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

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 5GMF entry

There are 8 chains in PDB entry 5GMF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 24	CYS 833
B	SER 24	CYS 833
C	SER 24	CYS 833
D	SER 24	CYS 833
E	U 1	U 4
F	U 1	U 4
G	U 1	U 4
H	U 1	U 4

There are 88 helices in PDB entry 5GMF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	25	30	Right-handed 310
Helix 2	AA2	A	164	169	Right-handed 310
Helix 3	AA3	A	273	277	Right-handed 310
Helix 4	AA4	A	306	311	Right-handed 310
Helix 5	AA5	A	326	333	Right-handed alpha
Helix 6	AA6	A	334	339	Right-handed 310
Helix 7	AA7	A	363	369	Right-handed 310
Helix 8	AA8	A	386	394	Right-handed 310
Helix 9	AA9	A	414	421	Right-handed 310
Helix 10	AB1	A	491	495	Right-handed 310
Helix 11	AB2	A	509	514	Right-handed 310
Helix 12	AB3	A	577	582	Right-handed 310
Helix 13	AB4	A	588	595	Right-handed 310
Helix 14	AB5	A	630	635	Right-handed alpha
Helix 15	AB6	A	691	698	Right-handed 310
Helix 16	AB7	A	717	721	Right-handed 310
Helix 17	AB8	A	768	773	Right-handed alpha
Helix 18	AB9	A	788	790	Right-handed 310
Helix 19	AC1	A	791	801	Right-handed alpha
Helix 20	AC2	A	807	812	Right-handed alpha
Helix 21	AC3	A	817	821	Right-handed 310
Helix 22	AC4	A	824	828	Right-handed 310
Helix 23	AC5	B	25	30	Right-handed 310
Helix 24	AC6	B	164	169	Right-handed 310
Helix 25	AC7	B	273	277	Right-handed 310
Helix 26	AC8	B	306	311	Right-handed 310
Helix 27	AC9	B	326	333	Right-handed alpha
Helix 28	AD1	B	334	339	Right-handed 310
Helix 29	AD2	B	363	369	Right-handed 310
Helix 30	AD3	B	386	394	Right-handed 310
Helix 31	AD4	B	414	421	Right-handed 310
Helix 32	AD5	B	491	495	Right-handed 310
Helix 33	AD6	B	509	514	Right-handed 310
Helix 34	AD7	B	577	582	Right-handed 310
Helix 35	AD8	B	588	595	Right-handed 310
Helix 36	AD9	B	630	635	Right-handed alpha
Helix 37	AE1	B	691	698	Right-handed 310
Helix 38	AE2	B	717	721	Right-handed 310
Helix 39	AE3	B	768	773	Right-handed alpha
Helix 40	AE4	B	788	790	Right-handed 310
Helix 41	AE5	B	791	801	Right-handed alpha
Helix 42	AE6	B	807	812	Right-handed alpha
Helix 43	AE7	B	817	821	Right-handed 310
Helix 44	AE8	B	824	828	Right-handed 310
Helix 45	AE9	C	25	30	Right-handed 310
Helix 46	AF1	C	164	169	Right-handed 310
Helix 47	AF2	C	273	277	Right-handed 310
Helix 48	AF3	C	306	311	Right-handed 310
Helix 49	AF4	C	326	333	Right-handed alpha
Helix 50	AF5	C	334	339	Right-handed 310
Helix 51	AF6	C	363	369	Right-handed 310
Helix 52	AF7	C	386	394	Right-handed 310
Helix 53	AF8	C	414	421	Right-handed 310
Helix 54	AF9	C	491	495	Right-handed 310
Helix 55	AG1	C	509	514	Right-handed 310
Helix 56	AG2	C	577	582	Right-handed 310
Helix 57	AG3	C	588	595	Right-handed 310
Helix 58	AG4	C	630	635	Right-handed alpha
Helix 59	AG5	C	691	698	Right-handed 310
Helix 60	AG6	C	717	721	Right-handed 310
Helix 61	AG7	C	768	773	Right-handed alpha
Helix 62	AG8	C	788	790	Right-handed 310
Helix 63	AG9	C	791	801	Right-handed alpha
Helix 64	AH1	C	807	812	Right-handed alpha
Helix 65	AH2	C	817	821	Right-handed 310
Helix 66	AH3	C	824	828	Right-handed 310
Helix 67	AH4	D	25	30	Right-handed 310
Helix 68	AH5	D	164	169	Right-handed 310
Helix 69	AH6	D	273	277	Right-handed 310
Helix 70	AH7	D	306	311	Right-handed 310
Helix 71	AH8	D	326	333	Right-handed alpha
Helix 72	AH9	D	334	339	Right-handed 310
Helix 73	AI1	D	363	369	Right-handed 310
Helix 74	AI2	D	386	394	Right-handed 310
Helix 75	AI3	D	414	421	Right-handed 310
Helix 76	AI4	D	491	495	Right-handed 310
Helix 77	AI5	D	509	514	Right-handed 310
Helix 78	AI6	D	577	582	Right-handed 310
Helix 79	AI7	D	588	595	Right-handed 310
Helix 80	AI8	D	630	635	Right-handed alpha
Helix 81	AI9	D	691	698	Right-handed 310
Helix 82	AJ1	D	717	721	Right-handed 310
Helix 83	AJ2	D	768	773	Right-handed alpha
Helix 84	AJ3	D	788	790	Right-handed 310
Helix 85	AJ4	D	791	801	Right-handed alpha
Helix 86	AJ5	D	807	812	Right-handed alpha
Helix 87	AJ6	D	817	821	Right-handed 310
Helix 88	AJ7	D	824	828	Right-handed 310

There are 24 sheets in PDB entry 5GMF. 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, AC4, AC5, AC6,

There are 28 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	37	41	first strand
Strand 2	A	46	50	anti-parallel
Strand 3	A	69	71	parallel
Strand 4	A	93	95	parallel
Strand 5	A	131	133	parallel
Strand 6	A	152	154	parallel
Strand 7	A	176	178	parallel
Strand 8	A	208	210	parallel
Strand 9	A	229	231	parallel
Strand 10	A	253	255	parallel
Strand 11	A	294	296	parallel
Strand 12	A	318	320	parallel
Strand 13	A	344	346	parallel
Strand 14	A	374	376	parallel
Strand 15	A	401	403	parallel
Strand 16	A	425	427	parallel
Strand 17	A	497	499	parallel
Strand 18	A	521	523	parallel
Strand 19	A	546	548	parallel
Strand 20	A	570	572	parallel
Strand 21	A	600	602	parallel
Strand 22	A	623	625	parallel
Strand 23	A	654	656	parallel
Strand 24	A	679	681	parallel
Strand 25	A	703	705	parallel
Strand 26	A	727	729	parallel
Strand 27	A	751	753	parallel
Strand 28	A	777	779	parallel

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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	79	80	first strand
Strand 2	A	117	118	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	162	163	first strand
Strand 2	A	194	195	parallel

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There are 3 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	357	359	first strand
Strand 2	A	382	385	parallel
Strand 3	A	411	412	parallel

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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	617	618	first strand
Strand 2	A	648	649	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	A	785	786	first strand
Strand 2	A	814	816	parallel

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There are 28 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	37	41	first strand
Strand 2	B	46	50	anti-parallel
Strand 3	B	69	71	parallel
Strand 4	B	93	95	parallel
Strand 5	B	131	133	parallel
Strand 6	B	152	154	parallel
Strand 7	B	176	178	parallel
Strand 8	B	208	210	parallel
Strand 9	B	229	231	parallel
Strand 10	B	253	255	parallel
Strand 11	B	294	296	parallel
Strand 12	B	318	320	parallel
Strand 13	B	344	346	parallel
Strand 14	B	374	376	parallel
Strand 15	B	401	403	parallel
Strand 16	B	425	427	parallel
Strand 17	B	497	499	parallel
Strand 18	B	521	523	parallel
Strand 19	B	546	548	parallel
Strand 20	B	570	572	parallel
Strand 21	B	600	602	parallel
Strand 22	B	623	625	parallel
Strand 23	B	654	656	parallel
Strand 24	B	679	681	parallel
Strand 25	B	703	705	parallel
Strand 26	B	727	729	parallel
Strand 27	B	751	753	parallel
Strand 28	B	777	779	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	79	80	first strand
Strand 2	B	117	118	parallel

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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	B	162	163	first strand
Strand 2	B	194	195	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	357	359	first strand
Strand 2	B	382	385	parallel
Strand 3	B	411	412	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	B	617	618	first strand
Strand 2	B	648	649	parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	785	786	first strand
Strand 2	B	814	816	parallel

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There are 28 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	37	41	first strand
Strand 2	C	46	50	anti-parallel
Strand 3	C	69	71	parallel
Strand 4	C	93	95	parallel
Strand 5	C	131	133	parallel
Strand 6	C	152	154	parallel
Strand 7	C	176	178	parallel
Strand 8	C	208	210	parallel
Strand 9	C	229	231	parallel
Strand 10	C	253	255	parallel
Strand 11	C	294	296	parallel
Strand 12	C	318	320	parallel
Strand 13	C	344	346	parallel
Strand 14	C	374	376	parallel
Strand 15	C	401	403	parallel
Strand 16	C	425	427	parallel
Strand 17	C	497	499	parallel
Strand 18	C	521	523	parallel
Strand 19	C	546	548	parallel
Strand 20	C	570	572	parallel
Strand 21	C	600	602	parallel
Strand 22	C	623	625	parallel
Strand 23	C	654	656	parallel
Strand 24	C	679	681	parallel
Strand 25	C	703	705	parallel
Strand 26	C	727	729	parallel
Strand 27	C	751	753	parallel
Strand 28	C	777	779	parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	79	80	first strand
Strand 2	C	117	118	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	C	162	163	first strand
Strand 2	C	194	195	parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	357	359	first strand
Strand 2	C	382	385	parallel
Strand 3	C	411	412	parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	617	618	first strand
Strand 2	C	648	649	parallel

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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	C	785	786	first strand
Strand 2	C	814	816	parallel

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There are 28 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	37	41	first strand
Strand 2	D	46	50	anti-parallel
Strand 3	D	69	71	parallel
Strand 4	D	93	95	parallel
Strand 5	D	131	133	parallel
Strand 6	D	152	154	parallel
Strand 7	D	176	178	parallel
Strand 8	D	208	210	parallel
Strand 9	D	229	231	parallel
Strand 10	D	253	255	parallel
Strand 11	D	294	296	parallel
Strand 12	D	318	320	parallel
Strand 13	D	344	346	parallel
Strand 14	D	374	376	parallel
Strand 15	D	401	403	parallel
Strand 16	D	425	427	parallel
Strand 17	D	497	499	parallel
Strand 18	D	521	523	parallel
Strand 19	D	546	548	parallel
Strand 20	D	570	572	parallel
Strand 21	D	600	602	parallel
Strand 22	D	623	625	parallel
Strand 23	D	654	656	parallel
Strand 24	D	679	681	parallel
Strand 25	D	703	705	parallel
Strand 26	D	727	729	parallel
Strand 27	D	751	753	parallel
Strand 28	D	777	779	parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	79	80	first strand
Strand 2	D	117	118	parallel

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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	D	162	163	first strand
Strand 2	D	194	195	parallel

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There are 3 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	357	359	first strand
Strand 2	D	382	385	parallel
Strand 3	D	411	412	parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	617	618	first strand
Strand 2	D	648	649	parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	785	786	first strand
Strand 2	D	814	816	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: 5GMF

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