3 Dee - Database of Protein Domain Definitions


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The current cluster is formed at a score of 0.265

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Classes% of representative set
undefined 41.53
Small proteins 3.39
Alpha and beta (a+b) 30.51
All beta 23.73
All alpha 0.85
Breakdown into folds% of cluster % of class
undefined
undefined from 3Dee 41.53 7.70
Small proteins
Antifungal protein (AGAFP) from SCOP 0.85 0.87
Methylamine dehydrogenase, L-chain from 3Dee 0.85 0.87
Rubredoxin-like from SCOP 0.85 0.87
Small inhibitors, toxins, lectins from 3Dee 0.85 0.87
Alpha and beta (a+b)
"histone-like" proteins from arhaea from 3Dee 0.85 0.52
A DNA topoisomerase I domain from 3Dee 1.69 1.04
Astacin domain II from 3Dee 0.85 0.52
Copper amino oxidase, domain 1 from 3Dee 0.85 0.52
Cystatin-like from SCOP 8.47 5.18
Cysteine proteinases Domain I from 3Dee 0.85 0.52
FKBP-like from SCOP 1.69 1.04
Interleukin 8-like chemokines from 3Dee 1.69 1.04
Microbal ribonucleases from 3Dee 2.54 1.55
P-loop containing nucleotide triphosphate hydrolases, inserted domain in Guanylate Kinase from 3Dee 0.85 0.52
Profilin-like from SCOP 1.69 1.04
RNA bacteriophage capsid protein from SCOP 1.69 1.04
Ribonuclease A-like from 3Dee 1.69 1.04
SH2-like from SCOP 0.85 0.52
Virally encoded KP4 toxin from 3Dee 0.85 0.52
beta-Lactamase/D-ala carboxypeptidase Domain I from 3Dee 0.85 0.52
dsRBD & PDA domains from SCOP 2.54 1.55
All beta
Barrel-sandwich hybrid from SCOP 3.39 1.79
Lipocalins from SCOP 3.39 1.79
Mu transposase, C-terminal domain from 3Dee 0.85 0.45
OB-fold from SCOP 7.63 4.02
PH domain-like from SCOP 1.69 0.89
SH3-like barrel from SCOP 3.39 1.79
Streptavidin-like from SCOP 1.69 0.89
Viral coat and capsid proteins from SCOP 0.85 0.45
beta-Clip from 3Dee 0.85 0.45
All alpha
Lipoxigenase-1, A DNA topoisomerase I domain from 3Dee 0.85 0.49

It is formed by merging the following clusters

Cluster 1

Descend tree into cluster 1

1sso-1 [seq. related domains] Alpha and beta (a+b) "histone-like" proteins from arhaea
1vcc-1 [seq. related domains] Alpha and beta (a+b) A DNA topoisomerase I domain
1yua-2 [seq. related domains] Alpha and beta (a+b) A DNA topoisomerase I domain
1afp-1 [seq. related domains] Small proteins Antifungal protein (AGAFP)
2pcfb-2 [seq. related domains] All beta Barrel-sandwich hybrid
1fyc-1 [seq. related domains] All beta Barrel-sandwich hybrid
1bdo-1 [seq. related domains] All beta Barrel-sandwich hybrid
1iyv-1 [seq. related domains] All beta Barrel-sandwich hybrid
1spub-1 [seq. related domains] Alpha and beta (a+b) Copper amino oxidase, domain 1
1a90-1 [seq. related domains] Alpha and beta (a+b) Cystatin-like
1udii-1 [seq. related domains] Alpha and beta (a+b) Cystatin-like
1std-1 [seq. related domains] Alpha and beta (a+b) Cystatin-like
1ksib-1 [seq. related domains] Alpha and beta (a+b) Cystatin-like
1dvd-1 [seq. related domains] Alpha and beta (a+b) Cystatin-like
1spub-2 [seq. related domains] Alpha and beta (a+b) Cystatin-like
1spub-3 [seq. related domains] Alpha and beta (a+b) Cystatin-like
4mond-1 [seq. related domains] Alpha and beta (a+b) Cystatin-like
1iskb-1 [seq. related domains] Alpha and beta (a+b) Cystatin-like
1askb-1 [seq. related domains] Alpha and beta (a+b) Cystatin-like
1csbe-1 [seq. related domains] Alpha and beta (a+b) Cysteine proteinases Domain I
1mi2b-1 [seq. related domains] Alpha and beta (a+b) Interleukin 8-like chemokines
1sdf-1 [seq. related domains] Alpha and beta (a+b) Interleukin 8-like chemokines
1yge-3 [seq. related domains] All alpha Lipoxigenase-1, A DNA topoisomerase I domain
1rghb-1 [seq. related domains] Alpha and beta (a+b) Microbal ribonucleases
1a2pc-1 [seq. related domains] Alpha and beta (a+b) Microbal ribonucleases
5birb-1 [seq. related domains] Alpha and beta (a+b) Microbal ribonucleases
1bcmb-2 [seq. related domains] All beta Mu transposase, C-terminal domain
1se4-2 [seq. related domains] All beta OB-fold
1bcpk-1 [seq. related domains] All beta OB-fold
1mef-1 [seq. related domains] All beta OB-fold
4ull-1 [seq. related domains] All beta OB-fold
1aszb-1 [seq. related domains] All beta OB-fold
1bcpl-1 [seq. related domains] All beta OB-fold
1bcpi-2 [seq. related domains] All beta OB-fold
1krt-1 [seq. related domains] All beta OB-fold
1ae3-1 [seq. related domains] All beta OB-fold
1hlup-1 [seq. related domains] Alpha and beta (a+b) Profilin-like
1mvbc-1 [seq. related domains] Alpha and beta (a+b) RNA bacteriophage capsid protein
1qbec-1 [seq. related domains] Alpha and beta (a+b) RNA bacteriophage capsid protein
4rsd-1 [seq. related domains] Alpha and beta (a+b) Ribonuclease A-like
1onc-1 [seq. related domains] Alpha and beta (a+b) Ribonuclease A-like
1acmd-2 [seq. related domains] Small proteins Rubredoxin-like
1lcka-2 [seq. related domains] Alpha and beta (a+b) SH2-like
1pht-1 [seq. related domains] All beta SH3-like barrel
1psf-1 [seq. related domains] All beta SH3-like barrel
1nlpc-1 [seq. related domains] All beta SH3-like barrel
1bib-3 [seq. related domains] All beta SH3-like barrel
1swgd-1 [seq. related domains] All beta Streptavidin-like
1po22-2 [seq. related domains] All beta Viral coat and capsid proteins
1a5ob-1 [seq. related domains] All beta beta-Clip
1tem-1 [seq. related domains] Alpha and beta (a+b) beta-Lactamase/D-ala carboxypeptidase Domain I
1stu-1 [seq. related domains] Alpha and beta (a+b) dsRBD & PDA domains
1pkp-1 [seq. related domains] Alpha and beta (a+b) dsRBD & PDA domains
1ah5-3 [seq. related domains] Alpha and beta (a+b) dsRBD & PDA domains
1ospo-2 [seq. related domains] undefined undefined
1rfs-1 [seq. related domains] undefined undefined
1kwab-1 [seq. related domains] undefined undefined
2nef-1 [seq. related domains] undefined undefined
1a63-1 [seq. related domains] undefined undefined
1cuk-1 [seq. related domains] undefined undefined
1klo-1 [seq. related domains] undefined undefined
1aqzb-1 [seq. related domains] undefined undefined
1pdr-1 [seq. related domains] undefined undefined
1msi-1 [seq. related domains] undefined undefined
1vif-1 [seq. related domains] undefined undefined
1a0i-2 [seq. related domains] undefined undefined
1jmca-1 [seq. related domains] undefined undefined
1sro-1 [seq. related domains] undefined undefined
1bb9-1 [seq. related domains] undefined undefined
1auub-1 [seq. related domains] undefined undefined
1lt6p-1 [seq. related domains] undefined undefined
1ahjh-3 [seq. related domains] undefined undefined
1lml-2 [seq. related domains] undefined undefined
1cko-2 [seq. related domains] undefined undefined
1pfsb-1 [seq. related domains] undefined undefined
1jmca-2 [seq. related domains] undefined undefined
1am2-1 [seq. related domains] undefined undefined
1rvf2-2 [seq. related domains] undefined undefined
2rel-1 [seq. related domains] undefined undefined
2tssc-2 [seq. related domains] undefined undefined
1sfe-1 [seq. related domains] undefined undefined
1a6jb-1 [seq. related domains] undefined undefined
1ihwb-1 [seq. related domains] undefined undefined
1ah9-1 [seq. related domains] undefined undefined
3vub-1 [seq. related domains] undefined undefined

Cluster 2

Descend tree into cluster 2

1ael-1 [seq. related domains] All beta Lipocalins
1aqb-1 [seq. related domains] All beta Lipocalins
1bebb-1 [seq. related domains] All beta Lipocalins
1bbpb-1 [seq. related domains] All beta Lipocalins
1mdam-1 [seq. related domains] Small proteins Methylamine dehydrogenase, L-chain
1mph-1 [seq. related domains] All beta PH domain-like
2dynb-1 [seq. related domains] All beta PH domain-like
2pyp-1 [seq. related domains] Alpha and beta (a+b) Profilin-like
1smpi-1 [seq. related domains] All beta Streptavidin-like
2np1b-1 [seq. related domains] undefined undefined
1irsa-1 [seq. related domains] undefined undefined
1mai-1 [seq. related domains] undefined undefined
1pbob-2 [seq. related domains] undefined undefined
1shca-1 [seq. related domains] undefined undefined
1awe-1 [seq. related domains] undefined undefined
1x11b-1 [seq. related domains] undefined undefined
1btkb-1 [seq. related domains] undefined undefined
1bak-1 [seq. related domains] undefined undefined

Cluster 3

Descend tree into cluster 3

1iaa-1 [seq. related domains] Alpha and beta (a+b) Astacin domain II
1ctn-3 [seq. related domains] Alpha and beta (a+b) FKBP-like
1gky-2 [seq. related domains] Alpha and beta (a+b) P-loop containing nucleotide triphosphate hydrolases, inserted domain in Guanylate Kinase
2bbi-1 [seq. related domains] Small proteins Small inhibitors, toxins, lectins
1prxb-2 [seq. related domains] undefined undefined
1whi-1 [seq. related domains] undefined undefined
1aqt-1 [seq. related domains] undefined undefined
1jrhh-2 [seq. related domains] undefined undefined
1aonu-1 [seq. related domains] undefined undefined
1jrhl-2 [seq. related domains] undefined undefined
1lci-3 [seq. related domains] undefined undefined

Cluster 4

Descend tree into cluster 4

1a7xb-1 [seq. related domains] Alpha and beta (a+b) FKBP-like
1kptb-1 [seq. related domains] Alpha and beta (a+b) Virally encoded KP4 toxin
1pcfh-2 [seq. related domains] undefined undefined
1kvec-2 [seq. related domains] undefined undefined

Enter PDB code - optionally suffixing the code with the chain id.


3dee@compbio.dundee.ac.uk