A;  1ZUF A;  1BDS A;  4GV5 A;  1ZLH B;  1ZUE A;  1ZHH B;  2H9X A;  1AHL A;  2MUB A;  1GL9 B;  3MCX A;  1WQK A;  2IKD A;  1H5O A; 
#chains in the Genus database with same CATH homology
 2DLA A;  2QSF A;  2HJE A;  1ATX A;  1WXN A;  1SH1 A;  2MN3 A;  2BDS A;  2XXL A;  3KEZ A;  2IKE A;  1Z99 A;  2RNG A;  3C38 A;  2JR3 A;  3MYV A;  4YIR A;  2B9K A;  1D6B A;  2JTO A;  2QSG A;  2QSH A;  3D4U B;  1ZLI B;  2K2X A;  2SH1 A;  1B8W A;  3C30 A;  1APF A;  3LMS B;  2HJ9 C;  1SHI A;  1ZUF A;  1BDS A;  4GV5 A;  1ZLH B;  1ZUE A;  1ZHH B;  2H9X A;  1AHL A;  2MUB A;  3MCX A;  1WQK A;  2IKD A;  1H5O 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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3LMSB

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN