Protein Detail

Protein Information

PDBId & Chain	1TWF : I
Molecule	DNA-directed RNA polymerase II subunit RPB9
Residues	122
Sequence
SSE Sequence^*(6)	`EEEEEE`

^* 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] `Ea.Ea.0.Ea.Ea-0.0.0.0-0.0.0-0.0-0`

Prefence of topology : False

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

Linear Topology Graph : 1TWF_I

Protein Id: 1TWF_I

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 : 1TWF_I

Protein Id: 1TWF_I

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-0	True	3FIF:F, 3MLQ:G, 4A94:C, 4EAG:B, 4EAI:B, 4OEL:B, 4PKF:C, 5BWD:C, 5DZD:A, 5K2M:E, 2BZY:A, 2QN5:B, 2V8Q:B,	d1co4a_, d1dl6a_, d1egfa_, d1gl1i_, d1k36a_, d1k81a_, d1ng2a1, d1nvpd2, d1pina1, d1tpga2, d1twfi1, d1twfi2, d2akla2, d2dara2, d2k4xa1, d2v8qb1, 1co4A00, 1dl6A00, 1co4A00, 1dl6A00, 1k36A00, 1nvpD02,
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	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,
4	EEEE	Ea.Ea.0-0.0-0	True	3IGM:A, 3IGM:B, 5DM6:F, 5FGO:A, 5FGO:C, 5FGO:E, 5FGO:F, 2WH7:A,	d1pd0a5,
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-0.0-0	True	2YH9:A, 2YH9:B, 2YH9:C, 3OW2:Z, 3UL5:C, 4YX1:A, 4YX1:B, 5U6Z:A, 1VQO:1, 2QRD:B,	d1vq811, d2f1la1, d2qlvb2, 1vq8100, 2f1lA02,
5	EEEEE	Ea.Ea.0.Ea-0.0.0-0.0-0	True	3BK3:C, 3BK3:D, 3QR7:A, 3QR7:B, 3VTO:A, 3VTO:B, 3VTO:C, 3VTO:P, 3VTO:Q, 3VTO:R, 5C6P:B,
5	EEEEE	Ea.0.Ea.Ea-0.0.0-0.0-0	False	1R8O:A,	d1v0ea2,

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
4S36	A	90	VR2 protein	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

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
2XZZ	A	97	Protein-glutamine gamma-glutamyltransferase K	View
2Y8N	B	86	4-hydroxyphenylacetate decarboxylase small subunit	View
2Y8N	D	86	4-hydroxyphenylacetate decarboxylase small subunit	View
3BG4	B	131	Chymotrypsinogen A	View
3C05	A	59	Disintegrin acostatin-alpha	View
3C05	B	59	Zinc metalloproteinase/disintegrin	View
3C05	C	58	Disintegrin acostatin-alpha	View
3C05	D	56	Zinc metalloproteinase/disintegrin	View
3C0C	A	63	Endophilin-A2	View
3DM3	A	98	Replication factor A	View
3DM3	B	98	Replication factor A	View
3DM3	C	98	Replication factor A	View
3E0E	A	89	Replication protein A	View
3FCG	A	75	F1 capsule-anchoring protein	View
3FCG	B	71	F1 capsule-anchoring protein	View
3GGM	C	74	Uncharacterized protein	View
3HIA	A	66	Choline binding protein	View
3HIA	C	74	Choline binding protein	View
3I84	A	79	Basigin	View
3I84	B	85	Basigin	View
3MCB	A	54	Nascent polypeptide-associated complex subunit alpha	View
3MCB	B	58	Transcription factor BTF3	View
3OSS	C	65	Type II secretion system protein C	View
3Q9P	A	76	Heat shock protein beta-1	View
3SD2	A	83	Uncharacterized protein	View
3TVJ	A	83	Mannan-binding lectin serine protease 2	View
3UA0	B	67	Fibroin heavy chain	View
3WMQ	A	94	Galactose-binding lectin	View
3X3F	A	71	Tumor necrosis factor receptor superfamily member 10B	View
3ZZQ	C	65	Transcription attenuation protein MtrB	View
3ZZQ	F	65	Transcription attenuation protein MtrB	View
4A42	B	125	Probable alpha-N-acetylglucosaminidase	View
4FZQ	A	79	Uncharacterized protein conserved in bacteria	View
4FZQ	B	78	Uncharacterized protein conserved in bacteria	View
4FZQ	C	79	Uncharacterized protein conserved in bacteria	View
4FZQ	D	76	Uncharacterized protein conserved in bacteria	View
4FZQ	E	76	Uncharacterized protein conserved in bacteria	View
4FZQ	F	76	Uncharacterized protein conserved in bacteria	View
4GNE	A	98	Histone-lysine N-methyltransferase NSD3	View
4GS3	A	90	Single-stranded DNA-binding protein	View
4GWI	A	144	Platelet aggregation factor Sm-hPAF	View
4HRN	C	71	Receptor tyrosine-protein kinase erbB-2	View
4HRN	D	70	Receptor tyrosine-protein kinase erbB-2	View
4HTC	I	61	Hirudin variant-2	View
4JGU	A	95	Collagenase	View
4JGU	B	95	Collagenase	View
4JUT	A	84	Heat shock protein beta-6	View
4JUT	B	84	Heat shock protein beta-6	View
4JUT	C	90	Heat shock protein beta-6	View
4JUT	D	84	Heat shock protein beta-6	View
4JUT	E	88	Heat shock protein beta-6	View
4JUT	F	86	Heat shock protein beta-6	View
4JUT	G	83	Heat shock protein beta-6	View
4JUT	H	87	Heat shock protein beta-6	View
4KU0	D	96	Uncharacterized 10.2 kDa protein in segC-Gp6 intergenic region	View
4M7D	F	66	U6 snRNA-associated Sm-like protein LSm7	View
4M7D	H	64	U6 snRNA-associated Sm-like protein LSm8	View
4PBD	A	100	Protein SHQ1 homolog	View
4QQG	A	71	Histone acetyltransferase KAT5	View
4QQG	C	70	Histone acetyltransferase KAT5	View
4QQG	D	69	Histone acetyltransferase KAT5	View
4QQG	E	72	Histone acetyltransferase KAT5	View
4QQG	G	73	Histone acetyltransferase KAT5	View
4QY7	A	91	Uncharacterized protein YobA	View
4UD1	E	110	N protein	View
4WFW	A	84	General secretion pathway protein B	View
4X5L	C	96	Down syndrome cell adhesion molecule 1, isoform AM	View
4ZGN	B	103	Eukaryotic translation initiation factor 2 subunit gamma	View
5A6W	C	83	AvrPi7 protein	View
5CQ2	A	76	E3 ubiquitin-protein ligase Itchy homolog	View
5EZU	B	67	Protein A46	View
5M0W	A	62	Protein shisa-3 homolog	View
5MIX	A	77	CD83 antigen	View
5N06	A	93	Tyrosine-protein kinase receptor Tie-1	View
5N06	B	88	Tyrosine-protein kinase receptor Tie-1	View
5TLK	X	75	CD27 antigen	View
5TLK	Y	75	CD27 antigen	View
1B8K	A	90	Neurotrophin-3	View
1CDC	A	96	T-cell surface antigen CD2	View
1F94	A	63	Bucandin	View
1KI0	A	253	Plasminogen	View
1N9R	A	68	Small nuclear ribonucleoprotein F	View
1NQL	B	48	Pro-epidermal growth factor	View
1O7D	E	109	Lysosomal alpha-mannosidase	View
1OK0	A	74	Alpha-amylase inhibitor HOE-467A	View
1PBI	A	68	Seed trypsin/chymotrypsin inhibitor IVB	View
1RMR	A	64	Disintegrin schistatin	View
1TEJ	A	62	Disintegrin schistatin-like subunit A	View
1WOC	A	97	Primosomal replication protein n	View
2BH8	A	85	Cold shock protein CspA	View
2CME	B	79	Uncharacterized protein	View
2EY4	C	73	Small nucleolar rnp gar1-like protein	View
2H5F	A	75	Denmotoxin	View
2H7Z	A	75	Irditoxin subunit A	View
2H7Z	B	77	Irditoxin subunit B	View
2IC2	A	101	Interference hedgehog	View
2IIA	A	89	Alr3166 protein	View
2OFZ	A	132	Nucleoprotein	View
2PW8	I	61	Hirudin variant-1	View
2QCP	X	80	Cation efflux system protein CusF	View
2VC8	A	72	Enhancer of mRNA-decapping protein 3	View
2WJ5	A	96	Heat shock protein beta-6	View
2WKD	A	77	Putative uncharacterized protein	View
4LPV	A	96		View

Topology view of query protein [ProLego results]

1TWF : I

Topology Information