4XYDA

Nitric oxide reductase from roseobacter denitrificans (rdnor)
Total Genus 193
Loading diagram...

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
193
sequence length
445
structure length
445
Chain Sequence
MKYQSQSIALVYFAVALGLFAIQVSGGLLLGWIYVSPNFLSEILPFNIVRMLHTNSLIVWLLLGFMGAAYFVIPEESEREIHSPLLAYLQLAIMVLGTLGVVVTYLFNLFEGNWLLGKEGREFLEQPVWVKMGIVVAALIFMYNISMTVLQGRKTAITNVLLLGLWGLTLLFLFAFYNPSNLALDKMYWWYVVHLWVEGTWELVMASVLAFLMLKLTGVDREIIEKWLYLIVATALFSGILGTGHHYFWIGTPGYWQWIGSIFSALEVVPFFGMMAFAFVMVWKGRKDHPNKAALLWSLGCATLAFFGAGVWGFLHTLHGINYYTHGTQITAAHGHLAFFGAYVSLNLAIFSYAFPILRKRDPYNQVLNMASFWLMAGGMTFMTFVLTFAGTVQTHAQRVQGDYFMDVQDAITIFYWMRFGSGIAVVLGALLFIYAVAVPRKEII
Loading diagram...

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.

Chord Diagram
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule tags Oxidoreductase
molecule keywords Nitric-oxide reductase subunit B
publication title Structure of the Membrane-intrinsic Nitric Oxide Reductase from Roseobacter denitrificans.
pubmed doi rcsb
total genus 193
structure length 445
sequence length 445
ec nomenclature ec 1.7.2.5: Nitric-oxide reductase (cytochrome c).
pdb deposition date 2015-02-02

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00115 COX1 Cytochrome C and Quinol oxidase polypeptide I
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.210.10 Mainly Alpha Up-down Bundle Cytochrome C Oxidase; Chain A Cytochrome c oxidase-like, subunit I domain 4xydA00
3AYGA 3EHBA 3WFCB 2EIMA 4G7QA 5B1AA 3HB3A 2DYSA 1AR1A 3EH3A 4G7SA 2EILA 3AG4A 3ABKA 2YEVA 3BVDA 3QJUA 3S8FA 3OMIA 2OCCA 3OMAA 5B1BA 3S3CA 3EH4A 3ABMA 4N4YA 3ASOA 1OCOA 1V54A 4G7RA 2DYRA 5IY5A 3QJRA 3QJSA 3QJQA 1OCRA 3O0RB 3AG2A 2Y69A 2QPDA 3WG7A 2EINA 4XYDA 1V55A 3AG3A 3ASNA 1FFTA 4FAAA 3OM3A 1EHKA 3WFBB 5DJQA 1QLEA 2ZXWA 2GSMA 3QJTA 3WFEB 5B3SA 3QJVA 3S8GA 1OCCA 1XMEA 3DTUA 1M56A 3EH5A 4FA7A 3FYIA 4GP8A 2EIJA 3OMNA 2QPEA 1OCZA 2EIKA 3S3BA 4G72A 3S3DA 4GP4A 3AG1A 4G70A 4G71A 1M57A 3ABLA 3X2QA 3WFDB 3AYFA 3FYEA 4GP5A 3MK7A
chains in the Genus database with same CATH superfamily
3AYGA 3EHBA 3WFCB 2EIMA 4G7QA 5B1AA 3HB3A 2DYSA 1AR1A 3EH3A 4G7SA 2EILA 3AG4A 3ABKA 2YEVA 3BVDA 3QJUA 3S8FA 3OMIA 2OCCA 3OMAA 5B1BA 3S3CA 3EH4A 3ABMA 4N4YA 3ASOA 1OCOA 1V54A 4G7RA 2DYRA 5IY5A 3QJRA 3QJSA 3QJQA 1OCRA 3O0RB 3AG2A 2Y69A 2QPDA 3WG7A 2EINA 4XYDA 1V55A 3AG3A 3ASNA 1FFTA 4FAAA 3OM3A 1EHKA 3WFBB 5DJQA 1QLEA 2ZXWA 2GSMA 3QJTA 3WFEB 5B3SA 3QJVA 3S8GA 1OCCA 1XMEA 3DTUA 1M56A 3EH5A 4FA7A 3FYIA 4GP8A 2EIJA 3OMNA 2QPEA 1OCZA 2EIKA 3S3BA 4G72A 3S3DA 4GP4A 3AG1A 4G70A 4G71A 1M57A 3ABLA 3X2QA 3WFDB 3AYFA 3FYEA 4GP5A 3MK7A
chains in the Genus database with same CATH topology
3AYGA 3EHBA 3WFCB 2EIMA 4G7QA 5B1AA 3HB3A 2DYSA 1AR1A 3EH3A 4G7SA 2EILA 3AG4A 3ABKA 2YEVA 3BVDA 3QJUA 3S8FA 3OMIA 2OCCA 3OMAA 5B1BA 3S3CA 3EH4A 3ABMA 4N4YA 3ASOA 1OCOA 1V54A 4G7RA 2DYRA 5IY5A 3QJRA 3QJSA 3QJQA 1OCRA 3O0RB 3AG2A 2Y69A 2QPDA 3WG7A 2EINA 4XYDA 1V55A 3AG3A 3ASNA 1FFTA 4FAAA 3OM3A 1EHKA 3WFBB 5DJQA 1QLEA 2ZXWA 2GSMA 3QJTA 3WFEB 5B3SA 3QJVA 3S8GA 1OCCA 1XMEA 3DTUA 1M56A 3EH5A 4FA7A 3FYIA 4GP8A 2EIJA 3OMNA 2QPEA 1OCZA 2EIKA 3S3BA 4G72A 3S3DA 4GP4A 3AG1A 4G70A 4G71A 1M57A 3ABLA 3X2QA 3WFDB 3AYFA 3FYEA 4GP5A 3MK7A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3AYG A;  3EHB A;  3WFC B;  2EIM A;  4G7Q A;  5B1A A;  3HB3 A;  2DYS A;  1AR1 A;  3EH3 A;  4G7S A;  2EIL A;  3AG4 A;  3ABK A;  2YEV A;  3BVD A;  3QJU A;  3S8F A;  3OMI A;  2OCC A;  3OMA A;  5B1B A;  3S3C A;  3EH4 A;  3ABM A;  4N4Y A;  3ASO A;  1OCO A;  1V54 A;  4G7R A;  2DYR A;  5IY5 A;  3QJR A;  3QJS A;  3QJQ A;  1OCR A;  3O0R B;  3AG2 A;  2Y69 A;  2QPD A;  3WG7 A;  2EIN A;  4XYD A;  1V55 A;  3AG3 A;  3ASN A;  1FFT A;  4FAA A;  3OM3 A;  1EHK A;  3WFB B;  5DJQ A;  1QLE A;  2ZXW A;  2GSM A;  3QJT A;  3WFE B;  5B3S A;  3QJV A;  3S8G A;  1OCC A;  1XME A;  3DTU A;  1M56 A;  3EH5 A;  4FA7 A;  3FYI A;  4GP8 A;  2EIJ A;  3OMN A;  2QPE A;  1OCZ A;  2EIK A;  3S3B A;  4G72 A;  3S3D A;  4GP4 A;  3AG1 A;  4G70 A;  4G71 A;  1M57 A;  3ABL A;  3X2Q A;  3WFD B;  3AYF A;  3FYE A;  4GP5 A;  3MK7 A; 
#chains in the Genus database with same CATH topology
 3AYG A;  3EHB A;  3WFC B;  2EIM A;  4G7Q A;  5B1A A;  3HB3 A;  2DYS A;  1AR1 A;  3EH3 A;  4G7S A;  2EIL A;  3AG4 A;  3ABK A;  2YEV A;  3BVD A;  3QJU A;  3S8F A;  3OMI A;  2OCC A;  3OMA A;  5B1B A;  3S3C A;  3EH4 A;  3ABM A;  4N4Y A;  3ASO A;  1OCO A;  1V54 A;  4G7R A;  2DYR A;  5IY5 A;  3QJR A;  3QJS A;  3QJQ A;  1OCR A;  3O0R B;  3AG2 A;  2Y69 A;  2QPD A;  3WG7 A;  2EIN A;  4XYD A;  1V55 A;  3AG3 A;  3ASN A;  1FFT A;  4FAA A;  3OM3 A;  1EHK A;  3WFB B;  5DJQ A;  1QLE A;  2ZXW A;  2GSM A;  3QJT A;  3WFE B;  5B3S A;  3QJV A;  3S8G A;  1OCC A;  1XME A;  3DTU A;  1M56 A;  3EH5 A;  4FA7 A;  3FYI A;  4GP8 A;  2EIJ A;  3OMN A;  2QPE A;  1OCZ A;  2EIK A;  3S3B A;  4G72 A;  3S3D A;  4GP4 A;  3AG1 A;  4G70 A;  4G71 A;  1M57 A;  3ABL A;  3X2Q A;  3WFD B;  3AYF A;  3FYE A;  4GP5 A;  3MK7 A; 
#chains in the Genus database with same CATH homology
 3AYG A;  3EHB A;  3WFC B;  2EIM A;  4G7Q A;  5B1A A;  3HB3 A;  2DYS A;  1AR1 A;  3EH3 A;  4G7S A;  2EIL A;  3AG4 A;  3ABK A;  2YEV A;  3BVD A;  3QJU A;  3S8F A;  3OMI A;  2OCC A;  3OMA A;  5B1B A;  3S3C A;  3EH4 A;  3ABM A;  4N4Y A;  3ASO A;  1OCO A;  1V54 A;  4G7R A;  2DYR A;  5IY5 A;  3QJR A;  3QJS A;  3QJQ A;  1OCR A;  3O0R B;  3AG2 A;  2Y69 A;  2QPD A;  3WG7 A;  2EIN A;  4XYD A;  1V55 A;  3AG3 A;  3ASN A;  1FFT A;  4FAA A;  3OM3 A;  1EHK A;  3WFB B;  5DJQ A;  1QLE A;  2ZXW A;  2GSM A;  3QJT A;  3WFE B;  5B3S A;  3QJV A;  3S8G A;  1OCC A;  1XME A;  3DTU A;  1M56 A;  3EH5 A;  4FA7 A;  3FYI A;  4GP8 A;  2EIJ A;  3OMN A;  2QPE A;  1OCZ A;  2EIK A;  3S3B A;  4G72 A;  3S3D A;  4GP4 A;  3AG1 A;  4G70 A;  4G71 A;  1M57 A;  3ABL A;  3X2Q A;  3WFD B;  3AYF A;  3FYE A;  4GP5 A;  3MK7 A; 
...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...