2GC4B

Structural comparison of the oxidized ternary electron transfer complex of methylamine dehydrogenase, amicyanin and cytochrome c551i from paracoccus denitrificans with the substrate-reduced, copper free complex at 1.9 a resolution.
Warning
  • Chain breaks within knot 31 (displayed as a gray area on the plot and as '-' on the sequence). The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Note, that the numbers in the matrix denote the consecutive residues in the loop, not the index of amino acids in the chain!
Knot K 1x +31

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Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
+ 31 28-88 61 1-27, 89-98 27 10 knot
Fingerprint Knot forming loop Loop type
K +31 Thr7 ... Cys23 <-> Cys88 ... Cys61 <-> Cys29 ... Trq57 <-> Trp108 ...
Chain closureSer131 <-> Thr7
 probabilistic
Chain Sequence
TDPRAKWVPQDNDIQACDYWRHCSIDGNICDCSGGSLTNCPPGTKLATAS-VASCYNPTDGQSYLIAYRDCCGYNVSGRCPCLNTEGELPVYRPEFANDIIWCFGAEDDAMTYHCTISPIVGKAS
sequence length 125
structure length 124
publication title Structural comparison of the oxidized ternary electron transfer complex of methylamine dehydrogenase, amicyanin and cytochrome c551i from Paracoccus denitrificans with the substrate-reduced, copper free complex at 1.9 A resolution.
rcsb
molecule tags Oxidoreductase, electron transport
molecule keywords Methylamine dehydrogenase heavy chain
missing residues 51
total genus Genus: 30
ec nomenclature ec 1.4.9.1: Methylamine dehydrogenase (amicyanin).
pdb deposition date 2006-03-13
KnotProt deposition date 2018-10-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
B 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 Electron Transport Ethylamine Dehydrogenase 2gc4B00
2.60.30.10 Mainly Beta Sandwich Electron Transport Ethylamine Dehydrogenase Electron Transport Ethylamine Dehydrogenase 2gc4B00
2H47B 2BBKL 2HKRD 2AGWD 3C75L 2AGYD 2AH0D 2J57K 2MADL 2GC7B 2IAAB 2IUPD 1MG3B 2OIZD 2IURD 2IUQD 2HXCD 1MDAM 2J55L 2HKMD 2AGXD 2MTAL 2AGLD 2I0TD 2Q7QD 3L4OC 2OJYD 2H3XB 2AH1D 1MG2B 2HJ4D 2HJBD 2GC4B 2OK4D 2J56L 2IUVD 2I0SD
chains in the KnotProt database with same CATH superfamily
2H47B 2BBKL 2HKRD 2AGWD 3C75L 2AGYD 2AH0D 2J57K 2MADL 2GC7B 2IAAB 2IUPD 1MG3B 2OIZD 2IURD 2IUQD 2HXCD 1MDAM 2J55L 2HKMD 2AGXD 2MTAL 2AGLD 2I0TD 2Q7QD 3L4OC 2OJYD 2H3XB 2AH1D 1MG2B 2HJ4D 2HJBD 2GC4B 2OK4D 2J56L 2IUVD 2I0SD
chains in the KnotProt database with same CATH topology
2H47B 2BBKL 2HKRD 2AGWD 3C75L 2AGYD 2AH0D 2J57K 2MADL 2GC7B 2IAAB 2IUPD 1MG3B 2OIZD 2IURD 2IUQD 2HXCD 1MDAM 2J55L 2HKMD 2AGXD 2MTAL 2AGLD 2I0TD 2Q7QD 3L4OC 2OJYD 2H3XB 2AH1D 1MG2B 2HJ4D 2HJBD 2GC4B 2OK4D 2J56L 2IUVD 2I0SD
chains in the KnotProt database with same CATH homology

  
#chains in the KnotProt database with same CATH superfamily
 2H47 B;  2BBK L;  2HKR D;  2AGW D;  3C75 L;  2AGY D;  2AH0 D;  2J57 K;  2MAD L;  2GC7 B;  2IAA B;  2IUP D;  1MG3 B;  2OIZ D;  2IUR D;  2IUQ D;  2HXC D;  1MDA M;  2J55 L;  2HKM D;  2AGX D;  2MTA L;  2AGL D;  2I0T D;  2Q7Q D;  3L4O C;  2OJY D;  2H3X B;  2AH1 D;  1MG2 B;  2HJ4 D;  2HJB D;  2GC4 B;  2OK4 D;  2J56 L;  2IUV D;  2I0S D; 
#chains in the KnotProt database with same CATH topology
 2H47 B;  2BBK L;  2HKR D;  2AGW D;  3C75 L;  2AGY D;  2AH0 D;  2J57 K;  2MAD L;  2GC7 B;  2IAA B;  2IUP D;  1MG3 B;  2OIZ D;  2IUR D;  2IUQ D;  2HXC D;  1MDA M;  2J55 L;  2HKM D;  2AGX D;  2MTA L;  2AGL D;  2I0T D;  2Q7Q D;  3L4O C;  2OJY D;  2H3X B;  2AH1 D;  1MG2 B;  2HJ4 D;  2HJB D;  2GC4 B;  2OK4 D;  2J56 L;  2IUV D;  2I0S D; 
#chains in the KnotProt database with same CATH homology
 2H47 B;  2BBK L;  2HKR D;  2AGW D;  3C75 L;  2AGY D;  2AH0 D;  2J57 K;  2MAD L;  2GC7 B;  2IAA B;  2IUP D;  1MG3 B;  2OIZ D;  2IUR D;  2IUQ D;  2HXC D;  1MDA M;  2J55 L;  2HKM D;  2AGX D;  2MTA L;  2AGL D;  2I0T D;  2Q7Q D;  3L4O C;  2OJY D;  2H3X B;  2AH1 D;  1MG2 B;  2HJ4 D;  2HJB D;  2GC4 B;  2OK4 D;  2J56 L;  2IUV D;  2I0S D;
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similar chains in the KnotProt database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

  
#similar chains in the KnotProt 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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How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling