Analysis of interatomic Contacts of Structural Units in PDB entry:
5GAM

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 5GAM entry

There are 12 chains in PDB entry 5GAM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
U	C 4	U 173
A	LYS 110	GLU 735
C	GLU 102	TYR 998
W	G 1	G 31
b	ILE 4	LEU 102
e	MET 10	SER 92
f	PRO 12	GLU 83
g	VAL 2	ALA 76
x	UNK 201	UNK 218
d	ASN 4	LYS 85
h	MET 1	ASP 109
j	ARG 15	PRO 108

There are 69 helices in PDB entry 5GAM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	110	124	Right-handed alpha
Helix 2	AA2	A	135	150	Right-handed alpha
Helix 3	AA3	A	158	166	Right-handed alpha
Helix 4	AA4	A	167	178	Right-handed alpha
Helix 5	AA5	A	209	231	Right-handed alpha
Helix 6	AA6	A	251	256	Right-handed alpha
Helix 7	AA7	A	304	316	Right-handed alpha
Helix 8	AA8	A	324	329	Right-handed 310
Helix 9	AA9	A	332	341	Right-handed alpha
Helix 10	AB1	A	380	387	Right-handed alpha
Helix 11	AB2	A	472	482	Right-handed alpha
Helix 12	AB3	A	483	488	Right-handed alpha
Helix 13	AB4	A	502	507	Right-handed alpha
Helix 14	AB5	A	515	535	Right-handed alpha
Helix 15	AB6	A	544	553	Right-handed alpha
Helix 16	AB7	A	564	586	Right-handed alpha
Helix 17	AB8	A	606	613	Right-handed alpha
Helix 18	AB9	A	616	641	Right-handed alpha
Helix 19	AC1	A	645	659	Right-handed alpha
Helix 20	AC2	A	659	664	Right-handed alpha
Helix 21	AC3	A	671	692	Right-handed alpha
Helix 22	AC4	A	704	731	Right-handed alpha
Helix 23	AC5	C	103	112	Right-handed alpha
Helix 24	AC6	C	119	128	Right-handed alpha
Helix 25	AC7	C	146	158	Right-handed alpha
Helix 26	AC8	C	165	171	Right-handed alpha
Helix 27	AC9	C	181	188	Right-handed alpha
Helix 28	AD1	C	218	220	Right-handed 310
Helix 29	AD2	C	221	232	Right-handed alpha
Helix 30	AD3	C	246	258	Right-handed alpha
Helix 31	AD4	C	269	276	Right-handed alpha
Helix 32	AD5	C	280	299	Right-handed alpha
Helix 33	AD6	C	323	332	Right-handed alpha
Helix 34	AD7	C	337	339	Right-handed 310
Helix 35	AD8	C	340	349	Right-handed alpha
Helix 36	AD9	C	371	377	Right-handed alpha
Helix 37	AE1	C	377	390	Right-handed alpha
Helix 38	AE2	C	392	403	Right-handed alpha
Helix 39	AE3	C	409	414	Right-handed alpha
Helix 40	AE4	C	416	429	Right-handed alpha
Helix 41	AE5	C	432	443	Right-handed alpha
Helix 42	AE6	C	446	458	Right-handed alpha
Helix 43	AE7	C	507	518	Right-handed alpha
Helix 44	AE8	C	583	589	Right-handed alpha
Helix 45	AE9	C	611	613	Right-handed 310
Helix 46	AF1	C	614	629	Right-handed alpha
Helix 47	AF2	C	648	662	Right-handed alpha
Helix 48	AF3	C	716	725	Right-handed alpha
Helix 49	AF4	C	745	757	Right-handed alpha
Helix 50	AF5	C	759	766	Right-handed alpha
Helix 51	AF6	C	791	805	Right-handed alpha
Helix 52	AF7	C	830	853	Right-handed alpha
Helix 53	AF8	C	872	883	Right-handed alpha
Helix 54	AF9	C	908	912	Right-handed alpha
Helix 55	AG1	C	913	922	Right-handed alpha
Helix 56	AG2	C	958	975	Right-handed alpha
Helix 57	AG3	C	989	998	Right-handed alpha
Helix 58	AG4	b	12	16	Right-handed 310
Helix 59	AG5	e	12	24	Right-handed alpha
Helix 60	AG6	e	84	87	Right-handed 310
Helix 61	AG7	f	14	22	Right-handed alpha
Helix 62	AG8	x	202	218	Right-handed alpha
Helix 63	AG9	d	5	15	Right-handed alpha
Helix 64	AH1	d	65	67	Right-handed 310
Helix 65	AH2	d	75	80	Right-handed 310
Helix 66	AH3	h	2	10	Right-handed alpha
Helix 67	AH4	h	102	107	Right-handed alpha
Helix 68	AH5	j	16	29	Right-handed alpha
Helix 69	AH6	j	31	41	Right-handed alpha

There are 21 sheets in PDB entry 5GAM. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, CA, CB, CC, CD, CE, CF, CG, CH, CI, CJ, CK, CL, DA, EA, EB, GA, GB,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	188	189	first strand
Strand 2	A	562	563	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	191	192	first strand
Strand 2	A	201	202	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	300	302	first strand
Strand 2	A	490	492	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	592	593	first strand
Strand 2	A	599	600	anti-parallel

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There are 7 strands in CA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	196	199	first strand
Strand 2	C	209	214	anti-parallel
Strand 3	C	135	139	parallel
Strand 4	C	234	240	parallel
Strand 5	C	262	268	parallel
Strand 6	C	313	315	parallel
Strand 7	C	320	322	anti-parallel

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There are 7 strands in CB sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	537	538	first strand
Strand 2	C	498	503	anti-parallel
Strand 3	C	575	578	anti-parallel
Strand 4	C	469	476	anti-parallel
Strand 5	C	483	490	anti-parallel
Strand 6	C	561	564	anti-parallel
Strand 7	C	542	543	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	492	494	first strand
Strand 2	C	555	557	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	633	636	first strand
Strand 2	C	642	646	anti-parallel
Strand 3	C	603	609	anti-parallel
Strand 4	C	668	670	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	633	636	first strand
Strand 2	C	642	646	anti-parallel
Strand 3	C	603	609	anti-parallel
Strand 4	C	674	675	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	668	670	first strand
Strand 2	C	603	609	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	678	681	first strand
Strand 2	C	855	869	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	892	893	first strand
Strand 2	C	899	901	anti-parallel
Strand 3	C	855	869	parallel
Strand 4	C	928	931	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	892	893	first strand
Strand 2	C	899	901	anti-parallel
Strand 3	C	855	869	parallel
Strand 4	C	905	907	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	928	931	first strand
Strand 2	C	855	869	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	892	893	first strand
Strand 2	C	899	901	anti-parallel
Strand 3	C	855	869	parallel
Strand 4	C	937	939	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	708	713	first strand
Strand 2	C	816	823	anti-parallel
Strand 3	C	774	778	parallel

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There are 15 strands in DA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	d	56	64	first strand
Strand 2	d	42	50	anti-parallel
Strand 3	d	29	35	anti-parallel
Strand 4	d	18	23	anti-parallel
Strand 5	d	69	74	anti-parallel
Strand 6	b	78	87	anti-parallel
Strand 7	b	43	52	anti-parallel
Strand 8	b	29	36	anti-parallel
Strand 9	b	19	24	anti-parallel
Strand 10	b	92	97	anti-parallel
Strand 11	h	80	87	anti-parallel
Strand 12	h	38	46	anti-parallel
Strand 13	h	24	32	anti-parallel
Strand 14	h	13	19	anti-parallel
Strand 15	h	92	96	anti-parallel

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There are 14 strands in EA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	e	27	31	first strand
Strand 2	e	34	43	anti-parallel
Strand 3	e	52	61	anti-parallel
Strand 4	e	80	82	anti-parallel
Strand 5	f	78	82	anti-parallel
Strand 6	f	26	31	anti-parallel
Strand 7	f	37	45	anti-parallel
Strand 8	f	51	59	anti-parallel
Strand 9	f	64	73	anti-parallel
Strand 10	j	101	106	anti-parallel
Strand 11	j	43	48	anti-parallel
Strand 12	j	53	58	anti-parallel
Strand 13	j	67	76	anti-parallel
Strand 14	j	87	96	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	e	89	90	first strand
Strand 2	g	60	63	anti-parallel
Strand 3	g	38	41	anti-parallel
Strand 4	g	28	32	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	g	23	25	first strand
Strand 2	g	15	19	anti-parallel
Strand 3	g	68	73	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	g	44	45	first strand
Strand 2	g	55	56	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: 5GAM

Analysis of interatomic Contacts of Structural Units in PDB entry:
5GAM