Analysis of interatomic Contacts of Structural Units in PDB entry:
9YER

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 9YER entry

There are 5 chains in PDB entry 9YER (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 1	GLY 437
C	SER 1	GLN 436
E	SER 1	ARG 480
D	LEU 1	ILE 496
B	LYS 1	PRO 473

There are 63 helices in PDB entry 9YER. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	1	12	Right-handed alpha
Helix 2	AA2	A	68	73	Right-handed 310
Helix 3	AA3	A	81	85	Right-handed 310
Helix 4	AA4	A	211	218	Right-handed alpha
Helix 5	AA5	A	218	230	Right-handed alpha
Helix 6	AA6	A	231	234	Right-handed 310
Helix 7	AA7	A	236	240	Right-handed 310
Helix 8	AA8	A	241	261	Right-handed alpha
Helix 9	AA9	A	262	264	Right-handed 310
Helix 10	AB1	A	272	300	Right-handed alpha
Helix 11	AB2	A	309	317	Right-handed alpha
Helix 12	AB3	A	319	324	Right-handed alpha
Helix 13	AB4	A	371	437	Right-handed alpha
Helix 14	AB5	C	2	12	Right-handed alpha
Helix 15	AB6	C	68	73	Right-handed 310
Helix 16	AB7	C	83	85	Right-handed 310
Helix 17	AB8	C	211	218	Right-handed alpha
Helix 18	AB9	C	218	229	Right-handed alpha
Helix 19	AC1	C	230	233	Right-handed 310
Helix 20	AC2	C	236	240	Right-handed 310
Helix 21	AC3	C	241	263	Right-handed alpha
Helix 22	AC4	C	272	300	Right-handed alpha
Helix 23	AC5	C	309	317	Right-handed alpha
Helix 24	AC6	C	319	324	Right-handed 310
Helix 25	AC7	C	370	436	Right-handed alpha
Helix 26	AC8	E	2	12	Right-handed alpha
Helix 27	AC9	E	68	73	Right-handed 310
Helix 28	AD1	E	83	85	Right-handed 310
Helix 29	AD2	E	222	229	Right-handed alpha
Helix 30	AD3	E	229	243	Right-handed alpha
Helix 31	AD4	E	244	246	Right-handed 310
Helix 32	AD5	E	247	251	Right-handed 310
Helix 33	AD6	E	252	275	Right-handed alpha
Helix 34	AD7	E	283	311	Right-handed alpha
Helix 35	AD8	E	320	329	Right-handed alpha
Helix 36	AD9	E	330	335	Right-handed alpha
Helix 37	AE1	E	410	470	Right-handed alpha
Helix 38	AE2	D	2	13	Right-handed alpha
Helix 39	AE3	D	65	68	Right-handed 310
Helix 40	AE4	D	71	75	Right-handed 310
Helix 41	AE5	D	83	87	Right-handed 310
Helix 42	AE6	D	225	232	Right-handed alpha
Helix 43	AE7	D	232	242	Right-handed alpha
Helix 44	AE8	D	243	248	Right-handed 310
Helix 45	AE9	D	250	254	Right-handed 310
Helix 46	AF1	D	255	276	Right-handed alpha
Helix 47	AF2	D	286	314	Right-handed alpha
Helix 48	AF3	D	323	332	Right-handed alpha
Helix 49	AF4	D	332	338	Right-handed alpha
Helix 50	AF5	D	414	473	Right-handed alpha
Helix 51	AF6	B	2	13	Right-handed alpha
Helix 52	AF7	B	63	66	Right-handed 310
Helix 53	AF8	B	68	73	Right-handed 310
Helix 54	AF9	B	83	85	Right-handed 310
Helix 55	AG1	B	175	179	Right-handed 310
Helix 56	AG2	B	220	227	Right-handed alpha
Helix 57	AG3	B	227	237	Right-handed alpha
Helix 58	AG4	B	238	243	Right-handed 310
Helix 59	AG5	B	251	272	Right-handed alpha
Helix 60	AG6	B	282	310	Right-handed alpha
Helix 61	AG7	B	319	328	Right-handed alpha
Helix 62	AG8	B	328	334	Right-handed alpha
Helix 63	AG9	B	401	460	Right-handed alpha

There are 19 sheets in PDB entry 9YER. 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,

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	A	77	80	first strand
Strand 2	A	108	111	anti-parallel
Strand 3	A	115	118	anti-parallel
Strand 4	A	49	61	anti-parallel
Strand 5	A	121	127	anti-parallel

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There are 6 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	77	80	first strand
Strand 2	A	108	111	anti-parallel
Strand 3	A	115	118	anti-parallel
Strand 4	A	49	61	anti-parallel
Strand 5	A	29	44	anti-parallel
Strand 6	A	156	160	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	A	90	92	first strand
Strand 2	A	139	148	anti-parallel
Strand 3	A	198	209	anti-parallel
Strand 4	A	176	188	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	C	77	81	first strand
Strand 2	C	107	111	anti-parallel
Strand 3	C	115	118	anti-parallel
Strand 4	C	49	61	anti-parallel
Strand 5	C	121	127	anti-parallel

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There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	77	81	first strand
Strand 2	C	107	111	anti-parallel
Strand 3	C	115	118	anti-parallel
Strand 4	C	49	61	anti-parallel
Strand 5	C	29	44	anti-parallel
Strand 6	C	156	160	parallel

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There are 4 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	90	92	first strand
Strand 2	C	139	148	anti-parallel
Strand 3	C	193	209	anti-parallel
Strand 4	C	176	190	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	E	77	81	first strand
Strand 2	E	107	111	anti-parallel
Strand 3	E	113	118	anti-parallel
Strand 4	E	49	66	anti-parallel
Strand 5	E	121	127	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	E	77	81	first strand
Strand 2	E	107	111	anti-parallel
Strand 3	E	113	118	anti-parallel
Strand 4	E	49	66	anti-parallel
Strand 5	E	29	44	anti-parallel
Strand 6	E	156	160	parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	90	92	first strand
Strand 2	E	139	148	anti-parallel
Strand 3	E	211	220	anti-parallel
Strand 4	E	185	189	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	90	92	first strand
Strand 2	E	139	148	anti-parallel
Strand 3	E	211	220	anti-parallel
Strand 4	E	192	195	anti-parallel

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There are 5 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	79	82	first strand
Strand 2	D	110	113	anti-parallel
Strand 3	D	117	120	anti-parallel
Strand 4	D	51	63	anti-parallel
Strand 5	D	123	129	anti-parallel

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There are 6 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	79	82	first strand
Strand 2	D	110	113	anti-parallel
Strand 3	D	117	120	anti-parallel
Strand 4	D	51	63	anti-parallel
Strand 5	D	31	46	anti-parallel
Strand 6	D	158	162	parallel

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There are 4 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	92	94	first strand
Strand 2	D	141	150	anti-parallel
Strand 3	D	213	223	anti-parallel
Strand 4	D	190	194	anti-parallel

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There are 4 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	92	94	first strand
Strand 2	D	141	150	anti-parallel
Strand 3	D	213	223	anti-parallel
Strand 4	D	197	201	anti-parallel

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There are 2 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	164	166	first strand
Strand 2	D	171	173	anti-parallel

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There are 5 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	77	81	first strand
Strand 2	B	107	111	anti-parallel
Strand 3	B	115	118	anti-parallel
Strand 4	B	49	61	anti-parallel
Strand 5	B	121	127	anti-parallel

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There are 6 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	77	81	first strand
Strand 2	B	107	111	anti-parallel
Strand 3	B	115	118	anti-parallel
Strand 4	B	49	61	anti-parallel
Strand 5	B	29	44	anti-parallel
Strand 6	B	156	160	parallel

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There are 4 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	90	92	first strand
Strand 2	B	139	148	anti-parallel
Strand 3	B	207	218	anti-parallel
Strand 4	B	185	189	anti-parallel

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There are 4 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	90	92	first strand
Strand 2	B	139	148	anti-parallel
Strand 3	B	207	218	anti-parallel
Strand 4	B	192	197	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: 9YER

Analysis of interatomic Contacts of Structural Units in PDB entry:
9YER