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

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 3KDO entry

There are 20 chains in PDB entry 3KDO (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	TYR 9	MET 188
A	ASP 190	VAL 444
B	THR 7	MET 188
B	ASP 190	VAL 444
C	PHE 5	MET 188
C	ASP 190	VAL 444
D	ILE 8	MET 188
D	ASP 190	VAL 444
E	PHE 5	MET 188
E	ASP 190	VAL 444
F	ILE 8	MET 188
F	ASP 190	VAL 444
G	ILE 8	MET 188
G	ASP 190	VAL 444
H	THR 7	MET 188
H	ASP 190	VAL 444
I	THR 7	MET 188
I	ASP 190	VAL 444
J	THR 7	MET 188
J	ASP 190	VAL 444

There are212 helices in PDB entry 3KDO. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	38	50	Right-handed alpha
Helix 2	2	A	63	71	Right-handed alpha
Helix 3	3	A	94	96	Right-handed 310
Helix 4	4	A	100	109	Right-handed alpha
Helix 5	5	A	110	115	Right-handed 310
Helix 6	6	A	129	134	Right-handed alpha
Helix 7	7	A	141	151	Right-handed alpha
Helix 8	8	A	169	183	Right-handed alpha
Helix 9	9	A	201	220	Right-handed alpha
Helix 10	10	A	233	248	Right-handed alpha
Helix 11	11	A	256	260	Right-handed alpha
Helix 12	12	A	260	275	Right-handed alpha
Helix 13	13	A	285	290	Right-handed alpha
Helix 14	14	A	297	309	Right-handed alpha
Helix 15	15	A	326	339	Right-handed alpha
Helix 16	16	A	375	383	Right-handed alpha
Helix 17	17	A	391	396	Right-handed alpha
Helix 18	18	A	400	418	Right-handed alpha
Helix 19	19	A	420	426	Right-handed alpha
Helix 20	20	A	428	439	Right-handed alpha
Helix 21	21	B	7	13	Right-handed 310
Helix 22	22	B	38	50	Right-handed alpha
Helix 23	23	B	63	71	Right-handed alpha
Helix 24	24	B	94	96	Right-handed 310
Helix 25	25	B	100	109	Right-handed alpha
Helix 26	26	B	110	115	Right-handed 310
Helix 27	27	B	129	134	Right-handed alpha
Helix 28	28	B	141	151	Right-handed alpha
Helix 29	29	B	169	183	Right-handed alpha
Helix 30	30	B	201	221	Right-handed alpha
Helix 31	31	B	233	248	Right-handed alpha
Helix 32	32	B	256	260	Right-handed alpha
Helix 33	33	B	260	274	Right-handed alpha
Helix 34	34	B	285	290	Right-handed alpha
Helix 35	35	B	297	309	Right-handed alpha
Helix 36	36	B	326	339	Right-handed alpha
Helix 37	37	B	371	374	Right-handed 310
Helix 38	38	B	375	383	Right-handed alpha
Helix 39	39	B	391	396	Right-handed alpha
Helix 40	40	B	400	418	Right-handed alpha
Helix 41	41	B	428	438	Right-handed alpha
Helix 42	42	C	8	13	Right-handed 310
Helix 43	43	C	38	50	Right-handed alpha
Helix 44	44	C	63	71	Right-handed alpha
Helix 45	45	C	94	96	Right-handed 310
Helix 46	46	C	100	109	Right-handed alpha
Helix 47	47	C	110	115	Right-handed 310
Helix 48	48	C	129	134	Right-handed alpha
Helix 49	49	C	141	151	Right-handed alpha
Helix 50	50	C	169	182	Right-handed alpha
Helix 51	51	C	201	221	Right-handed alpha
Helix 52	52	C	233	248	Right-handed alpha
Helix 53	53	C	256	260	Right-handed alpha
Helix 54	54	C	260	275	Right-handed alpha
Helix 55	55	C	285	290	Right-handed alpha
Helix 56	56	C	297	309	Right-handed alpha
Helix 57	57	C	326	339	Right-handed alpha
Helix 58	58	C	375	383	Right-handed alpha
Helix 59	59	C	391	396	Right-handed alpha
Helix 60	60	C	400	418	Right-handed alpha
Helix 61	61	C	420	426	Right-handed alpha
Helix 62	62	C	428	439	Right-handed alpha
Helix 63	63	D	9	13	Right-handed 310
Helix 64	64	D	38	50	Right-handed alpha
Helix 65	65	D	63	71	Right-handed alpha
Helix 66	66	D	94	96	Right-handed 310
Helix 67	67	D	100	109	Right-handed alpha
Helix 68	68	D	110	115	Right-handed 310
Helix 69	69	D	129	134	Right-handed alpha
Helix 70	70	D	141	150	Right-handed alpha
Helix 71	71	D	169	183	Right-handed alpha
Helix 72	72	D	201	221	Right-handed alpha
Helix 73	73	D	233	247	Right-handed alpha
Helix 74	74	D	256	260	Right-handed alpha
Helix 75	75	D	260	275	Right-handed alpha
Helix 76	76	D	285	290	Right-handed alpha
Helix 77	77	D	297	309	Right-handed alpha
Helix 78	78	D	326	339	Right-handed alpha
Helix 79	79	D	371	374	Right-handed 310
Helix 80	80	D	375	383	Right-handed alpha
Helix 81	81	D	391	396	Right-handed alpha
Helix 82	82	D	400	417	Right-handed alpha
Helix 83	83	D	420	425	Right-handed alpha
Helix 84	84	D	428	439	Right-handed alpha
Helix 85	85	E	6	11	Right-handed alpha
Helix 86	86	E	38	50	Right-handed alpha
Helix 87	87	E	63	71	Right-handed alpha
Helix 88	88	E	94	96	Right-handed 310
Helix 89	89	E	100	109	Right-handed alpha
Helix 90	90	E	110	115	Right-handed 310
Helix 91	91	E	129	134	Right-handed alpha
Helix 92	92	E	141	151	Right-handed alpha
Helix 93	93	E	169	183	Right-handed alpha
Helix 94	94	E	201	221	Right-handed alpha
Helix 95	95	E	233	247	Right-handed alpha
Helix 96	96	E	256	260	Right-handed alpha
Helix 97	97	E	263	275	Right-handed alpha
Helix 98	98	E	285	290	Right-handed alpha
Helix 99	99	E	297	309	Right-handed alpha
Helix 100	100	E	326	339	Right-handed alpha
Helix 101	101	E	371	374	Right-handed 310
Helix 102	102	E	375	383	Right-handed alpha
Helix 103	103	E	391	396	Right-handed alpha
Helix 104	104	E	400	418	Right-handed alpha
Helix 105	105	E	424	427	Right-handed 310
Helix 106	106	E	428	439	Right-handed alpha
Helix 107	107	F	8	13	Right-handed 310
Helix 108	108	F	38	50	Right-handed alpha
Helix 109	109	F	63	71	Right-handed alpha
Helix 110	110	F	94	96	Right-handed 310
Helix 111	111	F	100	109	Right-handed alpha
Helix 112	112	F	110	115	Right-handed 310
Helix 113	113	F	129	134	Right-handed alpha
Helix 114	114	F	141	151	Right-handed alpha
Helix 115	115	F	169	182	Right-handed alpha
Helix 116	116	F	201	221	Right-handed alpha
Helix 117	117	F	233	247	Right-handed alpha
Helix 118	118	F	256	260	Right-handed alpha
Helix 119	119	F	260	274	Right-handed alpha
Helix 120	120	F	285	290	Right-handed alpha
Helix 121	121	F	297	309	Right-handed alpha
Helix 122	122	F	326	339	Right-handed alpha
Helix 123	123	F	371	374	Right-handed 310
Helix 124	124	F	375	383	Right-handed alpha
Helix 125	125	F	391	396	Right-handed alpha
Helix 126	126	F	400	418	Right-handed alpha
Helix 127	127	F	420	426	Right-handed alpha
Helix 128	128	F	428	439	Right-handed alpha
Helix 129	129	G	8	13	Right-handed 310
Helix 130	130	G	38	50	Right-handed alpha
Helix 131	131	G	63	70	Right-handed alpha
Helix 132	132	G	94	96	Right-handed 310
Helix 133	133	G	100	109	Right-handed alpha
Helix 134	134	G	110	115	Right-handed 310
Helix 135	135	G	129	134	Right-handed alpha
Helix 136	136	G	141	151	Right-handed alpha
Helix 137	137	G	169	183	Right-handed alpha
Helix 138	138	G	201	221	Right-handed alpha
Helix 139	139	G	233	247	Right-handed alpha
Helix 140	140	G	256	260	Right-handed alpha
Helix 141	141	G	260	274	Right-handed alpha
Helix 142	142	G	285	290	Right-handed alpha
Helix 143	143	G	297	309	Right-handed alpha
Helix 144	144	G	326	339	Right-handed alpha
Helix 145	145	G	375	383	Right-handed alpha
Helix 146	146	G	391	396	Right-handed alpha
Helix 147	147	G	400	418	Right-handed alpha
Helix 148	148	G	420	425	Right-handed alpha
Helix 149	149	G	428	439	Right-handed alpha
Helix 150	150	H	9	13	Right-handed 310
Helix 151	151	H	38	50	Right-handed alpha
Helix 152	152	H	63	71	Right-handed alpha
Helix 153	153	H	94	96	Right-handed 310
Helix 154	154	H	100	109	Right-handed alpha
Helix 155	155	H	110	115	Right-handed 310
Helix 156	156	H	129	134	Right-handed alpha
Helix 157	157	H	141	151	Right-handed alpha
Helix 158	158	H	169	183	Right-handed alpha
Helix 159	159	H	201	221	Right-handed alpha
Helix 160	160	H	233	248	Right-handed alpha
Helix 161	161	H	256	260	Right-handed alpha
Helix 162	162	H	263	275	Right-handed alpha
Helix 163	163	H	285	290	Right-handed alpha
Helix 164	164	H	297	309	Right-handed alpha
Helix 165	165	H	326	339	Right-handed alpha
Helix 166	166	H	375	383	Right-handed alpha
Helix 167	167	H	391	396	Right-handed alpha
Helix 168	168	H	400	418	Right-handed alpha
Helix 169	169	H	420	426	Right-handed alpha
Helix 170	170	H	428	439	Right-handed alpha
Helix 171	171	I	8	12	Right-handed 310
Helix 172	172	I	38	50	Right-handed alpha
Helix 173	173	I	63	71	Right-handed alpha
Helix 174	174	I	94	96	Right-handed 310
Helix 175	175	I	100	109	Right-handed alpha
Helix 176	176	I	110	115	Right-handed 310
Helix 177	177	I	129	134	Right-handed alpha
Helix 178	178	I	141	151	Right-handed alpha
Helix 179	179	I	169	182	Right-handed alpha
Helix 180	180	I	201	221	Right-handed alpha
Helix 181	181	I	233	248	Right-handed alpha
Helix 182	182	I	256	260	Right-handed alpha
Helix 183	183	I	260	274	Right-handed alpha
Helix 184	184	I	285	290	Right-handed alpha
Helix 185	185	I	297	309	Right-handed alpha
Helix 186	186	I	326	339	Right-handed alpha
Helix 187	187	I	375	383	Right-handed alpha
Helix 188	188	I	391	396	Right-handed alpha
Helix 189	189	I	400	418	Right-handed alpha
Helix 190	190	I	420	425	Right-handed alpha
Helix 191	191	I	428	439	Right-handed alpha
Helix 192	192	J	8	13	Right-handed 310
Helix 193	193	J	38	50	Right-handed alpha
Helix 194	194	J	63	71	Right-handed alpha
Helix 195	195	J	94	96	Right-handed 310
Helix 196	196	J	100	109	Right-handed alpha
Helix 197	197	J	110	115	Right-handed 310
Helix 198	198	J	129	134	Right-handed alpha
Helix 199	199	J	141	151	Right-handed alpha
Helix 200	200	J	169	183	Right-handed alpha
Helix 201	201	J	201	221	Right-handed alpha
Helix 202	202	J	233	247	Right-handed alpha
Helix 203	203	J	256	260	Right-handed alpha
Helix 204	204	J	263	275	Right-handed alpha
Helix 205	205	J	285	290	Right-handed alpha
Helix 206	206	J	297	309	Right-handed alpha
Helix 207	207	J	326	339	Right-handed alpha
Helix 208	208	J	374	383	Right-handed alpha
Helix 209	209	J	391	396	Right-handed alpha
Helix 210	210	J	400	418	Right-handed alpha
Helix 211	211	J	420	425	Right-handed alpha
Helix 212	212	J	428	439	Right-handed alpha

There are 30 sheets in PDB entry 3KDO. 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, AB, AC, AD,

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	73	79	first strand
Strand 2	A	85	92	anti-parallel
Strand 3	A	24	33	anti-parallel
Strand 4	A	118	127	anti-parallel
Strand 5	A	295	296	parallel

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There are 9 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	157	160	first strand
Strand 2	A	187	189	parallel
Strand 3	A	225	229	parallel
Strand 4	A	251	255	parallel
Strand 5	A	277	281	parallel
Strand 6	A	312	314	parallel
Strand 7	A	363	367	parallel
Strand 8	A	387	389	parallel
Strand 9	A	157	160	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	341	342	first strand
Strand 2	A	354	355	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	73	79	first strand
Strand 2	B	85	92	anti-parallel
Strand 3	B	24	33	anti-parallel
Strand 4	B	118	127	anti-parallel
Strand 5	B	295	296	parallel

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There are 9 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	157	160	first strand
Strand 2	B	187	189	parallel
Strand 3	B	225	229	parallel
Strand 4	B	251	255	parallel
Strand 5	B	277	281	parallel
Strand 6	B	312	314	parallel
Strand 7	B	363	367	parallel
Strand 8	B	387	389	parallel
Strand 9	B	157	160	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	354	355	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	73	79	first strand
Strand 2	C	85	92	anti-parallel
Strand 3	C	24	33	anti-parallel
Strand 4	C	118	127	anti-parallel
Strand 5	C	295	296	parallel

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There are 9 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	157	160	first strand
Strand 2	C	187	189	parallel
Strand 3	C	225	229	parallel
Strand 4	C	251	255	parallel
Strand 5	C	277	281	parallel
Strand 6	C	312	314	parallel
Strand 7	C	363	367	parallel
Strand 8	C	387	389	parallel
Strand 9	C	157	160	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	341	342	first strand
Strand 2	C	354	355	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	73	79	first strand
Strand 2	D	85	92	anti-parallel
Strand 3	D	24	33	anti-parallel
Strand 4	D	118	127	anti-parallel
Strand 5	D	295	296	parallel

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There are 9 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	157	160	first strand
Strand 2	D	187	189	parallel
Strand 3	D	225	229	parallel
Strand 4	D	251	255	parallel
Strand 5	D	277	281	parallel
Strand 6	D	312	314	parallel
Strand 7	D	363	367	parallel
Strand 8	D	387	389	parallel
Strand 9	D	157	160	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	341	342	first strand
Strand 2	D	354	355	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	73	79	first strand
Strand 2	E	85	92	anti-parallel
Strand 3	E	24	33	anti-parallel
Strand 4	E	118	127	anti-parallel
Strand 5	E	295	296	parallel

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There are 8 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	225	227	first strand
Strand 2	E	187	189	parallel
Strand 3	E	157	160	parallel
Strand 4	E	387	389	parallel
Strand 5	E	363	367	parallel
Strand 6	E	312	314	parallel
Strand 7	E	277	281	parallel
Strand 8	E	251	255	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	341	342	first strand
Strand 2	E	354	355	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	73	79	first strand
Strand 2	F	85	92	anti-parallel
Strand 3	F	24	33	anti-parallel
Strand 4	F	118	127	anti-parallel
Strand 5	F	295	296	parallel

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There are 9 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	157	160	first strand
Strand 2	F	187	189	parallel
Strand 3	F	225	229	parallel
Strand 4	F	251	255	parallel
Strand 5	F	277	281	parallel
Strand 6	F	312	314	parallel
Strand 7	F	363	367	parallel
Strand 8	F	387	389	parallel
Strand 9	F	157	160	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	341	342	first strand
Strand 2	F	354	355	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	73	79	first strand
Strand 2	G	85	92	anti-parallel
Strand 3	G	24	33	anti-parallel
Strand 4	G	118	127	anti-parallel
Strand 5	G	295	296	parallel

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There are 9 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	157	160	first strand
Strand 2	G	187	189	parallel
Strand 3	G	225	229	parallel
Strand 4	G	251	255	parallel
Strand 5	G	277	281	parallel
Strand 6	G	312	314	parallel
Strand 7	G	363	367	parallel
Strand 8	G	387	389	parallel
Strand 9	G	157	160	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	341	342	first strand
Strand 2	G	354	355	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	73	79	first strand
Strand 2	H	85	92	anti-parallel
Strand 3	H	24	33	anti-parallel
Strand 4	H	118	127	anti-parallel
Strand 5	H	295	296	parallel

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There are 9 strands in W sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	157	160	first strand
Strand 2	H	187	189	parallel
Strand 3	H	225	229	parallel
Strand 4	H	251	255	parallel
Strand 5	H	277	281	parallel
Strand 6	H	312	314	parallel
Strand 7	H	363	367	parallel
Strand 8	H	387	389	parallel
Strand 9	H	157	160	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	H	341	342	first strand
Strand 2	H	354	355	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	73	79	first strand
Strand 2	I	85	92	anti-parallel
Strand 3	I	24	33	anti-parallel
Strand 4	I	118	127	anti-parallel
Strand 5	I	295	296	parallel

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There are 9 strands in Z sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	157	160	first strand
Strand 2	I	187	189	parallel
Strand 3	I	225	229	parallel
Strand 4	I	251	255	parallel
Strand 5	I	277	281	parallel
Strand 6	I	312	314	parallel
Strand 7	I	363	367	parallel
Strand 8	I	387	389	parallel
Strand 9	I	157	160	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	I	341	342	first strand
Strand 2	I	354	355	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	73	79	first strand
Strand 2	J	85	92	anti-parallel
Strand 3	J	24	33	anti-parallel
Strand 4	J	118	127	anti-parallel
Strand 5	J	295	296	parallel

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There are 8 strands in AC sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	225	227	first strand
Strand 2	J	187	189	parallel
Strand 3	J	157	160	parallel
Strand 4	J	387	389	parallel
Strand 5	J	363	367	parallel
Strand 6	J	312	314	parallel
Strand 7	J	277	281	parallel
Strand 8	J	251	255	parallel

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There are 2 strands in AD 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	354	355	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: 3KDO

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