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

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 6DBJ entry

There are 10 chains in PDB entry 6DBJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PHE 479	ASN 1030
B	SER 0	GLN 351
C	PHE 479	ASN 1030
D	SER 0	GLN 351
E	C 1	C 15
F	G 1	C 31
G	G 1	C 31
H	C 1	C 15
I	G 1	A 16
J	G 1	A 16

There are 54 helices in PDB entry 6DBJ. 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	493	Right-handed alpha
Helix 2	AA2	A	496	510	Right-handed alpha
Helix 3	AA3	A	518	527	Right-handed alpha
Helix 4	AA4	A	577	589	Right-handed alpha
Helix 5	AA5	A	589	600	Right-handed alpha
Helix 6	AA6	A	670	674	Right-handed 310
Helix 7	AA7	A	686	705	Right-handed alpha
Helix 8	AA8	A	730	738	Right-handed alpha
Helix 9	AA9	A	757	762	Right-handed alpha
Helix 10	AB1	A	771	785	Right-handed alpha
Helix 11	AB2	A	790	799	Right-handed alpha
Helix 12	AB3	A	814	835	Right-handed alpha
Helix 13	AB4	A	844	862	Right-handed alpha
Helix 14	AB5	A	872	880	Right-handed alpha
Helix 15	AB6	A	881	890	Right-handed alpha
Helix 16	AB7	A	894	910	Right-handed alpha
Helix 17	AB8	A	911	917	Right-handed alpha
Helix 18	AB9	A	919	924	Right-handed alpha
Helix 19	AC1	A	924	930	Right-handed alpha
Helix 20	AC2	A	930	946	Right-handed alpha
Helix 21	AC3	A	955	964	Right-handed alpha
Helix 22	AC4	A	964	973	Right-handed alpha
Helix 23	AC5	A	975	979	Right-handed 310
Helix 24	AC6	A	980	997	Right-handed alpha
Helix 25	AC7	A	1004	1017	Right-handed alpha
Helix 26	AC8	A	1018	1027	Right-handed alpha
Helix 27	AC9	B	308	314	Right-handed alpha
Helix 28	AD1	C	482	493	Right-handed alpha
Helix 29	AD2	C	496	510	Right-handed alpha
Helix 30	AD3	C	518	527	Right-handed alpha
Helix 31	AD4	C	577	589	Right-handed alpha
Helix 32	AD5	C	589	600	Right-handed alpha
Helix 33	AD6	C	670	674	Right-handed 310
Helix 34	AD7	C	686	705	Right-handed alpha
Helix 35	AD8	C	730	739	Right-handed alpha
Helix 36	AD9	C	757	762	Right-handed alpha
Helix 37	AE1	C	771	785	Right-handed alpha
Helix 38	AE2	C	790	799	Right-handed alpha
Helix 39	AE3	C	814	835	Right-handed alpha
Helix 40	AE4	C	844	862	Right-handed alpha
Helix 41	AE5	C	872	880	Right-handed alpha
Helix 42	AE6	C	881	890	Right-handed alpha
Helix 43	AE7	C	896	910	Right-handed alpha
Helix 44	AE8	C	911	917	Right-handed alpha
Helix 45	AE9	C	919	924	Right-handed alpha
Helix 46	AF1	C	924	930	Right-handed alpha
Helix 47	AF2	C	930	946	Right-handed alpha
Helix 48	AF3	C	955	964	Right-handed alpha
Helix 49	AF4	C	964	973	Right-handed alpha
Helix 50	AF5	C	975	979	Right-handed 310
Helix 51	AF6	C	980	997	Right-handed alpha
Helix 52	AF7	C	1004	1017	Right-handed alpha
Helix 53	AF8	C	1018	1028	Right-handed alpha
Helix 54	AF9	D	308	314	Right-handed alpha

There are 18 sheets in PDB entry 6DBJ. 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	728	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	576	anti-parallel
Strand 8	A	553	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	728	anti-parallel
Strand 4	A	611	622	parallel
Strand 5	A	639	651	anti-parallel
Strand 6	A	660	664	anti-parallel

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There are 8 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	20	24	first strand
Strand 2	B	27	31	anti-parallel
Strand 3	B	45	51	anti-parallel
Strand 4	B	54	59	anti-parallel
Strand 5	B	1	8	parallel
Strand 6	B	343	350	anti-parallel
Strand 7	B	326	332	anti-parallel
Strand 8	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	61	62	first strand
Strand 2	B	120	127	parallel
Strand 3	B	106	114	anti-parallel
Strand 4	B	91	93	anti-parallel
Strand 5	B	76	78	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	141	147	first strand
Strand 2	B	150	156	anti-parallel
Strand 3	B	182	185	anti-parallel
Strand 4	B	192	195	anti-parallel

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There are 2 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	159	161	first strand
Strand 2	B	175	177	anti-parallel

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There are 4 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	209	212	first strand
Strand 2	B	215	218	anti-parallel
Strand 3	B	233	238	anti-parallel
Strand 4	B	247	252	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	263	265	first strand
Strand 2	B	270	273	anti-parallel
Strand 3	B	287	291	anti-parallel
Strand 4	B	300	302	anti-parallel

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There are 2 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	277	279	first strand
Strand 2	B	282	283	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	728	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	576	anti-parallel
Strand 8	C	553	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	728	anti-parallel
Strand 4	C	611	622	parallel
Strand 5	C	639	651	anti-parallel
Strand 6	C	660	664	anti-parallel

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There are 8 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	20	24	first strand
Strand 2	D	27	31	anti-parallel
Strand 3	D	45	51	anti-parallel
Strand 4	D	54	59	anti-parallel
Strand 5	D	1	8	parallel
Strand 6	D	343	350	anti-parallel
Strand 7	D	326	332	anti-parallel
Strand 8	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	61	62	first strand
Strand 2	D	120	127	parallel
Strand 3	D	106	114	anti-parallel
Strand 4	D	91	93	anti-parallel
Strand 5	D	76	78	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	141	147	first strand
Strand 2	D	150	156	anti-parallel
Strand 3	D	181	185	anti-parallel
Strand 4	D	192	196	anti-parallel

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There are 2 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	159	161	first strand
Strand 2	D	175	177	anti-parallel

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There are 4 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	209	212	first strand
Strand 2	D	215	218	anti-parallel
Strand 3	D	233	238	anti-parallel
Strand 4	D	247	252	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	263	265	first strand
Strand 2	D	270	273	anti-parallel
Strand 3	D	287	291	anti-parallel
Strand 4	D	300	302	anti-parallel

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There are 2 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	277	279	first strand
Strand 2	D	282	283	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: 6DBJ

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