4PDT | Genus

Total Genus 29

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	29
sequence length	119
structure length	119
Chain Sequence	SYVHPYGSTLPENGVIGRGYALISDSGRVEFRVTDEGNIQLFLDDSRKLWSVDGKNASFVKMQTDGNCVGYDPNGTAVWHTATNGDDHPYNLVCQNDGNLVVYAKGGKAVWHTNTAVVH

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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The Resolver thinks Pdb

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reading 119 atoms

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1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

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119 atoms created

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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	Sugar binding protein
source organism	Marasmius oreades
publication title	The structure of Japanese Marasmius oreades lectin at 1.40 Angstroms resolution. rcsb
molecule keywords	Mannose recognizing lectin
total genus	29
structure length	119
sequence length	119
ec nomenclature
pdb deposition date	2014-04-22

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

cath code	Class	Architecture	Topology	Homology	Domain
2.90.10.10	Mainly Beta	Orthogonal Prism	Agglutinin, subunit A	Bulb-type lectin domain	4pdtA00

3DZWA 3A0EA 2DPFA 5J76A 4PDTA 3A0CA 1B2PA 3R0EB 1NIVA 5D5GA 1XD5A 1JPCA 1MSAA 1DLPA 3MEZB 5T1XB 5T20B 3R0EA 2D04B 3M7JA 5T1XA 5T20A 1BWUQ 1KJ1D 3MEZA 4GC1A 1KJ1A 1BWUD 1BWUP 5D9ZB 2D04A 4GC2A 4H3OA 4TKCA 3M7HA 1BWUA 5J76B 1XD6A 3A0DA 5D5GB 5D9ZA 1NPLA
chains in the Genus database with same CATH superfamily

3DZWA 3A0EA 2DPFA 5J76A 4PDTA 3A0CA 1B2PA 3R0EB 1NIVA 5D5GA 1XD5A 1JPCA 1MSAA 1DLPA 3MEZB 5T1XB 5T20B 4OIZA 3R0EA 4OITA 2D04B 3M7JA 4LEDA 5T1XA 5T20A 1BWUQ 1KJ1D 4OKCA 3MEZA 4GC1A 4LEAA 1KJ1A 1BWUD 1BWUP 5D9ZB 2D04A 4GC2A 4H3OA 4TKCA 3M7HA 1BWUA 4LE7A 5J76B 1XD6A 3A0DA 5D5GB 5D9ZA 1NPLA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 3DZW A;  3A0E A;  2DPF A;  5J76 A;  4PDT A;  3A0C A;  1B2P A;  3R0E B;  1NIV A;  5D5G A;  1XD5 A;  1JPC A;  1MSA A;  1DLP A;  3MEZ B;  5T1X B;  5T20 B;  3R0E A;  2D04 B;  3M7J A;  5T1X A;  5T20 A;  1BWU Q;  1KJ1 D;  3MEZ A;  4GC1 A;  1KJ1 A;  1BWU D;  1BWU P;  5D9Z B;  2D04 A;  4GC2 A;  4H3O A;  4TKC A;  3M7H A;  1BWU A;  5J76 B;  1XD6 A;  3A0D A;  5D5G B;  5D9Z A;  1NPL A; 
#chains in the Genus database with same CATH topology
 3DZW A;  3A0E A;  2DPF A;  5J76 A;  4PDT A;  3A0C A;  1B2P A;  3R0E B;  1NIV A;  5D5G A;  1XD5 A;  1JPC A;  1MSA A;  1DLP A;  3MEZ B;  5T1X B;  5T20 B;  4OIZ A;  3R0E A;  4OIT A;  2D04 B;  3M7J A;  4LED A;  5T1X A;  5T20 A;  1BWU Q;  1KJ1 D;  4OKC A;  3MEZ A;  4GC1 A;  4LEA A;  1KJ1 A;  1BWU D;  1BWU P;  5D9Z B;  2D04 A;  4GC2 A;  4H3O A;  4TKC A;  3M7H A;  1BWU A;  4LE7 A;  5J76 B;  1XD6 A;  3A0D A;  5D5G B;  5D9Z A;  1NPL A; 
#chains in the Genus database with same CATH homology
 3DZW A;  3A0E A;  2DPF A;  5J76 A;  4PDT A;  3A0C A;  1B2P A;  3R0E B;  1NIV A;  5D5G A;  1XD5 A;  1JPC A;  1MSA A;  1DLP A;  3MEZ B;  5T1X B;  5T20 B;  3R0E A;  2D04 B;  3M7J A;  5T1X A;  5T20 A;  1BWU Q;  1KJ1 D;  3MEZ A;  4GC1 A;  1KJ1 A;  1BWU D;  1BWU P;  5D9Z B;  2D04 A;  4GC2 A;  4H3O A;  4TKC A;  3M7H A;  1BWU A;  5J76 B;  1XD6 A;  3A0D A;  5D5G B;  5D9Z A;  1NPL 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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4PDTA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN