Analysis of interatomic Contacts of Structural Units in PDB entry:
3QDE

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 3QDE entry

There are 2 chains in PDB entry 3QDE (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	GLY 811
B	MET 1	GLY 811

There are 48 helices in PDB entry 3QDE. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	156	163	Right-handed alpha
Helix 2	2	A	163	168	Right-handed alpha
Helix 3	3	A	209	214	Right-handed alpha
Helix 4	4	A	222	228	Right-handed alpha
Helix 5	5	A	268	271	Right-handed 310
Helix 6	6	A	281	291	Right-handed alpha
Helix 7	7	A	293	313	Right-handed alpha
Helix 8	8	A	321	330	Right-handed alpha
Helix 9	9	A	330	343	Right-handed alpha
Helix 10	10	A	359	368	Right-handed alpha
Helix 11	11	A	373	386	Right-handed alpha
Helix 12	12	A	415	432	Right-handed alpha
Helix 13	13	A	433	438	Right-handed 310
Helix 14	14	A	453	466	Right-handed alpha
Helix 15	15	A	512	532	Right-handed alpha
Helix 16	16	A	534	556	Right-handed alpha
Helix 17	17	A	585	594	Right-handed alpha
Helix 18	18	A	601	615	Right-handed alpha
Helix 19	19	A	634	639	Right-handed 310
Helix 20	20	A	652	665	Right-handed alpha
Helix 21	21	A	667	679	Right-handed alpha
Helix 22	22	A	680	685	Right-handed 310
Helix 23	23	A	686	691	Right-handed alpha
Helix 24	24	A	719	731	Right-handed alpha
Helix 25	25	B	156	161	Right-handed alpha
Helix 26	26	B	163	168	Right-handed alpha
Helix 27	27	B	209	213	Right-handed alpha
Helix 28	28	B	222	227	Right-handed alpha
Helix 29	29	B	268	271	Right-handed 310
Helix 30	30	B	281	291	Right-handed alpha
Helix 31	31	B	293	313	Right-handed alpha
Helix 32	32	B	321	330	Right-handed alpha
Helix 33	33	B	330	343	Right-handed alpha
Helix 34	34	B	359	368	Right-handed alpha
Helix 35	35	B	373	387	Right-handed alpha
Helix 36	36	B	415	432	Right-handed alpha
Helix 37	37	B	433	438	Right-handed 310
Helix 38	38	B	453	466	Right-handed alpha
Helix 39	39	B	512	532	Right-handed alpha
Helix 40	40	B	534	556	Right-handed alpha
Helix 41	41	B	585	594	Right-handed alpha
Helix 42	42	B	601	615	Right-handed alpha
Helix 43	43	B	634	639	Right-handed 310
Helix 44	44	B	652	665	Right-handed alpha
Helix 45	45	B	667	679	Right-handed alpha
Helix 46	46	B	679	684	Right-handed alpha
Helix 47	47	B	686	691	Right-handed alpha
Helix 48	48	B	719	731	Right-handed alpha

There are 24 sheets in PDB entry 3QDE. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X,

There are 10 strands in A sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	4	7	first strand
Strand 2	A	12	15	anti-parallel
Strand 3	A	94	99	anti-parallel
Strand 4	A	103	110	anti-parallel
Strand 5	A	113	120	anti-parallel
Strand 6	A	127	136	anti-parallel
Strand 7	A	255	266	anti-parallel
Strand 8	A	192	198	anti-parallel
Strand 9	A	179	182	anti-parallel
Strand 10	A	173	176	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	25	28	first strand
Strand 2	A	33	38	anti-parallel
Strand 3	A	43	47	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	54	56	first strand
Strand 2	A	150	155	anti-parallel
Strand 3	A	240	250	anti-parallel
Strand 4	A	142	147	anti-parallel
Strand 5	A	73	76	anti-parallel
Strand 6	A	79	81	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	54	56	first strand
Strand 2	A	150	155	anti-parallel
Strand 3	A	240	250	anti-parallel
Strand 4	A	204	208	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	273	275	first strand
Strand 2	A	278	279	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	315	318	first strand
Strand 2	A	754	761	anti-parallel
Strand 3	A	764	771	anti-parallel
Strand 4	A	803	810	parallel
Strand 5	A	780	785	anti-parallel
Strand 6	A	788	789	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	357	358	first strand
Strand 2	A	397	398	anti-parallel
Strand 3	A	405	406	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	440	443	first strand
Strand 2	A	446	452	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	510	511	first strand
Strand 2	A	565	566	anti-parallel
Strand 3	A	572	573	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	583	584	first strand
Strand 2	A	623	624	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	650	651	first strand
Strand 2	A	698	701	anti-parallel
Strand 3	A	712	715	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	735	738	first strand
Strand 2	A	741	744	anti-parallel

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There are 10 strands in M sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	4	7	first strand
Strand 2	B	12	15	anti-parallel
Strand 3	B	94	99	anti-parallel
Strand 4	B	103	110	anti-parallel
Strand 5	B	113	120	anti-parallel
Strand 6	B	127	136	anti-parallel
Strand 7	B	255	266	anti-parallel
Strand 8	B	192	198	anti-parallel
Strand 9	B	179	182	anti-parallel
Strand 10	B	173	176	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	25	28	first strand
Strand 2	B	33	38	anti-parallel
Strand 3	B	43	47	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	54	56	first strand
Strand 2	B	150	155	anti-parallel
Strand 3	B	240	250	anti-parallel
Strand 4	B	142	147	anti-parallel
Strand 5	B	73	76	anti-parallel
Strand 6	B	79	81	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	54	56	first strand
Strand 2	B	150	155	anti-parallel
Strand 3	B	240	250	anti-parallel
Strand 4	B	204	208	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	273	275	first strand
Strand 2	B	278	279	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	315	318	first strand
Strand 2	B	754	761	anti-parallel
Strand 3	B	764	771	anti-parallel
Strand 4	B	803	810	parallel
Strand 5	B	780	785	anti-parallel
Strand 6	B	788	790	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	357	358	first strand
Strand 2	B	397	398	anti-parallel
Strand 3	B	405	406	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	440	443	first strand
Strand 2	B	446	452	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	510	511	first strand
Strand 2	B	565	566	anti-parallel
Strand 3	B	572	573	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	583	584	first strand
Strand 2	B	623	624	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	650	651	first strand
Strand 2	B	698	701	anti-parallel
Strand 3	B	712	715	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	735	737	first strand
Strand 2	B	742	744	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: 3QDE

Analysis of interatomic Contacts of Structural Units in PDB entry:
3QDE