Analysis of interatomic Contacts of Structural Units in PDB entry:
6DBU

Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
This page provides analyses of contacts formed by:

chains
helices
sheets
residues

For analysis of ligand-protein contacts, use:

LPC software

3D structure can be seen in additional window with STING software for 6DBU entry

There are 8 chains in PDB entry 6DBU (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PHE 479	HIS 1028
B	MET 1	GLN 351
C	PHE 479	HIS 1028
D	MET 1	GLN 351
E	G 1	G 34
F	C 1	C 34
G	G 1	G 34
H	C 1	C 34

There are 46 helices in PDB entry 6DBU. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	482	492	Right-handed alpha
Helix 2	AA2	A	497	511	Right-handed alpha
Helix 3	AA3	A	518	527	Right-handed alpha
Helix 4	AA4	A	577	600	Right-handed alpha
Helix 5	AA5	A	670	674	Right-handed 310
Helix 6	AA6	A	686	705	Right-handed alpha
Helix 7	AA7	A	730	739	Right-handed alpha
Helix 8	AA8	A	755	762	Right-handed alpha
Helix 9	AA9	A	771	785	Right-handed alpha
Helix 10	AB1	A	790	798	Right-handed alpha
Helix 11	AB2	A	819	835	Right-handed alpha
Helix 12	AB3	A	846	863	Right-handed alpha
Helix 13	AB4	A	872	880	Right-handed alpha
Helix 14	AB5	A	881	890	Right-handed alpha
Helix 15	AB6	A	895	917	Right-handed alpha
Helix 16	AB7	A	924	945	Right-handed alpha
Helix 17	AB8	A	955	964	Right-handed alpha
Helix 18	AB9	A	964	973	Right-handed alpha
Helix 19	AC1	A	975	979	Right-handed 310
Helix 20	AC2	A	980	997	Right-handed alpha
Helix 21	AC3	A	1001	1017	Right-handed alpha
Helix 22	AC4	A	1019	1024	Right-handed alpha
Helix 23	AC5	B	308	313	Right-handed alpha
Helix 24	AC6	C	482	492	Right-handed alpha
Helix 25	AC7	C	497	511	Right-handed alpha
Helix 26	AC8	C	518	527	Right-handed alpha
Helix 27	AC9	C	577	600	Right-handed alpha
Helix 28	AD1	C	670	674	Right-handed 310
Helix 29	AD2	C	686	705	Right-handed alpha
Helix 30	AD3	C	730	739	Right-handed alpha
Helix 31	AD4	C	755	762	Right-handed alpha
Helix 32	AD5	C	771	785	Right-handed alpha
Helix 33	AD6	C	790	798	Right-handed alpha
Helix 34	AD7	C	819	835	Right-handed alpha
Helix 35	AD8	C	846	863	Right-handed alpha
Helix 36	AD9	C	872	880	Right-handed alpha
Helix 37	AE1	C	881	890	Right-handed alpha
Helix 38	AE2	C	895	917	Right-handed alpha
Helix 39	AE3	C	924	945	Right-handed alpha
Helix 40	AE4	C	955	964	Right-handed alpha
Helix 41	AE5	C	964	973	Right-handed alpha
Helix 42	AE6	C	975	979	Right-handed 310
Helix 43	AE7	C	980	997	Right-handed alpha
Helix 44	AE8	C	1001	1017	Right-handed alpha
Helix 45	AE9	C	1019	1024	Right-handed alpha
Helix 46	AF1	D	308	313	Right-handed alpha

There are 18 sheets in PDB entry 6DBU. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9,

There are 8 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	537	539	first strand
Strand 2	A	708	713	anti-parallel
Strand 3	A	716	724	anti-parallel
Strand 4	A	611	622	parallel
Strand 5	A	639	651	anti-parallel
Strand 6	A	675	680	anti-parallel
Strand 7	A	573	575	anti-parallel
Strand 8	A	554	555	anti-parallel

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There are 6 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	537	539	first strand
Strand 2	A	708	713	anti-parallel
Strand 3	A	716	724	anti-parallel
Strand 4	A	611	622	parallel
Strand 5	A	639	651	anti-parallel
Strand 6	A	661	664	anti-parallel

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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	2	5	first strand
Strand 2	B	343	349	anti-parallel
Strand 3	B	326	332	anti-parallel
Strand 4	B	318	323	anti-parallel

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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	7	8	first strand
Strand 2	B	54	59	parallel
Strand 3	B	46	51	anti-parallel
Strand 4	B	28	31	anti-parallel
Strand 5	B	20	23	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	76	80	first strand
Strand 2	B	89	93	anti-parallel
Strand 3	B	107	114	anti-parallel
Strand 4	B	120	126	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	141	147	first strand
Strand 2	B	150	156	anti-parallel
Strand 3	B	183	186	anti-parallel
Strand 4	B	193	194	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	159	161	first strand
Strand 2	B	175	177	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	209	212	first strand
Strand 2	B	215	218	anti-parallel
Strand 3	B	234	241	anti-parallel
Strand 4	B	244	251	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	263	265	first strand
Strand 2	B	270	273	anti-parallel
Strand 3	B	288	292	anti-parallel
Strand 4	B	297	300	anti-parallel

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There are 8 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	537	539	first strand
Strand 2	C	708	713	anti-parallel
Strand 3	C	716	724	anti-parallel
Strand 4	C	611	622	parallel
Strand 5	C	639	651	anti-parallel
Strand 6	C	675	680	anti-parallel
Strand 7	C	573	575	anti-parallel
Strand 8	C	554	555	anti-parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	537	539	first strand
Strand 2	C	708	713	anti-parallel
Strand 3	C	716	724	anti-parallel
Strand 4	C	611	622	parallel
Strand 5	C	639	651	anti-parallel
Strand 6	C	661	664	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	2	5	first strand
Strand 2	D	343	349	anti-parallel
Strand 3	D	326	332	anti-parallel
Strand 4	D	318	323	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	7	8	first strand
Strand 2	D	54	59	parallel
Strand 3	D	46	51	anti-parallel
Strand 4	D	28	31	anti-parallel
Strand 5	D	20	23	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	77	80	first strand
Strand 2	D	89	92	anti-parallel
Strand 3	D	107	114	anti-parallel
Strand 4	D	120	126	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	141	147	first strand
Strand 2	D	150	156	anti-parallel
Strand 3	D	183	185	anti-parallel
Strand 4	D	193	194	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	159	161	first strand
Strand 2	D	175	177	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	209	212	first strand
Strand 2	D	215	218	anti-parallel
Strand 3	D	234	241	anti-parallel
Strand 4	D	244	251	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	263	265	first strand
Strand 2	D	270	273	anti-parallel
Strand 3	D	288	292	anti-parallel
Strand 4	D	297	300	anti-parallel

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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

Analysis of interatomic Contacts of Structural Units in PDB entry: 6DBU

Analysis of interatomic Contacts of Structural Units in PDB entry:
6DBU