3VKRA

Assimilatory nitrite reductase (nii3) - no2 complex from tobbaco leaf analysed with high x-ray dose
Total Genus 190
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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
190
sequence length
538
structure length
538
Chain Sequence
VAAERLEPRVEEKDGYWILKEQFRKGINPQEKVKIEKEPMKLFMENGIEELAKIPIEEIDQSKLTKDDIDVRLKWLGLFHRRKNQYGRFMMRLKLPNGVTTSAQTRYLASVIRKYGKEGCADITTRQNWQIRGVVLPDVPEILKGLAEVGLTSLQSGMDNVRNPVGNPLAGIDPEEIVDTRPYTNLLSQFITGNSRGNPAVSNLPRKWNPCVVGSHDLYEHPHINDLAYMPATKDGRFGFNLLVGGFFSAKRCDEAIPLDAWVPADDVVPVCRAILEAFRDLGFRGNRQKCRMMWLIDELGVEGFRAEVEKRMPQQQLERASPEDLVQKQWERRDYLGVHPQKQEGYSFIGLHIPVGRVQADDMDELARLADEYGSGEIRLTVEQNIIIPNIETSKIEALLKEPVLSTFSPDPPILMKGLVACTGNQFCGQAIIETKARSLKITEEVQRQVSLTKPVRMHWTGCPNTCAQVQVADIGFMGCLTRDKNGKTVEGADVFLGGRIGSDSHLGEVYKKAVPCDDLVPLVVDLLVNNFGAVPR
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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

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

publication title The reductive reaction mechanism of tobacco nitrite reductase derived from a combination of crystal structures and ultraviolet-visible microspectroscopy
pubmed doi rcsb
source organism Nicotiana tabacum
molecule tags Oxidoreductase
molecule keywords Nitrite reductase
total genus 190
structure length 538
sequence length 538
ec nomenclature ec 1.7.7.1: Ferredoxin--nitrite reductase.
pdb deposition date 2011-11-20

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 3vkrA02
3.30.413.10 Alpha Beta 2-Layer Sandwich Sulfite Reductase Hemoprotein; domain 1 Sulfite Reductase Hemoprotein, domain 1 3vkrA03
3.90.480.20 Alpha Beta Alpha-Beta Complex Sulfite Reductase Hemoprotein; domain 2 Sulfite Reductase Hemoprotein; domain 2 3vkrA01
3MM8A 3MM6B 3MMCA 3MMBB 5AOPA 1AOPA 4S3FA 3OR1B 3VLXA 4G39A 4S38A 4S3BA 4HTRA 3NOYA 3B0HA 4S39A 3MM8B 2V4JB 3B0JA 2XSJA 4G38A 3MMCB 4GEPA 4S3AA 3MMAA 2XSJB 3MM9B 3VLZA 3B0MA 3OR2A 4G9PA 3MMAB 3MM5B 4S3DA 2Y0FA 3VM0A 3MMBA 3VM1A 3B0NA 3VKQA 4S3CA 3VKSA 3MM6A 3VKRA 3VKPA 3MM9A 8GEPA 3OR2B 3B0LA 4AOPA 6GEPA 3MM5A 4S3EA 2V4JA 3B0GA 5GEPA 7GEPA 1ZJ9A 3AOPA 3MM7A 1ZJ8A 4S23A 2GEPA 3VKTA 3GEOA 2AKJA 2AOPA 3VLYA 3MM7B 3OR1A
chains in the Genus database with same CATH superfamily
3MM8A 3MM6B 3MMCA 3MMBB 5AOPA 1AOPA 4S3FA 3OR1B 3VLXA 4G39A 4S38A 4S3BA 4HTRA 3NOYA 3B0HA 4S39A 3MM8B 2V4JB 3B0JA 2XSJA 4G38A 3MMCB 4GEPA 4S3AA 3MMAA 2XSJB 3MM9B 3VLZA 3B0MA 3OR2A 4G9PA 3MMAB 3MM5B 4S3DA 2Y0FA 3VM0A 3MMBA 3VM1A 3B0NA 3VKQA 4S3CA 3VKSA 3MM6A 3VKRA 3VKPA 3MM9A 8GEPA 3OR2B 3B0LA 4AOPA 6GEPA 3MM5A 4S3EA 2V4JA 3B0GA 5GEPA 7GEPA 1ZJ9A 3AOPA 3MM7A 1ZJ8A 4S23A 2GEPA 3VKTA 3GEOA 2AKJA 2AOPA 3VLYA 3MM7B 3OR1A
chains in the Genus database with same CATH topology
3MM8A 3MM6B 3MMCA 3MMBB 5AOPA 1AOPA 4S3FA 3OR1B 3VLXA 4G39A 4S38A 4S3BA 4HTRA 3NOYA 3B0HA 4S39A 3MM8B 2V4JB 3B0JA 2XSJA 4G38A 3MMCB 4GEPA 4S3AA 3MMAA 2XSJB 3MM9B 3VLZA 3B0MA 3OR2A 4G9PA 3MMAB 3MM5B 4S3DA 2Y0FA 3VM0A 3MMBA 3VM1A 3B0NA 3VKQA 4S3CA 3VKSA 3MM6A 3VKRA 3VKPA 3MM9A 8GEPA 3OR2B 3B0LA 4AOPA 6GEPA 3MM5A 4S3EA 2V4JA 3B0GA 5GEPA 7GEPA 1ZJ9A 3AOPA 3MM7A 1ZJ8A 4S23A 2GEPA 3VKTA 3GEOA 2AKJA 2AOPA 3VLYA 3MM7B 3OR1A
chains in the Genus database with same CATH homology


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

 
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#similar chains, but unknotted
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