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

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 3QTD entry

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

Chain ID	Initial residue	Terminal residue
A	VAL 8	ARG 449
B	VAL 8	GLY 448
C	VAL 8	ARG 449
D	VAL 8	GLU 21

There are 47 helices in PDB entry 3QTD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	9	11	Right-handed 310
Helix 2	2	A	12	30	Right-handed alpha
Helix 3	3	A	84	102	Right-handed alpha
Helix 4	4	A	112	116	Right-handed 310
Helix 5	5	A	132	151	Right-handed alpha
Helix 6	6	A	211	215	Right-handed 310
Helix 7	7	A	217	232	Right-handed alpha
Helix 8	8	A	248	263	Right-handed alpha
Helix 9	9	A	264	270	Right-handed alpha
Helix 10	10	A	329	337	Right-handed alpha
Helix 11	11	A	358	367	Right-handed alpha
Helix 12	12	A	414	420	Right-handed alpha
Helix 13	13	B	9	11	Right-handed 310
Helix 14	14	B	12	30	Right-handed alpha
Helix 15	15	B	84	102	Right-handed alpha
Helix 16	16	B	112	116	Right-handed 310
Helix 17	17	B	132	151	Right-handed alpha
Helix 18	18	B	211	215	Right-handed 310
Helix 19	19	B	217	232	Right-handed alpha
Helix 20	20	B	248	263	Right-handed alpha
Helix 21	21	B	264	270	Right-handed alpha
Helix 22	22	B	329	337	Right-handed alpha
Helix 23	23	B	358	367	Right-handed alpha
Helix 24	24	B	414	420	Right-handed alpha
Helix 25	25	C	9	11	Right-handed 310
Helix 26	26	C	12	30	Right-handed alpha
Helix 27	27	C	84	102	Right-handed alpha
Helix 28	28	C	112	116	Right-handed 310
Helix 29	29	C	132	151	Right-handed alpha
Helix 30	30	C	211	215	Right-handed 310
Helix 31	31	C	217	232	Right-handed alpha
Helix 32	32	C	248	263	Right-handed alpha
Helix 33	33	C	264	270	Right-handed alpha
Helix 34	34	C	329	337	Right-handed alpha
Helix 35	35	C	358	367	Right-handed alpha
Helix 36	36	C	414	420	Right-handed alpha
Helix 37	37	D	12	30	Right-handed alpha
Helix 38	38	D	84	102	Right-handed alpha
Helix 39	39	D	112	116	Right-handed 310
Helix 40	40	D	132	151	Right-handed alpha
Helix 41	41	D	211	215	Right-handed 310
Helix 42	42	D	217	232	Right-handed alpha
Helix 43	43	D	248	263	Right-handed alpha
Helix 44	44	D	264	270	Right-handed alpha
Helix 45	45	D	329	337	Right-handed alpha
Helix 46	46	D	358	367	Right-handed alpha
Helix 47	47	D	414	420	Right-handed alpha

There are 13 sheets in PDB entry 3QTD. 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,

There are 6 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	74	80	first strand
Strand 2	A	53	71	anti-parallel
Strand 3	A	34	50	anti-parallel
Strand 4	A	154	173	anti-parallel
Strand 5	A	178	196	anti-parallel
Strand 6	A	199	209	anti-parallel

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There are 7 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	421	424	first strand
Strand 2	A	439	447	anti-parallel
Strand 3	A	400	413	anti-parallel
Strand 4	A	386	397	anti-parallel
Strand 5	A	369	376	anti-parallel
Strand 6	A	241	247	parallel
Strand 7	A	439	447	anti-parallel

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There are 5 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	322	323	first strand
Strand 2	A	315	319	anti-parallel
Strand 3	A	290	292	anti-parallel
Strand 4	A	350	352	anti-parallel
Strand 5	A	434	435	parallel

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There are 11 strands in D sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	199	209	first strand
Strand 2	B	178	196	anti-parallel
Strand 3	B	154	173	anti-parallel
Strand 4	B	34	50	anti-parallel
Strand 5	B	53	71	anti-parallel
Strand 6	B	74	80	anti-parallel
Strand 7	C	53	71	parallel
Strand 8	C	34	50	anti-parallel
Strand 9	C	154	173	anti-parallel
Strand 10	C	178	196	anti-parallel
Strand 11	C	199	209	anti-parallel

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There are 11 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	199	209	first strand
Strand 2	B	178	196	anti-parallel
Strand 3	B	154	173	anti-parallel
Strand 4	B	34	50	anti-parallel
Strand 5	B	53	71	anti-parallel
Strand 6	C	74	80	parallel
Strand 7	C	53	71	anti-parallel
Strand 8	C	34	50	anti-parallel
Strand 9	C	154	173	anti-parallel
Strand 10	C	178	196	anti-parallel
Strand 11	C	199	209	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	B	380	381	first strand
Strand 2	B	386	397	anti-parallel
Strand 3	B	369	376	anti-parallel
Strand 4	B	241	247	parallel
Strand 5	B	439	447	anti-parallel
Strand 6	B	421	424	anti-parallel

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There are 5 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	380	381	first strand
Strand 2	B	386	397	anti-parallel
Strand 3	B	400	413	anti-parallel
Strand 4	B	439	447	anti-parallel
Strand 5	B	421	424	anti-parallel

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There are 5 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	322	323	first strand
Strand 2	B	315	319	anti-parallel
Strand 3	B	290	292	anti-parallel
Strand 4	B	350	352	anti-parallel
Strand 5	B	434	435	parallel

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There are 7 strands in I sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	421	424	first strand
Strand 2	C	439	446	anti-parallel
Strand 3	C	400	413	anti-parallel
Strand 4	C	386	397	anti-parallel
Strand 5	C	369	376	anti-parallel
Strand 6	C	241	247	parallel
Strand 7	C	439	446	anti-parallel

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There are 5 strands in J sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	322	323	first strand
Strand 2	C	315	319	anti-parallel
Strand 3	C	290	292	anti-parallel
Strand 4	C	350	352	anti-parallel
Strand 5	C	434	435	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	74	80	first strand
Strand 2	D	53	71	anti-parallel
Strand 3	D	34	50	anti-parallel
Strand 4	D	154	173	anti-parallel
Strand 5	D	178	196	anti-parallel
Strand 6	D	199	209	anti-parallel

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There are 7 strands in L sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	421	424	first strand
Strand 2	D	439	447	anti-parallel
Strand 3	D	400	413	anti-parallel
Strand 4	D	386	397	anti-parallel
Strand 5	D	369	376	anti-parallel
Strand 6	D	241	247	parallel
Strand 7	D	439	447	anti-parallel

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There are 5 strands in M sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	322	323	first strand
Strand 2	D	315	319	anti-parallel
Strand 3	D	290	292	anti-parallel
Strand 4	D	350	352	anti-parallel
Strand 5	D	434	435	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: 3QTD

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