Analysis of interatomic Contacts of Structural Units in PDB entry:
8CEP

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 8CEP entry

There are 31 chains in PDB entry 8CEP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	A 1	G 515
A	G 517	C 526
A	C 528	G 1401
A	C 1403	U 1406
A	A 1408	G 1497
A	A 1499	G 1515
A	G 1517	G 1517
A	C 1520	A 1534
D	ALA 2	LYS 206
E	GLU 10	LEU 165
F	ARG 2	PRO 101
H	SER 2	ALA 130
K	ARG 13	HIS 118
K	GLY 120	VAL 129
L	ALA 2	LYS 88
L	LEU 90	ALA 124
O	SER 2	ARG 89
P	MET 1	LYS 80
Q	ILE 5	ALA 82
R	CYS 11	HIS 74
T	ALA 2	LEU 86
U	PRO 2	HIS 56
a	C 1905	G 1910
a	A 1912	C 1914
a	A 1916	A 1916
a	A 1918	G 1935
V	SER 6	SER 6
B	SER 6	SER 6
C	SER 6	SER 6
G	SER 6	SER 6
I	SER 6	SER 6

There are 47 helices in PDB entry 8CEP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	D	8	16	Right-handed alpha
Helix 2	AA2	D	27	32	Right-handed alpha
Helix 3	AA3	D	49	66	Right-handed alpha
Helix 4	AA4	D	68	82	Right-handed alpha
Helix 5	AA5	D	85	97	Right-handed alpha
Helix 6	AA6	D	97	105	Right-handed alpha
Helix 7	AA7	D	110	120	Right-handed alpha
Helix 8	AA8	D	147	150	Right-handed 310
Helix 9	AA9	D	152	165	Right-handed alpha
Helix 10	AB1	D	187	191	Right-handed 310
Helix 11	AB2	D	197	204	Right-handed alpha
Helix 12	AB3	E	55	70	Right-handed alpha
Helix 13	AB4	E	109	119	Right-handed alpha
Helix 14	AB5	E	132	146	Right-handed alpha
Helix 15	AB6	E	149	158	Right-handed alpha
Helix 16	AB7	E	160	165	Right-handed alpha
Helix 17	AB8	F	12	16	Right-handed 310
Helix 18	AB9	F	17	31	Right-handed alpha
Helix 19	AC1	F	67	81	Right-handed alpha
Helix 20	AC2	H	5	20	Right-handed alpha
Helix 21	AC3	H	30	43	Right-handed alpha
Helix 22	AC4	H	88	92	Right-handed 310
Helix 23	AC5	H	95	99	Right-handed 310
Helix 24	AC6	H	113	120	Right-handed alpha
Helix 25	AC7	K	59	74	Right-handed alpha
Helix 26	AC8	K	75	78	Right-handed 310
Helix 27	AC9	K	92	103	Right-handed alpha
Helix 28	AD1	L	3	10	Right-handed alpha
Helix 29	AD2	L	21	25	Right-handed 310
Helix 30	AD3	L	113	117	Right-handed 310
Helix 31	AD4	O	4	16	Right-handed alpha
Helix 32	AD5	O	24	46	Right-handed alpha
Helix 33	AD6	O	49	74	Right-handed alpha
Helix 34	AD7	O	74	86	Right-handed alpha
Helix 35	AD8	P	53	63	Right-handed alpha
Helix 36	AD9	P	68	80	Right-handed alpha
Helix 37	AE1	R	12	17	Right-handed alpha
Helix 38	AE2	R	25	30	Right-handed alpha
Helix 39	AE3	R	31	33	Right-handed 310
Helix 40	AE4	R	41	46	Right-handed alpha
Helix 41	AE5	R	48	65	Right-handed alpha
Helix 42	AE6	T	4	42	Right-handed alpha
Helix 43	AE7	T	43	64	Right-handed alpha
Helix 44	AE8	T	68	86	Right-handed alpha
Helix 45	AE9	U	11	27	Right-handed alpha
Helix 46	AF1	U	27	35	Right-handed alpha
Helix 47	AF2	U	40	56	Right-handed alpha

There are 11 sheets in PDB entry 8CEP. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2,

There are 5 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	128	129	first strand
Strand 2	D	123	125	anti-parallel
Strand 3	D	142	145	anti-parallel
Strand 4	D	179	181	anti-parallel
Strand 5	D	172	174	anti-parallel

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There are 3 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	12	24	first strand
Strand 2	E	29	40	anti-parallel
Strand 3	E	46	53	anti-parallel

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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	85	89	first strand
Strand 2	E	92	98	anti-parallel
Strand 3	E	123	129	anti-parallel
Strand 4	E	105	106	parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	35	51	first strand
Strand 2	F	54	65	anti-parallel
Strand 3	F	3	10	anti-parallel
Strand 4	F	84	92	anti-parallel

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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	24	28	first strand
Strand 2	H	58	63	anti-parallel
Strand 3	H	46	52	anti-parallel

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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	75	77	first strand
Strand 2	H	123	129	anti-parallel
Strand 3	H	86	87	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	75	77	first strand
Strand 2	H	123	129	anti-parallel
Strand 3	H	101	106	anti-parallel
Strand 4	H	109	112	anti-parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	41	46	first strand
Strand 2	K	30	36	anti-parallel
Strand 3	K	18	25	anti-parallel
Strand 4	K	81	87	parallel
Strand 5	K	106	112	parallel
Strand 6	U	3	5	anti-parallel

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There are 6 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	29	40	first strand
Strand 2	L	50	57	anti-parallel
Strand 3	L	62	66	anti-parallel
Strand 4	L	93	97	parallel
Strand 5	L	79	84	anti-parallel
Strand 6	L	29	40	anti-parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	50	52	first strand
Strand 2	P	34	39	anti-parallel
Strand 3	P	14	23	anti-parallel
Strand 4	P	2	11	anti-parallel
Strand 5	P	66	67	parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Q	8	14	first strand
Strand 2	Q	20	30	anti-parallel
Strand 3	Q	37	47	anti-parallel
Strand 4	Q	71	80	parallel
Strand 5	Q	58	63	anti-parallel
Strand 6	Q	8	14	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: 8CEP

Analysis of interatomic Contacts of Structural Units in PDB entry:
8CEP