Protein Detail

Protein Information

PDBId & Chain	3IPI : A
Molecule	Geranylfarnesyl diphosphate synthase
Residues	261
Sequence
SSE Sequence^*(15)	`HHHHHHHHHHHHHHH`

^* 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.Hp.0.Ha.0.Ha.Ha.0.Hr.0.Ha.Hr.Ha.Ha-Ha.0.0.0.Ha.0.0.0.0.Hr.0.Ha.0-Hr.0.0.0.0.Hp.0.Ha.0.Ha.0.Hp-Hr.0.0.0.0.0.0.0.0.0.0-0.Hr.0.0.0.0.0.0.0.0-Hr.0.0.0.Ha.0.0.0.0-0.0.0.Hp.0.0.0.0-0.0.0.Ha.0.0.0-0.0.0.0.0.0-0.0.0.0.0-0.0.0.Ha-0.0.0-0.0-0`

Prefence of topology : False

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

Linear Topology Graph : 3IPI_A

Protein Id: 3IPI_A

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 : 3IPI_A

Protein Id: 3IPI_A

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	HHH	0.Hp-Ha	False		d1a62a1, 1a62A01, 1a62A01, 1du2A00,
3	HHH	Hp.0-0	False	3HLS:E, 3HLS:F, 3HLS:H, 3MP7:B, 3MQ7:B, 3MQ7:C, 3MQ7:D, 3MQ7:E, 5ED9:B, 2BL0:A,	d3ag3i_, 1v54I00,
3	HHH	0.Ha-0	True	3FXD:B, 3HLS:A, 3HLS:B, 3MTU:A, 3MTU:B, 3MTU:C, 3MTU:D, 3PH0:A, 3S6P:G, 4HP3:C, 4LN0:C, 4M70:R, 4UG3:C, 1LWU:A, 1M93:A, 2DB7:A, 2NR5:A, 2P58:A,	d1iiea_, d2db7a1, d2nr5a1, 1iieA00,
3	HHH	Ha.0-0	False	3BPJ:A, 3BPJ:B, 3BPJ:C, 3BPJ:D, 3MTU:E, 3MTU:F, 4CLQ:B, 4HFX:A, 4IAO:C, 4IAO:D, 4OM3:A, 4X86:A, 4YTW:A, 4YTW:C, 5FD9:A, 1YKH:B, 2B9C:A,	d1ykhb1, d2bskb1,
3	HHH	0.Ha-Ha	True	3FXD:D, 3P8C:F, 3R84:A, 3R84:C, 3R84:E, 3R84:G, 3R84:I, 3R84:K, 3R84:M, 3R84:O, 3R84:Q, 3R84:S, 3R84:U, 3R84:W, 3ZK1:A, 3ZK1:B, 3ZK1:C, 3ZK1:F, 3ZK1:G, 3ZK1:I, 3ZK1:M, 3ZK1:N, 3ZK1:O, 3ZK1:S, 4BEM:A, 4BEM:B, 4BEM:C, 4BEM:D, 4BEM:E, 4BEM:F, 4BEM:G, 4BEM:H, 4BEM:I, 4F4S:A, 4F4S:B, 4F4S:C, 4F4S:D, 4F4S:E, 4F4S:K, 4F4S:L, 4F4S:M, 4F4S:N, 4F4S:O, 4MH6:A, 5D50:H, 5D50:P, 5J9T:D, 5J9T:H, 5J9T:L, 1SKV:A, 2GUZ:A, 2WGM:A, 5UN5:C,	d1skva_, 1skvA00,
3	HHH	Ha.Ha-0	True	3RKO:A, 3RKO:E, 3RKO:G, 3RKO:K, 3SHG:B, 3THF:A, 3THF:B, 3U0C:A, 3U0C:B, 3ZE3:E, 4ADZ:A, 4ADZ:B, 4RP3:A, 4RP3:B, 4XA3:A, 5EU0:B, 5FMN:A, 5FMN:B, 5LCY:A, 5LCY:B, 5LCY:C, 5LCY:D, 5LSI:D, 5SZH:A, 5SZJ:B, 1UPT:B, 2HH7:A, 2P64:A,	d1t50a_, d1uptb_, d2vv5a3, 1t50A00, 1uptF00,
3	HHH	0.Hr-0	False	3V9R:B, 3VIQ:B, 4F9K:A, 4GHJ:B, 4HDD:A, 4TSH:A, 4Z8E:A, 4Z8E:B, 4Z8E:C, 5LUT:C, 5LUT:E, 1NGM:B, 4YC5:A, 4ZN8:A, 5VC9:C, 5X42:B,	d1kbha_, d1p94a_, 1kbhA00, 1ngmB00, 1ngmJ00, 1p94A00,
3	HHH	Hr.0-0	True	2ZXX:D, 2ZXX:E, 3H87:D, 3KXE:C, 3KXE:D, 3PN7:D, 4FXE:A, 4FXE:B, 4J2N:B, 4J2N:D, 4QIC:B, 4QIC:D, 4Z8L:C, 5CEG:A, 5CEG:C, 1HWT:C, 1OV9:A, 1T0F:C, 1ZX3:A, 2BSQ:E, 2ER8:A, 5VJI:C, 5WWO:C, 5X3T:A,	d1ov9a_, d1y9ba1, d2bska1, d2bsqe1, 1bpeA01, 1bpeA01, 1uklC00,
3	HHH	0.Ha-Hr	True	3A5T:A, 3GWK:C, 3OW2:U, 3TGU:H, 3TGU:U, 4EOT:B, 4ICG:C, 4ICG:D, 4U6U:A, 4U6U:C, 4ZMK:A, 5DM6:V, 1FS1:A, 1PPJ:H, 1VQO:V, 2GUZ:B, 5GMU:A,	d1fs1a1, d1k1va_, d1ppjh_, d2d8da1, d2izva1, 1fs1A00, 1k1vA00, 1ldkE00, 1pp9H00,
3	HHH	Ha.Hr-0	True	3I71:B, 4HWF:A, 4JDX:E, 4JDX:F, 4JQU:B, 4UZZ:B, 5DA5:A, 5DA5:B, 5DA5:C, 5DA5:D, 5DA5:E, 5DA5:F, 5DA5:G, 5DA5:H, 5DA5:I, 5DA5:J, 5DA5:K, 5DA5:L, 5DA5:M, 5DA5:N, 5DA5:O, 5DA5:P, 5DA5:Q, 5DA5:R, 5DA5:S, 5DA5:T, 5DA5:U, 5DA5:V, 5DA5:X, 5DA5:Z, 5FIR:B, 5FIR:D, 5FIR:F, 5FIR:H, 5L89:A, 5L89:B, 5L89:C, 5L89:D, 5L89:E, 5L89:F, 5L89:G, 5L89:H, 5L89:I, 5L89:J, 5L89:K, 5L89:L, 5L89:M, 5L89:N, 5L89:O, 5L89:P, 5L89:Q, 5L89:R, 5L89:S, 5L89:T, 5L89:U, 5L89:V, 5L89:W, 5L89:X, 5L89:Y, 5L89:Z, 5L8G:A, 5L8G:B, 5L8G:C, 5L8G:D, 5L8G:E, 5L8G:F, 5L8G:G, 5L8G:H, 5L8G:I, 5L8G:J, 5L8G:K, 5L8G:L, 5L8G:M, 5L8G:N, 5L8G:O, 5L8G:P, 5L8G:Q, 5L8G:R, 5L8G:S, 5L8G:T, 5L8G:U, 5L8G:V, 5L8G:W, 5L8G:X, 5L8G:Y, 5L8G:Z, 1VF6:A, 2CZS:A, 2OO9:A,	d1ijwc_, d1vf6a_,
4	HHHH	Hp.0.Ha-0.0-0	True	5JVP:A, 5JVP:B, 5JVP:C, 5JVP:E, 5JVP:F,
4	HHHH	0.Ha.0-0.0-0	True	3ERM:A, 3ERM:C, 4AFL:F, 4HFX:B, 5X1E:C,	d1fs1b1,
4	HHHH	Ha.0.Ha-0.Ha-0	False	4M1P:A,
4	HHHH	0.Ha.Ha-Ha.0-0	True	4WFC:B, 4WFC:D, 4WFC:F, 5IHF:A, 5IOG:B,
4	HHHH	Ha.0.Hr-0.0-0	False	3ERM:E,
4	HHHH	0.Ha.Hr-Hr.0-Ha	True	5IE9:A, 5IE9:B, 5IE9:C, 5IE9:D, 2Q73:A,	d2q5za_,

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
2XES	A	226	Protein PAT1 homolog 1	View
2YZV	A	286	ADP-ribosylglycohydrolase	View
3ACX	A	284	Dehydrosqualene synthase	View
3APZ	A	299	Solanesyl diphosphate synthase 3, chloroplastic/mitochondrial	View
3CKD	A	257	Probable E3 ubiquitin-protein ligase ipaH7.8	View
3DDE	A	225	TENA/THI-4 protein	View
3DDE	B	224	TENA/THI-4 protein	View
3DPJ	A	187	Transcription regulator, TetR family	View
3DSS	A	313	Geranylgeranyl transferase type-2 subunit alpha	View
3DZX	A	278	TBC1 domain family member 22B	View
3E37	A	315	Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha	View
3E6U	D	399	LanC-like protein 1	View
3EBB	B	258	Phospholipase A-2-activating protein	View
3EBB	D	258	Phospholipase A-2-activating protein	View
3GAE	A	253	Protein DOA1	View
3GAE	B	253	Protein DOA1	View
3HFW	A	357	[Protein ADP-ribosylarginine] hydrolase	View
3K3F	A	332	Urea transporter DVU1160	View
3LRA	A	251	Protein lin-7 homolog C	View
3MAV	C	350	Farnesyl pyrophosphate synthase, putative	View
3MJO	A	296	Ribonucleoside-diphosphate reductase subunit beta	View
3MJO	B	296	Ribonucleoside-diphosphate reductase subunit beta	View
3MMI	A	326	Myosin-4	View
3N3U	A	291	Adenosine monophosphate-protein transferase and cysteine protease IbpA	View
3ODN	A	366	LD47466p	View
3OYR	A	292	Polyprenyl synthetase family protein	View
3P8R	A	268	Geranyltranstransferase	View
3PF0	A	311	Uncharacterized protein	View
3Q2Q	A	314	Geranylgeranyl pyrophosphate synthase	View
3QWL	A	272	TBC1 domain family member 7	View
3RMG	B	297	Octaprenyl-diphosphate synthase	View
3SFX	A	315	Uncharacterized protein	View
3T33	A	407	LanC-like protein GCR2	View
3TAD	C	252	Liprin-beta-1	View
3TAD	D	253	Liprin-beta-1	View
3TS7	B	297	Geranyltranstransferase	View
3U3W	A	280	Transcriptional regulator	View
3U4T	A	255	TPR repeat-containing protein	View
3U4T	B	254	TPR repeat-containing protein	View
3U52	D	328	Phenol hydroxylase component phL	View
3U64	A	271	Uncharacterized protein TP_0956	View
3V1V	A	317	2-methylisoborneol synthase	View
3WJK	B	303	Octaprenyl diphosphate synthase	View
3WOY	A	246	CLIP-associating protein 2	View
3ZN3	A	246	Anaphase-promoting complex subunit 8	View
4CEM	A	305	Regulator of nonsense transcripts 2	View
4IMI	A	332	Symplekin	View
4J4Y	D	248	NP protein	View
4JXN	A	297	Octaprenyl-diphosphate synthase	View
4JXY	A	311	Trans-hexaprenyltranstransferase	View
4K92	B	241	CLIP-associating protein 1	View
4KWD	B	304	Aristolochene synthase	View
4KWD	C	304	Aristolochene synthase	View
4KWD	D	304	Aristolochene synthase	View
4NRH	A	289	Type III secretion regulator YopN/LcrE/InvE/MxiC	View
4NRH	C	287	Type III secretion regulator YopN/LcrE/InvE/MxiC	View
4OKZ	A	346	Terpene synthase metal-binding domain-containing protein	View
4OKZ	B	345	Terpene synthase metal-binding domain-containing protein	View
4OKZ	C	345	Terpene synthase metal-binding domain-containing protein	View
4OKZ	D	346	Terpene synthase metal-binding domain-containing protein	View
4PXZ	A	392	P2Y purinoceptor 12	View
4R7S	A	247	Tetratricopeptide repeat protein	View
4U04	A	315	Adenosine monophosphate-protein transferase FICD	View
4Z6G	A	334	Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5	View
4ZQ8	A	320	Isoprenoid Synthase	View
4ZQ8	B	321	Isoprenoid Synthase	View
5AYN	A	405	Solute carrier family 39 (Iron-regulated transporter)	View
5B57	A	330	Putative hemin ABC transport system, membrane protein	View
5B57	B	328	Putative hemin ABC transport system, membrane protein	View
5CL8	A	231	Uncharacterized protein	View
5DZ2	A	322	Germacradienol/geosmin synthase	View
5DZ2	B	322	Germacradienol/geosmin synthase	View
5HYA	A	297	Uncharacterized membrane protein MJ0091	View
5IYS	A	283	Phytoene synthase	View
5JJ6	A	330	Adenosine monophosphate-protein transferase FICD homolog	View
5JO8	A	256	Uncharacterized protein	View
5LM2	B	329	Tyrosine-protein phosphatase non-receptor type 23	View
5LPH	A	252	Centrosomal protein of 104 kDa	View
5LPH	B	253	Centrosomal protein of 104 kDa	View
5T2X	C	256	Uncharacterized protein	View
5VJC	A	262	Mini spindles, isoform C	View
1OUV	A	265	Putative beta-lactamase HcpC	View
1QQE	A	281	Alpha-soluble NSF attachment protein	View
1V9M	A	312	V-type ATP synthase subunit C	View
1WER	A	324	Ras GTPase-activating protein 1	View
1WOV	A	244	Heme oxygenase 2	View
1Z0X	A	206	Transcriptional regulator, TetR family	View
1Z72	A	213	Aminopyrimidine aminohydrolase	View
2DB0	A	239	Putative uncharacterized protein PH0542	View
2ILR	A	249	Fanconi anemia group E protein	View
2OF3	A	266	Zygote defective protein 9	View
2Q0T	A	255	Putative gamma-carboxymuconolactone decarboxylase subunit	View
2QYM	A	291	cAMP-specific 3',5'-cyclic phosphodiesterase 4C	View
2R17	C	294	Vacuolar protein sorting-associated protein 35	View
2VJ4	A	272	Protein MxiC	View

Topology view of query protein [ProLego results]

3IPI : A

Topology Information