1NMOA

Structural genomics, protein ybgi, unknown function
Total Genus 93
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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
93
sequence length
247
structure length
247
Chain Sequence
MKNTELEQLINEKLNSAAISDYAPNGLQVEGKETVQKIVTGVTASQALLDEAVRLGADAVIVHHGYFWKGESPVIRGMKRNRLKTLLANDINLYGWHLPLDAHPELGNNAQLAALLGITVMGEIEPLVPWGELTMPVPGLELASWIEARLGRKPLWCGDTGPEVVQRVAWCTGGGQSFIDSAARFGVDAFITGEVSEQTIHSAREQGLHFYAAGHHATERGGIRALSEWLNENTDLDVTFIDIPNPA
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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.

Chord Diagram
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molecule keywords Hypothetical protein ybgI
publication title Crystal Structure of Escherichia coli Protein ybgI, a toroidal structure with a dinuclear metal site
pubmed doi rcsb
source organism Escherichia coli, escherichia coli o157:h7
molecule tags Structural genomics, unknown function
total genus 93
structure length 247
sequence length 247
chains with identical sequence B, C, D, E, F
ec nomenclature
pdb deposition date 2003-01-10

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01784 NIF3 NIF3 (NGG1p interacting factor 3)
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1390.30 Alpha Beta 3-Layer(aba) Sandwich Udp-n-acetylmuramoylalanyl-d-glutamate--2,6- Diaminopimelate Ligase; Chain: A, domain 1 NIF3 (NGG1p interacting factor 3)-like 1nmoA02
3.40.1390.30 Alpha Beta 3-Layer(aba) Sandwich Udp-n-acetylmuramoylalanyl-d-glutamate--2,6- Diaminopimelate Ligase; Chain: A, domain 1 NIF3 (NGG1p interacting factor 3)-like 1nmoA01
3WSFA 1NMPA 4IWMA 3WSDA 3WSIA 2FYWA 3WSHA 3WSEA 4IWGA 3WSGA 1NMOA 2YYBA
chains in the Genus database with same CATH superfamily
4IHHA 3L31A 4QF5A 2IOJA 3EEQA 3WSHA 4CVMA 4IHGA 4E75A 2IU9A 3EH0A 2YYBA 2IU8A 4IHFA 1E8CA 4ZIYA 2IUAA 3WSDA 4C12A 1GG4A 3WSEA 4IWGA 2XJAA 3WSFA 1NMPA 2AM1A 4IWMA 4E79A 1NMOA 4C13A 1KO7A 3PMOA 4CVKA 4CVLA 1KNXA 3ZL8A 3ZM5A 2FYWA 4BUBA 2WTZA 4QDIA 3WSGA 3L2BA 3ZM6A 3WSIA 2AM2A
chains in the Genus database with same CATH topology
3WSFA 1NMPA 4IWMA 3WSDA 3WSIA 2FYWA 3WSHA 3WSEA 4IWGA 3WSGA 1NMOA 2YYBA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3WSF A;  1NMP A;  4IWM A;  3WSD A;  3WSI A;  2FYW A;  3WSH A;  3WSE A;  4IWG A;  3WSG A;  1NMO A;  2YYB A; 
#chains in the Genus database with same CATH topology
 4IHH A;  3L31 A;  4QF5 A;  2IOJ A;  3EEQ A;  3WSH A;  4CVM A;  4IHG A;  4E75 A;  2IU9 A;  3EH0 A;  2YYB A;  2IU8 A;  4IHF A;  1E8C A;  4ZIY A;  2IUA A;  3WSD A;  4C12 A;  1GG4 A;  3WSE A;  4IWG A;  2XJA A;  3WSF A;  1NMP A;  2AM1 A;  4IWM A;  4E79 A;  1NMO A;  4C13 A;  1KO7 A;  3PMO A;  4CVK A;  4CVL A;  1KNX A;  3ZL8 A;  3ZM5 A;  2FYW A;  4BUB A;  2WTZ A;  4QDI A;  3WSG A;  3L2B A;  3ZM6 A;  3WSI A;  2AM2 A; 
#chains in the Genus database with same CATH homology
 3WSF A;  1NMP A;  4IWM A;  3WSD A;  3WSI A;  2FYW A;  3WSH A;  3WSE A;  4IWG A;  3WSG A;  1NMO A;  2YYB 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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#similar chains in the pdb database (?% sequence similarity)
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