Analysis of interatomic Contacts of Structural Units in PDB entry:
8D3M

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 8D3M entry

There are 9 chains in PDB entry 8D3M (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	LYS 343
B	MET 1	TRP 342
C	MET 1	LYS 343
D	MET 1	TRP 342
E	GLY -1	PHE 96
F	GLY -1	PHE 96
G	G 1	T 24
H	C 1	T 32
I	ALA 2	GLU 219

There are 64 helices in PDB entry 8D3M. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	53	63	Right-handed alpha
Helix 2	AA2	A	88	98	Right-handed alpha
Helix 3	AA3	A	100	130	Right-handed alpha
Helix 4	AA4	A	135	154	Right-handed alpha
Helix 5	AA5	A	158	178	Right-handed alpha
Helix 6	AA6	A	179	181	Right-handed 310
Helix 7	AA7	A	201	225	Right-handed alpha
Helix 8	AA8	A	241	248	Right-handed alpha
Helix 9	AA9	A	251	266	Right-handed alpha
Helix 10	AB1	A	270	272	Right-handed 310
Helix 11	AB2	A	285	300	Right-handed alpha
Helix 12	AB3	A	317	331	Right-handed alpha
Helix 13	AB4	B	53	62	Right-handed alpha
Helix 14	AB5	B	87	99	Right-handed alpha
Helix 15	AB6	B	100	130	Right-handed alpha
Helix 16	AB7	B	135	155	Right-handed alpha
Helix 17	AB8	B	158	178	Right-handed alpha
Helix 18	AB9	B	185	189	Right-handed 310
Helix 19	AC1	B	202	225	Right-handed alpha
Helix 20	AC2	B	241	256	Right-handed alpha
Helix 21	AC3	B	256	266	Right-handed alpha
Helix 22	AC4	B	285	300	Right-handed alpha
Helix 23	AC5	B	317	332	Right-handed alpha
Helix 24	AC6	C	53	63	Right-handed alpha
Helix 25	AC7	C	87	100	Right-handed alpha
Helix 26	AC8	C	101	130	Right-handed alpha
Helix 27	AC9	C	135	155	Right-handed alpha
Helix 28	AD1	C	158	181	Right-handed alpha
Helix 29	AD2	C	200	223	Right-handed alpha
Helix 30	AD3	C	241	251	Right-handed alpha
Helix 31	AD4	C	256	265	Right-handed alpha
Helix 32	AD5	C	266	268	Right-handed 310
Helix 33	AD6	C	270	274	Right-handed 310
Helix 34	AD7	C	285	301	Right-handed alpha
Helix 35	AD8	C	317	331	Right-handed alpha
Helix 36	AD9	D	53	63	Right-handed alpha
Helix 37	AE1	D	87	98	Right-handed alpha
Helix 38	AE2	D	100	130	Right-handed alpha
Helix 39	AE3	D	135	155	Right-handed alpha
Helix 40	AE4	D	158	172	Right-handed alpha
Helix 41	AE5	D	173	178	Right-handed alpha
Helix 42	AE6	D	179	181	Right-handed 310
Helix 43	AE7	D	203	225	Right-handed alpha
Helix 44	AE8	D	242	247	Right-handed alpha
Helix 45	AE9	D	248	256	Right-handed alpha
Helix 46	AF1	D	256	266	Right-handed alpha
Helix 47	AF2	D	270	272	Right-handed 310
Helix 48	AF3	D	285	302	Right-handed alpha
Helix 49	AF4	D	316	331	Right-handed alpha
Helix 50	AF5	E	15	28	Right-handed alpha
Helix 51	AF6	E	44	59	Right-handed alpha
Helix 52	AF7	E	74	77	Right-handed 310
Helix 53	AF8	F	15	31	Right-handed alpha
Helix 54	AF9	F	44	59	Right-handed alpha
Helix 55	AG1	F	74	77	Right-handed 310
Helix 56	AG2	I	12	21	Right-handed alpha
Helix 57	AG3	I	23	30	Right-handed alpha
Helix 58	AG4	I	37	50	Right-handed alpha
Helix 59	AG5	I	119	135	Right-handed alpha
Helix 60	AG6	I	158	179	Right-handed alpha
Helix 61	AG7	I	186	192	Right-handed 310
Helix 62	AG8	I	195	200	Right-handed alpha
Helix 63	AG9	I	201	206	Right-handed alpha
Helix 64	AH1	I	208	219	Right-handed alpha

There are 16 sheets in PDB entry 8D3M. 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,

There are 9 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	2	3	first strand
Strand 2	A	7	10	anti-parallel
Strand 3	A	43	46	parallel
Strand 4	A	66	70	parallel
Strand 5	A	76	81	anti-parallel
Strand 6	B	78	81	anti-parallel
Strand 7	B	66	70	anti-parallel
Strand 8	B	41	47	parallel
Strand 9	B	6	10	parallel

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There are 3 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	16	20	first strand
Strand 2	A	23	27	anti-parallel
Strand 3	A	32	37	anti-parallel

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There are 2 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	274	276	first strand
Strand 2	A	282	284	anti-parallel

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There are 2 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	303	305	first strand
Strand 2	A	312	314	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	31	37	first strand
Strand 2	B	23	28	anti-parallel
Strand 3	B	15	20	anti-parallel
Strand 4	B	50	52	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	303	305	first strand
Strand 2	B	312	314	anti-parallel

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There are 8 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	7	10	first strand
Strand 2	C	43	46	parallel
Strand 3	C	66	70	parallel
Strand 4	C	76	81	anti-parallel
Strand 5	D	77	81	anti-parallel
Strand 6	D	66	69	anti-parallel
Strand 7	D	41	46	parallel
Strand 8	D	6	10	parallel

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There are 3 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	16	20	first strand
Strand 2	C	23	27	anti-parallel
Strand 3	C	32	37	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	C	303	305	first strand
Strand 2	C	312	314	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	D	34	37	first strand
Strand 2	D	23	27	anti-parallel
Strand 3	D	16	20	anti-parallel
Strand 4	D	51	52	parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	274	276	first strand
Strand 2	D	282	284	anti-parallel

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There are 2 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	303	305	first strand
Strand 2	D	312	314	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	E	32	35	first strand
Strand 2	E	38	43	anti-parallel
Strand 3	E	1	8	anti-parallel
Strand 4	E	65	70	anti-parallel
Strand 5	F	79	81	anti-parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	79	81	first strand
Strand 2	F	65	72	anti-parallel
Strand 3	F	1	8	anti-parallel
Strand 4	F	38	43	anti-parallel
Strand 5	F	32	35	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	I	10	11	first strand
Strand 2	I	77	88	parallel
Strand 3	I	63	72	anti-parallel
Strand 4	I	57	58	anti-parallel

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There are 5 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	10	11	first strand
Strand 2	I	77	88	parallel
Strand 3	I	102	110	anti-parallel
Strand 4	I	142	146	parallel
Strand 5	I	151	155	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: 8D3M

Analysis of interatomic Contacts of Structural Units in PDB entry:
8D3M