2J56L

X-ray reduced paraccocus denitrificans methylamine dehydrogenase n- semiquinone in complex with amicyanin.
Total Genus 31
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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
31
Knots found
sequence length
125
structure length
124
Chain Sequence
TDPRAKWVPQDNDIQACDYWRHCSIDGNICDCSGGSLTNCPPGTKLATASVASCYNPTDGQSYLIAYRDCCGYNVSGRCPCLNTEGELPVYRPEFANDIIWCFGAEDDAMTYHCTISPIVGKAS
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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 tags Oxidoreductase
molecule keywords AMICYANIN
publication title Tracking X-Ray-Derived Redox Changes in Crystals of a Methylamine Dehydrogenase/Amicyanin Complex Using Single-Crystal Uv/Vis Microspectrophotometry.
pubmed doi rcsb
total genus 31
structure length 124
sequence length 125
chains with identical sequence M
other databases KnotProt 2.0: K
ec nomenclature ec 1.4.9.1: Methylamine dehydrogenase (amicyanin).
pdb deposition date 2006-09-12

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
L 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 2j56L00
2IUVD 3SLEC 2I0TD 4L1QC 4FA1C 3L4OC 3C75L 3PXTC 2H3XB 2AGYD 3RLMC 2MTAL 2J55L 3RMZC 1MG3B 2IUQD 4O1QC 2GC7B 2HXCD 2AGZD 2J56L 3PXSC 2Q7QD 1MAEL 2HJBD 2OIZD 3PXWC 2OK4D 4L3HC 4K3IC 3SWSC 3L4MC 2BBKL 1MG2B 4FA5C 2OJYD 4L3GC 2IUPD 3RN1C 2IAAB 4FANC 4FAVC 3SJLC 2I0RD 1MDAL 2AH1D 2HJ4D 3SVWC 2IURD 4FA4C 2AGWD 2HKMD 2J57K 3SXTC 2AH0D 2HKRD 2I0SD 1MAFL 2MADL 4Y5RC 2H47B 2AGXD 3ORVC 2OK6D 2GC4B 2AGLD 4FB1C 3RN0C 4FA9C
chains in the Genus database with same CATH superfamily
2IUVD 3SLEC 2I0TD 4L1QC 4FA1C 3L4OC 3C75L 3PXTC 2H3XB 2AGYD 3RLMC 2MTAL 2J55L 3RMZC 1MG3B 2IUQD 4O1QC 2GC7B 2HXCD 2AGZD 2J56L 3PXSC 2Q7QD 1MAEL 2HJBD 2OIZD 3PXWC 2OK4D 4L3HC 4K3IC 3SWSC 3L4MC 2BBKL 1MG2B 4FA5C 2OJYD 4L3GC 2IUPD 3RN1C 2IAAB 4FANC 4FAVC 3SJLC 2I0RD 1MDAL 2AH1D 2HJ4D 3SVWC 2IURD 4FA4C 2AGWD 2HKMD 2J57K 3SXTC 2AH0D 2HKRD 2I0SD 1MAFL 2MADL 4Y5RC 2H47B 2AGXD 3ORVC 2OK6D 2GC4B 2AGLD 4FB1C 3RN0C 4FA9C
chains in the Genus database with same CATH topology
2IUVD 3SLEC 2I0TD 4L1QC 4FA1C 3L4OC 3C75L 3PXTC 2H3XB 2AGYD 3RLMC 2MTAL 2J55L 3RMZC 1MG3B 2IUQD 4O1QC 2GC7B 2HXCD 2AGZD 2J56L 3PXSC 2Q7QD 1MAEL 2HJBD 2OIZD 3PXWC 2OK4D 4L3HC 4K3IC 3SWSC 3L4MC 2BBKL 1MG2B 4FA5C 2OJYD 4L3GC 2IUPD 3RN1C 2IAAB 4FANC 4FAVC 3SJLC 2I0RD 1MDAL 2AH1D 2HJ4D 3SVWC 2IURD 4FA4C 2AGWD 2HKMD 2J57K 3SXTC 2AH0D 2HKRD 2I0SD 1MAFL 2MADL 4Y5RC 2H47B 2AGXD 3ORVC 2OK6D 2GC4B 2AGLD 4FB1C 3RN0C 4FA9C
chains in the Genus database with same CATH homology


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