4HTR | Genus

Total Genus 155

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	155
sequence length	488
structure length	441
Chain Sequence	RCRLPGGVITTKQWQAIDKFAGENTIYGSIRLTNRQTFQFHGILPVHQMLHSVGLDAMNRNVLCTSNPYESQLHAEAYEWAKKISEHLLPKFKTTVVIPPQNDIDLHANDMNFVAIAENGKLVGFNLLVGGGLSIEHGNKKTYARTASEFGYLPLEHTLAVAEAVVTTQRDWGNNAKTKYTLERVGVETFKAEVERRAGIKFEPIRPYEFTGRGDRIGWVKGIDDNWHLTLFIENGRILDYPARPLKTGLLEIAKIHKGDFRITANQNLIIAGVPESEKAKIEKIAKESGLMNAVTPQRENSMACVSFPTCPLAMAEAERFLPSFIDNIDNLMAKHGVSDEHIVMRVTGCPNGCGRAMLAEVGLVGKAPGRYNLHLGGNRIGTRIPRMYKENITEPEILASLDELIGRWAKEREAGEGFGDFTVRAGIIRPVLDPARDLWD

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/5d03c4fdf746e33213ea97f5/pdb.gz): 1175 ms

reading 441 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

441 atoms created

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

Time for creating model: 29 ms

Adding embedded #jmolscript: select ({0:440});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	Oxidoreductase/substrate
source organism	Escherichia coli
publication title	Mutational analysis of sulfite reductase hemoprotein reveals the mechanism for coordinated electron and proton transfer. pubmed doi rcsb
molecule keywords	Sulfite reductase [NADPH] hemoprotein beta-component
total genus	155
structure length	441
sequence length	488
ec nomenclature	ec 1.8.1.2: Assimilatory sulfite reductase (NADPH).
pdb deposition date	2012-11-01

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01077	NIR_SIR	Nitrite and sulphite reductase 4Fe-4S domain
A	PF03460	NIR_SIR_ferr	Nitrite/Sulfite reductase ferredoxin-like half domain

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

cath code	Class	Architecture	Topology	Homology	Domain
3.30.413.10	Alpha Beta	2-Layer Sandwich	Sulfite Reductase Hemoprotein; domain 1	Sulfite Reductase Hemoprotein, domain 1	4htrA02
3.30.413.10	Alpha Beta	2-Layer Sandwich	Sulfite Reductase Hemoprotein; domain 1	Sulfite Reductase Hemoprotein, domain 1	4htrA03
3.90.480.10	Alpha Beta	Alpha-Beta Complex	Sulfite Reductase Hemoprotein; domain 2	Sulfite Reductase Hemoprotein;Domain 2	4htrA01

8GEPA 2Y0FA 4G9PA 1ZJ9A 7GEPA 2AKJA 4S38A 2XSJB 2XSJA 4S3BA 3MMCB 5GEPA 3MMAB 3MMAA 3MM8B 3MM8A 4S3EA 3MMCA 3VKTA 3B0HA 2GEPA 1AOPA 3B0MA 3GEOA 3B0NA 3MM9B 4G38A 4S3FA 6GEPA 3MM9A 2V4JA 2V4JB 4S3CA 3MM7B 3MM7A 4S3DA 4S3AA 4S39A 3B0JA 3VKSA 3MMBB 3MM5B 3B0LA 3MM5A 3MMBA 3AOPA 4S23A 3VKPA 3OR2A 3NOYA 3OR2B 3VLYA 5AOPA 4HTRA 4AOPA 3MM6B 3MM6A 2AOPA 3OR1A 3OR1B 3B0GA 4G39A 3VKQA 3VLZA 3VM0A 3VKRA 3VLXA 1ZJ8A 4GEPA 3VM1A
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 8GEP A;  2Y0F A;  4G9P A;  1ZJ9 A;  7GEP A;  2AKJ A;  4S38 A;  2XSJ B;  2XSJ A;  4S3B A;  3MMC B;  5GEP A;  3MMA B;  3MMA A;  3MM8 B;  3MM8 A;  4S3E A;  3MMC A;  3VKT A;  3B0H A;  2GEP A;  1AOP A;  3B0M A;  3GEO A;  3B0N A;  3MM9 B;  4G38 A;  4S3F A;  6GEP A;  3MM9 A;  2V4J A;  2V4J B;  4S3C A;  3MM7 B;  3MM7 A;  4S3D A;  4S3A A;  4S39 A;  3B0J A;  3VKS A;  3MMB B;  3MM5 B;  3B0L A;  3MM5 A;  3MMB A;  3AOP A;  4S23 A;  3VKP A;  3OR2 A;  3NOY A;  3OR2 B;  3VLY A;  5AOP A;  4HTR A;  4AOP A;  3MM6 B;  3MM6 A;  2AOP A;  3OR1 A;  3OR1 B;  3B0G A;  4G39 A;  3VKQ A;  3VLZ A;  3VM0 A;  3VKR A;  3VLX A;  1ZJ8 A;  4GEP A;  3VM1 A; 
#chains in the Genus database with same CATH topology
 8GEP A;  2Y0F A;  4G9P A;  1ZJ9 A;  7GEP A;  2AKJ A;  4S38 A;  2XSJ B;  2XSJ A;  4S3B A;  3MMC B;  5GEP A;  3MMA B;  3MMA A;  3MM8 B;  3MM8 A;  4S3E A;  3MMC A;  3VKT A;  3B0H A;  2GEP A;  1AOP A;  3B0M A;  3GEO A;  3B0N A;  3MM9 B;  4G38 A;  4S3F A;  6GEP A;  3MM9 A;  2V4J A;  2V4J B;  4S3C A;  3MM7 B;  3MM7 A;  4S3D A;  4S3A A;  4S39 A;  3B0J A;  3VKS A;  3MMB B;  3MM5 B;  3B0L A;  3MM5 A;  3MMB A;  3AOP A;  4S23 A;  3VKP A;  3OR2 A;  3NOY A;  3OR2 B;  3VLY A;  5AOP A;  4HTR A;  4AOP A;  3MM6 B;  3MM6 A;  2AOP A;  3OR1 A;  3OR1 B;  3B0G A;  4G39 A;  3VKQ A;  3VLZ A;  3VM0 A;  3VKR A;  3VLX A;  1ZJ8 A;  4GEP A;  3VM1 A; 
#chains in the Genus database with same CATH homology
 8GEP A;  2Y0F A;  4G9P A;  1ZJ9 A;  7GEP A;  2AKJ A;  4S38 A;  2XSJ B;  2XSJ A;  4S3B A;  3MMC B;  5GEP A;  3MMA B;  3MMA A;  3MM8 B;  3MM8 A;  4S3E A;  3MMC A;  3VKT A;  3B0H A;  2GEP A;  1AOP A;  3B0M A;  3GEO A;  3B0N A;  3MM9 B;  4G38 A;  4S3F A;  6GEP A;  3MM9 A;  2V4J A;  2V4J B;  4S3C A;  3MM7 B;  3MM7 A;  4S3D A;  4S3A A;  4S39 A;  3B0J A;  3VKS A;  3MMB B;  3MM5 B;  3B0L A;  3MM5 A;  3MMB A;  3AOP A;  4S23 A;  3VKP A;  3OR2 A;  3NOY A;  3OR2 B;  3VLY A;  5AOP A;  4HTR A;  4AOP A;  3MM6 B;  3MM6 A;  2AOP A;  3OR1 A;  3OR1 B;  3B0G A;  4G39 A;  3VKQ A;  3VLZ A;  3VM0 A;  3VKR A;  3VLX A;  1ZJ8 A;  4GEP A;  3VM1 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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4HTRA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations