2AGYD

Crystal structure of the schiff base intermediate in the reductive half-reaction of aromatic amine dehydrogenase (aadh) with tryptamine. monoclinic form
Total Genus 27
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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
27
Knots found
sequence length
109
structure length
108
Chain Sequence
EVNSCDYWRHCAVDGFLCSCCGGTTTTCPPGSTPSPISIGTCHNPHDGKDYLISYHDCCGKTACGRCQCNTQTRERPGYEFFLHNDVNWCMANENSTFHCTTSVLVGL
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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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publication title Atomic description of an enzyme reaction dominated by proton tunneling
pubmed doi rcsb
molecule tags Oxidoreductase
molecule keywords Aromatic amine dehydrogenase
total genus 27
structure length 108
sequence length 109
chains with identical sequence H
other databases KnotProt 2.0: K
ec nomenclature ec 1.4.9.2: Aralkylamine dehydrogenase (azurin).
pdb deposition date 2005-07-27

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D PF02975 Me-amine-dh_L Methylamine dehydrogenase, L chain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.60.30.10 Mainly Beta Sandwich Electron Transport Ethylamine Dehydrogenase Methylamine/Aralkylamine dehydrogenase light chain 2agyD00
3PXTC 2IAAB 4O1QC 3C75L 3SJLC 2AGXD 2HJBD 2IURD 1MAFL 2MTAL 2I0TD 3SXTC 2IUVD 2OK4D 2H47B 2OIZD 2AGWD 2HKRD 3RLMC 4FAVC 2J56L 2HJ4D 2OJYD 3SWSC 2IUPD 2AH1D 3RN1C 4Y5RC 1MAEL 3SVWC 3L4MC 4FA1C 2AGLD 2OK6D 2HXCD 3ORVC 3L4OC 4L3GC 2GC4B 4FANC 2BBKL 2GC7B 2IUQD 4FA4C 3PXSC 4L1QC 4L3HC 2I0SD 1MG3B 2HKMD 2AGZD 2J55L 3PXWC 1MDAL 2Q7QD 4K3IC 2H3XB 3RMZC 2AGYD 3SLEC 2MADL 1MG2B 4FB1C 2I0RD 2J57K 4FA5C 3RN0C 2AH0D 4FA9C
chains in the Genus database with same CATH superfamily
3PXTC 2IAAB 4O1QC 3C75L 3SJLC 2AGXD 2HJBD 2IURD 1MAFL 2MTAL 2I0TD 3SXTC 2IUVD 2OK4D 2H47B 2OIZD 2AGWD 2HKRD 3RLMC 4FAVC 2J56L 2HJ4D 2OJYD 3SWSC 2IUPD 2AH1D 3RN1C 4Y5RC 1MAEL 3SVWC 3L4MC 4FA1C 2AGLD 2OK6D 2HXCD 3ORVC 3L4OC 4L3GC 2GC4B 4FANC 2BBKL 2GC7B 2IUQD 4FA4C 3PXSC 4L1QC 4L3HC 2I0SD 1MG3B 2HKMD 2AGZD 2J55L 3PXWC 1MDAL 2Q7QD 4K3IC 2H3XB 3RMZC 2AGYD 3SLEC 2MADL 1MG2B 4FB1C 2I0RD 2J57K 4FA5C 3RN0C 2AH0D 4FA9C
chains in the Genus database with same CATH topology
3PXTC 2IAAB 4O1QC 3C75L 3SJLC 2AGXD 2HJBD 2IURD 1MAFL 2MTAL 2I0TD 3SXTC 2IUVD 2OK4D 2H47B 2OIZD 2AGWD 2HKRD 3RLMC 4FAVC 2J56L 2HJ4D 2OJYD 3SWSC 2IUPD 2AH1D 3RN1C 4Y5RC 1MAEL 3SVWC 3L4MC 4FA1C 2AGLD 2OK6D 2HXCD 3ORVC 3L4OC 4L3GC 2GC4B 4FANC 2BBKL 2GC7B 2IUQD 4FA4C 3PXSC 4L1QC 4L3HC 2I0SD 1MG3B 2HKMD 2AGZD 2J55L 3PXWC 1MDAL 2Q7QD 4K3IC 2H3XB 3RMZC 2AGYD 3SLEC 2MADL 1MG2B 4FB1C 2I0RD 2J57K 4FA5C 3RN0C 2AH0D 4FA9C
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3PXT C;  2IAA B;  4O1Q C;  3C75 L;  3SJL C;  2AGX D;  2HJB D;  2IUR D;  1MAF L;  2MTA L;  2I0T D;  3SXT C;  2IUV D;  2OK4 D;  2H47 B;  2OIZ D;  2AGW D;  2HKR D;  3RLM C;  4FAV C;  2J56 L;  2HJ4 D;  2OJY D;  3SWS C;  2IUP D;  2AH1 D;  3RN1 C;  4Y5R C;  1MAE L;  3SVW C;  3L4M C;  4FA1 C;  2AGL D;  2OK6 D;  2HXC D;  3ORV C;  3L4O C;  4L3G C;  2GC4 B;  4FAN C;  2BBK L;  2GC7 B;  2IUQ D;  4FA4 C;  3PXS C;  4L1Q C;  4L3H C;  2I0S D;  1MG3 B;  2HKM D;  2AGZ D;  2J55 L;  3PXW C;  1MDA L;  2Q7Q D;  4K3I C;  2H3X B;  3RMZ C;  2AGY D;  3SLE C;  2MAD L;  1MG2 B;  4FB1 C;  2I0R D;  2J57 K;  4FA5 C;  3RN0 C;  2AH0 D;  4FA9 C; 
#chains in the Genus database with same CATH topology
 3PXT C;  2IAA B;  4O1Q C;  3C75 L;  3SJL C;  2AGX D;  2HJB D;  2IUR D;  1MAF L;  2MTA L;  2I0T D;  3SXT C;  2IUV D;  2OK4 D;  2H47 B;  2OIZ D;  2AGW D;  2HKR D;  3RLM C;  4FAV C;  2J56 L;  2HJ4 D;  2OJY D;  3SWS C;  2IUP D;  2AH1 D;  3RN1 C;  4Y5R C;  1MAE L;  3SVW C;  3L4M C;  4FA1 C;  2AGL D;  2OK6 D;  2HXC D;  3ORV C;  3L4O C;  4L3G C;  2GC4 B;  4FAN C;  2BBK L;  2GC7 B;  2IUQ D;  4FA4 C;  3PXS C;  4L1Q C;  4L3H C;  2I0S D;  1MG3 B;  2HKM D;  2AGZ D;  2J55 L;  3PXW C;  1MDA L;  2Q7Q D;  4K3I C;  2H3X B;  3RMZ C;  2AGY D;  3SLE C;  2MAD L;  1MG2 B;  4FB1 C;  2I0R D;  2J57 K;  4FA5 C;  3RN0 C;  2AH0 D;  4FA9 C; 
#chains in the Genus database with same CATH homology
 3PXT C;  2IAA B;  4O1Q C;  3C75 L;  3SJL C;  2AGX D;  2HJB D;  2IUR D;  1MAF L;  2MTA L;  2I0T D;  3SXT C;  2IUV D;  2OK4 D;  2H47 B;  2OIZ D;  2AGW D;  2HKR D;  3RLM C;  4FAV C;  2J56 L;  2HJ4 D;  2OJY D;  3SWS C;  2IUP D;  2AH1 D;  3RN1 C;  4Y5R C;  1MAE L;  3SVW C;  3L4M C;  4FA1 C;  2AGL D;  2OK6 D;  2HXC D;  3ORV C;  3L4O C;  4L3G C;  2GC4 B;  4FAN C;  2BBK L;  2GC7 B;  2IUQ D;  4FA4 C;  3PXS C;  4L1Q C;  4L3H C;  2I0S D;  1MG3 B;  2HKM D;  2AGZ D;  2J55 L;  3PXW C;  1MDA L;  2Q7Q D;  4K3I C;  2H3X B;  3RMZ C;  2AGY D;  3SLE C;  2MAD L;  1MG2 B;  4FB1 C;  2I0R D;  2J57 K;  4FA5 C;  3RN0 C;  2AH0 D;  4FA9 C; 
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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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