Analysis of interatomic Contacts of Structural Units in PDB entry:
1YDG

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 1YDG entry

There are 8 chains in PDB entry 1YDG (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 3	SER 203
B	THR 2	SER 203
C	THR 2	SER 203
D	THR 2	SER 203
E	SER 0	SER 203
F	ALA 3	SER 203
G	THR 2	SER 203
H	THR 2	SER 203

There are 72 helices in PDB entry 1YDG. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	16	32	Right-handed alpha
Helix 2	2	A	46	51	Right-handed alpha
Helix 3	3	A	53	63	Right-handed alpha
Helix 4	4	A	70	77	Right-handed alpha
Helix 5	5	A	92	101	Right-handed alpha
Helix 6	6	A	102	108	Right-handed alpha
Helix 7	7	A	130	142	Right-handed alpha
Helix 8	8	A	154	160	Right-handed alpha
Helix 9	9	A	177	202	Right-handed alpha
Helix 10	10	B	16	32	Right-handed alpha
Helix 11	11	B	46	51	Right-handed alpha
Helix 12	12	B	53	63	Right-handed alpha
Helix 13	13	B	70	77	Right-handed alpha
Helix 14	14	B	92	101	Right-handed alpha
Helix 15	15	B	102	108	Right-handed alpha
Helix 16	16	B	128	143	Right-handed alpha
Helix 17	17	B	154	161	Right-handed alpha
Helix 18	18	B	177	203	Right-handed alpha
Helix 19	19	C	16	32	Right-handed alpha
Helix 20	20	C	46	51	Right-handed alpha
Helix 21	21	C	53	63	Right-handed alpha
Helix 22	22	C	70	77	Right-handed alpha
Helix 23	23	C	92	100	Right-handed alpha
Helix 24	24	C	102	108	Right-handed alpha
Helix 25	25	C	130	143	Right-handed alpha
Helix 26	26	C	154	160	Right-handed alpha
Helix 27	27	C	177	202	Right-handed alpha
Helix 28	28	D	16	32	Right-handed alpha
Helix 29	29	D	46	51	Right-handed alpha
Helix 30	30	D	53	63	Right-handed alpha
Helix 31	31	D	70	77	Right-handed alpha
Helix 32	32	D	92	100	Right-handed alpha
Helix 33	33	D	102	108	Right-handed alpha
Helix 34	34	D	128	143	Right-handed alpha
Helix 35	35	D	154	160	Right-handed alpha
Helix 36	36	D	177	203	Right-handed alpha
Helix 37	37	E	16	32	Right-handed alpha
Helix 38	38	E	46	53	Right-handed alpha
Helix 39	39	E	53	63	Right-handed alpha
Helix 40	40	E	70	77	Right-handed alpha
Helix 41	41	E	92	101	Right-handed alpha
Helix 42	42	E	102	108	Right-handed alpha
Helix 43	43	E	130	142	Right-handed alpha
Helix 44	44	E	154	160	Right-handed alpha
Helix 45	45	E	177	202	Right-handed alpha
Helix 46	46	F	16	32	Right-handed alpha
Helix 47	47	F	46	51	Right-handed alpha
Helix 48	48	F	53	63	Right-handed alpha
Helix 49	49	F	70	77	Right-handed alpha
Helix 50	50	F	92	101	Right-handed alpha
Helix 51	51	F	102	108	Right-handed alpha
Helix 52	52	F	128	143	Right-handed alpha
Helix 53	53	F	154	160	Right-handed alpha
Helix 54	54	F	177	203	Right-handed alpha
Helix 55	55	G	16	32	Right-handed alpha
Helix 56	56	G	46	52	Right-handed alpha
Helix 57	57	G	53	64	Right-handed alpha
Helix 58	58	G	70	77	Right-handed alpha
Helix 59	59	G	92	101	Right-handed alpha
Helix 60	60	G	102	108	Right-handed alpha
Helix 61	61	G	128	143	Right-handed alpha
Helix 62	62	G	154	160	Right-handed alpha
Helix 63	63	G	177	203	Right-handed alpha
Helix 64	64	H	16	32	Right-handed alpha
Helix 65	65	H	46	51	Right-handed alpha
Helix 66	66	H	53	63	Right-handed alpha
Helix 67	67	H	70	77	Right-handed alpha
Helix 68	68	H	92	100	Right-handed alpha
Helix 69	69	H	102	108	Right-handed alpha
Helix 70	70	H	130	142	Right-handed alpha
Helix 71	71	H	154	160	Right-handed alpha
Helix 72	72	H	177	202	Right-handed alpha

There are 16 sheets in PDB entry 1YDG. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	35	40	first strand
Strand 2	A	6	11	parallel
Strand 3	A	79	87	parallel
Strand 4	A	115	122	parallel
Strand 5	A	146	147	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	90	91	first strand
Strand 2	A	79	87	anti-parallel
Strand 3	A	115	122	parallel
Strand 4	A	168	170	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	35	40	first strand
Strand 2	B	6	11	parallel
Strand 3	B	79	87	parallel
Strand 4	B	115	122	parallel
Strand 5	B	146	147	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	90	91	first strand
Strand 2	B	79	87	anti-parallel
Strand 3	B	115	122	parallel
Strand 4	B	168	170	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	35	40	first strand
Strand 2	C	6	11	parallel
Strand 3	C	79	87	parallel
Strand 4	C	115	122	parallel
Strand 5	C	146	147	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	90	91	first strand
Strand 2	C	79	87	anti-parallel
Strand 3	C	115	122	parallel
Strand 4	C	167	170	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	35	40	first strand
Strand 2	D	6	11	parallel
Strand 3	D	79	87	parallel
Strand 4	D	115	122	parallel
Strand 5	D	146	147	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	90	91	first strand
Strand 2	D	79	87	anti-parallel
Strand 3	D	115	122	parallel
Strand 4	D	168	170	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	35	40	first strand
Strand 2	E	6	11	parallel
Strand 3	E	79	87	parallel
Strand 4	E	115	122	parallel
Strand 5	E	146	147	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	90	91	first strand
Strand 2	E	79	87	anti-parallel
Strand 3	E	115	122	parallel
Strand 4	E	168	170	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	35	40	first strand
Strand 2	F	6	11	parallel
Strand 3	F	79	87	parallel
Strand 4	F	115	122	parallel
Strand 5	F	146	147	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	90	91	first strand
Strand 2	F	79	87	anti-parallel
Strand 3	F	115	122	parallel
Strand 4	F	168	170	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	35	40	first strand
Strand 2	G	6	11	parallel
Strand 3	G	79	87	parallel
Strand 4	G	115	122	parallel
Strand 5	G	146	147	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	90	91	first strand
Strand 2	G	79	87	anti-parallel
Strand 3	G	115	122	parallel
Strand 4	G	168	170	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	35	40	first strand
Strand 2	H	6	11	parallel
Strand 3	H	79	85	parallel
Strand 4	H	115	122	parallel
Strand 5	H	146	147	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	35	40	first strand
Strand 2	H	6	11	parallel
Strand 3	H	79	85	parallel
Strand 4	H	115	122	parallel
Strand 5	H	168	170	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: 1YDG

Analysis of interatomic Contacts of Structural Units in PDB entry:
1YDG