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.

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


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