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

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 5GQD entry

There are 2 chains in PDB entry 5GQD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 1	THR 427
B	ALA 501	THR 927

There are 39 helices in PDB entry 5GQD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	4	11	Right-handed alpha
Helix 2	AA2	A	21	25	Right-handed 310
Helix 3	AA3	A	27	38	Right-handed alpha
Helix 4	AA4	A	48	53	Right-handed alpha
Helix 5	AA5	A	61	74	Right-handed alpha
Helix 6	AA6	A	90	95	Right-handed alpha
Helix 7	AA7	A	97	116	Right-handed alpha
Helix 8	AA8	A	141	146	Right-handed alpha
Helix 9	AA9	A	149	162	Right-handed alpha
Helix 10	AB1	A	179	196	Right-handed alpha
Helix 11	AB2	A	217	227	Right-handed alpha
Helix 12	AB3	A	243	256	Right-handed alpha
Helix 13	AB4	A	269	273	Right-handed 310
Helix 14	AB5	A	275	279	Right-handed 310
Helix 15	AB6	A	290	301	Right-handed alpha
Helix 16	AB7	A	317	321	Right-handed 310
Helix 17	AB8	A	336	340	Right-handed 310
Helix 18	AB9	A	376	379	Right-handed 310
Helix 19	AC1	A	402	404	Right-handed 310
Helix 20	AC2	A	419	422	Right-handed 310
Helix 21	AC3	B	504	511	Right-handed alpha
Helix 22	AC4	B	521	525	Right-handed 310
Helix 23	AC5	B	527	538	Right-handed alpha
Helix 24	AC6	B	548	553	Right-handed alpha
Helix 25	AC7	B	561	574	Right-handed alpha
Helix 26	AC8	B	590	595	Right-handed alpha
Helix 27	AC9	B	597	616	Right-handed alpha
Helix 28	AD1	B	643	648	Right-handed 310
Helix 29	AD2	B	649	662	Right-handed alpha
Helix 30	AD3	B	679	696	Right-handed alpha
Helix 31	AD4	B	717	727	Right-handed alpha
Helix 32	AD5	B	743	757	Right-handed alpha
Helix 33	AD6	B	769	773	Right-handed 310
Helix 34	AD7	B	775	779	Right-handed 310
Helix 35	AD8	B	790	801	Right-handed alpha
Helix 36	AD9	B	817	821	Right-handed 310
Helix 37	AE1	B	876	879	Right-handed 310
Helix 38	AE2	B	902	904	Right-handed 310
Helix 39	AE3	B	919	922	Right-handed 310

There are 12 sheets in PDB entry 5GQD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 10 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	207	208	first strand
Strand 2	A	231	239	parallel
Strand 3	A	260	265	parallel
Strand 4	A	15	20	parallel
Strand 5	A	40	43	parallel
Strand 6	A	77	84	parallel
Strand 7	A	122	127	parallel
Strand 8	A	166	171	parallel
Strand 9	A	201	204	parallel
Strand 10	A	231	239	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	305	308	first strand
Strand 2	A	424	427	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	314	316	first strand
Strand 2	A	329	331	anti-parallel

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There are 4 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	342	343	first strand
Strand 2	A	349	351	anti-parallel
Strand 3	A	355	359	anti-parallel
Strand 4	A	368	372	anti-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	381	383	first strand
Strand 2	A	389	391	anti-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	397	400	first strand
Strand 2	A	411	414	anti-parallel

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There are 10 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	707	708	first strand
Strand 2	B	731	739	parallel
Strand 3	B	760	765	parallel
Strand 4	B	515	520	parallel
Strand 5	B	540	543	parallel
Strand 6	B	577	584	parallel
Strand 7	B	622	627	parallel
Strand 8	B	666	671	parallel
Strand 9	B	701	704	parallel
Strand 10	B	731	739	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	807	808	first strand
Strand 2	B	924	925	anti-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	814	816	first strand
Strand 2	B	829	831	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	B	842	843	first strand
Strand 2	B	849	851	anti-parallel
Strand 3	B	855	859	anti-parallel
Strand 4	B	868	872	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	B	881	883	first strand
Strand 2	B	889	891	anti-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	897	900	first strand
Strand 2	B	911	914	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: 5GQD

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