Analysis of interatomic Contacts of Structural Units in PDB entry:
3DXM

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 3DXM entry

There are 7 chains in PDB entry 3DXM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 3	VAL 416
B	GLY 154	ARG 349
C	ALA 2	VAL 372
D	MET 1	PRO 282
E	PRO 2	GLY 175
F	THR 2	PHE 168
G	ALA 9	THR 150

There are 67 helices in PDB entry 3DXM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	55	59	Right-handed 310
Helix 2	2	A	63	68	Right-handed alpha
Helix 3	3	A	85	99	Right-handed alpha
Helix 4	4	A	104	107	Right-handed 310
Helix 5	5	A	119	133	Right-handed alpha
Helix 6	6	A	144	153	Right-handed alpha
Helix 7	7	A	187	190	Right-handed 310
Helix 8	8	A	196	210	Right-handed alpha
Helix 9	9	A	216	218	Right-handed 310
Helix 10	10	A	219	232	Right-handed alpha
Helix 11	11	A	237	248	Right-handed alpha
Helix 12	12	A	249	252	Right-handed 310
Helix 13	13	A	273	281	Right-handed alpha
Helix 14	14	A	282	283	Right-handed 310
Helix 15	15	A	284	288	Right-handed 310
Helix 16	16	A	295	307	Right-handed alpha
Helix 17	17	A	308	318	Right-handed alpha
Helix 18	18	A	323	327	Right-handed 310
Helix 19	19	A	330	354	Right-handed alpha
Helix 20	20	A	372	374	Right-handed 310
Helix 21	21	A	375	385	Right-handed alpha
Helix 22	22	A	387	394	Right-handed alpha
Helix 23	23	A	397	404	Right-handed alpha
Helix 24	24	A	405	410	Right-handed 310
Helix 25	25	B	185	200	Right-handed alpha
Helix 26	26	B	209	221	Right-handed alpha
Helix 27	27	B	226	237	Right-handed alpha
Helix 28	28	B	256	261	Right-handed alpha
Helix 29	29	B	262	266	Right-handed 310
Helix 30	30	B	267	272	Right-handed 310
Helix 31	31	B	276	289	Right-handed alpha
Helix 32	32	B	293	298	Right-handed alpha
Helix 33	33	B	312	329	Right-handed alpha
Helix 34	34	C	232	234	Right-handed 310
Helix 35	35	C	359	366	Right-handed alpha
Helix 36	36	D	8	24	Right-handed alpha
Helix 37	37	D	48	51	Right-handed 310
Helix 38	38	D	63	69	Right-handed alpha
Helix 39	39	D	71	81	Right-handed alpha
Helix 40	40	D	105	115	Right-handed alpha
Helix 41	41	D	115	135	Right-handed alpha
Helix 42	42	D	171	187	Right-handed alpha
Helix 43	43	D	188	191	Right-handed 310
Helix 44	44	D	206	210	Right-handed 310
Helix 45	45	D	228	233	Right-handed alpha
Helix 46	46	D	236	245	Right-handed alpha
Helix 47	47	D	246	279	Right-handed alpha
Helix 48	48	E	40	53	Right-handed alpha
Helix 49	49	E	62	83	Right-handed alpha
Helix 50	50	E	87	101	Right-handed alpha
Helix 51	51	E	122	149	Right-handed alpha
Helix 52	52	E	157	162	Right-handed alpha
Helix 53	53	E	167	171	Right-handed 310
Helix 54	54	F	4	20	Right-handed alpha
Helix 55	55	F	36	41	Right-handed alpha
Helix 56	56	F	43	47	Right-handed 310
Helix 57	57	F	80	96	Right-handed alpha
Helix 58	58	F	120	126	Right-handed alpha
Helix 59	59	F	127	166	Right-handed alpha
Helix 60	60	G	15	20	Right-handed 310
Helix 61	61	G	38	48	Right-handed alpha
Helix 62	62	G	50	59	Right-handed alpha
Helix 63	63	G	68	85	Right-handed alpha
Helix 64	64	G	87	89	Right-handed 310
Helix 65	65	G	90	97	Right-handed alpha
Helix 66	66	G	99	114	Right-handed alpha
Helix 67	67	G	120	146	Right-handed alpha

There are 20 sheets in PDB entry 3DXM. 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, S, T,

There are 6 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	29	31	first strand
Strand 2	A	17	21	anti-parallel
Strand 3	A	8	12	anti-parallel
Strand 4	A	109	114	parallel
Strand 5	A	138	143	parallel
Strand 6	A	395	396	anti-parallel

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There are 3 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	61	62	first strand
Strand 2	A	35	37	anti-parallel
Strand 3	A	73	75	anti-parallel

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There are 3 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	184	185	first strand
Strand 2	A	175	181	anti-parallel
Strand 3	A	191	193	anti-parallel

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There are 5 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	184	185	first strand
Strand 2	A	175	181	anti-parallel
Strand 3	A	165	170	anti-parallel
Strand 4	A	319	322	parallel
Strand 5	A	367	368	parallel

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There are 2 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	254	259	first strand
Strand 2	A	266	271	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	156	159	first strand
Strand 2	B	164	167	anti-parallel
Strand 3	B	180	182	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	169	170	first strand
Strand 2	B	173	174	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	B	242	245	first strand
Strand 2	B	251	254	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	B	301	302	first strand
Strand 2	B	344	345	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	3	5	first strand
Strand 2	C	353	358	anti-parallel
Strand 3	C	344	349	anti-parallel
Strand 4	C	329	336	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	14	16	first strand
Strand 2	C	22	25	anti-parallel
Strand 3	C	31	38	anti-parallel
Strand 4	C	41	49	anti-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	C	55	61	first strand
Strand 2	C	66	71	anti-parallel
Strand 3	C	76	82	anti-parallel
Strand 4	C	85	91	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	99	104	first strand
Strand 2	C	110	115	anti-parallel
Strand 3	C	120	126	anti-parallel
Strand 4	C	131	137	anti-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	C	145	150	first strand
Strand 2	C	156	161	anti-parallel
Strand 3	C	166	170	anti-parallel
Strand 4	C	194	197	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	205	210	first strand
Strand 2	C	216	221	anti-parallel
Strand 3	C	225	230	anti-parallel
Strand 4	C	237	241	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	247	254	first strand
Strand 2	C	257	262	anti-parallel
Strand 3	C	268	273	anti-parallel
Strand 4	C	278	284	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	32	37	first strand
Strand 2	D	41	46	anti-parallel
Strand 3	D	54	60	anti-parallel
Strand 4	D	93	98	anti-parallel
Strand 5	D	84	85	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	142	147	first strand
Strand 2	D	150	156	anti-parallel
Strand 3	D	161	168	anti-parallel
Strand 4	D	220	227	anti-parallel
Strand 5	D	197	202	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	14	16	first strand
Strand 2	E	19	21	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	51	54	first strand
Strand 2	F	60	65	anti-parallel
Strand 3	F	69	75	anti-parallel
Strand 4	F	114	119	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: 3DXM

Analysis of interatomic Contacts of Structural Units in PDB entry:
3DXM