2LPI | Genus

Total Genus 48

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	48
sequence length	137
structure length	137
Chain Sequence	GSGNSHTTPWTNPGLAENFMNSFMQGLSSMPGFTASQLDDMSTIAQSMVQSIQSLAAQGRTSPNKLQALNMRFASSMAEIAASEEGGGSLSTKTSSIASAMSNAFLQTTGVVNQPFINEITQLVSMFAQAGMNDVSA

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/5cfd502490fea93bf241b5f0/pdb.gz): 1200 ms

reading 137 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

137 atoms created

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

Time for creating model: 20 ms

Adding embedded #jmolscript: select ({0:136});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	Structural protein
source organism	Euprosthenops australis
publication title	pH-Dependent Dimerization of Spider Silk N-Terminal Domain Requires Relocation of a Wedged Tryptophan Side Chain. pubmed doi rcsb
molecule keywords	Major ampullate spidroin 1
total genus	48
structure length	137
sequence length	137
ec nomenclature
pdb deposition date	2012-02-14

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF16763	Spidroin_N	Major ampullate spidroin 1, spider silk protein 1, N-term

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

cath code	Class	Architecture	Topology	Homology	Domain
1.10.274.70	Mainly Alpha	Orthogonal Bundle	Enzyme I; Chain A, domain 2	Enzyme I; Chain A, domain 2	2lpiA01

3LR8A 2N3EA 3LR6A 2MX8A 3LR2A 2MX9A 2LPJA 2LPIA 3LRDA 2K3QA 2LTHA 5IZ2A 4FBSA
chains in the Genus database with same CATH superfamily

2R7ZA 4CEIA 2JA7A 1IW7D 1Y1VA 3GTGA 4CQ5A 1SMYD 2FIOA 1TWCA 2A6ED 2HROA 1YNND 2LTHA 1T6JA 2EZCA 2MP0A 2R93A 3LR8A 3U4QA 1ZYMA 2MX8A 3GTKA 2LPJA 2A6HD 2YIIA 3NZ4A 4C2MA 2X0PA 3LR6A 3GTLA 3GTOA 2JA6A 1TWFA 2F5JA 2BE5D 1TWHA 3U44A 2X0QA 4V2QA 2EZAA 3H0GA 2O5JD 1T6PA 4C5SA 2K3NA 4C5UA 4QIWA 3CQZA 3LRDA 2FIPA 4BABA 3EZBA 2NVYA 2A69D 4FBSA 2X0OA 2EZBA 3GTQA 3LR2A 2MQAA 2K3OA 1HQMD 1W27A 4CEHA 2N3EA 3GTMA 1SFOA 4C6GA 2NVXA 3EZAA 2JA5A 2B63A 1I50A 2E2IA 2K3QA 2E2HA 1EZBA 2R92A 1ZYRD 4C5RA 1I3QA 5IZ2A 1K83A 1TWGA 3GTJA 1EZAA 2VUMA 2MX9A 2HWGA 2CW0D 3GTPA 1Y1WA 2VK9A 2LYIA 1Y2MA 4V2RA 2N1DB 3EZEA 1TWAA 3FKIA 2LPIA 4CEJA 2LKMB 1R9TA 1YNJD 4BAAA 2A68D 2Y0NA 2AQLA 1WCMA 2YU9A 1I6VD
chains in the Genus database with same CATH topology

2R7ZA 4CEIA 2JA7A 1IW7D 1Y1VA 3GTGA 1SMYD 2FIOA 1TWCA 2A6ED 1YNND 2LTHA 2R93A 3LR8A 3U4QA 2MX8A 3GTKA 2LPJA 2A6HD 4C2MA 2X0PA 3LR6A 3GTOA 3GTLA 2JA6A 1TWFA 2F5JA 2BE5D 1TWHA 3U44A 2X0QA 3H0GA 2O5JD 2K3NA 4QIWA 3CQZA 3LRDA 2FIPA 2NVYA 2A69D 4FBSA 2X0OA 3GTQA 3LR2A 2MQAA 2K3OA 1HQMD 4CEHA 2N3EA 3GTMA 1SFOA 2NVXA 2JA5A 2B63A 1I50A 2E2IA 2K3QA 2E2HA 2R92A 1ZYRD 1I3QA 1K83A 5IZ2A 1TWGA 3GTJA 2VUMA 2MX9A 2CW0D 3GTPA 1Y1WA 2VK9A 2LYIA 2N1DB 1TWAA 3FKIA 2LPIA 4CEJA 2LKMB 1R9TA 1YNJD 2A68D 2Y0NA 2AQLA 1WCMA 2YU9A 1I6VD
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 3LR8 A;  2N3E A;  3LR6 A;  2MX8 A;  3LR2 A;  2MX9 A;  2LPJ A;  2LPI A;  3LRD A;  2K3Q A;  2LTH A;  5IZ2 A;  4FBS A; 
#chains in the Genus database with same CATH topology
 2R7Z A;  4CEI A;  2JA7 A;  1IW7 D;  1Y1V A;  3GTG A;  4CQ5 A;  1SMY D;  2FIO A;  1TWC A;  2A6E D;  2HRO A;  1YNN D;  2LTH A;  1T6J A;  2EZC A;  2MP0 A;  2R93 A;  3LR8 A;  3U4Q A;  1ZYM A;  2MX8 A;  3GTK A;  2LPJ A;  2A6H D;  2YII A;  3NZ4 A;  4C2M A;  2X0P A;  3LR6 A;  3GTL A;  3GTO A;  2JA6 A;  1TWF A;  2F5J A;  2BE5 D;  1TWH A;  3U44 A;  2X0Q A;  4V2Q A;  2EZA A;  3H0G A;  2O5J D;  1T6P A;  4C5S A;  2K3N A;  4C5U A;  4QIW A;  3CQZ A;  3LRD A;  2FIP A;  4BAB A;  3EZB A;  2NVY A;  2A69 D;  4FBS A;  2X0O A;  2EZB A;  3GTQ A;  3LR2 A;  2MQA A;  2K3O A;  1HQM D;  1W27 A;  4CEH A;  2N3E A;  3GTM A;  1SFO A;  4C6G A;  2NVX A;  3EZA A;  2JA5 A;  2B63 A;  1I50 A;  2E2I A;  2K3Q A;  2E2H A;  1EZB A;  2R92 A;  1ZYR D;  4C5R A;  1I3Q A;  5IZ2 A;  1K83 A;  1TWG A;  3GTJ A;  1EZA A;  2VUM A;  2MX9 A;  2HWG A;  2CW0 D;  3GTP A;  1Y1W A;  2VK9 A;  2LYI A;  1Y2M A;  4V2R A;  2N1D B;  3EZE A;  1TWA A;  3FKI A;  2LPI A;  4CEJ A;  2LKM B;  1R9T A;  1YNJ D;  4BAA A;  2A68 D;  2Y0N A;  2AQL A;  1WCM A;  2YU9 A;  1I6V D; 
#chains in the Genus database with same CATH homology
 2R7Z A;  4CEI A;  2JA7 A;  1IW7 D;  1Y1V A;  3GTG A;  1SMY D;  2FIO A;  1TWC A;  2A6E D;  1YNN D;  2LTH A;  2R93 A;  3LR8 A;  3U4Q A;  2MX8 A;  3GTK A;  2LPJ A;  2A6H D;  4C2M A;  2X0P A;  3LR6 A;  3GTO A;  3GTL A;  2JA6 A;  1TWF A;  2F5J A;  2BE5 D;  1TWH A;  3U44 A;  2X0Q A;  3H0G A;  2O5J D;  2K3N A;  4QIW A;  3CQZ A;  3LRD A;  2FIP A;  2NVY A;  2A69 D;  4FBS A;  2X0O A;  3GTQ A;  3LR2 A;  2MQA A;  2K3O A;  1HQM D;  4CEH A;  2N3E A;  3GTM A;  1SFO A;  2NVX A;  2JA5 A;  2B63 A;  1I50 A;  2E2I A;  2K3Q A;  2E2H A;  2R92 A;  1ZYR D;  1I3Q A;  1K83 A;  5IZ2 A;  1TWG A;  3GTJ A;  2VUM A;  2MX9 A;  2CW0 D;  3GTP A;  1Y1W A;  2VK9 A;  2LYI A;  2N1D B;  1TWA A;  3FKI A;  2LPI A;  4CEJ A;  2LKM B;  1R9T A;  1YNJ D;  2A68 D;  2Y0N A;  2AQL A;  1WCM A;  2YU9 A;  1I6V D;

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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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2LPIA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations