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

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 1DML entry

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

Chain ID	Initial residue	Terminal residue
A	ALA 29	LYS 319
B	ASP 1200	ALA 1235
C	ALA 29	LYS 319
D	ASP 1200	ALA 1235
E	GLY 28	LYS 319
F	ASP 1200	ALA 1235
G	GLY 28	LYS 319
H	ASP 1200	ALA 1235

There are 33 helices in PDB entry 1DML. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	37	48	Right-handed alpha
Helix 2	2	A	49	51	Right-handed 310
Helix 3	3	A	84	86	Right-handed 310
Helix 4	4	A	181	192	Right-handed alpha
Helix 5	5	A	273	281	Right-handed alpha
Helix 6	6	B	1200	1209	Right-handed alpha
Helix 7	7	B	1219	1235	Right-handed alpha
Helix 8	8	C	37	48	Right-handed alpha
Helix 9	9	C	49	51	Right-handed 310
Helix 10	10	C	84	86	Right-handed 310
Helix 11	11	C	181	192	Right-handed alpha
Helix 12	12	C	247	254	Right-handed 310
Helix 13	13	C	273	281	Right-handed alpha
Helix 14	14	D	1200	1209	Right-handed alpha
Helix 15	15	D	1219	1235	Right-handed alpha
Helix 16	16	E	38	48	Right-handed alpha
Helix 17	17	E	84	86	Right-handed 310
Helix 18	18	E	109	113	Right-handed 310
Helix 19	19	E	153	156	Right-handed 310
Helix 20	20	E	181	191	Right-handed alpha
Helix 21	21	E	227	234	Right-handed alpha
Helix 22	22	E	273	281	Right-handed alpha
Helix 23	23	F	1200	1209	Right-handed alpha
Helix 24	24	F	1219	1235	Right-handed alpha
Helix 25	25	G	38	48	Right-handed alpha
Helix 26	26	G	84	86	Right-handed 310
Helix 27	27	G	109	113	Right-handed 310
Helix 28	28	G	153	156	Right-handed 310
Helix 29	29	G	181	191	Right-handed alpha
Helix 30	30	G	227	234	Right-handed alpha
Helix 31	31	G	273	281	Right-handed alpha
Helix 32	32	H	1200	1209	Right-handed alpha
Helix 33	33	H	1219	1235	Right-handed alpha

There are 18 sheets in PDB entry 1DML. 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, Q, R,

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	88	90	first strand
Strand 2	A	31	36	anti-parallel
Strand 3	A	120	128	anti-parallel
Strand 4	A	135	142	anti-parallel
Strand 5	A	156	160	anti-parallel

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There are 9 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	96	99	first strand
Strand 2	A	58	62	anti-parallel
Strand 3	A	65	72	anti-parallel
Strand 4	A	75	82	anti-parallel
Strand 5	A	310	314	anti-parallel
Strand 6	A	298	303	anti-parallel
Strand 7	A	286	291	anti-parallel
Strand 8	A	176	180	anti-parallel
Strand 9	A	257	259	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	101	103	first strand
Strand 2	A	106	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	166	169	first strand
Strand 2	B	1212	1215	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	218	222	first strand
Strand 2	A	209	213	anti-parallel
Strand 3	A	200	204	anti-parallel
Strand 4	A	265	269	anti-parallel

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There are 5 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	88	90	first strand
Strand 2	C	31	36	anti-parallel
Strand 3	C	120	128	anti-parallel
Strand 4	C	135	142	anti-parallel
Strand 5	C	156	160	anti-parallel

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There are 9 strands in G sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	96	99	first strand
Strand 2	C	58	62	anti-parallel
Strand 3	C	65	72	anti-parallel
Strand 4	C	75	82	anti-parallel
Strand 5	C	310	314	anti-parallel
Strand 6	C	298	303	anti-parallel
Strand 7	C	286	291	anti-parallel
Strand 8	C	176	180	anti-parallel
Strand 9	C	257	259	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	101	103	first strand
Strand 2	C	106	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	166	169	first strand
Strand 2	D	1212	1215	anti-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	C	217	222	first strand
Strand 2	C	209	214	anti-parallel
Strand 3	C	200	204	anti-parallel
Strand 4	C	265	269	anti-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	E	88	90	first strand
Strand 2	E	31	36	anti-parallel
Strand 3	E	122	128	anti-parallel
Strand 4	E	135	144	anti-parallel
Strand 5	E	148	151	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	88	90	first strand
Strand 2	E	31	36	anti-parallel
Strand 3	E	122	128	anti-parallel
Strand 4	E	135	144	anti-parallel
Strand 5	E	157	160	anti-parallel

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There are 13 strands in M sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	96	99	first strand
Strand 2	E	58	62	anti-parallel
Strand 3	E	65	72	anti-parallel
Strand 4	E	75	82	anti-parallel
Strand 5	E	310	314	anti-parallel
Strand 6	E	298	303	anti-parallel
Strand 7	E	286	291	anti-parallel
Strand 8	E	176	179	anti-parallel
Strand 9	E	255	259	anti-parallel
Strand 10	E	217	225	parallel
Strand 11	E	209	214	anti-parallel
Strand 12	E	200	204	anti-parallel
Strand 13	E	265	269	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	167	169	first strand
Strand 2	F	1212	1214	anti-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	G	88	90	first strand
Strand 2	G	31	36	anti-parallel
Strand 3	G	122	128	anti-parallel
Strand 4	G	135	143	anti-parallel
Strand 5	G	149	151	anti-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	G	88	90	first strand
Strand 2	G	31	36	anti-parallel
Strand 3	G	122	128	anti-parallel
Strand 4	G	135	143	anti-parallel
Strand 5	G	157	160	anti-parallel

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There are 13 strands in Q sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	96	99	first strand
Strand 2	G	58	62	anti-parallel
Strand 3	G	65	72	anti-parallel
Strand 4	G	75	82	anti-parallel
Strand 5	G	310	314	anti-parallel
Strand 6	G	298	303	anti-parallel
Strand 7	G	286	291	anti-parallel
Strand 8	G	176	179	anti-parallel
Strand 9	G	255	259	anti-parallel
Strand 10	G	217	225	parallel
Strand 11	G	209	214	anti-parallel
Strand 12	G	200	204	anti-parallel
Strand 13	G	265	269	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	167	169	first strand
Strand 2	H	1212	1214	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: 1DML

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