Datasets compiled from literature
(Collection of existing datasets)

We collected and compilied following datasets from literature. In past, these datasets have been used for developing prediction methods. This list is not complete, collection is in progress, please help us by submitting/suggesting new dataset to this collection

Table: Showing list of Datasets compiled from published literature

Types of Datasets	Sub Types	PDB chains in dataset	References (Pubmed ID)	Original site	Download Data
Regular Secondary structure	helix, strand, coil	513 406	2447793	Jpred3	CB513 CB406
Irregular Secondary structure	Beta-Turns	1296 547 426	20673368 15822097 12592033	DEBT COUDES BTEVAL	PDB1296 FA547 GR426
	Gamma-Turns	490 749 320	17936305 12662358 10878855	sciencedirect wiley.com JBIOSCI	PA490 KG749 KG320
	Alpha-Turns	490 193	16894602 8652792	Alpha Turn V1.0 wiley.com	JX490 VP193
	B-Hairpin	534	12177429	BhairPred	BhairPred
PDB derived Datasets with non-redundant sequence and structural quality criteria	PDB_SELECT	5130	19783827	PDB_SELECT	PDB_SELECT_25
	PDBFINDER	168357	9021272	PDBFINDER	PDBFINDER
	PISCES	3023	12912846	PISCES	PISCES
DNA/RNA interacting residues	DNA	206 500 62 25	21069866 19767616 16845003 19594868	Proteins 3dfootprint BindN BindN	DBP206 3D-footprint PDNA-62 PRINR25
	RNA	147 205 109	17483510 20483814 16790841	PRIDB PRNA RNABindR	RB147 PRNA MT109
DNA/RNA interacting proteins	DNA	146 1153 92 146	18042272	DNAbinder	Main Dataset Alternate Dataset Realistic Dataset Independent Dataset
	RNA	377	20677174	RNApred	RNA Binding data non-RNA binding data
Nucleotide interacting residues	ATP	168	20021687	ATPint	ATPint168
	GTP	44	20525281	GTPBinder	GTPbinder44
	NAD	195	20353553	NADbinder	NADbinder195
	FAD	198	20122222	FADPred	FADPred198
Bacterial protein interaction	Functional interaction	1941	19798435	Bacteriome	Functional interactions dataset
	TAP interaction	918	19798435	Bacteriome	Hu et al. TAP interaction dataset
	Functional & TAP interaction	2283	19798435	Bacteriome	Combined interactions dataset
	Experimental interaction	2291	19798435	Bacteriome	Extended interaction dataset
Protein crystalization	Propensity Dataset1	3958	18285371	SSPF Crystallisation Propensity Predictors	ParCrys Datasets
	Propensity Dataset2	144, 500	19755114	MetaPPCP	MetaPPCP Datasets
Helix packing	Helix packing	610	wiki.c2b2	Helix packing patterns	Helix packing dataset
Membrane proteins	Homologous Membrane Proteins	36	16648166	HOMEP	homep datasets
	Transmembrane Proteins	247	15111065	Phobius	Phobius
Dihedral angles	Dihedral angles dataset	513	20025785	DISSPred	disspred datasets
Surface accessibility	Surface accessibility dataset	215	11170200	Protein surface accessibility	Manesh-215
Rotamer Libraries	Dunbrack Rotamer Libraries	850	12163064	Dunbrack Rotamer Libraries	Dunbrack Rotamer Libraries
	Tuffery et al's rotamer libraries	2926	12557186	Backbone independent Backbone Dependent	Tuffery's Backbone independent Tuffery's Backbone dependent
	Penultimate Rotamer Library	240	10861930	Penultimate Rotamer Library	Penultimate Rotamer Library

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