Analysis of interatomic Contacts of Structural Units in PDB entry:
7DNJ

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 7DNJ entry

There are 12 chains in PDB entry 7DNJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 4	SER 200
B	GLY 4	SER 200
C	GLY 4	SER 200
D	GLY 4	SER 200
E	MET 1	ARG 72
F	MET 1	ARG 72
G	MET 1	ARG 74
H	MET 1	LEU 73
I	MET 1	ARG 72
J	MET 1	LEU 73
K	MET 1	ARG 72
L	MET 1	LEU 73

There are 71 helices in PDB entry 7DNJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	6	18	Right-handed alpha
Helix 2	AA2	A	18	24	Right-handed alpha
Helix 3	AA3	A	27	35	Right-handed alpha
Helix 4	AA4	A	39	54	Right-handed alpha
Helix 5	AA5	A	55	68	Right-handed alpha
Helix 6	AA6	A	74	86	Right-handed alpha
Helix 7	AA7	A	89	96	Right-handed alpha
Helix 8	AA8	A	104	129	Right-handed alpha
Helix 9	AA9	A	130	139	Right-handed alpha
Helix 10	AB1	A	145	156	Right-handed alpha
Helix 11	AB2	A	159	172	Right-handed alpha
Helix 12	AB3	A	176	187	Right-handed alpha
Helix 13	AB4	A	190	199	Right-handed alpha
Helix 14	AB5	B	6	18	Right-handed alpha
Helix 15	AB6	B	18	24	Right-handed alpha
Helix 16	AB7	B	27	32	Right-handed alpha
Helix 17	AB8	B	33	35	Right-handed 310
Helix 18	AB9	B	39	68	Right-handed alpha
Helix 19	AC1	B	74	86	Right-handed alpha
Helix 20	AC2	B	88	94	Right-handed alpha
Helix 21	AC3	B	98	102	Right-handed 310
Helix 22	AC4	B	104	121	Right-handed alpha
Helix 23	AC5	B	121	129	Right-handed alpha
Helix 24	AC6	B	134	141	Right-handed alpha
Helix 25	AC7	B	145	156	Right-handed alpha
Helix 26	AC8	B	159	171	Right-handed alpha
Helix 27	AC9	B	172	174	Right-handed 310
Helix 28	AD1	B	176	188	Right-handed alpha
Helix 29	AD2	B	190	199	Right-handed alpha
Helix 30	AD3	C	6	18	Right-handed alpha
Helix 31	AD4	C	18	26	Right-handed alpha
Helix 32	AD5	C	27	32	Right-handed alpha
Helix 33	AD6	C	39	53	Right-handed alpha
Helix 34	AD7	C	53	68	Right-handed alpha
Helix 35	AD8	C	74	86	Right-handed alpha
Helix 36	AD9	C	88	96	Right-handed alpha
Helix 37	AE1	C	104	121	Right-handed alpha
Helix 38	AE2	C	121	129	Right-handed alpha
Helix 39	AE3	C	130	133	Right-handed 310
Helix 40	AE4	C	134	141	Right-handed alpha
Helix 41	AE5	C	145	156	Right-handed alpha
Helix 42	AE6	C	159	172	Right-handed alpha
Helix 43	AE7	C	176	188	Right-handed alpha
Helix 44	AE8	C	190	198	Right-handed alpha
Helix 45	AE9	D	6	24	Right-handed alpha
Helix 46	AF1	D	27	35	Right-handed alpha
Helix 47	AF2	D	41	68	Right-handed alpha
Helix 48	AF3	D	74	86	Right-handed alpha
Helix 49	AF4	D	88	96	Right-handed alpha
Helix 50	AF5	D	104	129	Right-handed alpha
Helix 51	AF6	D	130	133	Right-handed 310
Helix 52	AF7	D	134	141	Right-handed alpha
Helix 53	AF8	D	145	156	Right-handed alpha
Helix 54	AF9	D	159	172	Right-handed alpha
Helix 55	AG1	D	176	188	Right-handed alpha
Helix 56	AG2	D	190	199	Right-handed alpha
Helix 57	AG3	E	22	35	Right-handed alpha
Helix 58	AG4	F	22	34	Right-handed alpha
Helix 59	AG5	G	22	34	Right-handed alpha
Helix 60	AG6	G	37	39	Right-handed 310
Helix 61	AG7	G	55	60	Right-handed 310
Helix 62	AG8	H	22	34	Right-handed alpha
Helix 63	AG9	H	37	39	Right-handed 310
Helix 64	AH1	H	55	60	Right-handed alpha
Helix 65	AH2	I	22	34	Right-handed alpha
Helix 66	AH3	J	22	35	Right-handed alpha
Helix 67	AH4	J	56	60	Right-handed 310
Helix 68	AH5	K	22	34	Right-handed alpha
Helix 69	AH6	K	37	41	Right-handed 310
Helix 70	AH7	K	55	60	Right-handed 310
Helix 71	AH8	L	22	34	Right-handed alpha

There are 8 sheets in PDB entry 7DNJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

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	E	12	16	first strand
Strand 2	E	2	6	anti-parallel
Strand 3	E	66	69	parallel
Strand 4	E	43	45	anti-parallel
Strand 5	E	48	49	anti-parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	12	16	first strand
Strand 2	F	2	7	anti-parallel
Strand 3	F	66	71	parallel
Strand 4	F	41	44	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	G	12	15	first strand
Strand 2	G	3	6	anti-parallel
Strand 3	G	66	71	parallel
Strand 4	G	41	44	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	H	12	16	first strand
Strand 2	H	2	7	anti-parallel
Strand 3	H	65	71	parallel
Strand 4	H	41	44	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	I	14	16	first strand
Strand 2	I	2	6	anti-parallel
Strand 3	I	65	70	parallel
Strand 4	I	42	44	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	J	12	16	first strand
Strand 2	J	2	7	anti-parallel
Strand 3	J	65	71	parallel
Strand 4	J	41	44	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	K	13	16	first strand
Strand 2	K	2	6	anti-parallel
Strand 3	K	65	70	parallel
Strand 4	K	42	44	anti-parallel

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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	13	14	first strand
Strand 2	L	4	7	anti-parallel
Strand 3	L	66	71	parallel
Strand 4	L	41	45	anti-parallel
Strand 5	L	48	49	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: 7DNJ

Analysis of interatomic Contacts of Structural Units in PDB entry:
7DNJ