3L88 | Genus

Total Genus 35

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	35
sequence length	191
structure length	183
Chain Sequence	INTLWTGIKPPPNCQIVENTDTNDGKLTLVLVKNGGLVNGYVSLVGVSDTVNQMFTQKSATIQLRLYFDSSGNLLTDESNLKIPLKNKSSSSKAFMPSTTAYPFNTTTRDSENYIHGICYYMTSYDRSLVPLNISIMLNSRTISSNVAYAIQFEWNLNAKESPESNIATLTTSPFFFSYIRED

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/5cff6f15610639aa5bf0ee12/pdb.gz): 1064 ms

reading 183 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

183 atoms created

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

Time for creating model: 20 ms

Adding embedded #jmolscript: select ({0:182});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	Viral protein
source organism	Human adenovirus 21
publication title	Structure of adenovirus type 21 knob in complex with CD46 reveals key differences in receptor contacts among species B adenoviruses. pubmed doi rcsb
molecule keywords	Fiber protein
total genus	35
structure length	183
sequence length	191
chains with identical sequence	B, C, D, E, F, G, H, I, J, K, L
ec nomenclature
pdb deposition date	2009-12-30

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00541	Adeno_knob	Adenoviral fibre protein (knob domain)

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

cath code	Class	Architecture	Topology	Homology	Domain
2.60.90.10	Mainly Beta	Sandwich	Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)	Adenovirus pIV-related, attachment domain	3l88A00

2J1KC 3BQ4A 2WBVA 4K6VA 4WYJA 2QLKA 2WBWA 4XQBA 1KNBA 1UXBA 1QIUA 3L89A 2WSTA 3F0YA 2BZVA 2J2JA 4K6WA 1H7ZA 4ZDGA 2O39A 4ATZA 1KACA 4K6UA 3L88A 3CNCA 2W9LC 1P6AA 2WGTA 3EXVA 3N0IA 1QHVA 3EXWA 4K6TA 2WGUA 1UXEA 4XL8A 2J12A 4XQAA 1NOBA 1UXAA 2BZUA 4LIYA 3O8EA 1P69A 3QNDA
chains in the Genus database with same CATH superfamily

2J1KC 4GU3A 3BQ4A 1KKEA 2WBVA 4K6VA 4ODBA 4WYJA 2QLKA 4XC5A 2WBWA 4GU4A 4XQBA 2OJ5A 1KNBA 1UXBA 1QIUA 3L89A 4CW8A 4D63A 3S6XA 2BT7A 2WSTA 3F0YA 2BZVA 2J2JA 3ZPEA 4K6WA 4D62A 2BSFA 1H7ZA 2VTWA 2O39A 4ZDGA 4ATZA 1KACA 4K6UA 2IUNA 2BT8A 3L88A 3CNCA 2W9LC 1P6AA 2WGTA 3EXVA 3N0IA 1QHVA 3EXWA 4K6TA 2IUMA 2WGUA 1UXEA 2VRSA 4XL8A 3ZPFA 2OJ6A 2J12A 2JJLA 4XQAA 1NOBA 1UXAA 2BZUA 4LIYA 3O8EA 1P69A 3QNDA 5MHSA 3EOYA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 2J1K C;  3BQ4 A;  2WBV A;  4K6V A;  4WYJ A;  2QLK A;  2WBW A;  4XQB A;  1KNB A;  1UXB A;  1QIU A;  3L89 A;  2WST A;  3F0Y A;  2BZV A;  2J2J A;  4K6W A;  1H7Z A;  4ZDG A;  2O39 A;  4ATZ A;  1KAC A;  4K6U A;  3L88 A;  3CNC A;  2W9L C;  1P6A A;  2WGT A;  3EXV A;  3N0I A;  1QHV A;  3EXW A;  4K6T A;  2WGU A;  1UXE A;  4XL8 A;  2J12 A;  4XQA A;  1NOB A;  1UXA A;  2BZU A;  4LIY A;  3O8E A;  1P69 A;  3QND A; 
#chains in the Genus database with same CATH topology
 2J1K C;  4GU3 A;  3BQ4 A;  1KKE A;  2WBV A;  4K6V A;  4ODB A;  4WYJ A;  2QLK A;  4XC5 A;  2WBW A;  4GU4 A;  4XQB A;  2OJ5 A;  1KNB A;  1UXB A;  1QIU A;  3L89 A;  4CW8 A;  4D63 A;  3S6X A;  2BT7 A;  2WST A;  3F0Y A;  2BZV A;  2J2J A;  3ZPE A;  4K6W A;  4D62 A;  2BSF A;  1H7Z A;  2VTW A;  2O39 A;  4ZDG A;  4ATZ A;  1KAC A;  4K6U A;  2IUN A;  2BT8 A;  3L88 A;  3CNC A;  2W9L C;  1P6A A;  2WGT A;  3EXV A;  3N0I A;  1QHV A;  3EXW A;  4K6T A;  2IUM A;  2WGU A;  1UXE A;  2VRS A;  4XL8 A;  3ZPF A;  2OJ6 A;  2J12 A;  2JJL A;  4XQA A;  1NOB A;  1UXA A;  2BZU A;  4LIY A;  3O8E A;  1P69 A;  3QND A;  5MHS A;  3EOY A; 
#chains in the Genus database with same CATH homology
 2J1K C;  3BQ4 A;  2WBV A;  4K6V A;  4WYJ A;  2QLK A;  2WBW A;  4XQB A;  1KNB A;  1UXB A;  1QIU A;  3L89 A;  2WST A;  3F0Y A;  2BZV A;  2J2J A;  4K6W A;  1H7Z A;  4ZDG A;  2O39 A;  4ATZ A;  1KAC A;  4K6U A;  3L88 A;  3CNC A;  2W9L C;  1P6A A;  2WGT A;  3EXV A;  3N0I A;  1QHV A;  3EXW A;  4K6T A;  2WGU A;  1UXE A;  4XL8 A;  2J12 A;  4XQA A;  1NOB A;  1UXA A;  2BZU A;  4LIY A;  3O8E A;  1P69 A;  3QND 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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3L88A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations