6GEP | Genus

Total Genus 159

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	159
sequence length	490
structure length	456
Chain Sequence	LLRCRLPGGVITTKQWQAIDKFAGENTIYGSIRLTNRQTFQFHGILPVHQMLHSVGLDALNDMNRNVLCTSNPYESQLHAEAYEWAKKISEHLLPTYLPRKFKTTVVIPPQNDIDLHANDMNFVAIAENGKLVGFNLLVGGGLSIEHGNKKTYARTASEFGYLPLEHTLAVAEAVVTTQRDWGNRTDRKNAKTKYTLERVGVETFKAEVERRAGIKFEPIRPYEFTGRGDRIGWVKGIDDNWHLTLFIENGRILDYPARPLKTGLLEIAKIHKGDFRITANQNLIIAGVPESEKAKIEKIAKESGLMNAVTPQRENSMACVSFPTCPLAMAEAERFLPSFIDNIDNLMAKHGVSDEHIVMRVTGCPNGCGRAMLAEVGLVGKAPGRYNLHLGGNRIGTRIPRMYKENITEPEILASLDELIGRWAKEREAGEGFGDFTVRAGIIRPVLDPARDLWD

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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/5d0814ce72cda3852807b7cd/pdb.gz): 1291 ms

reading 456 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

456 atoms created

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

Time for creating model: 29 ms

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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
source organism	Escherichia coli
publication title	Probing the catalytic mechanism of sulfite reductase by X-ray crystallography: structures of the Escherichia coli hemoprotein in complex with substrates, inhibitors, intermediates, and products. pubmed doi rcsb
molecule keywords	SULFITE REDUCTASE HEMOPROTEIN
total genus	159
structure length	456
sequence length	490
ec nomenclature	ec 1.8.1.2: Assimilatory sulfite reductase (NADPH).
pdb deposition date	1997-07-10

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	6gepA01
3.30.413.10	Alpha Beta	2-Layer Sandwich	Sulfite Reductase Hemoprotein; domain 1	Sulfite Reductase Hemoprotein, domain 1	6gepA03
3.90.480.10	Alpha Beta	Alpha-Beta Complex	Sulfite Reductase Hemoprotein; domain 2	Sulfite Reductase Hemoprotein;Domain 2	6gepA02

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations