Analysis of interatomic Contacts of Structural Units in PDB entry:
4GKK

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 4GKK entry

There is 1 chain in PDB entry 4GKK (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	U 5	U 470

There are 89 helices in PDB entry 4GKK. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	B	25	29	Right-handed 310
Helix 2	2	B	43	64	Right-handed alpha
Helix 3	3	B	74	88	Right-handed alpha
Helix 4	4	B	104	119	Right-handed alpha
Helix 5	5	B	120	128	Right-handed 310
Helix 6	6	B	131	138	Right-handed alpha
Helix 7	7	B	140	149	Right-handed alpha
Helix 8	8	B	170	180	Right-handed alpha
Helix 9	9	B	193	197	Right-handed 310
Helix 10	10	B	210	227	Right-handed alpha
Helix 11	11	C	28	46	Right-handed alpha
Helix 12	12	C	47	50	Right-handed 310
Helix 13	13	C	72	78	Right-handed alpha
Helix 14	14	C	82	89	Right-handed alpha
Helix 15	15	C	90	95	Right-handed alpha
Helix 16	16	C	108	111	Right-handed 310
Helix 17	17	C	112	126	Right-handed alpha
Helix 18	18	C	129	144	Right-handed alpha
Helix 19	19	C	156	160	Right-handed 310
Helix 20	20	D	8	16	Right-handed alpha
Helix 21	21	D	24	28	Right-handed 310
Helix 22	22	D	52	69	Right-handed alpha
Helix 23	23	D	71	85	Right-handed alpha
Helix 24	24	D	88	99	Right-handed alpha
Helix 25	25	D	100	108	Right-handed alpha
Helix 26	26	D	113	123	Right-handed alpha
Helix 27	27	D	150	153	Right-handed 310
Helix 28	28	D	155	164	Right-handed alpha
Helix 29	29	D	200	207	Right-handed alpha
Helix 30	30	E	50	64	Right-handed alpha
Helix 31	31	E	103	114	Right-handed alpha
Helix 32	32	E	127	141	Right-handed alpha
Helix 33	33	E	144	152	Right-handed alpha
Helix 34	34	F	18	32	Right-handed alpha
Helix 35	35	F	68	70	Right-handed 310
Helix 36	36	F	71	81	Right-handed alpha
Helix 37	37	G	20	31	Right-handed alpha
Helix 38	38	G	35	53	Right-handed alpha
Helix 39	39	G	57	70	Right-handed alpha
Helix 40	40	G	93	109	Right-handed alpha
Helix 41	41	G	117	129	Right-handed alpha
Helix 42	42	G	134	145	Right-handed alpha
Helix 43	43	G	148	152	Right-handed 310
Helix 44	44	H	4	18	Right-handed alpha
Helix 45	45	H	29	42	Right-handed alpha
Helix 46	46	H	96	100	Right-handed 310
Helix 47	47	H	102	107	Right-handed 310
Helix 48	48	H	120	126	Right-handed alpha
Helix 49	49	I	32	37	Right-handed alpha
Helix 50	50	I	49	53	Right-handed 310
Helix 51	51	I	55	57	Right-handed 310
Helix 52	52	I	69	88	Right-handed alpha
Helix 53	53	I	96	100	Right-handed 310
Helix 54	54	J	78	86	Right-handed alpha
Helix 55	55	K	44	49	Right-handed alpha
Helix 56	56	K	57	74	Right-handed alpha
Helix 57	57	K	90	100	Right-handed alpha
Helix 58	58	K	122	126	Right-handed 310
Helix 59	59	L	6	13	Right-handed alpha
Helix 60	60	M	14	19	Right-handed alpha
Helix 61	61	M	20	22	Right-handed 310
Helix 62	62	M	27	36	Right-handed alpha
Helix 63	63	M	44	48	Right-handed 310
Helix 64	64	M	49	61	Right-handed alpha
Helix 65	65	M	62	64	Right-handed 310
Helix 66	66	M	66	72	Right-handed alpha
Helix 67	67	M	72	84	Right-handed alpha
Helix 68	68	M	86	95	Right-handed alpha
Helix 69	69	M	107	112	Right-handed alpha
Helix 70	70	N	16	20	Right-handed 310
Helix 71	71	N	40	51	Right-handed alpha
Helix 72	72	O	4	16	Right-handed alpha
Helix 73	73	O	24	43	Right-handed alpha
Helix 74	74	O	49	74	Right-handed alpha
Helix 75	75	O	74	86	Right-handed alpha
Helix 76	76	P	52	62	Right-handed alpha
Helix 77	77	P	67	77	Right-handed alpha
Helix 78	78	Q	81	94	Right-handed alpha
Helix 79	79	Q	95	97	Right-handed 310
Helix 80	80	R	39	44	Right-handed 310
Helix 81	81	R	52	57	Right-handed alpha
Helix 82	82	R	59	76	Right-handed alpha
Helix 83	83	S	17	22	Right-handed alpha
Helix 84	84	S	41	45	Right-handed 310
Helix 85	85	S	70	74	Right-handed 310
Helix 86	86	T	13	43	Right-handed alpha
Helix 87	87	T	48	67	Right-handed alpha
Helix 88	88	T	73	94	Right-handed alpha
Helix 89	89	V	9	15	Right-handed alpha

There are 27 sheets in PDB entry 4GKK. 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,

There are 2 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	32	34	first strand
Strand 2	B	41	42	anti-parallel

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There are 5 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	92	93	first strand
Strand 2	B	68	71	parallel
Strand 3	B	161	164	parallel
Strand 4	B	184	188	parallel
Strand 5	B	199	202	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	20	21	first strand
Strand 2	C	52	58	parallel
Strand 3	C	67	70	anti-parallel
Strand 4	C	102	105	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	169	171	first strand
Strand 2	C	148	153	anti-parallel
Strand 3	C	198	203	anti-parallel
Strand 4	C	182	187	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	131	132	first strand
Strand 2	D	126	128	anti-parallel
Strand 3	D	146	148	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	174	177	first strand
Strand 2	D	182	185	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	E	7	8	first strand
Strand 2	E	28	35	anti-parallel
Strand 3	E	12	14	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	7	8	first strand
Strand 2	E	28	35	anti-parallel
Strand 3	E	40	48	anti-parallel
Strand 4	E	66	68	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	E	17	19	first strand
Strand 2	E	24	26	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	E	81	84	first strand
Strand 2	E	87	93	anti-parallel
Strand 3	E	118	124	anti-parallel
Strand 4	E	100	101	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	F	36	40	first strand
Strand 2	F	55	67	anti-parallel
Strand 3	F	45	52	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	F	36	40	first strand
Strand 2	F	55	67	anti-parallel
Strand 3	F	2	10	anti-parallel
Strand 4	F	85	92	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	F	98	99	first strand
Strand 2	R	29	30	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	G	73	76	first strand
Strand 2	G	87	90	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	H	23	27	first strand
Strand 2	H	56	62	anti-parallel
Strand 3	H	47	53	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	82	85	first strand
Strand 2	H	131	138	anti-parallel
Strand 3	H	94	95	anti-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	H	82	85	first strand
Strand 2	H	131	138	anti-parallel
Strand 3	H	109	114	anti-parallel
Strand 4	H	117	119	anti-parallel

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There are 3 strands in R 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	13	21	anti-parallel
Strand 3	I	9	10	anti-parallel

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There are 4 strands in S 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	13	21	anti-parallel
Strand 3	I	59	66	anti-parallel
Strand 4	I	26	28	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	68	70	first strand
Strand 2	J	7	10	anti-parallel
Strand 3	J	96	97	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	46	49	first strand
Strand 2	J	61	64	anti-parallel
Strand 3	N	57	58	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	39	43	first strand
Strand 2	K	29	33	anti-parallel
Strand 3	K	16	22	anti-parallel
Strand 4	K	79	85	parallel
Strand 5	K	104	110	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	82	85	first strand
Strand 2	L	33	43	anti-parallel
Strand 3	L	53	60	anti-parallel
Strand 4	L	65	69	anti-parallel
Strand 5	L	98	99	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	49	50	first strand
Strand 2	P	34	39	anti-parallel
Strand 3	P	17	23	anti-parallel
Strand 4	P	2	8	anti-parallel
Strand 5	P	65	66	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	5	10	first strand
Strand 2	Q	18	24	anti-parallel
Strand 3	Q	39	45	anti-parallel
Strand 4	Q	69	76	parallel
Strand 5	Q	56	61	anti-parallel
Strand 6	Q	5	10	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	27	28	first strand
Strand 2	Q	35	36	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	48	50	first strand
Strand 2	S	59	61	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: 4GKK

Analysis of interatomic Contacts of Structural Units in PDB entry:
4GKK