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

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 3SDM entry

Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 21 chains in PDB entry 3SDM (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 670	GLN 839
A	PHE 842	ARG 843
A	ASN 845	SER 1115
B	LEU 670	GLN 839
B	PHE 842	ARG 843
B	ASN 845	SER 1115
C	LEU 670	GLN 839
C	PHE 842	ARG 843
C	ASN 845	SER 1115
D	LEU 670	GLN 839
D	PHE 842	ARG 843
D	ASN 845	SER 1115
E	LEU 670	GLN 839
E	PHE 842	ARG 843
E	ASN 845	SER 1115
F	LEU 670	GLN 839
F	PHE 842	ARG 843
F	ASN 845	SER 1115
G	LEU 670	GLN 839
G	PHE 842	ARG 843
G	ASN 845	SER 1115

There are154 helices in PDB entry 3SDM. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	705	707	Right-handed 310
Helix 2	2	A	708	723	Right-handed alpha
Helix 3	3	A	752	757	Right-handed alpha
Helix 4	4	A	764	770	Right-handed alpha
Helix 5	5	A	773	791	Right-handed alpha
Helix 6	6	A	808	813	Right-handed alpha
Helix 7	7	A	850	856	Right-handed 310
Helix 8	8	A	857	862	Right-handed alpha
Helix 9	9	A	899	915	Right-handed alpha
Helix 10	10	A	923	934	Right-handed alpha
Helix 11	11	A	946	961	Right-handed alpha
Helix 12	12	A	970	976	Right-handed alpha
Helix 13	13	A	977	981	Right-handed 310
Helix 14	14	A	982	998	Right-handed alpha
Helix 15	15	A	1006	1020	Right-handed alpha
Helix 16	16	A	1025	1029	Right-handed 310
Helix 17	17	A	1030	1036	Right-handed alpha
Helix 18	18	A	1047	1061	Right-handed alpha
Helix 19	19	A	1066	1074	Right-handed alpha
Helix 20	20	A	1077	1086	Right-handed alpha
Helix 21	21	A	1090	1103	Right-handed alpha
Helix 22	22	A	1109	1114	Right-handed alpha
Helix 23	23	B	705	707	Right-handed 310
Helix 24	24	B	708	723	Right-handed alpha
Helix 25	25	B	752	757	Right-handed alpha
Helix 26	26	B	764	770	Right-handed alpha
Helix 27	27	B	773	791	Right-handed alpha
Helix 28	28	B	808	813	Right-handed alpha
Helix 29	29	B	850	856	Right-handed 310
Helix 30	30	B	857	862	Right-handed alpha
Helix 31	31	B	899	915	Right-handed alpha
Helix 32	32	B	923	934	Right-handed alpha
Helix 33	33	B	946	961	Right-handed alpha
Helix 34	34	B	970	976	Right-handed alpha
Helix 35	35	B	977	981	Right-handed 310
Helix 36	36	B	982	998	Right-handed alpha
Helix 37	37	B	1006	1020	Right-handed alpha
Helix 38	38	B	1025	1029	Right-handed 310
Helix 39	39	B	1030	1036	Right-handed alpha
Helix 40	40	B	1047	1061	Right-handed alpha
Helix 41	41	B	1066	1074	Right-handed alpha
Helix 42	42	B	1077	1086	Right-handed alpha
Helix 43	43	B	1090	1103	Right-handed alpha
Helix 44	44	B	1109	1114	Right-handed alpha
Helix 45	45	C	705	707	Right-handed 310
Helix 46	46	C	708	723	Right-handed alpha
Helix 47	47	C	752	757	Right-handed alpha
Helix 48	48	C	764	770	Right-handed alpha
Helix 49	49	C	773	791	Right-handed alpha
Helix 50	50	C	808	813	Right-handed alpha
Helix 51	51	C	850	856	Right-handed 310
Helix 52	52	C	857	862	Right-handed alpha
Helix 53	53	C	899	915	Right-handed alpha
Helix 54	54	C	923	934	Right-handed alpha
Helix 55	55	C	946	961	Right-handed alpha
Helix 56	56	C	970	976	Right-handed alpha
Helix 57	57	C	977	981	Right-handed 310
Helix 58	58	C	982	998	Right-handed alpha
Helix 59	59	C	1006	1020	Right-handed alpha
Helix 60	60	C	1025	1029	Right-handed 310
Helix 61	61	C	1030	1036	Right-handed alpha
Helix 62	62	C	1047	1061	Right-handed alpha
Helix 63	63	C	1066	1074	Right-handed alpha
Helix 64	64	C	1077	1086	Right-handed alpha
Helix 65	65	C	1090	1103	Right-handed alpha
Helix 66	66	C	1109	1114	Right-handed alpha
Helix 67	67	D	705	707	Right-handed 310
Helix 68	68	D	708	723	Right-handed alpha
Helix 69	69	D	752	757	Right-handed alpha
Helix 70	70	D	764	770	Right-handed alpha
Helix 71	71	D	773	791	Right-handed alpha
Helix 72	72	D	808	813	Right-handed alpha
Helix 73	73	D	850	856	Right-handed 310
Helix 74	74	D	857	862	Right-handed alpha
Helix 75	75	D	899	915	Right-handed alpha
Helix 76	76	D	923	934	Right-handed alpha
Helix 77	77	D	946	961	Right-handed alpha
Helix 78	78	D	970	976	Right-handed alpha
Helix 79	79	D	977	981	Right-handed 310
Helix 80	80	D	982	998	Right-handed alpha
Helix 81	81	D	1006	1020	Right-handed alpha
Helix 82	82	D	1025	1029	Right-handed 310
Helix 83	83	D	1030	1036	Right-handed alpha
Helix 84	84	D	1047	1061	Right-handed alpha
Helix 85	85	D	1066	1074	Right-handed alpha
Helix 86	86	D	1077	1086	Right-handed alpha
Helix 87	87	D	1090	1103	Right-handed alpha
Helix 88	88	D	1109	1114	Right-handed alpha
Helix 89	89	E	705	707	Right-handed 310
Helix 90	90	E	708	723	Right-handed alpha
Helix 91	91	E	752	757	Right-handed alpha
Helix 92	92	E	764	770	Right-handed alpha
Helix 93	93	E	773	791	Right-handed alpha
Helix 94	94	E	808	813	Right-handed alpha
Helix 95	95	E	850	856	Right-handed 310
Helix 96	96	E	857	862	Right-handed alpha
Helix 97	97	E	899	915	Right-handed alpha
Helix 98	98	E	923	934	Right-handed alpha
Helix 99	99	E	946	961	Right-handed alpha
Helix 100	100	E	970	976	Right-handed alpha
Helix 101	101	E	977	981	Right-handed 310
Helix 102	102	E	982	998	Right-handed alpha
Helix 103	103	E	1006	1020	Right-handed alpha
Helix 104	104	E	1025	1029	Right-handed 310
Helix 105	105	E	1030	1036	Right-handed alpha
Helix 106	106	E	1047	1061	Right-handed alpha
Helix 107	107	E	1066	1074	Right-handed alpha
Helix 108	108	E	1077	1086	Right-handed alpha
Helix 109	109	E	1090	1103	Right-handed alpha
Helix 110	110	E	1109	1114	Right-handed alpha
Helix 111	111	F	705	707	Right-handed 310
Helix 112	112	F	708	723	Right-handed alpha
Helix 113	113	F	752	757	Right-handed alpha
Helix 114	114	F	764	770	Right-handed alpha
Helix 115	115	F	773	791	Right-handed alpha
Helix 116	116	F	808	813	Right-handed alpha
Helix 117	117	F	850	856	Right-handed 310
Helix 118	118	F	857	862	Right-handed alpha
Helix 119	119	F	899	915	Right-handed alpha
Helix 120	120	F	923	934	Right-handed alpha
Helix 121	121	F	946	961	Right-handed alpha
Helix 122	122	F	970	976	Right-handed alpha
Helix 123	123	F	977	981	Right-handed 310
Helix 124	124	F	982	998	Right-handed alpha
Helix 125	125	F	1006	1020	Right-handed alpha
Helix 126	126	F	1025	1029	Right-handed 310
Helix 127	127	F	1030	1036	Right-handed alpha
Helix 128	128	F	1047	1061	Right-handed alpha
Helix 129	129	F	1066	1074	Right-handed alpha
Helix 130	130	F	1077	1086	Right-handed alpha
Helix 131	131	F	1090	1103	Right-handed alpha
Helix 132	132	F	1109	1114	Right-handed alpha
Helix 133	133	G	705	707	Right-handed 310
Helix 134	134	G	708	723	Right-handed alpha
Helix 135	135	G	752	757	Right-handed alpha
Helix 136	136	G	764	770	Right-handed alpha
Helix 137	137	G	773	791	Right-handed alpha
Helix 138	138	G	808	813	Right-handed alpha
Helix 139	139	G	850	856	Right-handed 310
Helix 140	140	G	857	862	Right-handed alpha
Helix 141	141	G	899	915	Right-handed alpha
Helix 142	142	G	923	934	Right-handed alpha
Helix 143	143	G	946	961	Right-handed alpha
Helix 144	144	G	970	976	Right-handed alpha
Helix 145	145	G	977	981	Right-handed 310
Helix 146	146	G	982	998	Right-handed alpha
Helix 147	147	G	1006	1020	Right-handed alpha
Helix 148	148	G	1025	1029	Right-handed 310
Helix 149	149	G	1030	1036	Right-handed alpha
Helix 150	150	G	1047	1061	Right-handed alpha
Helix 151	151	G	1066	1074	Right-handed alpha
Helix 152	152	G	1077	1086	Right-handed alpha
Helix 153	153	G	1090	1103	Right-handed alpha
Helix 154	154	G	1109	1114	Right-handed alpha

There are 21 sheets in PDB entry 3SDM. 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 5 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	679	683	first strand
Strand 2	A	687	693	anti-parallel
Strand 3	A	698	703	anti-parallel
Strand 4	A	742	745	anti-parallel
Strand 5	A	731	735	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	750	751	first strand
Strand 2	A	804	806	anti-parallel
Strand 3	A	823	825	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	793	794	first strand
Strand 2	A	833	834	anti-parallel

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There are 5 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	679	683	first strand
Strand 2	B	687	693	anti-parallel
Strand 3	B	698	703	anti-parallel
Strand 4	B	742	745	anti-parallel
Strand 5	B	731	735	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	750	751	first strand
Strand 2	B	804	806	anti-parallel
Strand 3	B	823	825	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	793	794	first strand
Strand 2	B	833	834	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	C	679	683	first strand
Strand 2	C	687	693	anti-parallel
Strand 3	C	698	703	anti-parallel
Strand 4	C	742	745	anti-parallel
Strand 5	C	731	735	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	750	751	first strand
Strand 2	C	804	806	anti-parallel
Strand 3	C	823	825	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	C	793	794	first strand
Strand 2	C	833	834	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	D	679	683	first strand
Strand 2	D	687	693	anti-parallel
Strand 3	D	698	703	anti-parallel
Strand 4	D	742	745	anti-parallel
Strand 5	D	731	735	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	D	750	751	first strand
Strand 2	D	804	806	anti-parallel
Strand 3	D	823	825	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	D	793	794	first strand
Strand 2	D	833	834	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	E	679	683	first strand
Strand 2	E	687	693	anti-parallel
Strand 3	E	698	703	anti-parallel
Strand 4	E	742	745	anti-parallel
Strand 5	E	731	735	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	E	750	751	first strand
Strand 2	E	804	806	anti-parallel
Strand 3	E	823	825	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	E	793	794	first strand
Strand 2	E	833	834	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	679	683	first strand
Strand 2	F	687	693	anti-parallel
Strand 3	F	698	703	anti-parallel
Strand 4	F	742	745	anti-parallel
Strand 5	F	731	735	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	F	750	751	first strand
Strand 2	F	804	806	anti-parallel
Strand 3	F	823	825	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	F	793	794	first strand
Strand 2	F	833	834	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	679	683	first strand
Strand 2	G	687	693	anti-parallel
Strand 3	G	698	703	anti-parallel
Strand 4	G	742	745	anti-parallel
Strand 5	G	731	735	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	G	750	751	first strand
Strand 2	G	804	806	anti-parallel
Strand 3	G	823	825	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	G	793	794	first strand
Strand 2	G	833	834	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: 3SDM

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