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

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 3GQB entry

There are 4 chains in PDB entry 3GQB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	ALA 578
B	LYS 5	GLY 464
C	MET 1	ALA 578
D	LYS 5	GLY 464

There are 78 helices in PDB entry 3GQB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	90	99	Right-handed alpha
Helix 2	2	A	209	214	Right-handed alpha
Helix 3	3	A	233	245	Right-handed alpha
Helix 4	4	A	258	267	Right-handed alpha
Helix 5	5	A	268	272	Right-handed 310
Helix 6	6	A	281	283	Right-handed 310
Helix 7	7	A	295	316	Right-handed alpha
Helix 8	8	A	326	341	Right-handed alpha
Helix 9	9	A	353	363	Right-handed alpha
Helix 10	10	A	393	401	Right-handed alpha
Helix 11	11	A	410	417	Right-handed alpha
Helix 12	12	A	431	443	Right-handed alpha
Helix 13	13	A	446	463	Right-handed alpha
Helix 14	14	A	472	476	Right-handed 310
Helix 15	15	A	477	495	Right-handed alpha
Helix 16	16	A	508	531	Right-handed alpha
Helix 17	17	A	535	540	Right-handed alpha
Helix 18	18	A	544	550	Right-handed alpha
Helix 19	19	A	558	577	Right-handed alpha
Helix 20	20	B	120	124	Right-handed 310
Helix 21	21	B	135	140	Right-handed alpha
Helix 22	22	B	159	171	Right-handed alpha
Helix 23	23	B	174	179	Right-handed alpha
Helix 24	24	B	197	211	Right-handed alpha
Helix 25	25	B	212	215	Right-handed 310
Helix 26	26	B	228	248	Right-handed alpha
Helix 27	27	B	259	273	Right-handed alpha
Helix 28	28	B	279	283	Right-handed 310
Helix 29	29	B	286	296	Right-handed alpha
Helix 30	30	B	323	333	Right-handed alpha
Helix 31	31	B	340	346	Right-handed alpha
Helix 32	32	B	361	365	Right-handed 310
Helix 33	33	B	374	396	Right-handed alpha
Helix 34	34	B	406	411	Right-handed alpha
Helix 35	35	B	412	421	Right-handed alpha
Helix 36	36	B	431	444	Right-handed alpha
Helix 37	37	B	445	446	Right-handed 310
Helix 38	38	B	447	451	Right-handed 310
Helix 39	39	B	455	463	Right-handed alpha
Helix 40	40	C	90	99	Right-handed alpha
Helix 41	41	C	209	214	Right-handed alpha
Helix 42	42	C	233	245	Right-handed alpha
Helix 43	43	C	258	267	Right-handed alpha
Helix 44	44	C	268	272	Right-handed 310
Helix 45	45	C	281	283	Right-handed 310
Helix 46	46	C	295	316	Right-handed alpha
Helix 47	47	C	326	341	Right-handed alpha
Helix 48	48	C	353	363	Right-handed alpha
Helix 49	49	C	393	401	Right-handed alpha
Helix 50	50	C	410	417	Right-handed alpha
Helix 51	51	C	431	443	Right-handed alpha
Helix 52	52	C	446	463	Right-handed alpha
Helix 53	53	C	472	476	Right-handed 310
Helix 54	54	C	477	495	Right-handed alpha
Helix 55	55	C	508	531	Right-handed alpha
Helix 56	56	C	535	540	Right-handed alpha
Helix 57	57	C	544	550	Right-handed alpha
Helix 58	58	C	558	577	Right-handed alpha
Helix 59	59	D	120	124	Right-handed 310
Helix 60	60	D	135	140	Right-handed alpha
Helix 61	61	D	159	171	Right-handed alpha
Helix 62	62	D	174	179	Right-handed alpha
Helix 63	63	D	197	211	Right-handed alpha
Helix 64	64	D	212	215	Right-handed 310
Helix 65	65	D	228	250	Right-handed alpha
Helix 66	66	D	259	273	Right-handed alpha
Helix 67	67	D	279	283	Right-handed 310
Helix 68	68	D	286	296	Right-handed alpha
Helix 69	69	D	323	333	Right-handed alpha
Helix 70	70	D	340	346	Right-handed alpha
Helix 71	71	D	361	365	Right-handed 310
Helix 72	72	D	374	396	Right-handed alpha
Helix 73	73	D	406	411	Right-handed alpha
Helix 74	74	D	412	421	Right-handed alpha
Helix 75	75	D	431	444	Right-handed alpha
Helix 76	76	D	445	446	Right-handed 310
Helix 77	77	D	447	451	Right-handed 310
Helix 78	78	D	455	463	Right-handed alpha

There are 23 sheets in PDB entry 3GQB. 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,

There are 7 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	11	15	first strand
Strand 2	B	18	22	anti-parallel
Strand 3	B	54	59	anti-parallel
Strand 4	B	42	51	anti-parallel
Strand 5	A	3	10	anti-parallel
Strand 6	B	32	36	first strand
Strand 7	B	72	77	anti-parallel

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There are 12 strands in B sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	11	15	first strand
Strand 2	B	18	22	anti-parallel
Strand 3	B	54	59	anti-parallel
Strand 4	B	42	51	anti-parallel
Strand 5	A	63	70	first strand
Strand 6	A	26	30	anti-parallel
Strand 7	A	35	43	anti-parallel
Strand 8	A	46	51	anti-parallel
Strand 9	A	13	17	anti-parallel
Strand 10	A	3	10	anti-parallel
Strand 11	B	32	36	first strand
Strand 12	B	72	77	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	72	75	first strand
Strand 2	A	185	188	anti-parallel

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There are 7 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	83	84	first strand
Strand 2	A	285	291	parallel
Strand 3	A	249	257	parallel
Strand 4	A	319	322	parallel
Strand 5	A	375	383	parallel
Strand 6	A	366	369	anti-parallel
Strand 7	A	197	199	anti-parallel

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There are 6 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	83	84	first strand
Strand 2	A	285	291	parallel
Strand 3	A	249	257	parallel
Strand 4	A	319	322	parallel
Strand 5	A	375	383	parallel
Strand 6	A	223	226	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	A	143	148	first strand
Strand 2	A	134	140	anti-parallel
Strand 3	A	117	121	anti-parallel
Strand 4	A	164	166	anti-parallel

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There are 4 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	128	129	first strand
Strand 2	A	155	160	anti-parallel
Strand 3	A	173	175	anti-parallel
Strand 4	A	180	181	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	A	204	205	first strand
Strand 2	A	218	219	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	405	406	first strand
Strand 2	A	428	429	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	81	84	first strand
Strand 2	B	110	113	anti-parallel

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There are 8 strands in K sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	91	94	first strand
Strand 2	B	217	223	parallel
Strand 3	B	187	196	parallel
Strand 4	B	252	258	parallel
Strand 5	B	307	316	parallel
Strand 6	B	152	155	parallel
Strand 7	B	335	338	parallel
Strand 8	B	358	359	anti-parallel

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There are 7 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	11	15	first strand
Strand 2	D	18	22	anti-parallel
Strand 3	D	54	59	anti-parallel
Strand 4	D	42	51	anti-parallel
Strand 5	C	3	10	anti-parallel
Strand 6	D	32	36	first strand
Strand 7	D	72	77	anti-parallel

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There are 12 strands in M sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	11	15	first strand
Strand 2	D	18	22	anti-parallel
Strand 3	D	54	59	anti-parallel
Strand 4	D	42	51	anti-parallel
Strand 5	C	63	70	first strand
Strand 6	C	26	30	anti-parallel
Strand 7	C	35	43	anti-parallel
Strand 8	C	46	51	anti-parallel
Strand 9	C	13	17	anti-parallel
Strand 10	C	3	10	anti-parallel
Strand 11	D	32	36	first strand
Strand 12	D	72	77	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	72	75	first strand
Strand 2	C	185	188	anti-parallel

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There are 7 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	83	84	first strand
Strand 2	C	285	291	parallel
Strand 3	C	249	257	parallel
Strand 4	C	319	322	parallel
Strand 5	C	375	383	parallel
Strand 6	C	366	369	anti-parallel
Strand 7	C	197	199	anti-parallel

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There are 6 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	83	84	first strand
Strand 2	C	285	291	parallel
Strand 3	C	249	257	parallel
Strand 4	C	319	322	parallel
Strand 5	C	375	383	parallel
Strand 6	C	223	226	parallel

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There are 4 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	143	148	first strand
Strand 2	C	134	140	anti-parallel
Strand 3	C	117	121	anti-parallel
Strand 4	C	164	166	anti-parallel

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There are 4 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	128	129	first strand
Strand 2	C	155	160	anti-parallel
Strand 3	C	173	175	anti-parallel
Strand 4	C	180	181	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	C	204	205	first strand
Strand 2	C	218	219	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	405	406	first strand
Strand 2	C	428	429	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	81	84	first strand
Strand 2	D	110	113	anti-parallel

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There are 8 strands in V sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	91	94	first strand
Strand 2	D	217	223	parallel
Strand 3	D	187	196	parallel
Strand 4	D	252	258	parallel
Strand 5	D	307	316	parallel
Strand 6	D	152	155	parallel
Strand 7	D	335	338	parallel
Strand 8	D	358	359	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	130	131	first strand
Strand 2	D	144	145	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: 3GQB

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