Protein Detail

Protein Information

PDBId & Chain	4JYK : B
Molecule	HTH-type transcriptional regulator RutR
Residues	196
Sequence
SSE Sequence^*(11)	`HHHHHHHHHHH`

^* 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] `Ha.Hr.0.Ha.Hr.0.0.Hr.Hr.0-Hr.Hr.0.Hr.0.0.0.0.Ha-Hr.0.0.Hr.Ha.Hr.0.0-0.0.0.Hp.Hp.0.0-Hr.0.0.Hr.0.0-0.0.0.0.Ha-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 : 4JYK_B

Protein Id: 4JYK_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 : 4JYK_B

Protein Id: 4JYK_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	HHH	Ha.Hr-Hr	True	2ZKO:A, 2ZKO:B, 3A01:A, 3A01:B, 3A01:E, 3A01:F, 3A02:A, 3A03:A, 3B0F:A, 3B0F:B, 3C57:A, 3CMY:A, 3FF5:A, 3FF5:B, 3L4Q:C, 3L4Q:D, 3M8A:A, 3M8A:D, 3M8A:F, 3M8A:G, 3M8A:I, 3M8A:K, 3RKQ:A, 3RKQ:B, 3RQ9:A, 3RT3:C, 3VFZ:A, 4CVD:A, 4CYC:A, 4CYC:B, 4HWF:B, 4J19:A, 4J19:B, 4RDU:A, 4RDU:D, 5AKO:A, 5AKO:B, 5B5I:A, 5B5I:B, 5BY1:A, 5BY1:B, 5COS:A, 5COS:B, 5COS:C, 5COS:D, 5DQS:D, 5EEA:A, 5EEA:B, 5EEA:G, 5EEA:J, 5EF6:A, 5EF6:B, 5EF6:G, 5EF6:J, 5H5N:A, 5H5N:B, 5HOD:A, 5JLW:A, 5JLW:D, 1AIL:A, 1B72:A, 1FJL:A, 1IG7:A, 1JGG:A, 1K61:A, 1KU3:A, 1LE8:A, 1PUF:A, 1VF6:C, 1ZOQ:C, 2H1K:A, 2P7V:B, 2R5Z:A, 2VI6:A, 5LTY:K,	d1akha_, d1bw5a_, d1e3ha1, d1e3oc1, d1gdta1, d1hp8a_, d1iufa1, d1ixsa_, d1k61a_, d1k78a1, d1k99a_, d1ku3a_, d1lfba_, d1nk2p_, d1pufa_, d1rp3a3, d1rsob_, d1s7ea1, d1tc3c_, d1ug2a_, d1uhsa_, d1umqa_, d1vf6c_, d1wh7a_, d1x2ma1, d1x41a1, d1xeqa1, d1zoqc_, d2coba1, d2cpwa1, d2cqqa1, d2cu7a1, d2cufa1, d2ecba1, d2ecca1, d2hosa_, d2zkoa_, d3a02a_, d3b0fa_, 1b72A00, 1b8iA00, 1b8iB00, 1b72A00, 1b8iA00, 1b8iB00, 1e3pA02, 1hcrA00, 1hp8A00, 1ixsA00, 1jggA00, 1k61A00, 1k99A00, 1ku3A00, 1lfbA00, 1nk3P00, 1rsoB00, 1tc3C00, 1umqA00, 1vf6C00, 1wh5A00, 2hddB00,
3	HHH	Hr.0-Hr	False	4XAL:A, 1QRV:A,	d1ckta_, d1cuka1, d1mn3a_, d1qrva_, d2fd5a1, 1cktA00, 1cukA03, 1cktA00, 1cukA03, 1qrvA00, 3lriA00,
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	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.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.Hr-0	True	2XUV:A, 2XUV:B, 2XUV:C, 2XUV:D, 2YFV:A, 2YFV:B, 3B0D:C, 3B0D:W, 3CX5:H, 3F75:P, 3MVD:B, 3MVD:F, 3NQJ:A, 3NQJ:B, 3R45:A, 3R45:B, 3V9R:D, 3X1T:B, 3X1T:F, 4CSR:B, 4E45:B, 4E45:D, 4E45:L, 4E45:N, 4H9N:B, 4YNH:A, 4YNH:B, 5AY8:B, 5AY8:F, 5BNX:A, 5BNX:B, 5DA5:Y, 5FIR:L, 5G49:B, 5JA4:A, 5JA4:B, 1A7W:A, 1B67:A, 1JFI:A, 1JKO:C, 1KU5:A, 1TAF:A, 1TAF:B, 2D3E:A, 2HUE:B, 2HUE:C, 2NXQ:A, 2YFW:B, 4ONS:B,	d1b67a_, d1jfia_, d1n1jb_, d1tafa_, d1tafb_, d1zx3a1, d2huec_, d2np3a1, d2nxqa_, d3cx5h_, 1b67A00, 1b67A00, 1jfiA00, 1kx5B00, 1n1jB00, 1tafA00, 1tafB00, 1zx3A01, 2hueC00, 3cx5H00,
3	HHH	Hr.0-Ha	True	3TEQ:A, 4DH2:D, 4G2K:A, 4G2K:B, 4G2K:C, 4JF3:A, 4JF3:B, 4JGS:A, 4JGS:B, 4JGS:C, 4JGS:D, 4JGS:E, 4JGS:F, 4JGS:G, 4JGS:H, 4JGS:I, 4N21:A, 4N21:B, 4N21:C, 4N21:D, 4N21:F, 2EBO:A, 5HA6:A,	2eboA00,
4	HHHH	Hr.0.Ha-Hr.0-0	False		d2bcqa2,
4	HHHH	0.Ha.Hr-0.Hr-0	False	4A69:C,
4	HHHH	Ha.Hr.0-Hr.0-Hr	True	5HXG:B, 5HXG:D, 1PUF:B,	d1l3la1, d1pufb_, 1pufB00,
4	HHHH	Hr.0.0-0.0-Ha	False
4	HHHH	0.0.Hr-0.0-Hr	True	2YK3:A, 2YK3:B, 2YK3:C, 3CU4:A, 3CX5:W, 1CCR:A, 1WVE:C, 1YTC:A,	d1m70a1, d1ycca_, d3cu4a_, 1kx2A00, 1yccA00,
4	HHHH	0.Hr.Hr-0.0-0	True	3MVD:A, 3MVD:E, 3X1T:A, 3X1T:E, 4H9N:A, 5APP:C, 5AY8:A, 5AY8:E,	d1tzyc_, 1kx5A00, 1tvsA00, 1tzyC00,

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
4JYK	A	201	HTH-type transcriptional regulator RutR	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
2Z0V	B	214	Endophilin-A3	View
3ABH	B	278	Protein kinase C and casein kinase substrate in neurons protein 2	View
3ANP	A	197	Transcriptional repressor, TetR family	View
3ANP	B	190	Transcriptional repressor, TetR family	View
3ANP	C	196	Transcriptional repressor, TetR family	View
3ANP	D	191	Transcriptional repressor, TetR family	View
3AY5	A	298	Cyclin-D1-binding protein 1	View
3B5O	A	223	CADD-like protein of unknown function	View
3BHW	A	182	Putative uncharacterized protein	View
3BHW	B	190	Putative uncharacterized protein	View
3BJB	A	169	Probable transcriptional regulator, TetR family protein	View
3BJB	E	176	Probable transcriptional regulator, TetR family protein	View
3BQY	A	201	Putative transcriptional regulator	View
3CJW	A	207	COUP transcription factor 2	View
3CQC	B	186	Nuclear pore complex protein Nup133	View
3CRJ	A	185	Transcription regulator	View
3CRJ	B	183	Transcription regulator	View
3CWR	A	190	Transcriptional regulator, TetR family	View
3D9S	A	245	Aquaporin-5	View
3D9S	B	245	Aquaporin-5	View
3D9S	D	245	Aquaporin-5	View
3DD4	A	214	Kv channel-interacting protein 4	View
3E7Q	A	208	Probable transcriptional regulator	View
3EFP	A	204	Tat proofreading chaperone DmsD	View
3EGQ	A	154	Transcriptional regulatory protein, TetR family	View
3EGQ	B	153	Transcriptional regulatory protein, TetR family	View
3ESL	A	195	Budding uninhibited by benzimidazole-related protein	View
3EUP	A	203	Transcriptional regulator, TetR family	View
3EZ0	A	210	Uncharacterized protein	View
3EZ0	B	207	Uncharacterized protein	View
3EZ0	C	202	Uncharacterized protein	View
3FIW	A	167	Putative tetR-family transcriptional regulator	View
3FIW	B	161	Putative tetR-family transcriptional regulator	View
3FIW	C	167	Putative tetR-family transcriptional regulator	View
3FIW	D	164	Putative tetR-family transcriptional regulator	View
3G33	B	229	G1/S-specific cyclin-D3	View
3G33	D	228	G1/S-specific cyclin-D3	View
3GW4	A	187	Uncharacterized protein	View
3GW4	B	192	Uncharacterized protein	View
3H4C	A	207	Transcription factor TFIIB-like	View
3HLX	A	254	Pyrroloquinoline-quinone synthase	View
3HLX	D	254	Pyrroloquinoline-quinone synthase	View
3HOC	B	217	Filamin-A	View
3HR0	A	250	Conserved oligomeric Golgi complex subunit 4	View
3IBX	D	216	Aminopyrimidine aminohydrolase	View
3IEE	A	247	Putative exported protein	View
3IUG	A	184	Rho GTPase-activating protein 32	View
3IUG	B	186	Rho GTPase-activating protein 32	View
3KB4	A	203	Alr8543 protein	View
3KB4	B	205	Alr8543 protein	View
3KB4	C	203	Alr8543 protein	View
3KB4	D	205	Alr8543 protein	View
3KKC	D	173	TetR family transcriptional regulator	View
3KKD	A	193	Probable transcriptional regulator	View
3KLY	B	255	Formate transporter 1, putative	View
3KLY	D	252	Formate transporter 1, putative	View
3KLY	E	256	Formate transporter 1, putative	View
3L82	A	195	Telomeric repeat-binding factor 1	View
3MSQ	A	200	Uncharacterized protein	View
3MSQ	B	200	Uncharacterized protein	View
3MSQ	C	200	Uncharacterized protein	View
3MSQ	D	200	Uncharacterized protein	View
3MVP	A	203	Putative transcriptional regulator (TetR/AcrR family)	View
3MVP	B	193	Putative transcriptional regulator (TetR/AcrR family)	View
3MZO	A	205	Lin2634 protein	View
3MZO	B	206	Lin2634 protein	View
3NI7	A	165	Bacterial regulatory proteins, TetR family	View
3NPI	A	203	Putative TetR-family regulatory protein	View
3NPI	B	200	Putative TetR-family regulatory protein	View
3O60	A	179	Lin0861 protein	View
3O60	B	179	Lin0861 protein	View
3P0U	A	222	Nuclear receptor subfamily 2 group C member 2	View
3P0U	B	216	Nuclear receptor subfamily 2 group C member 2	View
3QKX	A	178	Uncharacterized HTH-type transcriptional regulator HI_0893	View
3QQA	A	200	Transcriptional repressor	View
3SWH	B	297	Protein unc-13 homolog A	View
3T8K	A	178	Uncharacterized protein	View
3VP5	A	185	Transcriptional regulator	View
3VTX	A	181	MamA	View
3VUU	A	270	Uncharacterized protein	View
3W54	B	266	Alternative oxidase, mitochondrial	View
3W54	C	266	Alternative oxidase, mitochondrial	View
3WA8	A	179	Cse2 family CRISPR-associated protein	View
3WI3	B	212	DNA replication regulator SLD3	View
4ATG	A	195	TAF6	View
4B93	B	191	Ankyrin repeat domain-containing protein 27	View
4BTB	A	231	Prolyl 4-hydroxylase subunit alpha-1	View
4CGR	A	194	Putative tetR-family transcriptional regulator	View
4CGR	B	189	Putative tetR-family transcriptional regulator	View
4CRW	A	226	CCR4-NOT transcription complex subunit 1	View
4DNK	B	226	14-3-3 protein beta/alpha	View
4DYL	A	376	Tyrosine-protein kinase Fes/Fps	View
4GEH	A	198	Programmed cell death protein 10	View
4GEH	C	198	Programmed cell death protein 10	View
4GIW	B	168	RUN and SH3 domain-containing protein 1	View
4GYV	B	212	FERM, RhoGEF and pleckstrin domain-containing protein 2	View
4GYV	D	212	FERM, RhoGEF and pleckstrin domain-containing protein 2	View
4GYV	G	211	FERM, RhoGEF and pleckstrin domain-containing protein 2	View
4HJZ	B	183	Endo-type membrane-bound lytic murein transglycosylase A	View
4HKU	A	171	Lmo2814 protein	View
4HYJ	A	236	Rhodopsin	View
4JKZ	A	179	Transcriptional regulator, TetR family protein	View
4LEU	A	182	Pentatricopeptide repeat-containing protein At3g46870	View
4LUN	U	311	Nonsense-mediated mRNA decay protein 2	View
4ME9	A	182	Transcriptional regulator, TetR family	View
4ME9	B	181	Transcriptional regulator, TetR family	View
4MUD	A	216	Ring oxydation complex/ phenylacetic acid degradation related protein	View
4MUD	B	216	Ring oxydation complex/ phenylacetic acid degradation related protein	View
4MUD	C	215	Ring oxydation complex/ phenylacetic acid degradation related protein	View
4MUD	D	217	Ring oxydation complex/ phenylacetic acid degradation related protein	View
4NN1	A	205	TetR family transcriptional regulator	View
4NT1	D	194	Accelerated cell death 11	View
4OK7	A	223	Endolysin	View
4OK7	B	223	Endolysin	View
4OK7	C	223	Endolysin	View
4P3G	B	199	Signal recognition particle subunit SRP68	View
4PPU	A	245	Chorismate mutase 1, chloroplastic	View
4Q57	B	244	Plectin	View
4QTN	A	227	Nicotinamide riboside transporter PnuC	View
4QTN	B	227	Nicotinamide riboside transporter PnuC	View
4QTN	C	229	Nicotinamide riboside transporter PnuC	View
4R8Z	A	218	Cyclic di-GMP phosphodiesterase	View
4R8Z	B	217	Cyclic di-GMP phosphodiesterase	View
4TX7	A	245	Class I chitinase	View
4WPE	A	267	Cytokinesis protein 2	View
4WT3	A	198	Rubisco accumulation factor 2, chloroplastic	View
4X2C	A	207	Fic family protein putative filamentation induced by cAMP protein	View
4X2C	B	203	Fic family protein putative filamentation induced by cAMP protein	View
4XCO	C	157	Signal recognition particle 54 kDa protein	View
4XCP	A	151	Nematode fatty acid retinoid binding protein	View
4Y5J	A	227	Mini spindles, isoform C	View
4ZBW	A	183	Caspase-8	View
4ZBW	B	183	Caspase-8	View
5CS0	B	208	Acetyl-CoA carboxylase	View
5D1R	A	227	Uncharacterized HTH-type transcriptional regulator Rv1816	View
5D1R	B	226	Uncharacterized HTH-type transcriptional regulator Rv1816	View
5E57	A	211	Transcriptional regulator, TetR family	View
5EN8	A	172	Suppressor of Mec and Unc defects	View
5EN8	B	173	Suppressor of Mec and Unc defects	View
5FGL	A	200	NicR	View
5FGL	B	206	NicR	View
5FGL	C	205	NicR	View
5FGL	D	203	NicR	View
5FGL	E	206	NicR	View
5FGL	F	201	NicR	View
5FNP	A	219	Iron-sulfur cluster repair protein YtfE	View
5FNP	B	210	Iron-sulfur cluster repair protein YtfE	View
5HYG	A	282	Uncharacterized protein	View
5IRC	A	200	Rho GTPase-activating protein 35	View
5IRC	B	195	Rho GTPase-activating protein 35	View
5JD0	A	201	Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 3	View
5JD0	B	201	Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 3	View
5K7F	B	178	Transcriptional regulator, TetR family	View
5L3X	A	177	Negative elongation factor A	View
5UC9	A	209	Heme oxygenase 2	View
5UC9	B	211	Heme oxygenase 2	View
5UC9	C	210	Heme oxygenase 2	View
5UC9	D	210	Heme oxygenase 2	View
1DOW	A	200	Catenin alpha-1	View
1EIA	A	207	Gag polyprotein	View
1G3N	C	233	Kaposi's sarcoma-associated herpesvirus cyclin homolog	View
1HU3	A	196	Eukaryotic translation initiation factor 4 gamma 3	View
1J02	A	212	Heme oxygenase 1	View
1JK0	B	265	Ribonucleoside-diphosphate reductase small chain 2	View
1N45	A	214	Heme oxygenase 1	View
1OKC	A	292	ADP/ATP translocase 1	View
1RKT	A	201	Uncharacterized HTH-type transcriptional regulator YfiR	View
1RTW	A	201	Transcriptional activator, putative	View
1SDI	A	213	High frequency lysogenization protein HflD	View
1TLQ	A	156	Uncharacterized protein YpjQ	View
1UW4	B	248	Regulator of nonsense transcripts 2	View
1VI0	A	184	Fatty acid metabolism regulator protein	View
1WY6	A	159	Uncharacterized protein	View
1WZD	A	209	Heme oxygenase	View
1XKP	A	217	Outer membrane protein YopN	View
1XX7	A	172	Oxetanocin-like protein	View
2A2F	X	296	Exocyst complex component 6	View
2BBR	A	189	Viral CASP8 and FADD-like apoptosis regulator	View
2ES4	D	269	Lipase chaperone	View
2FQ4	A	183	Transcriptional regulator, TetR family	View
2G7L	A	198	Putative TetR-family transcriptional regulator	View
2GUH	A	170	Probable transcriptional regulator	View
2HKU	A	188	Possible transcriptional regulator, TetR family protein	View
2HXI	A	194	Putative transcriptional regulator	View
2HXO	A	205	Putative TetR-family transcriptional regulator	View
2I53	A	254	Cyclin-K	View
2I88	A	178	Colicin-E1	View
2IAI	A	196	Putative transcriptional regulator	View
2IU1	A	179	Eukaryotic translation initiation factor 5	View
2O08	A	183	BH1327 protein	View
2O8P	A	215	14-3-3 domain containing protein	View
2O9G	A	233	Aquaporin Z	View
2OSA	A	196	N-chimaerin	View
2OT3	A	253	Rab5 GDP/GTP exchange factor	View
2OYO	A	184	Alkyl hydroperoxide reductase AhpD	View
2OZB	B	239	U4/U6 small nuclear ribonucleoprotein Prp31	View
2PJQ	A	201	Metal-dependent phosphohydrolase, HD family	View
2PL2	A	194	Hypothetical conserved protein	View
2PQ7	A	169	Predicted HD superfamily hydrolase	View
2Q24	A	170	Putative tetR family transcriptional regulator	View
2Q60	A	198	Retinoid X receptor	View
2QCO	A	202	Transcriptional repressor	View
2QCX	A	222	Aminopyrimidine aminohydrolase	View
2QGS	A	201	Uncharacterized protein	View
2WAU	A	278	Erythrocyte membrane protein 1 (PfEMP1)	View
6JLF	A	267	Uncharacterized protein	View
1FX8	A	254	Glycerol uptake facilitator protein	View

Topology view of query protein [ProLego results]

4JYK : B

Topology Information