Protein Detail

Protein Information

Domain Id	1d3bC00
DB_Source-Class	CATH 3.5, 2.30.30.100
Molecule	Small nuclear ribonucleoprotein Sm D3
Residues	71
Sequence
SSE Sequence^*(6)	`HEEEEE`

^* Secondary structure Elements (SSE) from N to C terminal of the PDB chain. [SSE: H ("Alpha Helix"); E ("Strands")]

Protein Topology

Topology Information

Protein topology is represented by contact and orientation of secondary structure elements (SSEs). The figure on the left represents the contact map with information on type of orientation two SSEs share (color coded). The matrix can be represented in following string representation.

Contact String
cs [Click here to expand] `0.Ea.Ea.Ea.0-Cp.Ep.Ep.Ep-0.Ep.0-0.Ea-0`

Prefence of topology : True

[ Hover over the plot rectangles to know more about SSE-contact ]

Linear Topology Graph : 1d3bC00

Protein Id: 1d3bC00

Figure Detail - Blocks: Helix (rectangles), Strands (triangles); Colormap: Red (N-terminal),--(Green)-- Blue (C-Terminal). Spatial Connectivity by arc Lines [Hover over the image to know the SSE detail]

Topology Graph : 1d3bC00

Protein Id: 1d3bC00

Expand

Figure Detail - Blocks: Helix (circle), Strands (arrow); Colormap: Red (N-terminal), Blue (C-Terminal). Spatial Connectivity by dotted Lines [Hover over the image to know the SSE detail]

Modules in queried Topology

#SSE	SSE string	Contact String	Preferrence	ProteinDB	DomainsDB
3	EEE	Ea.Ea-Ep	True	2XTT:A, 3CFA:L, 3CFA:M, 3CFA:R, 3CFA:S, 3CFH:L, 3CFH:M, 3CFH:R, 3CFH:S, 3LE4:A, 3MLQ:E, 3MLQ:H, 3TVJ:I, 4F98:A, 4GWT:A, 4N7F:A, 4N7F:B, 4REX:A, 5DZD:B, 5E24:B, 5E24:D, 1NH2:C, 1NVP:C, 2A50:A, 2HIP:A,	d1gl0i_, d1goia1, d1kbea_, d1mkna_, d1nh2c_, d1nh2d2, d1o9aa1, d1rl2a2, d2dk1a1, d2hipa_, d2ho2a1, d2jmfa1, 1kbeA00, 1mknA00, 1nh2C00, 1nvpC00, 1o9aA01,
3	EEE	Ea.0-Ep	False		d2jdih2,
5	EEEEE	Ea.Ea.Ea.0-Ep.Ep.Ep-Ep.0-Ea	True	4EMH:A, 4EMH:B, 4EMH:C, 4EMH:D, 4EMH:E, 4EMH:F, 4EMH:G, 4EMH:H, 4EMH:I, 4EMH:J, 4EMH:K, 4EMH:L, 4EMH:M, 4EMH:N, 4EMH:O, 4EMH:P, 4EMH:Q, 4EMH:R, 4EMH:T, 4EMH:U, 4EMH:V, 4EMH:W, 4EMH:X, 4EMH:Y, 4F7U:G, 4M7D:A, 4XQ3:B,

Protein In ProLegoDB with identical/similar Topology

Proteins with Identical Topology

[Same secondary structure composition, contact-pair and orientation]

PDB Id	Chain	Residues	Molecule	Detail Topology
1D3B	A	72	Small nuclear ribonucleoprotein Sm D3	View
1I4K	1	72	Putative snRNP Sm-like protein	View
d1d3ba_	--	72	u'Small nuclear ribonucleoprotein Sm D3'	View
1d3bC00	--	71	Small nuclear ribonucleoprotein Sm D3	View

Protein with similar Topology [same scaffold]

[Same secondary structure composition and contact-pair but of different orientation]

PDB Id	Chain	Residues	Molecule	Detail Topology
3PGG	B	80	U6 snRNA-associated Sm-like protein LSm5. SM domain	View
4C92	C	79	U6 snRNA-associated Sm-like protein LSm3	View
4M7D	J	78	U6 snRNA-associated Sm-like protein LSm3	View
1I8F	A	71	Small nuclear ribonucleoprotein homolog (Sm-like)	View
1MGQ	A	74	Putative snRNP Sm-like protein	View

Proteins with topologies of same secondary structure (H/E) component

[Topologies with same secondary structure composition with different contact-pairs and orientation]

PDB Id	Chain	Residues	Molecule	Detail Topology
2X1W	A	98	Vascular endothelial growth factor C	View
2X9A	A	61	Attachment protein G3P	View
2X9A	C	61	Attachment protein G3P	View
3AQQ	B	99	Calcium-regulated heat stable protein 1	View
3BT4	A	85	Fungal protease inhibitor-1	View
3D0F	A	104	MrcA penicillin-binding 1 (Peptidoglycan synthetase) transmembrane protein	View
3D0F	B	104	MrcA penicillin-binding 1 (Peptidoglycan synthetase) transmembrane protein	View
3DKM	A	79	E3 ubiquitin-protein ligase HECTD1	View
3EMO	A	126	Hia	View
3FDR	A	89	Tudor and KH domain-containing protein	View
3H43	A	74	Proteasome-activating nucleotidase	View
3H43	B	75	Proteasome-activating nucleotidase	View
3H43	C	74	Proteasome-activating nucleotidase	View
3H43	D	74	Proteasome-activating nucleotidase	View
3H43	E	74	Proteasome-activating nucleotidase	View
3H43	F	74	Proteasome-activating nucleotidase	View
3H43	G	74	Proteasome-activating nucleotidase	View
3H43	H	76	Proteasome-activating nucleotidase	View
3H43	I	77	Proteasome-activating nucleotidase	View
3H43	J	74	Proteasome-activating nucleotidase	View
3H43	K	76	Proteasome-activating nucleotidase	View
3H43	L	77	Proteasome-activating nucleotidase	View
3HFN	A	60	Asl2047 protein	View
3HFN	B	60	Asl2047 protein	View
3HFO	A	65	Ssr3341 protein	View
3HFO	B	66	Ssr3341 protein	View
3HFO	C	66	Ssr3341 protein	View
3HSB	A	67	RNA-binding protein Hfq	View
3HSB	B	69	RNA-binding protein Hfq	View
3HSB	C	66	RNA-binding protein Hfq	View
3HSB	D	67	RNA-binding protein Hfq	View
3HSB	E	68	RNA-binding protein Hfq	View
3HSB	F	67	RNA-binding protein Hfq	View
3NFG	H	119	Uncharacterized protein	View
3S6N	B	81	Small nuclear ribonucleoprotein Sm D2	View
3S6N	E	77	Small nuclear ribonucleoprotein E	View
3SB2	A	69	RNA-binding protein Hfq	View
3SB2	B	65	RNA-binding protein Hfq	View
3SB2	C	61	RNA-binding protein Hfq	View
3SB2	D	66	RNA-binding protein Hfq	View
3SB2	E	66	RNA-binding protein Hfq	View
3SB2	F	67	RNA-binding protein Hfq	View
3WOE	B	103	Putative uncharacterized protein	View
3WOE	D	103	Putative uncharacterized protein	View
3WWV	A	64	Membrane-bound protease PH1510	View
4BHR	A	81	Pilin, type IV, putative	View
4BHR	B	87	Pilin, type IV, putative	View
4DFC	C	79	Transcription-repair-coupling factor	View
4EMG	A	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	B	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	C	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	D	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	E	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	F	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	G	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	H	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	I	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	J	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	K	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	L	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	M	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMG	N	69	Probable U6 snRNA-associated Sm-like protein LSm3	View
4EMK	A	68	U6 snRNA-associated Sm-like protein LSm5	View
4EMK	B	71	U6 snRNA-associated Sm-like protein LSm6	View
4F7U	E	78	Small nuclear ribonucleoprotein E	View
4F7U	F	73	Small nuclear ribonucleoprotein F	View
4F7U	H	78	Small nuclear ribonucleoprotein E	View
4F7U	I	74	Small nuclear ribonucleoprotein F	View
4JPH	C	101	Gremlin-2	View
4JPH	D	111	Gremlin-2	View
4M7D	G	77	U6 snRNA-associated Sm-like protein LSm4	View
4M7D	N	66	U6 snRNA-associated Sm-like protein LSm4	View
4NL2	A	73	Protein hfq	View
4NL2	B	72	Protein hfq	View
4NL2	C	74	Protein hfq	View
4NL2	D	73	Protein hfq	View
4NL2	E	73	Protein hfq	View
4NL2	F	75	Protein hfq	View
4NTQ	A	75	16S rRNA endonuclease CdiA	View
4XQ3	A	78	Like-Sm ribonucleoprotein core	View
4XQ3	D	79	Like-Sm ribonucleoprotein core	View
4XQ3	F	83	Like-Sm ribonucleoprotein core	View
4Y91	A	66	RNA-binding protein Hfq	View
4Y91	B	66	RNA-binding protein Hfq	View
4Y91	C	65	RNA-binding protein Hfq	View
4Y91	D	66	RNA-binding protein Hfq	View
4Y91	E	66	RNA-binding protein Hfq	View
4Y91	F	73	RNA-binding protein Hfq	View
4Y91	G	66	RNA-binding protein Hfq	View
4Y91	H	66	RNA-binding protein Hfq	View
4Y91	I	65	RNA-binding protein Hfq	View
4Y91	J	66	RNA-binding protein Hfq	View
4Y91	K	66	RNA-binding protein Hfq	View
4Y91	L	66	RNA-binding protein Hfq	View
4Z4A	A	74	Carbohydrate-binding module family 14 protein	View
4Z4A	B	75	Carbohydrate-binding module family 14 protein	View
5AEJ	A	114	Gremlin-1	View
5AEJ	B	113	Gremlin-1	View
5AEJ	C	113	Gremlin-1	View
5AEJ	D	114	Gremlin-1	View
5DM6	M	109	50S ribosomal protein L19	View
5I21	A	65	RNA-binding protein Hfq	View
5I21	B	66	RNA-binding protein Hfq	View
5I21	C	65	RNA-binding protein Hfq	View
5SZD	A	72	RNA-binding protein Hfq	View
5SZD	B	70	RNA-binding protein Hfq	View
5SZD	C	71	RNA-binding protein Hfq	View
5SZD	D	69	RNA-binding protein Hfq	View
5SZD	E	69	RNA-binding protein Hfq	View
5SZD	F	72	RNA-binding protein Hfq	View
5SZD	G	70	RNA-binding protein Hfq	View
5SZD	H	71	RNA-binding protein Hfq	View
5SZD	I	71	RNA-binding protein Hfq	View
5SZD	J	71	RNA-binding protein Hfq	View
5SZD	K	71	RNA-binding protein Hfq	View
5SZD	L	71	RNA-binding protein Hfq	View
1FZV	A	100	Placenta growth factor	View
1H64	1	71	Putative snRNP Sm-like protein	View
1KQ1	A	60	RNA-binding protein Hfq	View
1LJO	A	75	SnRNP, putative	View
1NNX	A	93	Protein YgiW	View
1TH7	A	78	Small nuclear riboprotein protein (SnRNP-2)	View
1VQO	Q	95	50S ribosomal protein L21e	View
1Y96	B	85	Gem-associated protein 7	View
2HQX	A	90	Staphylococcal nuclease domain-containing protein 1	View
2WG5	A	87	General control protein GCN4	View

Topology view of query protein [ProLego results]

1d3bC00

Topology Information