Analysis of interatomic Contacts of Structural Units in PDB entry:
2XDM

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 2XDM entry

There are 3 chains in PDB entry 2XDM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ARG 1	GLU 466
B	ARG 1	GLU 466
C	ARG 1	TYR 459

There are 68 helices in PDB entry 2XDM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	1	13	Right-handed alpha
Helix 2	2	A	14	19	Right-handed 310
Helix 3	3	A	47	50	Right-handed 310
Helix 4	4	A	51	63	Right-handed alpha
Helix 5	5	A	99	113	Right-handed alpha
Helix 6	6	A	139	143	Right-handed 310
Helix 7	7	A	146	149	Right-handed 310
Helix 8	8	A	184	188	Right-handed 310
Helix 9	9	A	240	256	Right-handed alpha
Helix 10	10	A	286	298	Right-handed alpha
Helix 11	11	A	299	316	Right-handed alpha
Helix 12	12	A	319	334	Right-handed alpha
Helix 13	13	A	357	369	Right-handed alpha
Helix 14	14	A	372	380	Right-handed alpha
Helix 15	15	A	387	392	Right-handed alpha
Helix 16	16	A	393	395	Right-handed 310
Helix 17	17	A	445	460	Right-handed alpha
Helix 18	18	B	1	14	Right-handed alpha
Helix 19	19	B	15	19	Right-handed 310
Helix 20	20	B	47	49	Right-handed 310
Helix 21	21	B	50	63	Right-handed alpha
Helix 22	22	B	99	112	Right-handed alpha
Helix 23	23	B	139	143	Right-handed 310
Helix 24	24	B	145	149	Right-handed 310
Helix 25	25	B	184	188	Right-handed 310
Helix 26	26	B	240	256	Right-handed alpha
Helix 27	27	B	286	298	Right-handed alpha
Helix 28	28	B	299	316	Right-handed alpha
Helix 29	29	B	319	334	Right-handed alpha
Helix 30	30	B	356	370	Right-handed alpha
Helix 31	31	B	372	379	Right-handed alpha
Helix 32	32	B	387	392	Right-handed alpha
Helix 33	33	B	393	395	Right-handed 310
Helix 34	34	B	445	460	Right-handed alpha
Helix 35	35	C	2	14	Right-handed alpha
Helix 36	36	C	15	19	Right-handed 310
Helix 37	37	C	47	49	Right-handed 310
Helix 38	38	C	50	63	Right-handed alpha
Helix 39	39	C	99	113	Right-handed alpha
Helix 40	40	C	139	143	Right-handed 310
Helix 41	41	C	146	149	Right-handed 310
Helix 42	42	C	184	188	Right-handed 310
Helix 43	43	C	240	256	Right-handed alpha
Helix 44	44	C	286	297	Right-handed alpha
Helix 45	45	C	299	316	Right-handed alpha
Helix 46	46	C	319	334	Right-handed alpha
Helix 47	47	C	356	368	Right-handed alpha
Helix 48	48	C	372	380	Right-handed alpha
Helix 49	49	C	387	392	Right-handed alpha
Helix 50	50	C	393	395	Right-handed 310
Helix 51	51	C	445	460	Right-handed alpha
Helix 52	52	D	1	13	Right-handed alpha
Helix 53	53	D	14	19	Right-handed 310
Helix 54	54	D	47	49	Right-handed 310
Helix 55	55	D	50	63	Right-handed alpha
Helix 56	56	D	99	114	Right-handed alpha
Helix 57	57	D	139	143	Right-handed 310
Helix 58	58	D	146	149	Right-handed 310
Helix 59	59	D	184	187	Right-handed 310
Helix 60	60	D	240	256	Right-handed alpha
Helix 61	61	D	286	298	Right-handed alpha
Helix 62	62	D	299	316	Right-handed alpha
Helix 63	63	D	319	334	Right-handed alpha
Helix 64	64	D	356	370	Right-handed alpha
Helix 65	65	D	372	378	Right-handed alpha
Helix 66	66	D	387	392	Right-handed alpha
Helix 67	67	D	393	395	Right-handed 310
Helix 68	68	D	445	460	Right-handed alpha

There are 30 sheets in PDB entry 2XDM. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE, AF, AG, AH, BA, BB, BC, BD, BE, BF, BG, CA, CB, CC, CD, CE, CF, A, DB, C, DD, DE, DF, G, DH, DI,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	35	39	first strand
Strand 2	A	22	29	anti-parallel
Strand 3	A	431	438	anti-parallel
Strand 4	A	417	424	anti-parallel
Strand 5	A	408	414	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	44	45	first strand
Strand 2	A	355	356	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	264	266	first strand
Strand 2	A	122	125	parallel
Strand 3	A	88	92	parallel
Strand 4	A	70	75	anti-parallel
Strand 5	A	277	283	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	84	85	first strand
Strand 2	A	117	118	parallel
Strand 3	A	259	260	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	157	158	first strand
Strand 2	A	163	164	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	181	183	first strand
Strand 2	A	166	172	anti-parallel
Strand 3	A	232	237	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	192	195	first strand
Strand 2	A	218	222	parallel
Strand 3	A	209	211	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	198	200	first strand
Strand 2	A	224	226	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	37	39	first strand
Strand 2	B	22	29	anti-parallel
Strand 3	B	431	438	anti-parallel
Strand 4	B	417	424	anti-parallel
Strand 5	B	408	414	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	264	266	first strand
Strand 2	B	122	125	parallel
Strand 3	B	88	92	parallel
Strand 4	B	70	75	anti-parallel
Strand 5	B	277	283	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	84	85	first strand
Strand 2	B	117	118	parallel
Strand 3	B	259	260	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	157	158	first strand
Strand 2	B	163	164	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	181	183	first strand
Strand 2	B	166	172	anti-parallel
Strand 3	B	232	237	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	192	195	first strand
Strand 2	B	218	222	parallel
Strand 3	B	209	211	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	198	200	first strand
Strand 2	B	224	226	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	35	39	first strand
Strand 2	C	22	29	anti-parallel
Strand 3	C	431	438	anti-parallel
Strand 4	C	417	424	anti-parallel
Strand 5	C	408	414	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	264	266	first strand
Strand 2	C	122	125	parallel
Strand 3	C	88	92	parallel
Strand 4	C	70	75	anti-parallel
Strand 5	C	277	283	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	84	85	first strand
Strand 2	C	117	118	parallel
Strand 3	C	259	260	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	157	158	first strand
Strand 2	C	163	164	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	181	183	first strand
Strand 2	C	166	172	anti-parallel
Strand 3	C	232	237	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	192	200	first strand
Strand 2	C	218	226	parallel
Strand 3	C	209	211	anti-parallel

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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	D	34	39	first strand
Strand 2	D	22	29	anti-parallel
Strand 3	D	430	438	anti-parallel
Strand 4	D	417	425	anti-parallel
Strand 5	D	413	414	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	34	39	first strand
Strand 2	D	22	29	anti-parallel
Strand 3	D	430	438	anti-parallel
Strand 4	D	417	425	anti-parallel
Strand 5	D	408	410	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	D	413	414	first strand
Strand 2	D	417	425	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	264	266	first strand
Strand 2	D	122	125	parallel
Strand 3	D	88	92	parallel
Strand 4	D	70	75	anti-parallel
Strand 5	D	277	283	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	84	85	first strand
Strand 2	D	117	118	parallel
Strand 3	D	259	260	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	157	158	first strand
Strand 2	D	163	164	anti-parallel

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There are 3 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	181	183	first strand
Strand 2	D	166	172	anti-parallel
Strand 3	D	232	237	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	192	195	first strand
Strand 2	D	218	222	parallel
Strand 3	D	209	211	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	198	200	first strand
Strand 2	D	224	226	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: 2XDM

Analysis of interatomic Contacts of Structural Units in PDB entry:
2XDM