3LRD | Genus

Total Genus 54

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	54
sequence length	129
structure length	129
Chain Sequence	HTTPWTNPGLAENFMNSFMQGLSSMPGFTASQLDNMSTIAQSMVQSIQSLAAQGRTSPNKLQALNMAFASSMAEIAASQEGGGSLSTKTSSIASAMSNAFLQTTGVVNQPFINEITQLVSMFAQAGMND

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/5cff7df2a34e31529bb9ff00/pdb.gz

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The Resolver thinks Pdb

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Time for openFile(/file/5cff7df2a34e31529bb9ff00/pdb.gz): 1043 ms

reading 129 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

129 atoms created

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

Time for creating model: 18 ms

Adding embedded #jmolscript: select ({0:128});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	Self-assembly of spider silk proteins is controlled by a pH-sensitive relay. pubmed doi rcsb
molecule keywords	Major ampullate spidroin 1
total genus	54
structure length	129
sequence length	129
chains with identical sequence	B
ec nomenclature
pdb deposition date	2010-02-11

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	3lrdA01

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

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations