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

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 5GMQ entry

There are 3 chains in PDB entry 5GMQ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	VAL 381	LYS 587
B	ALA -2	LYS 222
C	ASP -1	ARG 210

There are 15 helices in PDB entry 5GMQ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	385	390	Right-handed 310
Helix 2	AA2	A	395	399	Right-handed 310
Helix 3	AA3	A	410	416	Right-handed alpha
Helix 4	AA4	A	429	434	Right-handed alpha
Helix 5	AA5	A	449	457	Right-handed 310
Helix 6	AA6	A	462	467	Right-handed alpha
Helix 7	AA7	A	524	529	Right-handed 310
Helix 8	AA8	B	49	53	Right-handed 310
Helix 9	AA9	B	103	107	Right-handed 310
Helix 10	AB1	B	164	166	Right-handed 310
Helix 11	AB2	B	195	200	Right-handed alpha
Helix 12	AB3	C	28	30	Right-handed 310
Helix 13	AB4	C	78	82	Right-handed 310
Helix 14	AB5	C	120	125	Right-handed alpha
Helix 15	AB6	C	182	186	Right-handed alpha

There are 13 sheets in PDB entry 5GMQ. 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,

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	400	404	first strand
Strand 2	A	440	447	anti-parallel
Strand 3	A	568	576	anti-parallel
Strand 4	A	477	483	anti-parallel
Strand 5	A	419	426	anti-parallel

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There are 4 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	513	515	first strand
Strand 2	A	497	506	anti-parallel
Strand 3	A	553	561	anti-parallel
Strand 4	A	540	544	anti-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	B	0	3	first strand
Strand 2	B	15	22	anti-parallel
Strand 3	B	75	80	anti-parallel
Strand 4	B	65	70	anti-parallel

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There are 6 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	7	9	first strand
Strand 2	B	116	119	parallel
Strand 3	B	89	95	anti-parallel
Strand 4	B	31	36	anti-parallel
Strand 5	B	42	48	anti-parallel
Strand 6	B	56	57	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	7	9	first strand
Strand 2	B	116	119	parallel
Strand 3	B	89	95	anti-parallel
Strand 4	B	110	111	anti-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	B	129	132	first strand
Strand 2	B	143	153	anti-parallel
Strand 3	B	184	193	anti-parallel
Strand 4	B	172	173	anti-parallel

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There are 4 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	139	140	first strand
Strand 2	B	143	153	anti-parallel
Strand 3	B	184	193	anti-parallel
Strand 4	B	177	178	anti-parallel

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There are 3 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	159	162	first strand
Strand 2	B	202	208	anti-parallel
Strand 3	B	213	219	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	C	2	5	first strand
Strand 2	C	17	23	anti-parallel
Strand 3	C	69	74	anti-parallel
Strand 4	C	61	66	anti-parallel

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There are 6 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	8	11	first strand
Strand 2	C	101	105	parallel
Strand 3	C	84	89	anti-parallel
Strand 4	C	32	37	anti-parallel
Strand 5	C	44	48	anti-parallel
Strand 6	C	52	53	anti-parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	8	11	first strand
Strand 2	C	101	105	parallel
Strand 3	C	84	89	anti-parallel
Strand 4	C	96	97	anti-parallel

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There are 3 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	113	117	first strand
Strand 2	C	128	138	anti-parallel
Strand 3	C	172	181	anti-parallel

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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	C	144	148	first strand
Strand 2	C	192	196	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: 5GMQ

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