Analysis of interatomic Contacts of Structural Units in PDB entry:
6YBU

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 6YBU entry

There are 8 chains in PDB entry 6YBU (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 2	GLY 241
B	ALA 2	GLY 241
C	PRO 32	GLN 60
D	ASP 33	GLN 61
E	MET 348	LEU 515
F	THR 352	ASP 517
G	ALA 2	GLY 241
H	ALA 2	CYS 153

There are102 helices in PDB entry 6YBU. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	14	29	Right-handed alpha
Helix 2	AA2	A	43	49	Right-handed 310
Helix 3	AA3	A	57	64	Right-handed alpha
Helix 4	AA4	A	67	71	Right-handed 310
Helix 5	AA5	A	88	94	Right-handed alpha
Helix 6	AA6	A	103	116	Right-handed alpha
Helix 7	AA7	A	130	140	Right-handed alpha
Helix 8	AA8	A	150	160	Right-handed alpha
Helix 9	AA9	A	177	191	Right-handed alpha
Helix 10	AB1	A	202	211	Right-handed alpha
Helix 11	AB2	A	214	219	Right-handed alpha
Helix 12	AB3	A	222	239	Right-handed alpha
Helix 13	AB4	B	14	29	Right-handed alpha
Helix 14	AB5	B	43	49	Right-handed 310
Helix 15	AB6	B	57	64	Right-handed alpha
Helix 16	AB7	B	67	71	Right-handed 310
Helix 17	AB8	B	88	94	Right-handed alpha
Helix 18	AB9	B	95	102	Right-handed 310
Helix 19	AC1	B	103	116	Right-handed alpha
Helix 20	AC2	B	130	139	Right-handed alpha
Helix 21	AC3	B	150	160	Right-handed alpha
Helix 22	AC4	B	177	191	Right-handed alpha
Helix 23	AC5	B	202	211	Right-handed alpha
Helix 24	AC6	B	214	219	Right-handed alpha
Helix 25	AC7	B	222	239	Right-handed alpha
Helix 26	AC8	C	42	52	Right-handed alpha
Helix 27	AC9	C	52	59	Right-handed alpha
Helix 28	AD1	D	38	41	Right-handed 310
Helix 29	AD2	D	42	52	Right-handed alpha
Helix 30	AD3	D	52	60	Right-handed alpha
Helix 31	AD4	E	350	359	Right-handed alpha
Helix 32	AD5	E	360	363	Right-handed 310
Helix 33	AD6	E	368	381	Right-handed alpha
Helix 34	AD7	E	403	409	Right-handed alpha
Helix 35	AD8	E	435	437	Right-handed 310
Helix 36	AD9	E	438	447	Right-handed alpha
Helix 37	AE1	E	450	454	Right-handed alpha
Helix 38	AE2	E	463	476	Right-handed alpha
Helix 39	AE3	E	477	482	Right-handed 310
Helix 40	AE4	E	485	492	Right-handed alpha
Helix 41	AE5	F	353	359	Right-handed alpha
Helix 42	AE6	F	360	363	Right-handed 310
Helix 43	AE7	F	368	381	Right-handed alpha
Helix 44	AE8	F	403	409	Right-handed alpha
Helix 45	AE9	F	435	437	Right-handed 310
Helix 46	AF1	F	438	447	Right-handed alpha
Helix 47	AF2	F	450	454	Right-handed alpha
Helix 48	AF3	F	463	476	Right-handed alpha
Helix 49	AF4	F	477	482	Right-handed 310
Helix 50	AF5	F	485	492	Right-handed alpha
Helix 51	AF6	G	14	29	Right-handed alpha
Helix 52	AF7	G	43	49	Right-handed 310
Helix 53	AF8	G	57	64	Right-handed alpha
Helix 54	AF9	G	67	71	Right-handed 310
Helix 55	AG1	G	88	93	Right-handed alpha
Helix 56	AG2	G	94	99	Right-handed alpha
Helix 57	AG3	G	103	116	Right-handed alpha
Helix 58	AG4	G	130	139	Right-handed alpha
Helix 59	AG5	G	150	160	Right-handed alpha
Helix 60	AG6	G	177	191	Right-handed alpha
Helix 61	AG7	G	202	211	Right-handed alpha
Helix 62	AG8	G	214	219	Right-handed alpha
Helix 63	AG9	G	222	239	Right-handed alpha
Helix 64	AH1	H	14	29	Right-handed alpha
Helix 65	AH2	H	43	49	Right-handed 310
Helix 66	AH3	H	57	64	Right-handed alpha
Helix 67	AH4	H	67	71	Right-handed 310
Helix 68	AH5	H	88	93	Right-handed alpha
Helix 69	AH6	H	94	98	Right-handed 310
Helix 70	AH7	H	103	115	Right-handed alpha
Helix 71	AH8	H	130	139	Right-handed alpha
Helix 72	AH9	H	150	160	Right-handed alpha
Helix 73	AI1	H	177	191	Right-handed alpha
Helix 74	AI2	H	202	212	Right-handed alpha
Helix 75	AI3	H	214	219	Right-handed alpha
Helix 76	AI4	H	222	239	Right-handed alpha
Helix 77	AI5	I	38	42	Right-handed 310
Helix 78	AI6	I	43	52	Right-handed alpha
Helix 79	AI7	I	52	60	Right-handed alpha
Helix 80	AI8	J	42	52	Right-handed alpha
Helix 81	AI9	J	52	60	Right-handed alpha
Helix 82	AJ1	K	354	359	Right-handed alpha
Helix 83	AJ2	K	360	363	Right-handed 310
Helix 84	AJ3	K	368	381	Right-handed alpha
Helix 85	AJ4	K	403	409	Right-handed alpha
Helix 86	AJ5	K	435	437	Right-handed 310
Helix 87	AJ6	K	438	447	Right-handed alpha
Helix 88	AJ7	K	450	454	Right-handed alpha
Helix 89	AJ8	K	463	475	Right-handed alpha
Helix 90	AJ9	K	476	477	Right-handed 310
Helix 91	AK1	K	478	482	Right-handed 310
Helix 92	AK2	K	485	492	Right-handed alpha
Helix 93	AK3	L	355	359	Right-handed alpha
Helix 94	AK4	L	360	363	Right-handed 310
Helix 95	AK5	L	368	381	Right-handed alpha
Helix 96	AK6	L	403	409	Right-handed alpha
Helix 97	AK7	L	435	437	Right-handed 310
Helix 98	AK8	L	438	447	Right-handed alpha
Helix 99	AK9	L	450	454	Right-handed alpha
Helix 100	AL1	L	463	476	Right-handed alpha
Helix 101	AL2	L	477	482	Right-handed 310
Helix 102	AL3	L	485	492	Right-handed alpha

There are 13 sheets in PDB entry 6YBU. 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,

There are 9 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	194	200	first strand
Strand 2	A	167	173	parallel
Strand 3	A	142	148	parallel
Strand 4	A	3	8	parallel
Strand 5	A	120	125	parallel
Strand 6	A	33	37	parallel
Strand 7	A	79	82	parallel
Strand 8	A	73	76	anti-parallel
Strand 9	E	510	511	anti-parallel

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There are 8 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	167	171	first strand
Strand 2	B	142	148	parallel
Strand 3	B	3	8	parallel
Strand 4	B	120	125	parallel
Strand 5	B	33	37	parallel
Strand 6	B	79	82	parallel
Strand 7	B	72	76	anti-parallel
Strand 8	F	510	512	anti-parallel

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There are 5 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	365	366	first strand
Strand 2	E	419	422	parallel
Strand 3	E	427	432	anti-parallel
Strand 4	E	391	398	anti-parallel
Strand 5	E	455	461	anti-parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	498	500	first strand
Strand 2	E	505	507	anti-parallel

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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	365	366	first strand
Strand 2	F	419	423	parallel
Strand 3	F	426	432	anti-parallel
Strand 4	F	391	398	anti-parallel
Strand 5	F	455	461	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	F	498	500	first strand
Strand 2	F	505	507	anti-parallel

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There are 9 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	194	200	first strand
Strand 2	G	167	173	parallel
Strand 3	G	142	148	parallel
Strand 4	G	3	8	parallel
Strand 5	G	120	125	parallel
Strand 6	G	33	37	parallel
Strand 7	G	79	82	parallel
Strand 8	G	72	76	anti-parallel
Strand 9	K	510	512	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	162	163	first strand
Strand 2	J	29	30	anti-parallel

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There are 9 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	194	200	first strand
Strand 2	H	167	173	parallel
Strand 3	H	142	148	parallel
Strand 4	H	3	8	parallel
Strand 5	H	120	125	parallel
Strand 6	H	33	37	parallel
Strand 7	H	79	82	parallel
Strand 8	H	72	76	anti-parallel
Strand 9	L	510	512	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	K	365	366	first strand
Strand 2	K	419	423	parallel
Strand 3	K	426	432	anti-parallel
Strand 4	K	391	398	anti-parallel
Strand 5	K	455	461	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	K	498	500	first strand
Strand 2	K	505	507	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	L	365	366	first strand
Strand 2	L	419	423	parallel
Strand 3	L	426	432	anti-parallel
Strand 4	L	391	398	anti-parallel
Strand 5	L	455	461	anti-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	L	498	500	first strand
Strand 2	L	505	507	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: 6YBU

Analysis of interatomic Contacts of Structural Units in PDB entry:
6YBU