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

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 9DKM entry

There are 3 chains in PDB entry 9DKM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 1433	GLU 4091
B	THR 159	LEU 250
C	VAL 139	ARG 494

There are106 helices in PDB entry 9DKM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	1433	1461	Right-handed alpha
Helix 2	AA2	A	1471	1494	Right-handed alpha
Helix 3	AA3	A	1511	1521	Right-handed alpha
Helix 4	AA4	A	1523	1534	Right-handed alpha
Helix 5	AA5	A	1535	1540	Right-handed 310
Helix 6	AA6	A	1541	1551	Right-handed alpha
Helix 7	AA7	A	1557	1567	Right-handed alpha
Helix 8	AA8	A	1603	1632	Right-handed alpha
Helix 9	AA9	A	1635	1641	Right-handed alpha
Helix 10	AB1	A	1644	1665	Right-handed alpha
Helix 11	AB2	A	1669	1688	Right-handed alpha
Helix 12	AB3	A	1691	1717	Right-handed alpha
Helix 13	AB4	A	1720	1731	Right-handed alpha
Helix 14	AB5	A	1772	1788	Right-handed alpha
Helix 15	AB6	A	1802	1813	Right-handed alpha
Helix 16	AB7	A	1827	1842	Right-handed alpha
Helix 17	AB8	A	1850	1853	Right-handed 310
Helix 18	AB9	A	1854	1875	Right-handed alpha
Helix 19	AC1	A	1909	1914	Right-handed alpha
Helix 20	AC2	A	1925	1938	Right-handed alpha
Helix 21	AC3	A	1942	1959	Right-handed alpha
Helix 22	AC4	A	1969	1981	Right-handed alpha
Helix 23	AC5	A	1982	1986	Right-handed 310
Helix 24	AC6	A	1990	2003	Right-handed alpha
Helix 25	AC7	A	2004	2006	Right-handed 310
Helix 26	AC8	A	2008	2022	Right-handed alpha
Helix 27	AC9	A	2031	2046	Right-handed alpha
Helix 28	AD1	A	2050	2065	Right-handed alpha
Helix 29	AD2	A	2079	2096	Right-handed alpha
Helix 30	AD3	A	2110	2115	Right-handed alpha
Helix 31	AD4	A	2129	2140	Right-handed alpha
Helix 32	AD5	A	2143	2148	Right-handed 310
Helix 33	AD6	A	2159	2164	Right-handed alpha
Helix 34	AD7	A	2166	2171	Right-handed alpha
Helix 35	AD8	A	2203	2208	Right-handed alpha
Helix 36	AD9	A	2221	2236	Right-handed alpha
Helix 37	AE1	A	2246	2257	Right-handed alpha
Helix 38	AE2	A	2258	2271	Right-handed alpha
Helix 39	AE3	A	2283	2299	Right-handed alpha
Helix 40	AE4	A	2300	2302	Right-handed 310
Helix 41	AE5	A	2306	2327	Right-handed alpha
Helix 42	AE6	A	2331	2346	Right-handed alpha
Helix 43	AE7	A	2381	2385	Right-handed 310
Helix 44	AE8	A	2394	2410	Right-handed alpha
Helix 45	AE9	A	2423	2434	Right-handed alpha
Helix 46	AF1	A	2450	2458	Right-handed alpha
Helix 47	AF2	A	2500	2512	Right-handed alpha
Helix 48	AF3	A	2547	2552	Right-handed alpha
Helix 49	AF4	A	2563	2580	Right-handed alpha
Helix 50	AF5	A	2582	2587	Right-handed 310
Helix 51	AF6	A	2588	2607	Right-handed alpha
Helix 52	AF7	A	2618	2635	Right-handed alpha
Helix 53	AF8	A	2640	2657	Right-handed alpha
Helix 54	AF9	A	2662	2681	Right-handed alpha
Helix 55	AG1	A	2708	2727	Right-handed alpha
Helix 56	AG2	A	2735	2750	Right-handed alpha
Helix 57	AG3	A	2765	2777	Right-handed alpha
Helix 58	AG4	A	2791	2808	Right-handed alpha
Helix 59	AG5	A	2824	2837	Right-handed alpha
Helix 60	AG6	A	2846	2864	Right-handed alpha
Helix 61	AG7	A	2869	2884	Right-handed alpha
Helix 62	AG8	A	2896	2904	Right-handed alpha
Helix 63	AG9	A	2905	2911	Right-handed alpha
Helix 64	AH1	A	2921	2934	Right-handed alpha
Helix 65	AH2	A	2949	2953	Right-handed 310
Helix 66	AH3	A	2960	2980	Right-handed alpha
Helix 67	AH4	A	2989	3034	Right-handed alpha
Helix 68	AH5	A	3290	3299	Right-handed alpha
Helix 69	AH6	A	3299	3319	Right-handed alpha
Helix 70	AH7	A	3319	3333	Right-handed alpha
Helix 71	AH8	A	3334	3337	Right-handed 310
Helix 72	AH9	A	3338	3356	Right-handed alpha
Helix 73	AI1	A	3365	3370	Right-handed alpha
Helix 74	AI2	A	3372	3383	Right-handed alpha
Helix 75	AI3	A	3387	3399	Right-handed alpha
Helix 76	AI4	A	3413	3423	Right-handed alpha
Helix 77	AI5	A	3435	3447	Right-handed alpha
Helix 78	AI6	A	3454	3458	Right-handed 310
Helix 79	AI7	A	3459	3461	Right-handed 310
Helix 80	AI8	A	3462	3468	Right-handed alpha
Helix 81	AI9	A	3506	3511	Right-handed alpha
Helix 82	AJ1	A	3521	3538	Right-handed alpha
Helix 83	AJ2	A	3538	3572	Right-handed alpha
Helix 84	AJ3	A	3583	3605	Right-handed alpha
Helix 85	AJ4	A	3607	3639	Right-handed alpha
Helix 86	AJ5	A	3645	3659	Right-handed alpha
Helix 87	AJ6	A	3670	3687	Right-handed alpha
Helix 88	AJ7	A	3691	3711	Right-handed alpha
Helix 89	AJ8	A	3712	3728	Right-handed alpha
Helix 90	AJ9	A	3742	3753	Right-handed alpha
Helix 91	AK1	A	3755	3767	Right-handed alpha
Helix 92	AK2	A	3773	3780	Right-handed alpha
Helix 93	AK3	A	3796	3807	Right-handed alpha
Helix 94	AK4	A	3818	3836	Right-handed alpha
Helix 95	AK5	A	3844	3846	Right-handed 310
Helix 96	AK6	A	3847	3861	Right-handed alpha
Helix 97	AK7	A	3885	3891	Right-handed alpha
Helix 98	AK8	A	3902	3913	Right-handed alpha
Helix 99	AK9	A	3923	3944	Right-handed alpha
Helix 100	AL1	A	3957	3975	Right-handed alpha
Helix 101	AL2	A	3981	3992	Right-handed alpha
Helix 102	AL3	A	4001	4015	Right-handed alpha
Helix 103	AL4	A	4037	4051	Right-handed alpha
Helix 104	AL5	A	4057	4062	Right-handed alpha
Helix 105	AL6	A	4066	4090	Right-handed alpha
Helix 106	AL7	C	362	369	Right-handed alpha

There are 26 sheets in PDB entry 9DKM. 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,

There are 3 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1569	1574	first strand
Strand 2	A	1578	1584	anti-parallel
Strand 3	A	1589	1597	anti-parallel

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There are 3 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1733	1734	first strand
Strand 2	A	1748	1751	anti-parallel
Strand 3	A	1754	1757	anti-parallel

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There are 5 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1817	1821	first strand
Strand 2	A	1844	1848	parallel
Strand 3	A	1893	1898	parallel
Strand 4	A	1791	1795	parallel
Strand 5	A	1916	1920	parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1878	1881	first strand
Strand 2	A	1884	1887	anti-parallel

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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	2099	2104	first strand
Strand 2	A	2149	2155	parallel
Strand 3	A	2190	2196	parallel
Strand 4	A	2069	2074	parallel
Strand 5	A	2211	2215	parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	2116	2118	first strand
Strand 2	A	2125	2127	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	2175	2177	first strand
Strand 2	A	2183	2185	anti-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	2358	2360	first strand
Strand 2	A	2367	2369	anti-parallel

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There are 5 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	2438	2444	first strand
Strand 2	A	2481	2487	parallel
Strand 3	A	2529	2535	parallel
Strand 4	A	2413	2417	parallel
Strand 5	A	2554	2558	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	2462	2465	first strand
Strand 2	A	2472	2475	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	2516	2517	first strand
Strand 2	A	2522	2523	anti-parallel

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There are 2 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	2696	2697	first strand
Strand 2	A	2705	2706	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	2780	2782	first strand
Strand 2	A	2813	2818	parallel
Strand 3	A	2885	2891	parallel
Strand 4	A	2755	2759	parallel
Strand 5	A	2912	2916	parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	3426	3430	first strand
Strand 2	A	3449	3453	parallel
Strand 3	A	3494	3497	parallel
Strand 4	A	3404	3408	parallel
Strand 5	A	3513	3517	parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	3471	3473	first strand
Strand 2	A	3476	3481	anti-parallel
Strand 3	A	3484	3488	anti-parallel

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There are 5 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	3813	3815	first strand
Strand 2	A	3839	3842	parallel
Strand 3	A	3873	3878	parallel
Strand 4	A	3785	3790	parallel
Strand 5	A	3893	3896	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	A	4020	4021	first strand
Strand 2	A	4029	4030	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	161	163	first strand
Strand 2	B	170	173	anti-parallel
Strand 3	B	179	182	anti-parallel
Strand 4	B	193	194	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	201	207	first strand
Strand 2	B	221	226	anti-parallel
Strand 3	B	231	237	anti-parallel
Strand 4	B	242	249	anti-parallel

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There are 4 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	150	153	first strand
Strand 2	C	488	492	anti-parallel
Strand 3	C	480	484	anti-parallel
Strand 4	C	461	465	anti-parallel

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There are 3 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	161	163	first strand
Strand 2	C	169	172	anti-parallel
Strand 3	C	180	183	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	201	208	first strand
Strand 2	C	220	226	anti-parallel
Strand 3	C	230	237	anti-parallel
Strand 4	C	242	250	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	256	263	first strand
Strand 2	C	268	274	anti-parallel
Strand 3	C	279	283	anti-parallel
Strand 4	C	289	293	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	300	306	first strand
Strand 2	C	309	314	anti-parallel
Strand 3	C	319	323	anti-parallel
Strand 4	C	328	331	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	340	345	first strand
Strand 2	C	372	377	anti-parallel
Strand 3	C	381	386	anti-parallel
Strand 4	C	408	414	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	420	426	first strand
Strand 2	C	429	434	anti-parallel
Strand 3	C	438	443	anti-parallel
Strand 4	C	453	454	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: 9DKM

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