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

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 8QBK entry

There are 20 chains in PDB entry 8QBK (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
F	LYS 3	TYR 304
G	LYS 3	TYR 304
A	SER 3	GLY 311
B	G 1	G 85
C	U 2	U 82
D	C 1	A 14
K	SER 3	GLY 311
L	G 1	G 85
M	U 2	U 82
N	C 1	A 14
P	SER 3	GLY 311
Q	G 1	G 85
R	U 2	U 82
S	C 1	A 14
T	LYS 3	TYR 304
U	SER 3	GLY 311
V	G 1	G 85
W	U 2	U 82
X	C 1	A 14
E	LYS 3	TYR 304

There are125 helices in PDB entry 8QBK. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	F	6	18	Right-handed alpha
Helix 2	AA2	F	198	201	Right-handed 310
Helix 3	AA3	F	202	213	Right-handed alpha
Helix 4	AA4	F	217	230	Right-handed alpha
Helix 5	AA5	F	232	250	Right-handed alpha
Helix 6	AA6	F	263	274	Right-handed alpha
Helix 7	AA7	F	275	292	Right-handed alpha
Helix 8	AA8	G	6	18	Right-handed alpha
Helix 9	AA9	G	198	201	Right-handed 310
Helix 10	AB1	G	202	213	Right-handed alpha
Helix 11	AB2	G	217	230	Right-handed alpha
Helix 12	AB3	G	232	250	Right-handed alpha
Helix 13	AB4	G	263	274	Right-handed alpha
Helix 14	AB5	G	275	292	Right-handed alpha
Helix 15	AB6	A	4	16	Right-handed alpha
Helix 16	AB7	A	22	31	Right-handed alpha
Helix 17	AB8	A	33	42	Right-handed alpha
Helix 18	AB9	A	43	46	Right-handed 310
Helix 19	AC1	A	69	83	Right-handed alpha
Helix 20	AC2	A	84	87	Right-handed 310
Helix 21	AC3	A	101	107	Right-handed alpha
Helix 22	AC4	A	108	110	Right-handed 310
Helix 23	AC5	A	122	127	Right-handed alpha
Helix 24	AC6	A	128	140	Right-handed alpha
Helix 25	AC7	A	142	154	Right-handed alpha
Helix 26	AC8	A	165	174	Right-handed alpha
Helix 27	AC9	A	174	187	Right-handed alpha
Helix 28	AD1	A	205	220	Right-handed alpha
Helix 29	AD2	A	221	224	Right-handed 310
Helix 30	AD3	A	228	232	Right-handed 310
Helix 31	AD4	A	256	272	Right-handed alpha
Helix 32	AD5	A	277	292	Right-handed alpha
Helix 33	AD6	A	294	311	Right-handed alpha
Helix 34	AD7	K	4	16	Right-handed alpha
Helix 35	AD8	K	22	31	Right-handed alpha
Helix 36	AD9	K	33	43	Right-handed alpha
Helix 37	AE1	K	44	46	Right-handed 310
Helix 38	AE2	K	69	83	Right-handed alpha
Helix 39	AE3	K	84	87	Right-handed 310
Helix 40	AE4	K	101	107	Right-handed alpha
Helix 41	AE5	K	108	110	Right-handed 310
Helix 42	AE6	K	122	127	Right-handed alpha
Helix 43	AE7	K	128	139	Right-handed alpha
Helix 44	AE8	K	142	153	Right-handed alpha
Helix 45	AE9	K	165	174	Right-handed alpha
Helix 46	AF1	K	174	188	Right-handed alpha
Helix 47	AF2	K	205	220	Right-handed alpha
Helix 48	AF3	K	221	224	Right-handed 310
Helix 49	AF4	K	228	232	Right-handed 310
Helix 50	AF5	K	256	272	Right-handed alpha
Helix 51	AF6	K	277	292	Right-handed alpha
Helix 52	AF7	K	292	311	Right-handed alpha
Helix 53	AF8	P	4	16	Right-handed alpha
Helix 54	AF9	P	22	31	Right-handed alpha
Helix 55	AG1	P	33	43	Right-handed alpha
Helix 56	AG2	P	44	46	Right-handed 310
Helix 57	AG3	P	69	83	Right-handed alpha
Helix 58	AG4	P	84	87	Right-handed 310
Helix 59	AG5	P	101	107	Right-handed alpha
Helix 60	AG6	P	108	110	Right-handed 310
Helix 61	AG7	P	122	127	Right-handed alpha
Helix 62	AG8	P	128	139	Right-handed alpha
Helix 63	AG9	P	142	153	Right-handed alpha
Helix 64	AH1	P	165	174	Right-handed alpha
Helix 65	AH2	P	174	188	Right-handed alpha
Helix 66	AH3	P	205	220	Right-handed alpha
Helix 67	AH4	P	221	224	Right-handed 310
Helix 68	AH5	P	228	232	Right-handed 310
Helix 69	AH6	P	256	272	Right-handed alpha
Helix 70	AH7	P	277	292	Right-handed alpha
Helix 71	AH8	P	292	311	Right-handed alpha
Helix 72	AH9	T	6	18	Right-handed alpha
Helix 73	AI1	T	44	55	Right-handed alpha
Helix 74	AI2	T	67	75	Right-handed alpha
Helix 75	AI3	T	79	91	Right-handed alpha
Helix 76	AI4	T	100	112	Right-handed alpha
Helix 77	AI5	T	113	118	Right-handed alpha
Helix 78	AI6	T	127	129	Right-handed 310
Helix 79	AI7	T	133	138	Right-handed alpha
Helix 80	AI8	T	138	147	Right-handed alpha
Helix 81	AI9	T	155	164	Right-handed alpha
Helix 82	AJ1	T	166	171	Right-handed alpha
Helix 83	AJ2	T	173	190	Right-handed alpha
Helix 84	AJ3	T	198	201	Right-handed 310
Helix 85	AJ4	T	202	213	Right-handed alpha
Helix 86	AJ5	T	217	230	Right-handed alpha
Helix 87	AJ6	T	232	250	Right-handed alpha
Helix 88	AJ7	T	263	274	Right-handed alpha
Helix 89	AJ8	T	275	291	Right-handed alpha
Helix 90	AJ9	U	4	16	Right-handed alpha
Helix 91	AK1	U	22	31	Right-handed alpha
Helix 92	AK2	U	33	43	Right-handed alpha
Helix 93	AK3	U	44	47	Right-handed 310
Helix 94	AK4	U	69	83	Right-handed alpha
Helix 95	AK5	U	101	107	Right-handed alpha
Helix 96	AK6	U	108	110	Right-handed 310
Helix 97	AK7	U	122	127	Right-handed alpha
Helix 98	AK8	U	128	139	Right-handed alpha
Helix 99	AK9	U	142	154	Right-handed alpha
Helix 100	AL1	U	165	174	Right-handed alpha
Helix 101	AL2	U	174	188	Right-handed alpha
Helix 102	AL3	U	205	220	Right-handed alpha
Helix 103	AL4	U	221	224	Right-handed 310
Helix 104	AL5	U	228	232	Right-handed 310
Helix 105	AL6	U	256	272	Right-handed alpha
Helix 106	AL7	U	277	292	Right-handed alpha
Helix 107	AL8	U	292	311	Right-handed alpha
Helix 108	AL9	E	6	18	Right-handed alpha
Helix 109	AM1	E	44	55	Right-handed alpha
Helix 110	AM2	E	67	75	Right-handed alpha
Helix 111	AM3	E	79	91	Right-handed alpha
Helix 112	AM4	E	100	112	Right-handed alpha
Helix 113	AM5	E	113	119	Right-handed alpha
Helix 114	AM6	E	127	129	Right-handed 310
Helix 115	AM7	E	133	138	Right-handed alpha
Helix 116	AM8	E	138	147	Right-handed alpha
Helix 117	AM9	E	155	164	Right-handed alpha
Helix 118	AN1	E	166	171	Right-handed alpha
Helix 119	AN2	E	173	190	Right-handed alpha
Helix 120	AN3	E	198	201	Right-handed 310
Helix 121	AN4	E	202	213	Right-handed alpha
Helix 122	AN5	E	217	230	Right-handed alpha
Helix 123	AN6	E	232	250	Right-handed alpha
Helix 124	AN7	E	263	274	Right-handed alpha
Helix 125	AN8	E	275	291	Right-handed alpha

There are 18 sheets in PDB entry 8QBK. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9,

There are 2 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	253	255	first strand
Strand 2	F	260	262	anti-parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	253	255	first strand
Strand 2	G	260	262	anti-parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	48	54	first strand
Strand 2	A	62	68	anti-parallel

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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	93	94	first strand
Strand 2	A	191	195	parallel
Strand 3	A	198	203	anti-parallel
Strand 4	A	114	119	anti-parallel
Strand 5	A	233	235	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	A	242	243	first strand
Strand 2	A	246	248	anti-parallel
Strand 3	A	253	254	anti-parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	48	54	first strand
Strand 2	K	62	68	anti-parallel

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There are 5 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	93	94	first strand
Strand 2	K	191	195	parallel
Strand 3	K	198	203	anti-parallel
Strand 4	K	114	118	anti-parallel
Strand 5	K	233	235	anti-parallel

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There are 3 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	242	243	first strand
Strand 2	K	246	248	anti-parallel
Strand 3	K	253	254	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	48	54	first strand
Strand 2	P	62	68	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	93	94	first strand
Strand 2	P	191	195	parallel
Strand 3	P	198	203	anti-parallel
Strand 4	P	114	118	anti-parallel
Strand 5	P	233	235	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	P	247	248	first strand
Strand 2	P	253	254	anti-parallel

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There are 5 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	T	59	62	first strand
Strand 2	T	30	35	parallel
Strand 3	T	93	96	parallel
Strand 4	T	120	125	parallel
Strand 5	T	151	154	parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	T	253	255	first strand
Strand 2	T	260	262	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	49	53	first strand
Strand 2	U	63	67	anti-parallel

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There are 5 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	93	94	first strand
Strand 2	U	191	195	parallel
Strand 3	U	198	203	anti-parallel
Strand 4	U	114	119	anti-parallel
Strand 5	U	233	235	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	247	248	first strand
Strand 2	U	253	254	anti-parallel

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There are 5 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	59	62	first strand
Strand 2	E	30	35	parallel
Strand 3	E	93	96	parallel
Strand 4	E	120	125	parallel
Strand 5	E	151	154	parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	253	255	first strand
Strand 2	E	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: 8QBK

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