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

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 8YOD entry

There are 4 chains in PDB entry 8YOD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 10	LYS 442
C	MET 1	MET 592
D	MET 1	MET 592
B	SER 10	LYS 442

There are 71 helices in PDB entry 8YOD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	12	23	Right-handed alpha
Helix 2	AA2	A	37	50	Right-handed alpha
Helix 3	AA3	A	61	66	Right-handed alpha
Helix 4	AA4	A	67	71	Right-handed 310
Helix 5	AA5	A	76	87	Right-handed alpha
Helix 6	AA6	A	123	130	Right-handed alpha
Helix 7	AA7	A	177	189	Right-handed alpha
Helix 8	AA8	A	240	247	Right-handed alpha
Helix 9	AA9	A	247	253	Right-handed alpha
Helix 10	AB1	A	285	295	Right-handed alpha
Helix 11	AB2	A	319	366	Right-handed alpha
Helix 12	AB3	A	376	382	Right-handed 310
Helix 13	AB4	A	387	390	Right-handed 310
Helix 14	AB5	A	391	397	Right-handed alpha
Helix 15	AB6	A	399	403	Right-handed 310
Helix 16	AB7	A	405	428	Right-handed alpha
Helix 17	AB8	A	429	440	Right-handed alpha
Helix 18	AB9	C	10	18	Right-handed alpha
Helix 19	AC1	C	18	23	Right-handed alpha
Helix 20	AC2	C	45	66	Right-handed alpha
Helix 21	AC3	C	106	111	Right-handed alpha
Helix 22	AC4	C	134	143	Right-handed alpha
Helix 23	AC5	C	198	216	Right-handed alpha
Helix 24	AC6	C	231	238	Right-handed alpha
Helix 25	AC7	C	278	300	Right-handed alpha
Helix 26	AC8	C	304	310	Right-handed alpha
Helix 27	AC9	C	337	345	Right-handed alpha
Helix 28	AD1	C	348	358	Right-handed alpha
Helix 29	AD2	C	362	372	Right-handed alpha
Helix 30	AD3	C	417	424	Right-handed alpha
Helix 31	AD4	C	448	454	Right-handed alpha
Helix 32	AD5	C	455	466	Right-handed alpha
Helix 33	AD6	C	495	504	Right-handed alpha
Helix 34	AD7	C	506	513	Right-handed alpha
Helix 35	AD8	C	536	543	Right-handed alpha
Helix 36	AD9	C	557	561	Right-handed 310
Helix 37	AE1	C	562	572	Right-handed alpha
Helix 38	AE2	D	10	18	Right-handed alpha
Helix 39	AE3	D	18	23	Right-handed alpha
Helix 40	AE4	D	45	65	Right-handed alpha
Helix 41	AE5	D	106	113	Right-handed alpha
Helix 42	AE6	D	135	143	Right-handed alpha
Helix 43	AE7	D	198	216	Right-handed alpha
Helix 44	AE8	D	231	238	Right-handed alpha
Helix 45	AE9	D	277	300	Right-handed alpha
Helix 46	AF1	D	304	310	Right-handed alpha
Helix 47	AF2	D	337	345	Right-handed alpha
Helix 48	AF3	D	348	358	Right-handed alpha
Helix 49	AF4	D	362	374	Right-handed alpha
Helix 50	AF5	D	415	425	Right-handed alpha
Helix 51	AF6	D	443	447	Right-handed 310
Helix 52	AF7	D	448	455	Right-handed alpha
Helix 53	AF8	D	455	465	Right-handed alpha
Helix 54	AF9	D	494	504	Right-handed alpha
Helix 55	AG1	D	506	512	Right-handed alpha
Helix 56	AG2	D	536	543	Right-handed alpha
Helix 57	AG3	D	562	571	Right-handed alpha
Helix 58	AG4	B	12	20	Right-handed alpha
Helix 59	AG5	B	37	52	Right-handed alpha
Helix 60	AG6	B	61	66	Right-handed alpha
Helix 61	AG7	B	76	87	Right-handed alpha
Helix 62	AG8	B	123	130	Right-handed alpha
Helix 63	AG9	B	177	189	Right-handed alpha
Helix 64	AH1	B	240	247	Right-handed alpha
Helix 65	AH2	B	247	253	Right-handed alpha
Helix 66	AH3	B	286	295	Right-handed alpha
Helix 67	AH4	B	320	366	Right-handed alpha
Helix 68	AH5	B	376	382	Right-handed alpha
Helix 69	AH6	B	391	396	Right-handed alpha
Helix 70	AH7	B	404	428	Right-handed alpha
Helix 71	AH8	B	429	440	Right-handed alpha

There are 21 sheets in PDB entry 8YOD. 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, AC1, AC2, AC3,

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	A	59	60	first strand
Strand 2	A	119	120	anti-parallel

Back to list of sheets
Back to top of page

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	A	162	165	first strand
Strand 2	A	170	173	anti-parallel

Back to list of sheets
Back to top of page

There are 3 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	207	210	first strand
Strand 2	A	215	218	anti-parallel
Strand 3	A	299	300	anti-parallel

Back to list of sheets
Back to top of page

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	A	221	223	first strand
Strand 2	A	228	231	anti-parallel
Strand 3	A	270	274	anti-parallel
Strand 4	A	257	260	anti-parallel

Back to list of sheets
Back to top of page

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	A	305	308	first strand
Strand 2	A	314	317	anti-parallel

Back to list of sheets
Back to top of page

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	C	29	35	first strand
Strand 2	C	38	44	anti-parallel

Back to list of sheets
Back to top of page

There are 8 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	168	175	first strand
Strand 2	C	156	163	anti-parallel
Strand 3	C	144	153	anti-parallel
Strand 4	C	179	187	anti-parallel
Strand 5	C	82	87	anti-parallel
Strand 6	C	73	79	anti-parallel
Strand 7	C	220	223	parallel
Strand 8	C	226	228	anti-parallel

Back to list of sheets
Back to top of page

There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	244	247	first strand
Strand 2	C	251	255	anti-parallel
Strand 3	C	314	318	anti-parallel
Strand 4	C	265	268	parallel
Strand 5	C	271	272	anti-parallel

Back to list of sheets
Back to top of page

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	C	276	277	first strand
Strand 2	C	333	334	parallel

Back to list of sheets
Back to top of page

There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	410	412	first strand
Strand 2	C	480	483	parallel
Strand 3	C	515	517	parallel

Back to list of sheets
Back to top of page

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	D	29	35	first strand
Strand 2	D	38	44	anti-parallel

Back to list of sheets
Back to top of page

There are 8 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	168	175	first strand
Strand 2	D	156	163	anti-parallel
Strand 3	D	144	153	anti-parallel
Strand 4	D	179	187	anti-parallel
Strand 5	D	83	87	anti-parallel
Strand 6	D	73	78	anti-parallel
Strand 7	D	220	223	parallel
Strand 8	D	226	227	anti-parallel

Back to list of sheets
Back to top of page

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	D	97	98	first strand
Strand 2	D	104	105	anti-parallel

Back to list of sheets
Back to top of page

There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	244	247	first strand
Strand 2	D	251	255	anti-parallel
Strand 3	D	313	318	anti-parallel
Strand 4	D	263	268	parallel
Strand 5	D	271	273	anti-parallel

Back to list of sheets
Back to top of page

There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	410	412	first strand
Strand 2	D	480	483	parallel
Strand 3	D	515	517	parallel
Strand 4	D	576	577	anti-parallel

Back to list of sheets
Back to top of page

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	D	523	525	first strand
Strand 2	D	552	554	anti-parallel

Back to list of sheets
Back to top of page

There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	59	60	first strand
Strand 2	B	119	122	anti-parallel
Strand 3	B	98	101	anti-parallel

Back to list of sheets
Back to top of page

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	B	162	165	first strand
Strand 2	B	170	173	anti-parallel

Back to list of sheets
Back to top of page

There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	207	210	first strand
Strand 2	B	215	218	anti-parallel
Strand 3	B	298	299	anti-parallel

Back to list of sheets
Back to top of page

There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	220	223	first strand
Strand 2	B	228	233	anti-parallel
Strand 3	B	270	274	anti-parallel
Strand 4	B	257	260	anti-parallel

Back to list of sheets
Back to top of page

There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	305	308	first strand
Strand 2	B	314	317	anti-parallel

Back to list of sheets
Back to top of page

Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

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

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