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

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 3QED entry

There are 4 chains in PDB entry 3QED (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 29	SER 325
B	ALA 21	SER 325
C	ASP 26	GLU 327
D	ALA 21	SER 325

There are 8 helices in PDB entry 3QED. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	93	95	Right-handed 310
Helix 2	2	A	153	157	Right-handed 310
Helix 3	3	B	93	95	Right-handed 310
Helix 4	4	B	153	157	Right-handed 310
Helix 5	5	C	93	95	Right-handed 310
Helix 6	6	C	153	157	Right-handed 310
Helix 7	7	D	93	95	Right-handed 310
Helix 8	8	D	153	157	Right-handed 310

There are 21 sheets in PDB entry 3QED. 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,

There are 4 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	40	47	first strand
Strand 2	A	50	58	anti-parallel
Strand 3	A	69	77	anti-parallel
Strand 4	A	83	91	anti-parallel

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There are 4 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	98	110	first strand
Strand 2	A	113	122	anti-parallel
Strand 3	A	129	136	anti-parallel
Strand 4	A	144	145	anti-parallel

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There are 4 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	170	173	first strand
Strand 2	A	179	183	anti-parallel
Strand 3	A	189	193	anti-parallel
Strand 4	A	200	206	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	213	222	first strand
Strand 2	A	225	232	anti-parallel
Strand 3	A	237	243	anti-parallel
Strand 4	A	251	257	anti-parallel

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There are 3 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	269	273	first strand
Strand 2	A	276	283	anti-parallel
Strand 3	A	296	302	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	39	47	first strand
Strand 2	B	50	58	anti-parallel
Strand 3	B	69	77	anti-parallel
Strand 4	B	84	91	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	98	110	first strand
Strand 2	B	113	122	anti-parallel
Strand 3	B	129	136	anti-parallel
Strand 4	B	144	145	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	170	173	first strand
Strand 2	B	179	183	anti-parallel
Strand 3	B	189	193	anti-parallel
Strand 4	B	200	206	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	213	222	first strand
Strand 2	B	225	232	anti-parallel
Strand 3	B	237	243	anti-parallel
Strand 4	B	251	257	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	269	273	first strand
Strand 2	B	276	283	anti-parallel
Strand 3	B	296	301	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	38	47	first strand
Strand 2	C	50	58	anti-parallel
Strand 3	C	69	77	anti-parallel
Strand 4	C	84	91	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	98	110	first strand
Strand 2	C	113	122	anti-parallel
Strand 3	C	129	136	anti-parallel
Strand 4	C	144	145	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	170	173	first strand
Strand 2	C	179	183	anti-parallel
Strand 3	C	189	193	anti-parallel
Strand 4	C	205	206	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	213	222	first strand
Strand 2	C	225	232	anti-parallel
Strand 3	C	237	243	anti-parallel
Strand 4	C	251	257	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	269	273	first strand
Strand 2	C	276	283	anti-parallel
Strand 3	C	296	302	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	D	38	47	first strand
Strand 2	D	50	58	anti-parallel
Strand 3	D	69	77	anti-parallel
Strand 4	D	83	91	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	98	100	first strand
Strand 2	D	114	122	anti-parallel
Strand 3	D	106	109	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	98	100	first strand
Strand 2	D	114	122	anti-parallel
Strand 3	D	129	136	anti-parallel
Strand 4	D	144	145	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	170	173	first strand
Strand 2	D	179	183	anti-parallel
Strand 3	D	189	193	anti-parallel
Strand 4	D	200	206	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	213	222	first strand
Strand 2	D	225	232	anti-parallel
Strand 3	D	237	243	anti-parallel
Strand 4	D	251	257	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	D	269	273	first strand
Strand 2	D	276	283	anti-parallel
Strand 3	D	296	302	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: 3QED

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