Analysis of interatomic Contacts of Structural Units in PDB entry:
5D7J

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 5D7J entry

There are 7 chains in PDB entry 5D7J (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 1	PRO 200
B	GLY 3	ARG 242
C	ARG 1	VAL 269
D	ILE 1	ASP 98
E	ARG 1	VAL 269
F	MET 0	ARG 97
G	GLY 1	ALA 84

There are 24 helices in PDB entry 5D7J. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	79	83	Right-handed 310
Helix 2	AA2	A	181	186	Right-handed alpha
Helix 3	AA3	B	82	86	Right-handed 310
Helix 4	AA4	B	116	120	Right-handed 310
Helix 5	AA5	B	131	139	Right-handed alpha
Helix 6	AA6	B	198	202	Right-handed alpha
Helix 7	AA7	C	47	52	Right-handed alpha
Helix 8	AA8	C	55	85	Right-handed alpha
Helix 9	AA9	C	133	145	Right-handed alpha
Helix 10	AB1	C	146	159	Right-handed alpha
Helix 11	AB2	C	159	172	Right-handed alpha
Helix 12	AB3	C	172	177	Right-handed alpha
Helix 13	AB4	E	47	52	Right-handed alpha
Helix 14	AB5	E	55	85	Right-handed alpha
Helix 15	AB6	E	133	145	Right-handed alpha
Helix 16	AB7	E	146	159	Right-handed alpha
Helix 17	AB8	E	159	172	Right-handed alpha
Helix 18	AB9	E	172	177	Right-handed alpha
Helix 19	AC1	G	79	83	Right-handed 310
Helix 20	AC2	G	162	165	Right-handed 310
Helix 21	AC3	H	82	86	Right-handed 310
Helix 22	AC4	H	116	120	Right-handed 310
Helix 23	AC5	H	131	139	Right-handed alpha
Helix 24	AC6	H	198	202	Right-handed alpha

There are 36 sheets in PDB entry 5D7J. 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, AC1, AC2, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2, AD3, AD4, AD5, AD6, AD7, AD8, AD9,

There are 5 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	3	5	first strand
Strand 2	A	18	25	anti-parallel
Strand 3	A	70	75	anti-parallel
Strand 4	A	60	65	anti-parallel
Strand 5	A	53	57	anti-parallel

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There are 5 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	9	13	first strand
Strand 2	A	103	108	parallel
Strand 3	A	84	91	anti-parallel
Strand 4	A	32	37	anti-parallel
Strand 5	A	44	49	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	A	9	13	first strand
Strand 2	A	103	108	parallel
Strand 3	A	84	91	anti-parallel
Strand 4	A	97	99	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	117	120	first strand
Strand 2	A	130	135	anti-parallel
Strand 3	A	166	175	anti-parallel
Strand 4	A	151	153	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	A	117	120	first strand
Strand 2	A	130	135	anti-parallel
Strand 3	A	166	175	anti-parallel
Strand 4	A	157	161	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	4	7	first strand
Strand 2	B	19	25	anti-parallel
Strand 3	B	76	78	anti-parallel
Strand 4	B	64	66	anti-parallel

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There are 6 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	10	14	first strand
Strand 2	B	109	114	parallel
Strand 3	B	87	94	anti-parallel
Strand 4	B	31	37	anti-parallel
Strand 5	B	44	49	anti-parallel
Strand 6	B	56	57	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	10	14	first strand
Strand 2	B	109	114	parallel
Strand 3	B	87	94	anti-parallel
Strand 4	B	104	105	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	124	128	first strand
Strand 2	B	140	150	anti-parallel
Strand 3	B	188	197	anti-parallel
Strand 4	B	170	172	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	124	128	first strand
Strand 2	B	140	150	anti-parallel
Strand 3	B	188	197	anti-parallel
Strand 4	B	177	178	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	164	166	first strand
Strand 2	B	155	161	anti-parallel
Strand 3	B	207	214	anti-parallel
Strand 4	B	233	240	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	C	44	45	first strand
Strand 2	C	31	37	anti-parallel
Strand 3	C	22	28	anti-parallel
Strand 4	C	3	12	anti-parallel
Strand 5	C	91	100	anti-parallel
Strand 6	C	106	114	anti-parallel
Strand 7	C	117	123	anti-parallel
Strand 8	C	128	131	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	183	190	first strand
Strand 2	C	196	205	anti-parallel
Strand 3	C	238	245	anti-parallel
Strand 4	C	226	227	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	C	183	190	first strand
Strand 2	C	196	205	anti-parallel
Strand 3	C	238	245	anti-parallel
Strand 4	C	231	232	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	211	216	first strand
Strand 2	C	254	260	anti-parallel
Strand 3	C	263	268	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	6	11	first strand
Strand 2	D	21	30	anti-parallel
Strand 3	D	62	70	anti-parallel
Strand 4	D	50	51	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	6	11	first strand
Strand 2	D	21	30	anti-parallel
Strand 3	D	62	70	anti-parallel
Strand 4	D	55	56	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	44	45	first strand
Strand 2	D	36	41	anti-parallel
Strand 3	D	78	83	anti-parallel
Strand 4	D	91	94	anti-parallel

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There are 8 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	44	45	first strand
Strand 2	E	31	37	anti-parallel
Strand 3	E	22	28	anti-parallel
Strand 4	E	3	12	anti-parallel
Strand 5	E	91	100	anti-parallel
Strand 6	E	106	114	anti-parallel
Strand 7	E	117	123	anti-parallel
Strand 8	E	128	131	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	183	189	first strand
Strand 2	E	197	205	anti-parallel
Strand 3	E	238	245	anti-parallel
Strand 4	E	226	227	anti-parallel

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There are 4 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	183	189	first strand
Strand 2	E	197	205	anti-parallel
Strand 3	E	238	245	anti-parallel
Strand 4	E	231	232	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	220	221	first strand
Strand 2	E	211	216	anti-parallel
Strand 3	E	254	260	anti-parallel
Strand 4	E	263	268	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	6	11	first strand
Strand 2	F	21	30	anti-parallel
Strand 3	F	62	70	anti-parallel
Strand 4	F	50	51	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	6	11	first strand
Strand 2	F	21	30	anti-parallel
Strand 3	F	62	70	anti-parallel
Strand 4	F	55	56	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	44	45	first strand
Strand 2	F	36	41	anti-parallel
Strand 3	F	78	83	anti-parallel
Strand 4	F	91	94	anti-parallel

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There are 5 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3	5	first strand
Strand 2	G	18	25	anti-parallel
Strand 3	G	70	75	anti-parallel
Strand 4	G	60	65	anti-parallel
Strand 5	G	53	57	anti-parallel

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There are 5 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	9	13	first strand
Strand 2	G	103	108	parallel
Strand 3	G	84	91	anti-parallel
Strand 4	G	32	37	anti-parallel
Strand 5	G	44	49	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	9	13	first strand
Strand 2	G	103	108	parallel
Strand 3	G	84	91	anti-parallel
Strand 4	G	97	99	anti-parallel

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There are 4 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	117	120	first strand
Strand 2	G	132	135	anti-parallel
Strand 3	G	166	175	anti-parallel
Strand 4	G	151	153	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	117	120	first strand
Strand 2	G	132	135	anti-parallel
Strand 3	G	166	175	anti-parallel
Strand 4	G	157	161	anti-parallel

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There are 5 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	122	123	first strand
Strand 2	H	124	129	anti-parallel
Strand 3	H	140	150	anti-parallel
Strand 4	H	188	197	anti-parallel
Strand 5	H	170	172	anti-parallel

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There are 5 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	122	123	first strand
Strand 2	H	124	129	anti-parallel
Strand 3	H	140	150	anti-parallel
Strand 4	H	188	197	anti-parallel
Strand 5	H	177	178	anti-parallel

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There are 4 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	4	7	first strand
Strand 2	H	19	25	anti-parallel
Strand 3	H	76	78	anti-parallel
Strand 4	H	65	66	anti-parallel

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There are 6 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	14	first strand
Strand 2	H	109	114	parallel
Strand 3	H	87	94	anti-parallel
Strand 4	H	31	37	anti-parallel
Strand 5	H	44	49	anti-parallel
Strand 6	H	56	57	anti-parallel

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There are 4 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	14	first strand
Strand 2	H	109	114	parallel
Strand 3	H	87	94	anti-parallel
Strand 4	H	104	105	anti-parallel

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There are 4 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	164	166	first strand
Strand 2	H	155	161	anti-parallel
Strand 3	H	207	214	anti-parallel
Strand 4	H	233	240	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: 5D7J

Analysis of interatomic Contacts of Structural Units in PDB entry:
5D7J