Protein Detail

Protein Information

PDBId & Chain	3I3T : F
Molecule	Ubiquitin-60S ribosomal protein L40
Residues	75
Sequence
SSE Sequence^*(6)	`EEHEEE`

^* 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.Ca.Ca.Ea.0-Cp.0.0.Ea-0.0.Cp-0.0-Ep`

Prefence of topology : True

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

Linear Topology Graph : 3I3T_F

Protein Id: 3I3T_F

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 : 3I3T_F

Protein Id: 3I3T_F

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	EEH	Ea.Ca-Cp	True	2ZVX:A, 2ZVX:B, 3BYB:A, 3BYB:B, 3BYB:C, 3FP7:J, 3IUF:A, 3M7Q:B, 3MJH:B, 3MJH:D, 3U1J:E, 3WUP:A, 4BQD:B, 4DTG:K, 4E1P:A, 4E1P:B, 4MPI:A, 4MPI:B, 4NTW:B, 4R2Y:A, 4R2Y:B, 4R2Y:C, 4R2Y:D, 4U30:W, 4U30:X, 4U30:Y, 4U30:Z, 4U32:X, 4UR6:A, 4UR6:B, 4WP4:A, 4WXA:F, 4XKL:D, 4Z0O:A, 5D0I:B, 5I72:A, 5I72:B, 5JB5:A, 5JB5:B, 5JB5:C, 5JG6:A, 5JG6:D, 1AAP:A, 1BUN:B, 1D0D:A, 1DTX:A, 1FAK:I, 1G6X:A, 1HG7:A, 1KTH:A, 1UCS:A, 1Y62:A, 2B9D:A, 2UUY:B, 2VUT:I, 3AUB:A, 5M4V:A,	d1b8ta2, d1bhia_, d1bika1, d1bunb_, d1d0da_, d1dtxa_, d1fu9a_, d1g6xa_, d1jjda_, d1ktha_, d1m36a_, d1neia_, d1njqa_, d1q9ba_, d1srka_, d1tf3a1, d1tf3a3, d1tocr1, d1tocr2, d1u5sb2, d1u85a1, d1ucsa_, d1v6ga2, d1wjpa3, d1x4ka1, d1x61a2, d1x6aa2, d1x6fa1, d1x6ha1, d1x6ha2, d1xbta2, d1yuja_, d2b9da1, d2csha2, d2cu8a2, d2cupa2, d2cuqa1, d2d8xa1, d2dasa1, d2dj7a1, d2djaa1, d2dlka2, d2dloa2, d2dsma1, d2epra1, d2epsa1, d2jz6a1, d2uuyb1, d2vuti1, d2vy4a1, d3m7qb_, 1aapA00, 1bunB00, 1d0dA00, 1aapA00, 1bunB00, 1d0dA00, 1dtxA00, 1g6xA00, 1gjzA00, 1jjdA00, 1kthA00, 1neiA00, 1ucsA00, 2vutI00,
3	HEE	Ca.Ea-0	False	3K65:A,	d1dwka2, d1h5oa_, 1h5oA00,
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,
5	EEHEE	Ea.Ca.Ca.Ea-Cp.0.0-0.0-0	False	4HRS: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
2ZEQ	A	78	E3 ubiquitin-protein ligase parkin	View
3BY4	B	75	Polyubiquitin-C	View
3I3T	B	75	Ubiquitin-60S ribosomal protein L40	View
3I3T	H	75	Ubiquitin-60S ribosomal protein L40	View
3LDZ	F	73	Polyubiquitin-C	View
3N3K	B	74	Polyubiquitin-C	View
3NHE	B	76	Ubiquitin-40S ribosomal protein S27a	View
3NY5	A	77	Serine/threonine-protein kinase B-raf	View
3NY5	B	81	Serine/threonine-protein kinase B-raf	View
3NY5	D	75	Serine/threonine-protein kinase B-raf	View
3O65	D	75	Polyubiquitin-C	View
3PHX	B	77	Ubiquitin-like protein ISG15	View
3PLU	A	74	Ubiquitin-like modifier HUB1	View
3PLU	B	74	Ubiquitin-like modifier HUB1	View
3PZ7	A	84	Dixin	View
3PZ8	B	85	Segment polarity protein dishevelled homolog DVL-1	View
3PZ8	C	81	Segment polarity protein dishevelled homolog DVL-1	View
3PZ8	D	83	Segment polarity protein dishevelled homolog DVL-1	View
3PZ8	E	83	Segment polarity protein dishevelled homolog DVL-1	View
3PZ8	F	85	Segment polarity protein dishevelled homolog DVL-1	View
3PZ8	G	80	Segment polarity protein dishevelled homolog DVL-1	View
3ZNI	D	77	Polyubiquitin-C	View
3ZNI	H	77	Polyubiquitin-C	View
3ZNI	L	77	Polyubiquitin-C	View
3ZNI	P	77	Polyubiquitin-C	View
3ZO5	B	81	Small ubiquitin-related modifier 2	View
4AJY	B	105	Transcription elongation factor B polypeptide 2	View
4AUQ	C	77	Polyubiquitin-C	View
4EEW	A	74	Large proline-rich protein BAG6	View
4EEW	B	75	Large proline-rich protein BAG6	View
4EFO	A	89	Serine/threonine-protein kinase TBK1	View
4EFO	B	82	Serine/threonine-protein kinase TBK1	View
4F8C	D	73	NEDD8	View
4FBJ	B	74	NEDD8	View
4FJV	B	82	Polyubiquitin-C	View
4FJV	D	82	Polyubiquitin-C	View
4GOC	A	76	Ubiquitin-like protein MDY2	View
4GOC	B	76	Ubiquitin-like protein MDY2	View
4GOC	C	76	Ubiquitin-like protein MDY2	View
4HXD	C	75	Polyubiquitin-C	View
4I6L	B	75	Polyubiquitin-C	View
4I6N	D	74	Polyubiquitin-C	View
4LDT	B	75	Polyubiquitin-C	View
4LDT	D	76	Polyubiquitin-C	View
4LJO	B	76	Ubiquitin-60S ribosomal protein L40	View
4M0W	B	76	Ubiquitin-40S ribosomal protein S27a	View
4PYU	A	76	Ubiquitin-like protein 5	View
4PYU	B	75	Ubiquitin-like protein 5	View
4PYU	G	74	Ubiquitin-like protein 5	View
4PYU	K	74	Ubiquitin-like protein 5	View
4PYU	O	75	Ubiquitin-like protein 5	View
4PYU	S	75	Ubiquitin-like protein 5	View
4Q5E	B	76	Polyubiquitin	View
4R62	B	78	Ubiquitin-40S ribosomal protein S27a	View
4UN2	A	72	Polyubiquitin-C	View
4V3L	B	77	Polyubiquitin-C	View
4V3L	D	72	Polyubiquitin-C	View
4WIP	A	81	Segment polarity protein dishevelled homolog DVL-2	View
4WIP	B	81	Segment polarity protein dishevelled homolog DVL-2	View
4WIP	C	81	Segment polarity protein dishevelled homolog DVL-2	View
5BZ0	B	76	Ubiquitin-40S ribosomal protein S27a	View
5CAW	B	74	Polyubiquitin-B	View
5D0M	B	76	Polyubiquitin-B	View
5D6J	B	74	Ubiquitin-like protein SMT3	View
5E6J	C	75	Polyubiquitin-B	View
5E6J	F	75	Polyubiquitin-B	View
5EMZ	A	76	Polyubiquitin-B	View
5EMZ	B	74	Polyubiquitin-B	View
5EMZ	C	76	Polyubiquitin-B	View
5EMZ	D	73	Polyubiquitin-B	View
5EMZ	E	76	Polyubiquitin-B	View
5FER	C	76	Ubiquitin-40S ribosomal protein S27a	View
5FER	F	76	Ubiquitin-40S ribosomal protein S27a	View
5HPK	B	78	Ubiquitin-60S ribosomal protein L40	View
5HPL	C	81	Ubiquitin-60S ribosomal protein L40	View
5HPL	D	81	Ubiquitin-60S ribosomal protein L40	View
5HPS	B	73	Ubiquitin-60S ribosomal protein L40	View
5HPT	B	74	Ubiquitin-60S ribosomal protein L40	View
5HPT	H	73	Ubiquitin-60S ribosomal protein L40	View
5IBK	C	76	Polyubiquitin-B	View
5IBK	F	75	Polyubiquitin-B	View
5IFR	B	76	Polyubiquitin-B	View
5JG6	B	77	Polyubiquitin-B	View
5JG6	C	75	Polyubiquitin-B	View
5JP1	B	77	Small ubiquitin-related modifier	View
5JQS	D	75	Ubiquitin-40S ribosomal protein S27a	View
5JZE	B	76	Ubiquitin-like protein ISG15	View
5JZE	D	76	Ubiquitin-like protein ISG15	View
5L8H	B	75	Polyubiquitin-B	View
5LRW	B	75	Polyubiquitin-B	View
5M93	A	75	Polyubiquitin-B	View
5M93	B	77	Polyubiquitin-B	View
5M93	C	78	Polyubiquitin-B	View
5NL4	A	72	Polyubiquitin-C	View
5NL4	B	72	Polyubiquitin-C	View
5NL4	C	72	Polyubiquitin-C	View
1SIF	A	71	Polyubiquitin-C	View
1WM3	A	72	Small ubiquitin-related modifier 2	View
2BPS	A	81	Uncharacterized ubiquitin-like protein YukD	View
2EKE	C	91	Ubiquitin-like protein SMT3	View
2FAZ	A	77	E3 ubiquitin-protein ligase UHRF1	View
5TOG	A	75	Polyubiquitin-B	View
5V69	B	72		View
5W46	A	74	Polyubiquitin-B	View
1UBQ	A	76	Polyubiquitin-C	View
d1lm8b_	--	106	u'Transcription elongation factor B polypeptide 2'	View
d1n62a2	--	79	u'Carbon monoxide dehydrogenase small chain'	View
d1rm6c2	--	81	u'4-hydroxybenzoyl-CoA reductase subunit gamma'	View
d1v97a2	--	90	u'Xanthine dehydrogenase/oxidase'	View
d1wm3a_	--	72	u'Small ubiquitin-related modifier 2'	View
d1z2ma2	--	76	u'Ubiquitin-like protein ISG15'	View
d2bwfa_	--	77	u'Ubiquitin domain-containing protein DSK2'	View
d2faza1	--	76	u'E3 ubiquitin-protein ligase UHRF1'	View
d2zeqa_	--	78	u'E3 ubiquitin-protein ligase parkin'	View
d3a9ja_	--	76	u'Polyubiquitin-C'	View
1euvB00	--	79	Ubiquitin-like protein SMT3	View
1wm3A00	--	72	Small ubiquitin-related modifier 2	View
2zeqA00	--	78	E3 ubiquitin-protein ligase parkin	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
5IO9	A	98	Neuronal migration protein doublecortin	View
5IO9	B	95	Neuronal migration protein doublecortin	View
1ZUD	2	65	Sulfur carrier protein ThiS	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
2WYQ	A	77	UV excision repair protein RAD23 homolog A	View
2XDP	A	119	Lysine-specific demethylase 4C	View
2XGF	A	216	Long-tail fiber protein p37	View
2XGF	B	216	Long-tail fiber protein p37	View
2ZDJ	A	67	Hypothetical protein TTMA177	View
2ZDJ	B	67	Hypothetical protein TTMA177	View
2ZDJ	C	67	Hypothetical protein TTMA177	View
2ZDJ	D	67	Hypothetical protein TTMA177	View
2ZPM	A	79	Regulator of sigma-E protease RseP	View
3DED	A	84	Probable hemolysin	View
3DED	B	83	Probable hemolysin	View
3DED	C	88	Probable hemolysin	View
3DED	D	83	Probable hemolysin	View
3DED	E	84	Probable hemolysin	View
3DED	F	83	Probable hemolysin	View
3GOE	A	80	DNA repair protein rad60	View
3HMR	A	90	Hepatocyte growth factor	View
3HMS	A	91	Hepatocyte growth factor	View
3KUZ	A	110	Plexin-C1	View
3KUZ	B	109	Plexin-C1	View
3LDZ	E	73	Polyubiquitin-C	View
3LDZ	G	73	Polyubiquitin-C	View
3M62	B	72	UV excision repair protein RAD23	View
3MHS	D	75	Polyubiquitin-C	View
3NFG	A	93	Uncharacterized protein	View
3NFG	C	94	Uncharacterized protein	View
3NFG	E	95	Uncharacterized protein	View
3NFG	G	94	Uncharacterized protein	View
3NFG	I	93	Uncharacterized protein	View
3NFG	K	94	Uncharacterized protein	View
3NFG	M	93	Uncharacterized protein	View
3NFG	O	93	Uncharacterized protein	View
3NY5	C	78	Serine/threonine-protein kinase B-raf	View
3O65	B	75	Polyubiquitin-C	View
3O65	F	75	Polyubiquitin-C	View
3OP8	A	85	Beta-2-glycoprotein 1	View
3PZ8	A	82	Segment polarity protein dishevelled homolog DVL-1	View
3QX1	B	81	FAS-associated factor 1	View
3RCZ	A	74	DNA repair protein rad60	View
3RPF	C	72	Molybdopterin converting factor, subunit 1 (MoaD)	View
3VHX	B	106	Kinesin-like protein KIF23	View
3VHX	D	106	Kinesin-like protein KIF23	View
3VHX	F	102	Kinesin-like protein KIF23	View
3VHX	H	88	Kinesin-like protein KIF23	View
3ZDM	F	79	Ubiquitin-like protein MDY2	View
4A20	A	80	Ubiquitin-like protein MDY2	View
4A6Q	A	137	Histone deacetylase complex subunit SAP18	View
4A8X	C	125	Histone deacetylase complex subunit SAP18	View
4AUQ	F	75	Polyubiquitin-C	View
4B6W	A	83	Tubulin-specific chaperone, putative	View
4CCG	X	75	E3 ubiquitin-protein ligase FANCL	View
4CCG	Y	67	E3 ubiquitin-protein ligase FANCL	View
4DBG	A	82	RanBP-type and C3HC4-type zinc finger-containing protein 1	View
4GU2	A	68	Ubiquitin, putative	View
4HBE	B	98	Structural polyprotein	View
4HJK	A	77	Ubiquitin-60S ribosomal protein L40	View
4HK2	A	74	Polyubiquitin-C	View
4HK2	B	74	Polyubiquitin-C	View
4HK2	C	75	Polyubiquitin-C	View
4HK2	D	76	Polyubiquitin-C	View
4HXD	A	75	Polyubiquitin-C	View
4I6N	B	74	Polyubiquitin-C	View
4ICV	A	84	Tubulin-specific chaperone E	View
4II2	B	80	Ubiquitin-60S ribosomal protein L40	View
4IUM	B	75	Polyubiquitin-C	View
4KDL	B	69	Ubiquitin thioesterase OTU1	View
4KRW	A	67	Uncharacterized protein	View
4NNJ	B	78	Polyubiquitin	View
4NNJ	D	77	Polyubiquitin	View
4NNJ	E	77	Polyubiquitin	View
4P5N	A	74	Uncharacterized protein	View
4P5N	B	74	Uncharacterized protein	View
4UZ8	A	105	Endo-beta-1,4-glucanase (Celulase B)	View
4UZ8	B	104	Endo-beta-1,4-glucanase (Celulase B)	View
4WLR	C	76	Polyubiquitin-B	View
4X57	B	93	Membrane-anchored ubiquitin-fold protein 3	View
4X57	D	92	Membrane-anchored ubiquitin-fold protein 3	View
4XKL	A	78	Ubiquitin-60S ribosomal protein L40	View
4XOF	A	72	Polyubiquitin-B	View
4XPM	B	67	Uncharacterized protein YCR075W-A	View
5CAW	D	74	Polyubiquitin-B	View
5HPT	E	74	Ubiquitin-60S ribosomal protein L40	View
5IP4	D	80	Neuronal migration protein doublecortin	View
5J26	B	76	Ubiquitin-60S ribosomal protein L40	View
5KNL	B	76	Ubiquitin-60S ribosomal protein L40 fusion protein	View
5KNL	E	76	Ubiquitin-60S ribosomal protein L40 fusion protein	View
5LRW	D	75	Polyubiquitin-B	View
5UCL	A	75	Polyubiquitin-B	View
5V1Y	C	72	Polyubiquitin-B	View
5V1Y	D	73	Polyubiquitin-B	View
5V5H	B	79		View
5X3P	A	78	UBX domain-containing protein 7	View
5X3P	B	77	UBX domain-containing protein 7	View
5X3P	C	76	UBX domain-containing protein 7	View
1BT0	A	73	Ubiquitin-NEDD8-like protein RUB1	View
1C1Y	B	77	RAF proto-oncogene serine/threonine-protein kinase	View
1WSP	A	83	Axin-1	View
2CU3	A	60	Putative thiamine biosynthesis protein ThiS	View
2INC	C	83	TouB protein	View
2PLS	A	83	CBS domain protein	View
2RF0	A	62	Mitogen-activated protein kinase kinase kinase 10	View
5TOF	A	73	Polyubiquitin-B	View
5V5I	B	75		View

Topology view of query protein [ProLego results]

3I3T : F

Topology Information