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

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
EMPTYTI1 (8-11)TI2 (19-22)O5 (23-88)TIV1 (28-31)TI7 (64-67)TI3 (22-25)TIV4 (84-87)TI8 (96-99)TI4 (25-28)TII3 (109-112)3H3 (113-115)S1 (32-34)TI5 (26-29)S5 (75-78)3H1 (36-38)TIV2 (38-41)O7 (36-121)TI6 (42-45)S4 (68-72)TIV6 (103-106)S2 (51-52)TIV3 (63-66)S3 (59-63)S7 (119-123)3H2 (100-102)O1 (73-75)S6 (87-89)TII2 (91-94)TII1 (47-50)Updating...
connected with : NaN
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
molecule keywords AMICYANIN
molecule tags Oxidoreductase
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
2IUQD 4FA9C 3SJLC 2IURD 3PXWC 1MG3B 4L3GC 2AGXD 2J55L 3RN1C 4FB1C 4O1QC 4FA4C 2AGZD 2I0RD 4FAVC 2MADL 2AGYD 3ORVC 4L3HC 1MAFL 3RLMC 2HKMD 2HJ4D 2HXCD 2OK4D 3PXSC 2J57K 2I0SD 2MTAL 2OJYD 4L1QC 2GC4B 3RMZC 2AH1D 1MG2B 2AGLD 3L4OC 1MAEL 2GC7B 2BBKL 4FANC 2OK6D 4FA1C 4FA5C 3SWSC 1MDAL 3PXTC 3SLEC 2IUVD 2H3XB 2HJBD 2J56L 3RN0C 2IAAB 2AGWD 2Q7QD 2AH0D 3L4MC 3SXTC 2IUPD 4Y5RC 2OIZD 2I0TD 2H47B 2HKRD 3C75L 3SVWC 4K3IC
chains in the Genus database with same CATH superfamily
2IUQD 4FA9C 3SJLC 2IURD 3PXWC 1MG3B 4L3GC 2AGXD 2J55L 3RN1C 4FB1C 4O1QC 4FA4C 2AGZD 2I0RD 4FAVC 2MADL 2AGYD 3ORVC 4L3HC 1MAFL 3RLMC 2HKMD 2HJ4D 2HXCD 2OK4D 3PXSC 2J57K 2I0SD 2MTAL 2OJYD 4L1QC 2GC4B 3RMZC 2AH1D 1MG2B 2AGLD 3L4OC 1MAEL 2GC7B 2BBKL 4FANC 2OK6D 4FA1C 4FA5C 3SWSC 1MDAL 3PXTC 3SLEC 2IUVD 2H3XB 2HJBD 2J56L 3RN0C 2IAAB 2AGWD 2Q7QD 2AH0D 3L4MC 3SXTC 2IUPD 4Y5RC 2OIZD 2I0TD 2H47B 2HKRD 3C75L 3SVWC 4K3IC
chains in the Genus database with same CATH topology
2IUQD 4FA9C 3SJLC 2IURD 3PXWC 1MG3B 4L3GC 2AGXD 2J55L 3RN1C 4FB1C 4O1QC 4FA4C 2AGZD 2I0RD 4FAVC 2MADL 2AGYD 3ORVC 4L3HC 1MAFL 3RLMC 2HKMD 2HJ4D 2HXCD 2OK4D 3PXSC 2J57K 2I0SD 2MTAL 2OJYD 4L1QC 2GC4B 3RMZC 2AH1D 1MG2B 2AGLD 3L4OC 1MAEL 2GC7B 2BBKL 4FANC 2OK6D 4FA1C 4FA5C 3SWSC 1MDAL 3PXTC 3SLEC 2IUVD 2H3XB 2HJBD 2J56L 3RN0C 2IAAB 2AGWD 2Q7QD 2AH0D 3L4MC 3SXTC 2IUPD 4Y5RC 2OIZD 2I0TD 2H47B 2HKRD 3C75L 3SVWC 4K3IC
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2IUQ D;  4FA9 C;  3SJL C;  2IUR D;  3PXW C;  1MG3 B;  4L3G C;  2AGX D;  2J55 L;  3RN1 C;  4FB1 C;  4O1Q C;  4FA4 C;  2AGZ D;  2I0R D;  4FAV C;  2MAD L;  2AGY D;  3ORV C;  4L3H C;  1MAF L;  3RLM C;  2HKM D;  2HJ4 D;  2HXC D;  2OK4 D;  3PXS C;  2J57 K;  2I0S D;  2MTA L;  2OJY D;  4L1Q C;  2GC4 B;  3RMZ C;  2AH1 D;  1MG2 B;  2AGL D;  3L4O C;  1MAE L;  2GC7 B;  2BBK L;  4FAN C;  2OK6 D;  4FA1 C;  4FA5 C;  3SWS C;  1MDA L;  3PXT C;  3SLE C;  2IUV D;  2H3X B;  2HJB D;  2J56 L;  3RN0 C;  2IAA B;  2AGW D;  2Q7Q D;  2AH0 D;  3L4M C;  3SXT C;  2IUP D;  4Y5R C;  2OIZ D;  2I0T D;  2H47 B;  2HKR D;  3C75 L;  3SVW C;  4K3I C; 
#chains in the Genus database with same CATH topology
 2IUQ D;  4FA9 C;  3SJL C;  2IUR D;  3PXW C;  1MG3 B;  4L3G C;  2AGX D;  2J55 L;  3RN1 C;  4FB1 C;  4O1Q C;  4FA4 C;  2AGZ D;  2I0R D;  4FAV C;  2MAD L;  2AGY D;  3ORV C;  4L3H C;  1MAF L;  3RLM C;  2HKM D;  2HJ4 D;  2HXC D;  2OK4 D;  3PXS C;  2J57 K;  2I0S D;  2MTA L;  2OJY D;  4L1Q C;  2GC4 B;  3RMZ C;  2AH1 D;  1MG2 B;  2AGL D;  3L4O C;  1MAE L;  2GC7 B;  2BBK L;  4FAN C;  2OK6 D;  4FA1 C;  4FA5 C;  3SWS C;  1MDA L;  3PXT C;  3SLE C;  2IUV D;  2H3X B;  2HJB D;  2J56 L;  3RN0 C;  2IAA B;  2AGW D;  2Q7Q D;  2AH0 D;  3L4M C;  3SXT C;  2IUP D;  4Y5R C;  2OIZ D;  2I0T D;  2H47 B;  2HKR D;  3C75 L;  3SVW C;  4K3I C; 
#chains in the Genus database with same CATH homology
 2IUQ D;  4FA9 C;  3SJL C;  2IUR D;  3PXW C;  1MG3 B;  4L3G C;  2AGX D;  2J55 L;  3RN1 C;  4FB1 C;  4O1Q C;  4FA4 C;  2AGZ D;  2I0R D;  4FAV C;  2MAD L;  2AGY D;  3ORV C;  4L3H C;  1MAF L;  3RLM C;  2HKM D;  2HJ4 D;  2HXC D;  2OK4 D;  3PXS C;  2J57 K;  2I0S D;  2MTA L;  2OJY D;  4L1Q C;  2GC4 B;  3RMZ C;  2AH1 D;  1MG2 B;  2AGL D;  3L4O C;  1MAE L;  2GC7 B;  2BBK L;  4FAN C;  2OK6 D;  4FA1 C;  4FA5 C;  3SWS C;  1MDA L;  3PXT C;  3SLE C;  2IUV D;  2H3X B;  2HJB D;  2J56 L;  3RN0 C;  2IAA B;  2AGW D;  2Q7Q D;  2AH0 D;  3L4M C;  3SXT C;  2IUP D;  4Y5R C;  2OIZ D;  2I0T D;  2H47 B;  2HKR D;  3C75 L;  3SVW C;  4K3I C; 
1MG3B 2GC4B 2GC7B 2J55L 2J56L 2J57K 3L4MC 3L4OC 3ORVC
similar chains in the Genus database (40% sequence similarity)
None
similar chains in the pdb database (40% sequence similarity)

 
#similar chains in the Genus database (40% sequence similarity)
1MG3 B; 2GC4 B; 2GC7 B; 2J55 L; 2J56 L; 2J57 K; 3L4M C; 3L4O C; 3ORV C; 
#similar chains, but unknotted

#similar chains in the pdb database (40% sequence similarity)


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