1F04 | Genus

Total Genus 16

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	16
sequence length	82
structure length	82
Chain Sequence	AVKYYTLEEIQKHNNSKSTWLILHYKVYDLTKFLEEHPGGEAVLRAQAGGDATANFEAVGHSTDARELSKTFIIGELHPDDR

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/5d29abd947e4f93811b11390/pdb.gz): 1046 ms

reading 82 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

82 atoms created

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

Time for creating model: 16 ms

Adding embedded #jmolscript: select ({0:81});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	Electron transport
source organism	Bos taurus
publication title	Solution structure of cytochrome b(5) mutant (E44/48/56A/D60A) and its interaction with cytochrome c. pubmed doi rcsb
molecule keywords	CYTOCHROME B5
total genus	16
structure length	82
sequence length	82
ec nomenclature
pdb deposition date	2000-05-14

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00173	Cyt-b5	Cytochrome b5-like Heme/Steroid binding domain

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

cath code	Class	Architecture	Topology	Homology	Domain
3.10.120.10	Alpha Beta	Roll	Flavocytochrome B2; Chain A, domain 1	Cytochrome b5-like heme/steroid binding domain	1f04A00

1I8CA 3X35A 1JEXA 1EHBA 1F04A 1I5UA 1J0QA 1SOXA 3NERA 1U9UA 2AXXA 3X33A 1B5BA 1KBIA 2M33A 3LF5A 1LJ0A 2OZ0A 1LTDA 1MJ4A 1ICCA 1M2MA 3MUSA 1T0GA 4HINA 1BLVA 1DO9A 1EUEA 1LDCA 1F03A 1LCOA 1AW3A 1AQAA 1X3XA 3X34A 1J03A 1MNYA 1M20A 1NX7A 1HKOA 2KEOA 1CYOA 1IETA 1BFXA 1IEUA 1U9MA 1CXYA 1ES1A 4X8YA 1B5AA 4B8NA 1AXXA 1FCBA 1M59A 2I89A 1LQXA 4HILA 1I87A 1M2IA 1LR6A 1B5MA 3KS0A 3OZZB 1IB7A 2IBJA 1AWPA 2I96A 1SH4A 3X32A
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 1I8C A;  3X35 A;  1JEX A;  1EHB A;  1F04 A;  1I5U A;  1J0Q A;  1SOX A;  3NER A;  1U9U A;  2AXX A;  3X33 A;  1B5B A;  1KBI A;  2M33 A;  3LF5 A;  1LJ0 A;  2OZ0 A;  1LTD A;  1MJ4 A;  1ICC A;  1M2M A;  3MUS A;  1T0G A;  4HIN A;  1BLV A;  1DO9 A;  1EUE A;  1LDC A;  1F03 A;  1LCO A;  1AW3 A;  1AQA A;  1X3X A;  3X34 A;  1J03 A;  1MNY A;  1M20 A;  1NX7 A;  1HKO A;  2KEO A;  1CYO A;  1IET A;  1BFX A;  1IEU A;  1U9M A;  1CXY A;  1ES1 A;  4X8Y A;  1B5A A;  4B8N A;  1AXX A;  1FCB A;  1M59 A;  2I89 A;  1LQX A;  4HIL A;  1I87 A;  1M2I A;  1LR6 A;  1B5M A;  3KS0 A;  3OZZ B;  1IB7 A;  2IBJ A;  1AWP A;  2I96 A;  1SH4 A;  3X32 A; 
#chains in the Genus database with same CATH topology
 1I8C A;  3X35 A;  1JEX A;  1EHB A;  1F04 A;  1I5U A;  1J0Q A;  1SOX A;  3NER A;  1U9U A;  2AXX A;  3X33 A;  1B5B A;  1KBI A;  2M33 A;  3LF5 A;  1LJ0 A;  2OZ0 A;  1LTD A;  1MJ4 A;  1ICC A;  1M2M A;  3MUS A;  1T0G A;  4HIN A;  1BLV A;  1DO9 A;  1EUE A;  1LDC A;  1F03 A;  1LCO A;  1AW3 A;  1AQA A;  1X3X A;  3X34 A;  1J03 A;  1MNY A;  1M20 A;  1NX7 A;  1HKO A;  2KEO A;  1CYO A;  1IET A;  1BFX A;  1IEU A;  1U9M A;  1CXY A;  1ES1 A;  4X8Y A;  1B5A A;  4B8N A;  1AXX A;  1FCB A;  1M59 A;  2I89 A;  1LQX A;  4HIL A;  1I87 A;  1M2I A;  1LR6 A;  1B5M A;  3KS0 A;  3OZZ B;  1IB7 A;  2IBJ A;  1AWP A;  2I96 A;  1SH4 A;  3X32 A; 
#chains in the Genus database with same CATH homology
 1I8C A;  3X35 A;  1JEX A;  1EHB A;  1F04 A;  1I5U A;  1J0Q A;  1SOX A;  3NER A;  1U9U A;  2AXX A;  3X33 A;  1B5B A;  1KBI A;  2M33 A;  3LF5 A;  1LJ0 A;  2OZ0 A;  1LTD A;  1MJ4 A;  1ICC A;  1M2M A;  3MUS A;  1T0G A;  4HIN A;  1BLV A;  1DO9 A;  1EUE A;  1LDC A;  1F03 A;  1LCO A;  1AW3 A;  1AQA A;  1X3X A;  3X34 A;  1J03 A;  1MNY A;  1M20 A;  1NX7 A;  1HKO A;  2KEO A;  1CYO A;  1IET A;  1BFX A;  1IEU A;  1U9M A;  1CXY A;  1ES1 A;  4X8Y A;  1B5A A;  4B8N A;  1AXX A;  1FCB A;  1M59 A;  2I89 A;  1LQX A;  4HIL A;  1I87 A;  1M2I A;  1LR6 A;  1B5M A;  3KS0 A;  3OZZ B;  1IB7 A;  2IBJ A;  1AWP A;  2I96 A;  1SH4 A;  3X32 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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1F04A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations