Analysis of interatomic Contacts of Structural Units in PDB entry:
1QDU

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 1QDU entry

There are 18 chains in PDB entry 1QDU (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 149	ASP 299
B	THR 318	PRO 401
T	GLU 4101	ASP 4103
C	LEU 149	ASP 299
D	THR 318	PRO 401
U	GLU 4201	ASP 4203
E	LEU 149	ASP 299
F	THR 318	PRO 401
V	GLU 4301	ASP 4303
G	LEU 149	ASP 299
H	THR 318	PRO 401
W	GLU 4401	ASP 4403
I	LEU 149	ASP 299
J	THR 318	PRO 401
X	GLU 4501	ASP 4503
K	LEU 149	ASP 299
L	THR 318	PRO 401
Y	GLU 4601	ASP 4603

There are 57 helices in PDB entry 1QDU. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	173	175	Right-handed alpha
Helix 2	2	A	175	175	Right-handed 310
Helix 3	3	A	181	195	Right-handed alpha
Helix 4	4	A	207	221	Right-handed alpha
Helix 5	5	A	222	227	Right-handed 310
Helix 6	6	A	258	263	Right-handed alpha
Helix 7	7	A	264	266	Right-handed 310
Helix 8	8	B	348	361	Right-handed alpha
Helix 9	9	B	365	379	Right-handed alpha
Helix 10	10	C	173	175	Right-handed alpha
Helix 11	11	C	175	175	Right-handed 310
Helix 12	12	C	181	196	Right-handed alpha
Helix 13	13	C	207	221	Right-handed alpha
Helix 14	14	C	258	263	Right-handed alpha
Helix 15	15	C	264	266	Right-handed 310
Helix 16	16	C	270	274	Right-handed 310
Helix 17	17	D	348	361	Right-handed alpha
Helix 18	18	D	362	363	Right-handed 310
Helix 19	19	D	365	379	Right-handed alpha
Helix 20	20	D	381	381	Right-handed 310
Helix 21	21	E	173	175	Right-handed alpha
Helix 22	22	E	181	195	Right-handed alpha
Helix 23	23	E	207	221	Right-handed alpha
Helix 24	24	E	222	227	Right-handed 310
Helix 25	25	E	258	263	Right-handed alpha
Helix 26	26	E	264	266	Right-handed 310
Helix 27	27	E	270	274	Right-handed 310
Helix 28	28	F	348	361	Right-handed alpha
Helix 29	29	F	365	381	Right-handed alpha
Helix 30	30	G	173	175	Right-handed alpha
Helix 31	31	G	175	175	Right-handed 310
Helix 32	32	G	181	196	Right-handed alpha
Helix 33	33	G	207	221	Right-handed alpha
Helix 34	34	G	258	263	Right-handed alpha
Helix 35	35	G	264	266	Right-handed 310
Helix 36	36	G	270	274	Right-handed 310
Helix 37	37	H	348	361	Right-handed alpha
Helix 38	38	H	365	379	Right-handed alpha
Helix 39	39	I	173	175	Right-handed alpha
Helix 40	40	I	175	175	Right-handed 310
Helix 41	41	I	181	195	Right-handed alpha
Helix 42	42	I	207	221	Right-handed alpha
Helix 43	43	I	222	227	Right-handed 310
Helix 44	44	I	258	263	Right-handed alpha
Helix 45	45	I	264	266	Right-handed 310
Helix 46	46	J	348	361	Right-handed alpha
Helix 47	47	J	365	379	Right-handed alpha
Helix 48	48	K	173	175	Right-handed alpha
Helix 49	49	K	175	175	Right-handed 310
Helix 50	50	K	181	196	Right-handed alpha
Helix 51	51	K	207	221	Right-handed alpha
Helix 52	52	K	258	263	Right-handed alpha
Helix 53	53	K	264	266	Right-handed 310
Helix 54	54	K	270	274	Right-handed 310
Helix 55	55	L	348	361	Right-handed alpha
Helix 56	56	L	365	379	Right-handed alpha
Helix 57	57	L	381	381	Right-handed 310

There are 27 sheets in PDB entry 1QDU. 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, Y, Z, AA,

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	199	204	first strand
Strand 2	A	164	169	parallel
Strand 3	A	230	235	parallel
Strand 4	A	278	283	parallel
Strand 5	B	327	331	parallel
Strand 6	B	388	392	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	238	239	first strand
Strand 2	A	242	244	anti-parallel
Strand 3	A	255	257	anti-parallel

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There are 2 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	287	289	first strand
Strand 2	B	336	337	parallel

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There are 2 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	294	296	first strand
Strand 2	D	319	321	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	B	320	322	first strand
Strand 2	C	291	295	anti-parallel
Strand 3	D	383	384	anti-parallel

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There are 2 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	341	342	first strand
Strand 2	B	346	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	199	204	first strand
Strand 2	C	164	169	parallel
Strand 3	C	230	235	parallel
Strand 4	C	278	283	parallel
Strand 5	D	327	331	parallel
Strand 6	D	388	392	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	238	239	first strand
Strand 2	C	242	244	anti-parallel
Strand 3	C	255	257	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	341	342	first strand
Strand 2	D	346	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	199	204	first strand
Strand 2	E	164	169	parallel
Strand 3	E	230	235	parallel
Strand 4	E	278	283	parallel
Strand 5	F	327	331	parallel
Strand 6	F	388	392	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	E	238	239	first strand
Strand 2	E	242	244	anti-parallel
Strand 3	E	255	257	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	E	287	289	first strand
Strand 2	F	336	337	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	294	296	first strand
Strand 2	H	319	321	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	F	320	322	first strand
Strand 2	G	291	295	anti-parallel
Strand 3	H	383	384	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	341	342	first strand
Strand 2	F	346	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	199	204	first strand
Strand 2	G	164	169	parallel
Strand 3	G	230	235	parallel
Strand 4	G	278	283	parallel
Strand 5	H	327	331	parallel
Strand 6	H	388	392	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	G	238	239	first strand
Strand 2	G	242	244	anti-parallel
Strand 3	G	255	257	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	341	342	first strand
Strand 2	H	346	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	199	204	first strand
Strand 2	I	164	169	parallel
Strand 3	I	230	235	parallel
Strand 4	I	278	283	parallel
Strand 5	J	327	331	parallel
Strand 6	J	388	392	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	238	239	first strand
Strand 2	I	242	244	anti-parallel
Strand 3	I	255	257	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	287	289	first strand
Strand 2	J	336	337	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	I	294	296	first strand
Strand 2	L	319	321	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	J	320	322	first strand
Strand 2	K	291	295	anti-parallel
Strand 3	L	383	384	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	J	341	342	first strand
Strand 2	J	346	347	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	199	204	first strand
Strand 2	K	164	169	parallel
Strand 3	K	230	235	parallel
Strand 4	K	278	283	parallel
Strand 5	L	327	331	parallel
Strand 6	L	388	392	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	238	239	first strand
Strand 2	K	242	244	anti-parallel
Strand 3	K	255	257	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	341	342	first strand
Strand 2	L	346	347	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: 1QDU

Analysis of interatomic Contacts of Structural Units in PDB entry:
1QDU