Analysis of interatomic Contacts of Structural Units in PDB entry:
9QDN

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 9QDN entry

There are 8 chains in PDB entry 9QDN (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
H	GLY 7	ALA 214
D	THR 416	GLU 843
A	VAL 419	GLU 843
G	GLY 7	ALA 214
E	GLY 7	ALA 214
C	VAL 419	GLU 843
B	THR 416	GLU 843
F	GLY 7	ALA 214

There are 90 helices in PDB entry 9QDN. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	H	7	30	Right-handed alpha
Helix 2	AA2	H	92	105	Right-handed alpha
Helix 3	AA3	H	105	128	Right-handed alpha
Helix 4	AA4	H	132	160	Right-handed alpha
Helix 5	AA5	H	177	212	Right-handed alpha
Helix 6	AA6	D	439	443	Right-handed 310
Helix 7	AA7	D	445	457	Right-handed alpha
Helix 8	AA8	D	484	491	Right-handed alpha
Helix 9	AA9	D	506	509	Right-handed 310
Helix 10	AB1	D	537	541	Right-handed 310
Helix 11	AB2	D	544	568	Right-handed alpha
Helix 12	AB3	D	594	607	Right-handed alpha
Helix 13	AB4	D	617	648	Right-handed alpha
Helix 14	AB5	D	657	664	Right-handed alpha
Helix 15	AB6	D	676	684	Right-handed alpha
Helix 16	AB7	D	686	698	Right-handed alpha
Helix 17	AB8	D	707	718	Right-handed alpha
Helix 18	AB9	D	728	732	Right-handed alpha
Helix 19	AC1	D	733	737	Right-handed 310
Helix 20	AC2	D	764	779	Right-handed alpha
Helix 21	AC3	D	779	790	Right-handed alpha
Helix 22	AC4	D	814	843	Right-handed alpha
Helix 23	AC5	A	433	437	Right-handed 310
Helix 24	AC6	A	438	441	Right-handed 310
Helix 25	AC7	A	445	459	Right-handed alpha
Helix 26	AC8	A	485	491	Right-handed alpha
Helix 27	AC9	A	504	509	Right-handed alpha
Helix 28	AD1	A	537	541	Right-handed 310
Helix 29	AD2	A	544	568	Right-handed alpha
Helix 30	AD3	A	594	607	Right-handed alpha
Helix 31	AD4	A	617	652	Right-handed alpha
Helix 32	AD5	A	657	664	Right-handed alpha
Helix 33	AD6	A	675	684	Right-handed alpha
Helix 34	AD7	A	686	699	Right-handed alpha
Helix 35	AD8	A	707	717	Right-handed alpha
Helix 36	AD9	A	727	735	Right-handed alpha
Helix 37	AE1	A	764	778	Right-handed alpha
Helix 38	AE2	A	779	790	Right-handed alpha
Helix 39	AE3	A	810	813	Right-handed 310
Helix 40	AE4	A	814	843	Right-handed alpha
Helix 41	AE5	G	8	30	Right-handed alpha
Helix 42	AE6	G	94	105	Right-handed alpha
Helix 43	AE7	G	105	128	Right-handed alpha
Helix 44	AE8	G	132	161	Right-handed alpha
Helix 45	AE9	G	177	214	Right-handed alpha
Helix 46	AF1	E	8	30	Right-handed alpha
Helix 47	AF2	E	94	105	Right-handed alpha
Helix 48	AF3	E	105	128	Right-handed alpha
Helix 49	AF4	E	132	161	Right-handed alpha
Helix 50	AF5	E	177	214	Right-handed alpha
Helix 51	AF6	C	433	437	Right-handed 310
Helix 52	AF7	C	438	441	Right-handed 310
Helix 53	AF8	C	445	459	Right-handed alpha
Helix 54	AF9	C	485	491	Right-handed alpha
Helix 55	AG1	C	504	509	Right-handed alpha
Helix 56	AG2	C	537	541	Right-handed 310
Helix 57	AG3	C	544	568	Right-handed alpha
Helix 58	AG4	C	594	607	Right-handed alpha
Helix 59	AG5	C	617	652	Right-handed alpha
Helix 60	AG6	C	657	664	Right-handed alpha
Helix 61	AG7	C	675	684	Right-handed alpha
Helix 62	AG8	C	686	699	Right-handed alpha
Helix 63	AG9	C	707	717	Right-handed alpha
Helix 64	AH1	C	727	735	Right-handed alpha
Helix 65	AH2	C	764	778	Right-handed alpha
Helix 66	AH3	C	779	790	Right-handed alpha
Helix 67	AH4	C	810	813	Right-handed 310
Helix 68	AH5	C	814	843	Right-handed alpha
Helix 69	AH6	B	439	443	Right-handed 310
Helix 70	AH7	B	445	457	Right-handed alpha
Helix 71	AH8	B	484	491	Right-handed alpha
Helix 72	AH9	B	506	509	Right-handed 310
Helix 73	AI1	B	537	541	Right-handed 310
Helix 74	AI2	B	544	568	Right-handed alpha
Helix 75	AI3	B	594	607	Right-handed alpha
Helix 76	AI4	B	617	648	Right-handed alpha
Helix 77	AI5	B	657	664	Right-handed alpha
Helix 78	AI6	B	676	684	Right-handed alpha
Helix 79	AI7	B	686	698	Right-handed alpha
Helix 80	AI8	B	707	718	Right-handed alpha
Helix 81	AI9	B	728	732	Right-handed alpha
Helix 82	AJ1	B	733	737	Right-handed 310
Helix 83	AJ2	B	764	779	Right-handed alpha
Helix 84	AJ3	B	779	790	Right-handed alpha
Helix 85	AJ4	B	814	843	Right-handed alpha
Helix 86	AJ5	F	8	30	Right-handed alpha
Helix 87	AJ6	F	92	105	Right-handed alpha
Helix 88	AJ7	F	105	128	Right-handed alpha
Helix 89	AJ8	F	132	160	Right-handed alpha
Helix 90	AJ9	F	177	212	Right-handed alpha

There are 28 sheets in PDB entry 9QDN. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1,

There are 5 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	77	79	first strand
Strand 2	H	65	68	anti-parallel
Strand 3	H	57	61	anti-parallel
Strand 4	H	34	38	anti-parallel
Strand 5	H	175	176	anti-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	D	417	419	first strand
Strand 2	D	462	464	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	D	474	475	first strand
Strand 2	D	482	483	anti-parallel

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There are 3 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	497	502	first strand
Strand 2	D	752	759	anti-parallel
Strand 3	D	511	513	anti-parallel

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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	497	502	first strand
Strand 2	D	752	759	anti-parallel
Strand 3	D	518	520	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	668	670	first strand
Strand 2	D	722	727	parallel
Strand 3	D	522	527	anti-parallel
Strand 4	D	742	745	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	420	421	first strand
Strand 2	A	465	466	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	A	429	430	first strand
Strand 2	A	443	444	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	A	473	475	first strand
Strand 2	A	482	484	anti-parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	512	513	first strand
Strand 2	A	757	758	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	A	518	520	first strand
Strand 2	A	752	754	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	668	670	first strand
Strand 2	A	722	724	parallel
Strand 3	A	524	527	anti-parallel
Strand 4	A	742	745	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	34	35	first strand
Strand 2	G	175	176	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	37	38	first strand
Strand 2	G	57	61	anti-parallel
Strand 3	G	65	68	anti-parallel
Strand 4	G	77	79	anti-parallel

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There are 2 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	34	35	first strand
Strand 2	E	175	176	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	37	38	first strand
Strand 2	E	57	61	anti-parallel
Strand 3	E	65	68	anti-parallel
Strand 4	E	77	79	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	420	421	first strand
Strand 2	C	465	466	parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	429	430	first strand
Strand 2	C	443	444	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	473	475	first strand
Strand 2	C	482	484	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	512	513	first strand
Strand 2	C	757	758	anti-parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	518	520	first strand
Strand 2	C	752	754	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	668	670	first strand
Strand 2	C	722	724	parallel
Strand 3	C	524	527	anti-parallel
Strand 4	C	742	745	anti-parallel

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There are 2 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	417	419	first strand
Strand 2	B	462	464	parallel

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There are 2 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	474	475	first strand
Strand 2	B	482	483	anti-parallel

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There are 3 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	497	502	first strand
Strand 2	B	752	759	anti-parallel
Strand 3	B	511	513	anti-parallel

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There are 3 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	497	502	first strand
Strand 2	B	752	759	anti-parallel
Strand 3	B	518	520	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	668	670	first strand
Strand 2	B	722	727	parallel
Strand 3	B	522	527	anti-parallel
Strand 4	B	742	745	anti-parallel

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There are 5 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	77	79	first strand
Strand 2	F	65	68	anti-parallel
Strand 3	F	57	61	anti-parallel
Strand 4	F	34	38	anti-parallel
Strand 5	F	175	176	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: 9QDN

Analysis of interatomic Contacts of Structural Units in PDB entry:
9QDN