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

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 8GAE entry

Note, this PDB entry contains modified residue(s) PHOSPHOSERINE (SEP) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

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

Chain ID	Initial residue	Terminal residue
A	GLU 10	ASP 691
B	GLU 10	GLU 694
C	VAL 2	VAL 12
C	ASP 14	LYS 260
D	ASN 404	GLN 610
E	GLY 23	HIS 481

There are 95 helices in PDB entry 8GAE. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	20	31	Right-handed alpha
Helix 2	AA2	A	37	59	Right-handed alpha
Helix 3	AA3	A	61	66	Right-handed 310
Helix 4	AA4	A	94	102	Right-handed alpha
Helix 5	AA5	A	108	117	Right-handed alpha
Helix 6	AA6	A	131	138	Right-handed 310
Helix 7	AA7	A	189	193	Right-handed 310
Helix 8	AA8	A	194	207	Right-handed alpha
Helix 9	AA9	A	280	284	Right-handed 310
Helix 10	AB1	A	287	291	Right-handed 310
Helix 11	AB2	A	292	296	Right-handed 310
Helix 12	AB3	A	297	310	Right-handed alpha
Helix 13	AB4	A	365	370	Right-handed alpha
Helix 14	AB5	A	371	377	Right-handed 310
Helix 15	AB6	A	397	422	Right-handed alpha
Helix 16	AB7	A	422	444	Right-handed alpha
Helix 17	AB8	A	447	452	Right-handed alpha
Helix 18	AB9	A	461	463	Right-handed 310
Helix 19	AC1	A	469	475	Right-handed alpha
Helix 20	AC2	A	490	496	Right-handed alpha
Helix 21	AC3	A	497	499	Right-handed 310
Helix 22	AC4	A	500	506	Right-handed alpha
Helix 23	AC5	A	517	525	Right-handed alpha
Helix 24	AC6	A	546	560	Right-handed alpha
Helix 25	AC7	A	560	571	Right-handed alpha
Helix 26	AC8	A	599	609	Right-handed alpha
Helix 27	AC9	A	613	621	Right-handed alpha
Helix 28	AD1	A	632	645	Right-handed alpha
Helix 29	AD2	A	648	666	Right-handed alpha
Helix 30	AD3	A	672	688	Right-handed alpha
Helix 31	AD4	B	20	32	Right-handed alpha
Helix 32	AD5	B	37	61	Right-handed alpha
Helix 33	AD6	B	62	65	Right-handed 310
Helix 34	AD7	B	94	104	Right-handed alpha
Helix 35	AD8	B	108	115	Right-handed alpha
Helix 36	AD9	B	131	138	Right-handed 310
Helix 37	AE1	B	187	193	Right-handed 310
Helix 38	AE2	B	194	206	Right-handed alpha
Helix 39	AE3	B	287	291	Right-handed 310
Helix 40	AE4	B	292	296	Right-handed 310
Helix 41	AE5	B	297	310	Right-handed alpha
Helix 42	AE6	B	371	375	Right-handed 310
Helix 43	AE7	B	399	420	Right-handed alpha
Helix 44	AE8	B	422	442	Right-handed alpha
Helix 45	AE9	B	447	453	Right-handed alpha
Helix 46	AF1	B	469	476	Right-handed alpha
Helix 47	AF2	B	490	496	Right-handed alpha
Helix 48	AF3	B	500	506	Right-handed alpha
Helix 49	AF4	B	515	523	Right-handed alpha
Helix 50	AF5	B	546	572	Right-handed alpha
Helix 51	AF6	B	599	608	Right-handed alpha
Helix 52	AF7	B	613	620	Right-handed 310
Helix 53	AF8	B	632	645	Right-handed alpha
Helix 54	AF9	B	648	666	Right-handed alpha
Helix 55	AG1	B	672	688	Right-handed alpha
Helix 56	AG2	C	4	8	Right-handed 310
Helix 57	AG3	C	15	19	Right-handed 310
Helix 58	AG4	C	24	73	Right-handed alpha
Helix 59	AG5	C	78	112	Right-handed alpha
Helix 60	AG6	C	139	162	Right-handed alpha
Helix 61	AG7	C	168	178	Right-handed alpha
Helix 62	AG8	C	179	184	Right-handed 310
Helix 63	AG9	C	185	187	Right-handed 310
Helix 64	AH1	C	188	195	Right-handed alpha
Helix 65	AH2	C	202	226	Right-handed alpha
Helix 66	AH3	C	234	240	Right-handed 310
Helix 67	AH4	C	242	259	Right-handed alpha
Helix 68	AH5	D	428	434	Right-handed alpha
Helix 69	AH6	D	441	461	Right-handed alpha
Helix 70	AH7	D	513	518	Right-handed alpha
Helix 71	AH8	D	527	544	Right-handed alpha
Helix 72	AH9	D	553	563	Right-handed alpha
Helix 73	AI1	D	578	591	Right-handed alpha
Helix 74	AI2	D	592	594	Right-handed 310
Helix 75	AI3	D	598	610	Right-handed alpha
Helix 76	AI4	E	24	40	Right-handed alpha
Helix 77	AI5	E	43	58	Right-handed alpha
Helix 78	AI6	E	61	75	Right-handed alpha
Helix 79	AI7	E	77	92	Right-handed alpha
Helix 80	AI8	E	95	110	Right-handed alpha
Helix 81	AI9	E	111	126	Right-handed alpha
Helix 82	AJ1	E	129	153	Right-handed alpha
Helix 83	AJ2	E	159	161	Right-handed 310
Helix 84	AJ3	E	162	170	Right-handed alpha
Helix 85	AJ4	E	187	200	Right-handed alpha
Helix 86	AJ5	E	205	223	Right-handed alpha
Helix 87	AJ6	E	246	257	Right-handed alpha
Helix 88	AJ7	E	278	293	Right-handed alpha
Helix 89	AJ8	E	306	313	Right-handed alpha
Helix 90	AJ9	E	314	323	Right-handed alpha
Helix 91	AK1	E	324	338	Right-handed alpha
Helix 92	AK2	E	362	367	Right-handed alpha
Helix 93	AK3	E	379	387	Right-handed alpha
Helix 94	AK4	E	407	418	Right-handed alpha
Helix 95	AK5	E	438	440	Right-handed 310

There are 16 sheets in PDB entry 8GAE. 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,

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	13	16	first strand
Strand 2	B	164	169	anti-parallel
Strand 3	B	155	159	anti-parallel
Strand 4	B	140	148	anti-parallel
Strand 5	B	178	185	anti-parallel
Strand 6	B	83	87	anti-parallel
Strand 7	B	73	78	anti-parallel
Strand 8	B	213	217	parallel
Strand 9	B	277	279	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	A	213	215	first strand
Strand 2	A	73	78	parallel
Strand 3	A	83	88	anti-parallel
Strand 4	A	178	185	anti-parallel
Strand 5	A	140	148	anti-parallel
Strand 6	A	154	159	anti-parallel
Strand 7	A	165	169	anti-parallel
Strand 8	B	13	15	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	104	105	first strand
Strand 2	B	18	19	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	317	322	first strand
Strand 2	A	330	335	anti-parallel
Strand 3	A	378	383	anti-parallel
Strand 4	A	353	357	parallel
Strand 5	A	360	363	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	A	467	468	first strand
Strand 2	A	456	459	anti-parallel
Strand 3	A	511	513	anti-parallel
Strand 4	A	482	487	parallel
Strand 5	A	531	535	parallel
Strand 6	A	527	528	anti-parallel

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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	577	580	first strand
Strand 2	A	624	628	parallel
Strand 3	A	589	593	anti-parallel

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There are 6 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	360	364	first strand
Strand 2	B	353	357	anti-parallel
Strand 3	B	378	383	parallel
Strand 4	B	329	335	anti-parallel
Strand 5	B	317	324	anti-parallel
Strand 6	C	121	129	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	B	456	457	first strand
Strand 2	B	467	468	anti-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	B	510	513	first strand
Strand 2	B	482	487	parallel
Strand 3	B	531	535	parallel
Strand 4	B	527	528	anti-parallel

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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	B	577	580	first strand
Strand 2	B	624	628	parallel
Strand 3	B	589	593	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	D	474	477	first strand
Strand 2	D	481	484	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	E	227	229	first strand
Strand 2	E	342	344	parallel
Strand 3	E	348	350	anti-parallel
Strand 4	E	422	425	parallel
Strand 5	E	442	444	parallel
Strand 6	E	435	437	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	297	300	first strand
Strand 2	E	266	269	parallel
Strand 3	E	236	240	parallel
Strand 4	E	458	465	anti-parallel
Strand 5	E	432	433	parallel

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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	E	297	300	first strand
Strand 2	E	266	269	parallel
Strand 3	E	236	240	parallel
Strand 4	E	458	465	anti-parallel
Strand 5	E	472	476	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	E	388	389	first strand
Strand 2	E	405	406	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	E	450	452	first strand
Strand 2	E	455	456	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: 8GAE

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