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

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 3GBM entry

There are 8 chains in PDB entry 3GBM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 8	PRO 324
B	GLY 1	ARG 177
C	PRO 9	PRO 324
D	GLY 1	ILE 173
H	GLU 1	PRO 227
L	VAL 3	GLU 213
I	GLU 1	VAL 223
M	VAL 3	PRO 211

There are 32 helices in PDB entry 3GBM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	65	72	Right-handed alpha
Helix 2	2	A	73	80	Right-handed 310
Helix 3	3	A	104	113	Right-handed alpha
Helix 4	4	A	125	127	Right-handed 310
Helix 5	5	A	187	196	Right-handed alpha
Helix 6	6	B	37	59	Right-handed alpha
Helix 7	7	B	74	127	Right-handed alpha
Helix 8	8	B	145	154	Right-handed alpha
Helix 9	9	B	158	176	Right-handed alpha
Helix 10	10	C	65	71	Right-handed alpha
Helix 11	11	C	73	80	Right-handed 310
Helix 12	12	C	104	112	Right-handed alpha
Helix 13	13	C	125	127	Right-handed 310
Helix 14	14	C	187	196	Right-handed alpha
Helix 15	15	D	37	59	Right-handed alpha
Helix 16	16	D	74	127	Right-handed alpha
Helix 17	17	D	145	154	Right-handed alpha
Helix 18	18	D	158	171	Right-handed alpha
Helix 19	19	H	83	87	Right-handed 310
Helix 20	20	H	163	165	Right-handed 310
Helix 21	21	H	196	198	Right-handed 310
Helix 22	22	L	79	83	Right-handed 310
Helix 23	23	L	121	127	Right-handed alpha
Helix 24	24	L	182	188	Right-handed alpha
Helix 25	25	I	73	75	Right-handed 310
Helix 26	26	I	83	87	Right-handed 310
Helix 27	27	I	163	165	Right-handed 310
Helix 28	28	I	195	199	Right-handed 310
Helix 29	29	I	213	216	Right-handed 310
Helix 30	30	M	79	83	Right-handed 310
Helix 31	31	M	121	127	Right-handed alpha
Helix 32	32	M	182	188	Right-handed alpha

There are 44 sheets in PDB entry 3GBM. 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, U, V, W, X, Y, Z, AA, AB, AC, AD, AE, AF, AG, AH, AI, AJ, AK, AL, AM, AN, AO, AP, AQ, AR,

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	B	31	36	first strand
Strand 2	B	22	28	anti-parallel
Strand 3	A	12	17	anti-parallel
Strand 4	B	137	140	anti-parallel
Strand 5	B	130	132	anti-parallel

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There are 2 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	25	26	first strand
Strand 2	A	34	35	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	39	41	first strand
Strand 2	A	315	317	anti-parallel

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There are 3 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	43	44	first strand
Strand 2	A	294	295	parallel
Strand 3	A	307	308	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	51	54	first strand
Strand 2	A	274	279	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	A	59	60	first strand
Strand 2	A	87	89	parallel
Strand 3	A	267	269	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	A	100	102	first strand
Strand 2	A	229	237	parallel
Strand 3	A	176	184	anti-parallel
Strand 4	A	256	262	anti-parallel
Strand 5	A	115	122	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	100	102	first strand
Strand 2	A	229	237	parallel
Strand 3	A	176	184	anti-parallel
Strand 4	A	251	254	anti-parallel
Strand 5	A	151	153	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	A	136	140	first strand
Strand 2	A	145	146	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	A	164	169	first strand
Strand 2	A	242	247	anti-parallel
Strand 3	A	202	205	anti-parallel
Strand 4	A	210	213	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	286	287	first strand
Strand 2	A	281	283	anti-parallel
Strand 3	A	302	303	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	D	31	36	first strand
Strand 2	D	22	28	anti-parallel
Strand 3	C	12	17	anti-parallel
Strand 4	D	137	140	anti-parallel
Strand 5	D	130	132	anti-parallel

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There are 2 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	25	26	first strand
Strand 2	C	34	35	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	C	39	41	first strand
Strand 2	C	315	317	anti-parallel

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There are 3 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	43	44	first strand
Strand 2	C	294	295	parallel
Strand 3	C	307	308	parallel

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There are 2 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	51	54	first strand
Strand 2	C	274	279	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	59	60	first strand
Strand 2	C	87	89	parallel
Strand 3	C	267	269	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	C	100	102	first strand
Strand 2	C	229	237	parallel
Strand 3	C	176	184	anti-parallel
Strand 4	C	256	262	anti-parallel
Strand 5	C	115	122	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	100	102	first strand
Strand 2	C	229	237	parallel
Strand 3	C	176	184	anti-parallel
Strand 4	C	251	254	anti-parallel
Strand 5	C	151	153	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	136	140	first strand
Strand 2	C	145	146	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	168	169	first strand
Strand 2	C	242	247	anti-parallel
Strand 3	C	202	205	anti-parallel
Strand 4	C	210	213	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	286	287	first strand
Strand 2	C	281	283	anti-parallel
Strand 3	C	302	303	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	4	6	first strand
Strand 2	H	18	24	anti-parallel
Strand 3	H	77	82	anti-parallel
Strand 4	H	67	72	anti-parallel

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There are 6 strands in X sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	12	first strand
Strand 2	H	107	111	parallel
Strand 3	H	88	95	anti-parallel
Strand 4	H	34	39	anti-parallel
Strand 5	H	45	51	anti-parallel
Strand 6	H	57	59	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	12	first strand
Strand 2	H	107	111	parallel
Strand 3	H	88	95	anti-parallel
Strand 4	H	100	103	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	120	124	first strand
Strand 2	H	137	147	anti-parallel
Strand 3	H	185	194	anti-parallel
Strand 4	H	171	173	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	120	124	first strand
Strand 2	H	137	147	anti-parallel
Strand 3	H	185	194	anti-parallel
Strand 4	H	177	178	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	153	157	first strand
Strand 2	H	207	212	anti-parallel
Strand 3	H	217	222	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	L	9	12	first strand
Strand 2	L	102	105	parallel
Strand 3	L	84	92	anti-parallel
Strand 4	L	33	38	anti-parallel
Strand 5	L	45	48	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	L	9	12	first strand
Strand 2	L	102	105	parallel
Strand 3	L	84	92	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	18	24	first strand
Strand 2	L	70	76	anti-parallel
Strand 3	L	63	65	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	117	118	first strand
Strand 2	L	130	139	anti-parallel
Strand 3	L	173	181	anti-parallel
Strand 4	L	159	161	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	152	155	first strand
Strand 2	L	145	150	anti-parallel
Strand 3	L	192	198	anti-parallel
Strand 4	L	203	209	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	4	6	first strand
Strand 2	I	17	24	anti-parallel
Strand 3	I	77	82	anti-parallel
Strand 4	I	67	72	anti-parallel

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There are 6 strands in AI sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	10	12	first strand
Strand 2	I	107	111	parallel
Strand 3	I	88	95	anti-parallel
Strand 4	I	34	39	anti-parallel
Strand 5	I	46	51	anti-parallel
Strand 6	I	57	59	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	10	12	first strand
Strand 2	I	107	111	parallel
Strand 3	I	88	95	anti-parallel
Strand 4	I	100	103	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	120	124	first strand
Strand 2	I	138	147	anti-parallel
Strand 3	I	185	193	anti-parallel
Strand 4	I	171	173	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	120	124	first strand
Strand 2	I	138	147	anti-parallel
Strand 3	I	185	193	anti-parallel
Strand 4	I	177	178	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	153	157	first strand
Strand 2	I	207	212	anti-parallel
Strand 3	I	217	222	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	9	12	first strand
Strand 2	M	102	105	parallel
Strand 3	M	84	91	anti-parallel
Strand 4	M	33	38	anti-parallel
Strand 5	M	45	48	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	9	12	first strand
Strand 2	M	102	105	parallel
Strand 3	M	84	91	anti-parallel
Strand 4	M	96	98	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	19	24	first strand
Strand 2	M	70	75	anti-parallel
Strand 3	M	62	67	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	130	139	first strand
Strand 2	M	173	181	anti-parallel
Strand 3	M	159	161	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	130	139	first strand
Strand 2	M	173	181	anti-parallel
Strand 3	M	165	166	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: 3GBM

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