3RDN | Genus

Total Genus 8

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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	8
sequence length	73
structure length	73
Chain Sequence	NKASVVANQLIPINTALTLIMMKAEVVTPMGIPAEEIPNLVGMQVNRAVPLGTTLMPDMVKNYEDGTTSPGLK

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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

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

Genus data interpretation

Chord Diagram

molecule tags	Antifreeze
source organism	Lycodichthys dearborni
publication title	Structural basis for the binding of a globular antifreeze protein to ice. pubmed doi rcsb
molecule keywords	ANTIFREEZE PROTEIN RD3 TYPE III
total genus	8
structure length	73
sequence length	73
ec nomenclature
pdb deposition date	1998-02-24

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.90.1210.10	Alpha Beta	Alpha-Beta Complex	Type Iii Antifreeze Protein Isoform Hplc 12	Antifreeze-like/N-acetylneuraminic acid synthase C-terminal domain	3rdnA00

2MSIA 1EKLA 3CM4A 3MSIA 1MSIA 1GZIA 2ZDRA 2LX3A 1XUZA 2JIAA 5MSIA 1B7KA 6MSIA 1HG7A 1AMEA 3AMEA 1XUUA 8AMEA 3NLAA 1UCSA 4IPIA 4NY6A 7MSIA 1C89A 8MSIA 3QF6A 2SPGA 4UR4A 3FRNA 1B7JA 1OPSA 4MSIA 9AMEA 2AMEA 1VLIA 7AMEA 1B7IA 2WQPA 3RDNA 3G8RA 4AMEA 1MSJA 1KDEA 1C8AA 1JABA 1KDFA 1WVOA 4IPJA 2MSJA 4UR6A 9MSIA 6AMEA 2LX2A
chains in the Genus database with same CATH superfamily

2MSIA 1EKLA 3CM4A 3MSIA 1MSIA 1GZIA 2ZDRA 2LX3A 1XUZA 2JIAA 5MSIA 1B7KA 6MSIA 1HG7A 1AMEA 3AMEA 1XUUA 8AMEA 3NLAA 1UCSA 4IPIA 4NY6A 7MSIA 1C89A 8MSIA 3QF6A 2SPGA 4UR4A 3FRNA 1B7JA 1OPSA 4MSIA 9AMEA 2AMEA 1VLIA 7AMEA 1B7IA 2WQPA 3RDNA 3G8RA 4AMEA 1MSJA 1KDEA 1C8AA 1JABA 1KDFA 1WVOA 4IPJA 2MSJA 4UR6A 3K3SA 3LAZA 9MSIA 6AMEA 2LX2A
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 2MSI A;  1EKL A;  3CM4 A;  3MSI A;  1MSI A;  1GZI A;  2ZDR A;  2LX3 A;  1XUZ A;  2JIA A;  5MSI A;  1B7K A;  6MSI A;  1HG7 A;  1AME A;  3AME A;  1XUU A;  8AME A;  3NLA A;  1UCS A;  4IPI A;  4NY6 A;  7MSI A;  1C89 A;  8MSI A;  3QF6 A;  2SPG A;  4UR4 A;  3FRN A;  1B7J A;  1OPS A;  4MSI A;  9AME A;  2AME A;  1VLI A;  7AME A;  1B7I A;  2WQP A;  3RDN A;  3G8R A;  4AME A;  1MSJ A;  1KDE A;  1C8A A;  1JAB A;  1KDF A;  1WVO A;  4IPJ A;  2MSJ A;  4UR6 A;  9MSI A;  6AME A;  2LX2 A; 
#chains in the Genus database with same CATH topology
 2MSI A;  1EKL A;  3CM4 A;  3MSI A;  1MSI A;  1GZI A;  2ZDR A;  2LX3 A;  1XUZ A;  2JIA A;  5MSI A;  1B7K A;  6MSI A;  1HG7 A;  1AME A;  3AME A;  1XUU A;  8AME A;  3NLA A;  1UCS A;  4IPI A;  4NY6 A;  7MSI A;  1C89 A;  8MSI A;  3QF6 A;  2SPG A;  4UR4 A;  3FRN A;  1B7J A;  1OPS A;  4MSI A;  9AME A;  2AME A;  1VLI A;  7AME A;  1B7I A;  2WQP A;  3RDN A;  3G8R A;  4AME A;  1MSJ A;  1KDE A;  1C8A A;  1JAB A;  1KDF A;  1WVO A;  4IPJ A;  2MSJ A;  4UR6 A;  3K3S A;  3LAZ A;  9MSI A;  6AME A;  2LX2 A; 
#chains in the Genus database with same CATH homology
 2MSI A;  1EKL A;  3CM4 A;  3MSI A;  1MSI A;  1GZI A;  2ZDR A;  2LX3 A;  1XUZ A;  2JIA A;  5MSI A;  1B7K A;  6MSI A;  1HG7 A;  1AME A;  3AME A;  1XUU A;  8AME A;  3NLA A;  1UCS A;  4IPI A;  4NY6 A;  7MSI A;  1C89 A;  8MSI A;  3QF6 A;  2SPG A;  4UR4 A;  3FRN A;  1B7J A;  1OPS A;  4MSI A;  9AME A;  2AME A;  1VLI A;  7AME A;  1B7I A;  2WQP A;  3RDN A;  3G8R A;  4AME A;  1MSJ A;  1KDE A;  1C8A A;  1JAB A;  1KDF A;  1WVO A;  4IPJ A;  2MSJ A;  4UR6 A;  9MSI A;  6AME A;  2LX2 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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3RDNA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN