Analysis of interatomic Contacts of Structural Units in PDB entry:
2DY4

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 2DY4 entry

There are 16 chains in PDB entry 2DY4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
E	C 1	G 2
E	G 4	G 18
F	G 101	A 115
G	C 1	G 2
G	G 4	G 18
H	G 101	A 115
I	C 1	G 2
I	G 4	G 18
J	G 101	A 115
K	C 1	G 2
K	G 4	G 18
L	G 101	A 115
A	MSE 1	ASP 902
B	MSE 1	ASP 902
C	MSE 1	MSE 900
D	MSE 1	LEU 897

There are138 helices in PDB entry 2DY4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	64	79	Right-handed alpha
Helix 2	2	A	87	97	Right-handed alpha
Helix 3	3	A	104	108	Right-handed 310
Helix 4	4	A	163	169	Right-handed alpha
Helix 5	5	A	170	174	Right-handed 310
Helix 6	6	A	193	208	Right-handed alpha
Helix 7	7	A	221	234	Right-handed alpha
Helix 8	8	A	235	240	Right-handed alpha
Helix 9	9	A	241	243	Right-handed 310
Helix 10	10	A	272	281	Right-handed alpha
Helix 11	11	A	289	299	Right-handed alpha
Helix 12	12	A	308	310	Right-handed 310
Helix 13	13	A	311	316	Right-handed alpha
Helix 14	14	A	316	339	Right-handed alpha
Helix 15	15	A	339	352	Right-handed alpha
Helix 16	16	A	354	359	Right-handed 310
Helix 17	17	A	360	376	Right-handed alpha
Helix 18	18	A	414	424	Right-handed alpha
Helix 19	19	A	438	444	Right-handed alpha
Helix 20	20	A	469	493	Right-handed alpha
Helix 21	21	A	496	501	Right-handed alpha
Helix 22	22	A	523	528	Right-handed alpha
Helix 23	23	A	536	538	Right-handed 310
Helix 24	24	A	539	565	Right-handed alpha
Helix 25	25	A	566	572	Right-handed alpha
Helix 26	26	A	579	610	Right-handed alpha
Helix 27	27	A	629	635	Right-handed alpha
Helix 28	28	A	637	641	Right-handed 310
Helix 29	29	A	643	658	Right-handed alpha
Helix 30	30	A	658	674	Right-handed alpha
Helix 31	31	A	738	755	Right-handed alpha
Helix 32	32	A	756	770	Right-handed alpha
Helix 33	33	A	788	792	Right-handed 310
Helix 34	34	A	802	815	Right-handed alpha
Helix 35	35	A	858	866	Right-handed alpha
Helix 36	36	A	867	876	Right-handed alpha
Helix 37	37	A	876	888	Right-handed alpha
Helix 38	38	A	897	901	Right-handed 310
Helix 39	39	B	64	79	Right-handed alpha
Helix 40	40	B	87	97	Right-handed alpha
Helix 41	41	B	104	108	Right-handed 310
Helix 42	42	B	163	169	Right-handed alpha
Helix 43	43	B	182	184	Right-handed 310
Helix 44	44	B	193	208	Right-handed alpha
Helix 45	45	B	221	235	Right-handed alpha
Helix 46	46	B	235	241	Right-handed alpha
Helix 47	47	B	272	281	Right-handed alpha
Helix 48	48	B	289	298	Right-handed alpha
Helix 49	49	B	308	310	Right-handed 310
Helix 50	50	B	311	316	Right-handed alpha
Helix 51	51	B	316	339	Right-handed alpha
Helix 52	52	B	339	352	Right-handed alpha
Helix 53	53	B	354	359	Right-handed 310
Helix 54	54	B	360	375	Right-handed alpha
Helix 55	55	B	414	424	Right-handed alpha
Helix 56	56	B	426	428	Right-handed 310
Helix 57	57	B	438	444	Right-handed alpha
Helix 58	58	B	469	495	Right-handed alpha
Helix 59	59	B	527	532	Right-handed alpha
Helix 60	60	B	538	542	Right-handed 310
Helix 61	61	B	543	548	Right-handed alpha
Helix 62	62	B	550	571	Right-handed alpha
Helix 63	63	B	579	610	Right-handed alpha
Helix 64	64	B	629	637	Right-handed alpha
Helix 65	65	B	638	641	Right-handed 310
Helix 66	66	B	643	658	Right-handed alpha
Helix 67	67	B	658	674	Right-handed alpha
Helix 68	68	B	738	755	Right-handed alpha
Helix 69	69	B	756	771	Right-handed alpha
Helix 70	70	B	772	774	Right-handed 310
Helix 71	71	B	775	780	Right-handed alpha
Helix 72	72	B	802	815	Right-handed alpha
Helix 73	73	B	855	866	Right-handed alpha
Helix 74	74	B	867	876	Right-handed alpha
Helix 75	75	B	876	888	Right-handed alpha
Helix 76	76	B	896	900	Right-handed 310
Helix 77	77	C	64	78	Right-handed alpha
Helix 78	78	C	87	97	Right-handed alpha
Helix 79	79	C	163	169	Right-handed alpha
Helix 80	80	C	170	175	Right-handed alpha
Helix 81	81	C	182	184	Right-handed 310
Helix 82	82	C	193	208	Right-handed alpha
Helix 83	83	C	221	234	Right-handed alpha
Helix 84	84	C	235	240	Right-handed alpha
Helix 85	85	C	241	243	Right-handed 310
Helix 86	86	C	272	281	Right-handed alpha
Helix 87	87	C	289	298	Right-handed alpha
Helix 88	88	C	311	316	Right-handed alpha
Helix 89	89	C	316	339	Right-handed alpha
Helix 90	90	C	339	352	Right-handed alpha
Helix 91	91	C	354	359	Right-handed 310
Helix 92	92	C	360	376	Right-handed alpha
Helix 93	93	C	414	423	Right-handed alpha
Helix 94	94	C	438	444	Right-handed alpha
Helix 95	95	C	469	505	Right-handed alpha
Helix 96	96	C	534	571	Right-handed alpha
Helix 97	97	C	579	610	Right-handed alpha
Helix 98	98	C	629	637	Right-handed alpha
Helix 99	99	C	638	641	Right-handed 310
Helix 100	100	C	643	674	Right-handed alpha
Helix 101	101	C	730	734	Right-handed 310
Helix 102	102	C	738	755	Right-handed alpha
Helix 103	103	C	756	771	Right-handed alpha
Helix 104	104	C	772	774	Right-handed 310
Helix 105	105	C	775	780	Right-handed 310
Helix 106	106	C	788	792	Right-handed 310
Helix 107	107	C	802	815	Right-handed alpha
Helix 108	108	C	855	866	Right-handed alpha
Helix 109	109	C	867	876	Right-handed alpha
Helix 110	110	C	876	888	Right-handed alpha
Helix 111	111	D	65	79	Right-handed alpha
Helix 112	112	D	87	97	Right-handed alpha
Helix 113	113	D	196	208	Right-handed alpha
Helix 114	114	D	221	232	Right-handed alpha
Helix 115	115	D	236	240	Right-handed 310
Helix 116	116	D	272	281	Right-handed alpha
Helix 117	117	D	289	298	Right-handed alpha
Helix 118	118	D	320	339	Right-handed alpha
Helix 119	119	D	339	352	Right-handed alpha
Helix 120	120	D	354	359	Right-handed 310
Helix 121	121	D	360	376	Right-handed alpha
Helix 122	122	D	414	424	Right-handed alpha
Helix 123	123	D	438	444	Right-handed alpha
Helix 124	124	D	469	485	Right-handed alpha
Helix 125	125	D	499	504	Right-handed alpha
Helix 126	126	D	539	544	Right-handed alpha
Helix 127	127	D	549	571	Right-handed alpha
Helix 128	128	D	579	610	Right-handed alpha
Helix 129	129	D	629	636	Right-handed alpha
Helix 130	130	D	637	641	Right-handed 310
Helix 131	131	D	643	658	Right-handed alpha
Helix 132	132	D	658	675	Right-handed alpha
Helix 133	133	D	738	754	Right-handed alpha
Helix 134	134	D	756	766	Right-handed alpha
Helix 135	135	D	802	816	Right-handed alpha
Helix 136	136	D	858	865	Right-handed alpha
Helix 137	137	D	867	876	Right-handed alpha
Helix 138	138	D	876	887	Right-handed alpha

There are 39 sheets in PDB entry 2DY4. 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, AE, AF, AG, AH, AI, AJ, AK, AL, AM,

There are 3 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	4	11	first strand
Strand 2	A	14	20	anti-parallel
Strand 3	A	26	31	anti-parallel

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There are 2 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	36	40	first strand
Strand 2	A	57	61	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	50	51	first strand
Strand 2	A	378	379	parallel

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There are 6 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	186	191	first strand
Strand 2	A	145	151	parallel
Strand 3	A	135	140	anti-parallel
Strand 4	A	110	116	anti-parallel
Strand 5	A	212	214	parallel
Strand 6	A	269	270	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	153	154	first strand
Strand 2	A	157	158	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	A	248	254	first strand
Strand 2	A	259	265	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	402	404	first strand
Strand 2	A	700	704	anti-parallel
Strand 3	A	707	715	anti-parallel
Strand 4	A	718	727	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	617	621	first strand
Strand 2	A	624	628	anti-parallel
Strand 3	A	407	412	anti-parallel
Strand 4	A	683	689	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	430	433	first strand
Strand 2	A	461	463	anti-parallel
Strand 3	A	455	456	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	781	784	first strand
Strand 2	A	829	834	anti-parallel
Strand 3	A	845	849	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	B	4	11	first strand
Strand 2	B	14	20	anti-parallel
Strand 3	B	26	31	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	36	40	first strand
Strand 2	B	56	61	anti-parallel
Strand 3	B	49	51	anti-parallel
Strand 4	B	378	379	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	186	191	first strand
Strand 2	B	145	151	parallel
Strand 3	B	133	140	anti-parallel
Strand 4	B	110	117	anti-parallel
Strand 5	B	212	214	parallel
Strand 6	B	269	270	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	153	154	first strand
Strand 2	B	157	158	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	B	248	252	first strand
Strand 2	B	261	265	anti-parallel

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There are 7 strands in P sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	402	404	first strand
Strand 2	B	700	704	anti-parallel
Strand 3	B	707	715	anti-parallel
Strand 4	B	683	689	anti-parallel
Strand 5	B	407	412	anti-parallel
Strand 6	B	624	628	anti-parallel
Strand 7	B	617	621	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	402	404	first strand
Strand 2	B	700	704	anti-parallel
Strand 3	B	707	715	anti-parallel
Strand 4	B	718	728	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	430	433	first strand
Strand 2	B	461	463	anti-parallel
Strand 3	B	455	457	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	781	784	first strand
Strand 2	B	829	834	anti-parallel
Strand 3	B	845	849	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	C	4	11	first strand
Strand 2	C	14	20	anti-parallel
Strand 3	C	26	31	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	C	36	40	first strand
Strand 2	C	57	61	anti-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	C	50	51	first strand
Strand 2	C	378	379	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	186	191	first strand
Strand 2	C	145	151	parallel
Strand 3	C	135	140	anti-parallel
Strand 4	C	110	116	anti-parallel
Strand 5	C	212	214	parallel
Strand 6	C	269	270	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	C	153	154	first strand
Strand 2	C	157	158	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	248	251	first strand
Strand 2	C	262	265	anti-parallel

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There are 7 strands in Z sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	402	403	first strand
Strand 2	C	700	704	anti-parallel
Strand 3	C	707	715	anti-parallel
Strand 4	C	683	689	anti-parallel
Strand 5	C	407	412	anti-parallel
Strand 6	C	624	628	anti-parallel
Strand 7	C	617	621	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	402	403	first strand
Strand 2	C	700	704	anti-parallel
Strand 3	C	707	715	anti-parallel
Strand 4	C	718	728	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	455	456	first strand
Strand 2	C	462	463	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	781	784	first strand
Strand 2	C	829	834	anti-parallel
Strand 3	C	845	849	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	4	11	first strand
Strand 2	D	14	20	anti-parallel
Strand 3	D	26	31	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	57	61	first strand
Strand 2	D	36	40	anti-parallel
Strand 3	D	82	83	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	50	51	first strand
Strand 2	D	378	379	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	112	113	first strand
Strand 2	D	214	215	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	146	148	first strand
Strand 2	D	186	188	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	249	250	first strand
Strand 2	D	263	264	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	617	620	first strand
Strand 2	D	624	628	anti-parallel
Strand 3	D	407	412	anti-parallel
Strand 4	D	683	689	anti-parallel
Strand 5	D	707	715	anti-parallel
Strand 6	D	700	704	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	617	620	first strand
Strand 2	D	624	628	anti-parallel
Strand 3	D	407	412	anti-parallel
Strand 4	D	683	689	anti-parallel
Strand 5	D	707	715	anti-parallel
Strand 6	D	718	727	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	430	433	first strand
Strand 2	D	461	463	anti-parallel
Strand 3	D	455	456	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	781	782	first strand
Strand 2	D	831	834	anti-parallel
Strand 3	D	845	846	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: 2DY4

Analysis of interatomic Contacts of Structural Units in PDB entry:
2DY4