3VKPA

Assimilatory nitrite reductase (nii3) - no2 complex from tobbaco leaf analysed with low x-ray dose
Total Genus 192
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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
192
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 192
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 3vkpA02
3.30.413.10 Alpha Beta 2-Layer Sandwich Sulfite Reductase Hemoprotein; domain 1 Sulfite Reductase Hemoprotein, domain 1 3vkpA03
3.90.480.20 Alpha Beta Alpha-Beta Complex Sulfite Reductase Hemoprotein; domain 2 Sulfite Reductase Hemoprotein; domain 2 3vkpA01
2V4JA 3OR2A 3MM8B 3MMCB 3VLXA 2GEPA 2XSJB 3B0JA 4G9PA 3B0GA 1AOPA 4HTRA 1ZJ9A 4S3FA 3VKPA 3VLYA 3MMAB 3MM9B 2AKJA 3B0HA 3MM7A 3VKQA 3VKTA 3MM5B 3MMBA 2Y0FA 4S23A 3MM6A 4S3BA 3OR1B 7GEPA 6GEPA 4S3EA 3VM0A 4G39A 3VKRA 3VM1A 4S39A 1ZJ8A 4S3DA 4S3CA 2V4JB 4S38A 3OR2B 3MM9A 3MM7B 3MM8A 4G38A 8GEPA 3MM5A 3B0NA 2XSJA 4GEPA 3VKSA 2AOPA 3GEOA 3NOYA 3B0LA 5AOPA 3B0MA 3AOPA 3MMAA 3VLZA 5GEPA 3MMBB 4AOPA 3MMCA 3MM6B 3OR1A 4S3AA
chains in the Genus database with same CATH superfamily
2V4JA 3OR2A 3MM8B 3MMCB 3VLXA 2GEPA 2XSJB 3B0JA 4G9PA 3B0GA 1AOPA 4HTRA 1ZJ9A 4S3FA 3VKPA 3VLYA 3MMAB 3MM9B 2AKJA 3B0HA 3MM7A 3VKQA 3VKTA 3MM5B 3MMBA 2Y0FA 4S23A 3MM6A 4S3BA 3OR1B 7GEPA 6GEPA 4S3EA 3VM0A 4G39A 3VKRA 3VM1A 4S39A 1ZJ8A 4S3DA 4S3CA 2V4JB 4S38A 3OR2B 3MM9A 3MM7B 3MM8A 4G38A 8GEPA 3MM5A 3B0NA 2XSJA 4GEPA 3VKSA 2AOPA 3GEOA 3NOYA 3B0LA 5AOPA 3B0MA 3AOPA 3MMAA 3VLZA 5GEPA 3MMBB 4AOPA 3MMCA 3MM6B 3OR1A 4S3AA
chains in the Genus database with same CATH topology
2V4JA 3OR2A 3MM8B 3MMCB 3VLXA 2GEPA 2XSJB 3B0JA 4G9PA 3B0GA 1AOPA 4HTRA 1ZJ9A 4S3FA 3VKPA 3VLYA 3MMAB 3MM9B 2AKJA 3B0HA 3MM7A 3VKQA 3VKTA 3MM5B 3MMBA 2Y0FA 4S23A 3MM6A 4S3BA 3OR1B 7GEPA 6GEPA 4S3EA 3VM0A 4G39A 3VKRA 3VM1A 4S39A 1ZJ8A 4S3DA 4S3CA 2V4JB 4S38A 3OR2B 3MM9A 3MM7B 3MM8A 4G38A 8GEPA 3MM5A 3B0NA 2XSJA 4GEPA 3VKSA 2AOPA 3GEOA 3NOYA 3B0LA 5AOPA 3B0MA 3AOPA 3MMAA 3VLZA 5GEPA 3MMBB 4AOPA 3MMCA 3MM6B 3OR1A 4S3AA
chains in the Genus database with same CATH homology


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