Protein Detail

Protein Information

PDBId & Chain	3RKC : B
Molecule	Capsid protein
Residues	146
Sequence
SSE Sequence^*(12)	`EEEEEEEEEEEE`

^* 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.0.Ea.0.Ea.0.Ea.Ea.Ea.0-0.Ea.0.0.0.0.0.Ep.Ep.0-Ep.0.0.0.0.0.0.0.Ea-0.0.0.0.0.0.0.0-Ep.0.0.0.0.0.0-0.0.0.Ea.0.0-0.Ea.0.Ep.0-0.Ep.Ea.0-0.Ep.Ea-0.Ea-0`

Prefence of topology : False

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

Linear Topology Graph : 3RKC_B

Protein Id: 3RKC_B

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 : 3RKC_B

Protein Id: 3RKC_B

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	0.Ea-0	True	2Y8T:B, 2Y8T:E, 2ZJR:Z, 3H31:A, 3O27:B, 3SF4:D, 3SF4:E, 3SF4:F, 4I6M:D, 4XO1:A, 4YIZ:B, 4YIZ:D, 4YIZ:F, 5DM6:Z, 5ITM:A, 5ITM:B, 5ITM:C, 5ITM:D, 5ITM:E, 5ITM:F, 1AVY:A, 1HLQ:A, 1ICF:I, 1ISU:A, 1PML:A, 2ATC:B, 2DLB:A, 2GGV:A,	d1hlqa_, d1icfi_, d1isua_, d1ppji_, d1rwsa_, d1skza1, d1tdha3, d1yfba1, d2dlba1, d2i9aa2, d2qam01, d2zdra1, d3h31a_, 1avyA00, 1avyB00, 1avyA00, 1avyB00, 1hlqA00, 1icfI00, 1ppjI00, 1rwsA00, 2fd6A02,
3	EEE	Ea.0-Ea	False	4C2M:1, 4C2M:L, 4KSN:A, 4SGB:I, 6RXN:A, 2DSX:A, 2RDV:A, 2V3B:B,	d1lkoa2, d1pfva3, d1yuza2, d1zina2, d2cona1, d4sgbi_, 2dsxA00, 4sgbI00,
3	EEE	Ea.0-0	True	2YFV:C, 2ZJR:U, 3B08:B, 3B08:E, 3B08:H, 3B08:K, 3D2Q:D, 3EGG:D, 3GL6:A, 3HVQ:D, 3KXY:Y, 3MMY:B, 3MMY:D, 3MMY:F, 3MMY:H, 3O7A:A, 3TND:D, 3TND:F, 3ZG9:A, 4EAZ:C, 4EAZ:D, 4LM6:A, 4LM6:C, 4LMS:A, 4LMX:A, 4LMX:C, 4LMX:E, 4LMX:G, 4LMX:I, 4LMX:K, 4MMS:A, 4MMS:C, 4MMS:E, 4Q4W:4, 4QF2:A, 4QF2:B, 4QF2:C, 4QF2:D, 4QF3:A, 4QF3:B, 4WJW:A, 5E4X:A, 5IYZ:E, 5KX5:E, 1D4M:4, 1G3J:B, 1HXS:4, 1J8E:A, 1JY2:O, 1VPZ:A, 1XG0:A, 1XG0:B, 1XU1:R, 2BTI:A,	d1cxxa2, d1k0ra4, d1lv3a_, d1wvka_, d1xg0a_, d1xpaa2, d1xu1r_, d1xu2r_, d2btia_, d2bv3a4, d2glia4, d2gtlm2, d2zjru1, d3ryce_, 1e0aB00, 1g3jD00, 1jy2O00, 1lv3A00, 1wvkA00, 1xg0B00, 2fyuI00, 2gliA04,
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,
4	EEEE	Ea.0.Ea-Ea.0-0	False		d1h8pa1, d1pjua2,
4	EEEE	0.Ea.0-0.0-0	True	2YNZ:A, 2YNZ:B, 2YNZ:C, 3C9I:A, 3C9I:B, 3C9I:C, 3C9I:D, 3C9I:E, 3C9I:F, 3ZMF:C, 5BU5:A, 5BU5:B, 5BU5:C, 5BU5:D, 5BU5:E, 5BU5:F, 5BU8:A, 5BU8:B,
4	EEEE	Ea.0.Ea-0.0-0	True	3BG4:D, 3UA0:A, 3UCI:A, 4R5R:A, 4R5R:B, 4ZRP:C, 4ZRP:D, 5B4Y:B, 5C13:A, 5C13:G, 5F0E:B, 5F86:B, 5JQP:B, 5KXH:B, 5KY0:B, 5KY4:B, 1J2L:A, 1KIG:L, 1LSL:A, 2QSK:A, 2W2N:E,	d1ataa_, d1b9wa2, d1i07a_, d1j2la_, d1jmab1, d1ppqa_, d1q4ga2, d2i9aa1, d2j01y1, d2qqra2, 1eqgA01, 1fycA00, 1i07A00, 1xkbA01, 2fd6A01,
4	EEEE	0.Ea.Ea-0.Ep-0	True	3R45:C, 3UL5:A, 3UL5:B, 3UL5:D, 4TX4:A, 4TX4:B,
4	EEEE	Ea.Ea.Ea-Ep.Ep-0	False	3KVP:A, 3KVP:B, 3KVP:E, 1R8O:B,
5	EEEEE	Ea.0.Ea.0-0.0.0-0.0-0	True	3TND:B, 3TND:H, 3ZVK:E, 3ZVK:F, 3ZVK:G, 3ZVK:H, 5K8J:A, 5K8J:D,	d2qqra1,
6	EEEEEE	Ea.0.Ea.0.Ea-0.0.0.0-0.0.0-0.0-0	True	3C05:A, 3C05:B, 3C05:C, 3C05:D, 3X3F:A, 4GNE:A, 4KU0:D, 5TLK:X, 1KI0:A, 1RMR:A, 1TEJ:A,
7	EEEEEEE	0.Ea.0.Ea.0.Ea-0.0.0.0.0-0.0.0.0-0.0.0-0.0-0	False	1SKZ:A,

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

Protein with similar Topology [same scaffold]

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

PDB Id	Chain	Residues	Molecule	Detail Topology

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
2WZP	F	122		View
2X2S	A	150	Agglutinin	View
2X2S	B	152	Agglutinin	View
2X2S	C	148	Agglutinin	View
2X2S	D	152	Agglutinin	View
2Y9F	A	149	Hemolytic lectin LSLa	View
2Y9W	C	136	Lectin-like fold protein	View
2Y9W	D	135	Lectin-like fold protein	View
2YMZ	D	130	Galectin	View
2YMZ	F	130	Galectin	View
2Z35	A	111	TRAV6D-7	View
2Z6X	E	215	Fluorescent protein Dronpa	View
2ZQO	A	130	29-kDa galactose-binding lectin	View
2ZQO	B	130	29-kDa galactose-binding lectin	View
3AQG	B	138	Zymogen granule protein 16 homolog B	View
3BWR	A	267	Major capsid protein VP1	View
3BWR	B	255	Major capsid protein VP1	View
3C0D	A	106	Putative nitrite reductase NADPH (Small subunit) oxidoreductase protein	View
3C0D	D	103	Putative nitrite reductase NADPH (Small subunit) oxidoreductase protein	View
3C0D	G	103	Putative nitrite reductase NADPH (Small subunit) oxidoreductase protein	View
3C8X	A	160	Ephrin type-A receptor 2	View
3DUI	B	132	Beta-galactoside-binding lectin	View
3ES1	A	160	Cupin 2, conserved barrel domain protein	View
3GQH	A	163	Pre-neck appendage protein gp12	View
3GQH	B	163	Pre-neck appendage protein gp12	View
3H3I	A	133	Uncharacterized protein	View
3H3I	B	133	Uncharacterized protein	View
3H3I	C	133	Uncharacterized protein	View
3H6R	A	152	Clitocypin-2	View
3H6R	B	152	Clitocypin-2	View
3HEI	O	174	Ephrin type-A receptor 2	View
3HNM	D	164	Putative chitobiase	View
3I8T	A	140	Galectin-4	View
3KLQ	A	137	Putative pilus anchoring protein	View
3KLQ	B	130	Putative pilus anchoring protein	View
3M1H	A	174	Lys-gingipain W83	View
3M1H	B	175	Lys-gingipain W83	View
3M1H	C	170	Lys-gingipain W83	View
3M1H	D	176	Lys-gingipain W83	View
3MAL	A	181	Stromal cell-derived factor 2-like protein	View
3MAL	B	181	Stromal cell-derived factor 2-like protein	View
3NBC	B	148	Ricin B-like lectin	View
3NDZ	E	107	Endoglucanase D	View
3NDZ	F	107	Endoglucanase D	View
3NDZ	G	107	Endoglucanase D	View
3NDZ	H	107	Endoglucanase D	View
3NO8	A	157	BTB/POZ domain-containing protein 2	View
3NO8	B	157	BTB/POZ domain-containing protein 2	View
3NRU	A	159	Ephrin type-A receptor 7	View
3NRU	B	158	Ephrin type-A receptor 7	View
3NRU	C	160	Ephrin type-A receptor 7	View
3NRU	D	160	Ephrin type-A receptor 7	View
3NRU	E	163	Ephrin type-A receptor 7	View
3NRU	F	156	Ephrin type-A receptor 7	View
3NRU	G	160	Ephrin type-A receptor 7	View
3NRU	H	157	Ephrin type-A receptor 7	View
3NRU	I	160	Ephrin type-A receptor 7	View
3NRU	J	161	Ephrin type-A receptor 7	View
3NRU	K	155	Ephrin type-A receptor 7	View
3NRU	L	153	Ephrin type-A receptor 7	View
3P1I	A	171	Ephrin type-B receptor 3	View
3P1I	B	164	Ephrin type-B receptor 3	View
3P1I	C	167	Ephrin type-B receptor 3	View
3RG1	G	138	Uncharacterized protein	View
3RG1	H	138	Uncharacterized protein	View
3RG1	K	136	Uncharacterized protein	View
3RKC	A	147	Capsid protein	View
3S8K	A	183	Latex serine proteinase inhibitor	View
3S8K	B	182	Latex serine proteinase inhibitor	View
3T6Q	C	139	Lymphocyte antigen 86	View
3T6Q	D	139	Lymphocyte antigen 86	View
3TC2	A	181	Putative kunitz-type proteinase inhibitor P1H5	View
3TC2	B	177	Putative kunitz-type proteinase inhibitor P1H5	View
3TC2	C	178	Putative kunitz-type proteinase inhibitor P1H5	View
3U6G	A	123	Uncharacterized protein	View
3U6G	B	121	Uncharacterized protein	View
3URF	A	156	Tumor necrosis factor ligand superfamily member 11	View
3WG3	A	163	Anti-tumor lectin	View
3WG3	B	155	Anti-tumor lectin	View
3WUD	A	132	Galectin	View
3ZC9	A	182	Trypsin inhibitor	View
3ZSJ	A	138	Galectin-3	View
3ZXF	A	134	Galectin-7	View
43C9	A	107		View
43C9	C	107		View
43C9	E	107		View
43C9	G	107		View
4AKD	A	150	Mannose-specific lectin KM+	View
4AKD	B	150	Mannose-specific lectin KM+	View
4AKD	C	144	Mannose-specific lectin KM+	View
4AKD	D	150	Mannose-specific lectin KM+	View
4AKM	A	155	Lysosome-associated membrane glycoprotein 3	View
4AN6	A	172	Trypsin inhibitor	View
4AN6	B	171	Trypsin inhibitor	View
4ASH	A	177	Polyprotein	View
4ASH	B	176	Polyprotein	View
4B1M	B	163	Levanase	View
4B1M	C	161	Levanase	View
4B97	A	151	CELLULOSE BINDING DOMAIN-CONTAINING PROTEIN	View
4BH5	A	130	Murein hydrolase activator EnvC	View
4C9R	B	105	R-spondin-2	View
4C9R	D	107	R-spondin-2	View
4D0E	A	122	Neurogenic locus notch homolog protein 1	View
4D63	A	138	Fiber	View
4D90	B	126	EGF-like repeat and discoidin I-like domain-containing protein 3	View
4DDN	A	154	Ipomoelin	View
4DDN	B	154	Ipomoelin	View
4DDN	C	154	Ipomoelin	View
4DDN	D	154	Ipomoelin	View
4E4D	R	135	Tumor necrosis factor receptor superfamily member 11B	View
4E4D	X	154	Tumor necrosis factor ligand superfamily member 11	View
4EPC	A	141	Bifunctional autolysin	View
4ET7	A	174	Ephrin type-A receptor 5	View
4G9M	A	142	Ricin-type beta-trefoil lectin domain-containing protein	View
4G9M	B	143	Ricin-type beta-trefoil lectin domain-containing protein	View
4GX7	A	132	Hemolysin	View
4GX7	B	132	Hemolysin	View
4GX7	C	132	Hemolysin	View
4GX7	D	132	Hemolysin	View
4GX7	E	132	Hemolysin	View
4GX7	F	132	Hemolysin	View
4HT1	T	131	Tumor necrosis factor ligand superfamily member 12	View
4I4O	A	146	BEL-beta trefoil	View
4I4O	B	146	BEL-beta trefoil	View
4I4Q	A	146	BEL-beta trefoil	View
4J2K	A	168	Trypsin inhibitor	View
4J2K	B	167	Trypsin inhibitor	View
4JC2	B	220	Spring green fluorescence emitting protein	View
4JQR	A	218	Uncharacterized protein	View
4JRA	C	83	Synaptic vesicle glycoprotein 2C	View
4L1N	A	159	Conserved lipoprotein, putative	View
4LO0	C	144	Non-toxin haemagglutinin HA17	View
4MBY	B	275	Major capsid protein VP1	View
4MBY	C	275	Major capsid protein VP1	View
4MBY	D	274	Major capsid protein VP1	View
4MBY	E	277	Major capsid protein VP1	View
4MBY	F	274	Major capsid protein VP1	View
4MBY	G	270	Major capsid protein VP1	View
4MBY	H	273	Major capsid protein VP1	View
4MBY	I	273	Major capsid protein VP1	View
4MBY	J	275	Major capsid protein VP1	View
4NO4	A	134	Galectin-1	View
4NO4	B	134	Galectin-1	View
4NO4	C	134	Galectin-1	View
4NO4	D	134	Galectin-1	View
4NO4	E	134	Galectin-1	View
4NO4	F	134	Galectin-1	View
4OJU	A	140	Uncharacterized protein	View
4OJU	B	138	Uncharacterized protein	View
4OJU	C	140	Uncharacterized protein	View
4OJU	D	136	Uncharacterized protein	View
4OR1	A	129	Invasin homolog AafB	View
4OR1	B	134	Invasin homolog AafB	View
4OWK	A	131	Cytolysin	View
4OWK	B	131	Cytolysin	View
4OWK	C	131	Cytolysin	View
4OWK	D	131	Cytolysin	View
4OWK	E	136	Cytolysin	View
4OWK	F	133	Cytolysin	View
4OWK	G	131	Cytolysin	View
4P9J	B	180	Ryanodine receptor 1	View
4PHX	A	133	Protein AggB	View
4PHX	C	132	Protein AggB	View
4PHX	E	126	Protein AggB	View
4PIT	A	140	Ripening-associated protein	View
4PIT	B	144	Ripening-associated protein	View
4PIT	C	141	Ripening-associated protein	View
4PIT	D	143	Ripening-associated protein	View
4R7V	A	149	Arrestin domain-containing protein 3	View
4TKC	A	118	Mannose recognizing lectin	View
4USO	A	136	CCL2 lectin	View
4USO	B	135	CCL2 lectin	View
4USO	C	130	CCL2 lectin	View
4USO	D	130	CCL2 lectin	View
4XQA	A	184	Fiber protein	View
4XQA	B	184	Fiber protein	View
4XQA	C	183	Fiber protein	View
4XUO	A	156	Endo-1,4-beta-xylanase C	View
4XUO	B	156	Endo-1,4-beta-xylanase C	View
4ZOT	A	163	Kunitz-type serine protease inhibitor BbKI	View
5AOZ	A	138	Putative cellulosomal scaffoldin protein	View
5AV7	A	141	Lectin	View
5AV7	B	148	Lectin	View
5AV7	C	148	Lectin	View
5AV7	D	147	Lectin	View
5AYQ	A	118	Sodium channel subunit beta-4	View
5AYQ	B	121	Sodium channel subunit beta-4	View
5BQL	C	222	Fluorescent protein cyOFP	View
5C2B	H	130		View
5CBL	B	139	Galectin-4	View
5D55	B	147	HdaA (Adhesin), HUS-associated diffuse adherence	View
5DG2	A	128	Galectin-2	View
5DG2	B	131	Galectin-2	View
5DMJ	A	165	Tumor necrosis factor receptor superfamily member 5	View
5DMJ	F	163	Tumor necrosis factor receptor superfamily member 5	View
5DSS	B	185	MP-4	View
5DZU	A	187	Aspartic protease inhibitor 11	View
5DZU	B	176	Aspartic protease inhibitor 11	View
5EXB	E	220	Green fluorescent protein	View
5FEB	A	122	Sodium channel subunit beta-2	View
5FJL	A	136	Fiber protein	View
5FVI	B	222	Green to red photoconvertible GFP-like protein EosFP	View
5FZU	A	185	Uncharacterized protein	View
5HBA	A	133	Uncharacterized protein	View
5HPZ	A	175	Water-soluble chlorophyll protein	View
5HPZ	B	175	Water-soluble chlorophyll protein	View
5I0Q	B	125	C4b-binding protein alpha chain	View
5JLV	D	91	Synaptic vesicle glycoprotein 2C	View
5L73	A	174	Neuropilin-1	View
5LND	B	126	Fimbrial protein MyfA	View
5MOY	B	103	Synaptic vesicle glycoprotein 2C	View
5MUN	A	182	Lys-gingipain W83	View
5MUN	B	177	Lys-gingipain W83	View
1A78	A	134	Galectin-1	View
1C3M	A	145	Lectin 1	View
1FO0	A	114	TRAV16	View
1H03	P	125	Complement decay-accelerating factor	View
1HDK	A	139	Galectin-10	View
1I78	A	297	Protease 7	View
1KLO	A	162	Laminin subunit gamma-1	View
1L0S	A	87	Thermal hysteresis protein	View
1NC7	A	110	Uncharacterized protein	View
1OD3	A	132	Endo-1,4-beta-xylanase A	View
1OUW	A	148	Lectin	View
1R8N	A	185	Kunitz-type serine protease inhibitor DrTI	View
1RJ8	A	140	Ectodysplasin-A	View
1SG1	X	160	Tumor necrosis factor receptor superfamily member 16	View
1SZB	A	167	Mannan-binding lectin serine protease 2	View
1T9F	A	178	Uncharacterized protein	View
1TIE	A	166	Trypsin inhibitor DE-3	View
1TVD	A	111	Protein TRDV3	View
1UWW	A	181	Endoglucanase	View
1UY4	A	132	Endo-1,4-beta-xylanase A	View
1XD5	A	112	Antifungal protein	View
1XD6	A	110	Gastrodianin-4A	View
1XG6	A	179	Chymotrypsin inhibitor 3	View
1XXQ	A	154	Mannose-binding lectin	View
2BTJ	A	218	Green to red photoconvertible GFP-like protein EosFP	View
2C9J	A	213	Green fluorescent protein FP512	View
2DRE	A	172	Water-soluble chlorophyll protein	View
2E4M	C	143	Hemagglutinin component HA-17	View
2HEY	R	138	Tumor necrosis factor receptor superfamily member 4	View
2J2J	A	182	Fiber protein	View
2PXS	A	225	GFP-like fluorescent chromoprotein FP506	View
2PYT	A	122	Ethanolamine utilization protein EutQ	View
2QF4	A	170	Cell shape-determining protein MreC	View
2QN4	A	159	Alpha-amylase/subtilisin inhibitor	View
2QY0	A	154	Complement C1r subcomponent	View
2R0H	A	160	Galectin-3	View
2RH7	A	211	Green fluorescent protein	View
2UWI	A	127	TNF-alpha-receptor-like protein	View
2VVH	A	220	Green to red photoconvertible GFP-like protein EosFP	View
2W87	A	139	Esterase D	View
2WKK	A	150	Galectin-2	View
2WRA	A	122	Lectin	View
5FVG	A	220	Green to red photoconvertible GFP-like protein EosFP	View
5KRP	A	150		View

Topology view of query protein [ProLego results]

3RKC : B

Topology Information