2AKJA

Structure of spinach nitrite reductase
Total Genus 175

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
175
sequence length
535
structure length
535
Chain Sequence
RLEPRVEERDGFWVLKEEFRSGINPAEKVKIEKDPMKLFIEDGISDLATLSMEEVDKSKHNKDDIDVRLKWLGLFHRRKHHYGRFMMRLKLPNGVTTSEQTRYLASVIKKYGKDGCADVTTRQNWQIRGVVLPDVPEIIKGLESVGLTSLQSGMDNVRNPVGNPLAGIDPHEIVDTRPFTNLISQFVTANSRGNLSITNLPRKWNPCVIGSHDLYEHPHINDLAYMPATKNGKFGFNLLVGGFFSIKRCEEAIPLDAWVSAEDVVPVCKAMLEAFRDLGFRGNRQKCRMMWLIDELGMEAFRGEVEKRMPEQVLERASSEELVQKDWERREYLGVHPQKQQGLSFVGLHIPVGRLQADEMEELARIADVYGSGELRLTVEQNIIIPNVENSKIDSLLNEPLLKERYSPEPPILMKGLVACTGSQFCGQAIIETKARALKVTEEVQRLVSVTRPVRMHWTGCPNSCGQVQVADIGFMGCMTRDENGKPCEGADVFVGGRIGSDSHLGDIYKKAVPCKDLVPVVAEILINQFGAVPR

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

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
molecule tags Oxidoreductase
source organism Spinacia oleracea
publication title Structure of Spinach Nitrite Reductase: Implications for Multi-electron Reactions by the Iron-Sulfur:Siroheme Cofactor
pubmed doi rcsb
molecule keywords Ferredoxin--nitrite reductase, chloroplast
total genus 175
structure length 535
sequence length 535
ec nomenclature ec 1.7.7.1: Ferredoxin--nitrite reductase.
pdb deposition date 2005-08-03

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
ClassArchitectureTopologyHomologyDomain
3.30.413.10 Alpha Beta 2-Layer Sandwich Sulfite Reductase Hemoprotein; domain 1 Sulfite Reductase Hemoprotein, domain 1 2akjA02
3.30.413.10 Alpha Beta 2-Layer Sandwich Sulfite Reductase Hemoprotein; domain 1 Sulfite Reductase Hemoprotein, domain 1 2akjA03
3.90.480.20 Alpha Beta Alpha-Beta Complex Sulfite Reductase Hemoprotein; domain 2 Sulfite Reductase Hemoprotein; domain 2 2akjA01
3MM5A 3VKPA 2Y0FA 3MMBA 4S3FA 3MM9A 3MM8A 2XSJB 1AOPA 4AOPA 4S3DA 3AOPA 4HTRA 2XSJA 2AOPA 3B0NA 3MMAB 5AOPA 3B0JA 3MMAA 2AKJA 3OR1B 4S3CA 3OR2B 3VKRA 3B0MA 4GEPA 3OR1A 3OR2A 2V4JB 3MMCB 3B0LA 3VM1A 6GEPA 3VLZA 4S3EA 3NOYA 4S39A 5GEPA 2V4JA 3MM6B 3B0GA 3MMCA 4G38A 4S3AA 3VKQA 3VKSA 3VKTA 3MM6A 2GEPA 3VM0A 4G9PA 3GEOA 4S3BA 4G39A 1ZJ8A 3VLXA 3B0HA 4S23A 4S38A 8GEPA 3MM9B 1ZJ9A 3MM7B 3VLYA 7GEPA 3MM5B 3MM7A 3MMBB 3MM8B
chains in the Genus database with same CATH superfamily
3MM5A 3VKPA 2Y0FA 3MMBA 4S3FA 3MM9A 3MM8A 2XSJB 1AOPA 4AOPA 4S3DA 3AOPA 4HTRA 2XSJA 2AOPA 3B0NA 3MMAB 5AOPA 3B0JA 3MMAA 2AKJA 3OR1B 4S3CA 3OR2B 3VKRA 3B0MA 4GEPA 3OR1A 3OR2A 2V4JB 3MMCB 3B0LA 3VM1A 6GEPA 3VLZA 4S3EA 3NOYA 4S39A 5GEPA 2V4JA 3MM6B 3B0GA 3MMCA 4G38A 4S3AA 3VKQA 3VKSA 3VKTA 3MM6A 2GEPA 3VM0A 4G9PA 3GEOA 4S3BA 4G39A 1ZJ8A 3VLXA 3B0HA 4S23A 4S38A 8GEPA 3MM9B 1ZJ9A 3MM7B 3VLYA 7GEPA 3MM5B 3MM7A 3MMBB 3MM8B
chains in the Genus database with same CATH topology
3MM5A 3VKPA 2Y0FA 3MMBA 4S3FA 3MM9A 3MM8A 2XSJB 1AOPA 4AOPA 4S3DA 3AOPA 4HTRA 2XSJA 2AOPA 3B0NA 3MMAB 5AOPA 3B0JA 3MMAA 2AKJA 3OR1B 4S3CA 3OR2B 3VKRA 3B0MA 4GEPA 3OR1A 3OR2A 2V4JB 3MMCB 3B0LA 3VM1A 6GEPA 3VLZA 4S3EA 3NOYA 4S39A 5GEPA 2V4JA 3MM6B 3B0GA 3MMCA 4G38A 4S3AA 3VKQA 3VKSA 3VKTA 3MM6A 2GEPA 3VM0A 4G9PA 3GEOA 4S3BA 4G39A 1ZJ8A 3VLXA 3B0HA 4S23A 4S38A 8GEPA 3MM9B 1ZJ9A 3MM7B 3VLYA 7GEPA 3MM5B 3MM7A 3MMBB 3MM8B
chains in the Genus database with same CATH homology

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