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

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 8GBJ entry

There are 5 chains in PDB entry 8GBJ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
B	SER 3	SER 75
C	GLU 9	ASP 348
D	GLY 2	GLY 315
X	ARG 21	CYS 280
G	C 2	C 7

There are 44 helices in PDB entry 8GBJ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	B	12	22	Right-handed alpha
Helix 2	AA2	B	26	32	Right-handed alpha
Helix 3	AA3	B	34	43	Right-handed alpha
Helix 4	AA4	B	45	60	Right-handed alpha
Helix 5	AA5	B	67	75	Right-handed alpha
Helix 6	AA6	C	20	31	Right-handed alpha
Helix 7	AA7	C	34	39	Right-handed 310
Helix 8	AA8	C	42	51	Right-handed alpha
Helix 9	AA9	C	53	67	Right-handed alpha
Helix 10	AB1	C	86	97	Right-handed alpha
Helix 11	AB2	C	104	111	Right-handed alpha
Helix 12	AB3	C	130	143	Right-handed alpha
Helix 13	AB4	C	144	149	Right-handed 310
Helix 14	AB5	C	165	188	Right-handed alpha
Helix 15	AB6	C	189	198	Right-handed alpha
Helix 16	AB7	C	200	207	Right-handed alpha
Helix 17	AB8	C	215	233	Right-handed alpha
Helix 18	AB9	C	245	250	Right-handed alpha
Helix 19	AC1	C	254	276	Right-handed alpha
Helix 20	AC2	C	303	308	Right-handed 310
Helix 21	AC3	D	13	23	Right-handed alpha
Helix 22	AC4	D	27	34	Right-handed alpha
Helix 23	AC5	D	35	44	Right-handed alpha
Helix 24	AC6	D	46	62	Right-handed alpha
Helix 25	AC7	D	68	79	Right-handed alpha
Helix 26	AC8	D	86	93	Right-handed alpha
Helix 27	AC9	D	112	127	Right-handed alpha
Helix 28	AD1	D	142	154	Right-handed alpha
Helix 29	AD2	D	156	166	Right-handed alpha
Helix 30	AD3	D	174	193	Right-handed alpha
Helix 31	AD4	D	207	213	Right-handed alpha
Helix 32	AD5	D	221	239	Right-handed alpha
Helix 33	AD6	D	264	270	Right-handed alpha
Helix 34	AD7	D	312	314	Right-handed 310
Helix 35	AD8	X	23	28	Right-handed alpha
Helix 36	AD9	X	53	67	Right-handed alpha
Helix 37	AE1	X	88	100	Right-handed alpha
Helix 38	AE2	X	104	114	Right-handed alpha
Helix 39	AE3	X	122	138	Right-handed alpha
Helix 40	AE4	X	150	153	Right-handed 310
Helix 41	AE5	X	154	162	Right-handed alpha
Helix 42	AE6	X	165	170	Right-handed alpha
Helix 43	AE7	X	170	187	Right-handed alpha
Helix 44	AE8	X	228	233	Right-handed alpha

There are 5 sheets in PDB entry 8GBJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5,

There are 6 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	65	66	first strand
Strand 2	C	208	212	anti-parallel
Strand 3	C	154	159	parallel
Strand 4	C	236	242	parallel
Strand 5	C	279	287	parallel
Strand 6	C	298	299	anti-parallel

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There are 10 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	65	66	first strand
Strand 2	C	208	212	anti-parallel
Strand 3	C	154	159	parallel
Strand 4	C	236	242	parallel
Strand 5	C	279	287	parallel
Strand 6	C	119	125	parallel
Strand 7	C	311	317	parallel
Strand 8	C	322	328	anti-parallel
Strand 9	C	336	342	anti-parallel
Strand 10	C	345	347	anti-parallel

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There are 10 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	66	67	first strand
Strand 2	X	115	119	anti-parallel
Strand 3	X	78	82	parallel
Strand 4	X	145	149	parallel
Strand 5	X	190	196	parallel
Strand 6	X	43	48	parallel
Strand 7	X	237	244	parallel
Strand 8	X	252	259	anti-parallel
Strand 9	X	264	273	anti-parallel
Strand 10	X	276	279	anti-parallel

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There are 8 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	167	171	first strand
Strand 2	D	131	136	parallel
Strand 3	D	200	206	parallel
Strand 4	D	244	249	parallel
Strand 5	D	102	107	parallel
Strand 6	D	274	280	parallel
Strand 7	D	290	297	anti-parallel
Strand 8	D	306	310	anti-parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	251	253	first strand
Strand 2	D	260	262	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: 8GBJ

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