Analysis of interatomic Contacts of Structural Units in PDB entry:
3JD0

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 3JD0 entry

There are 6 chains in PDB entry 3JD0 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASP 6	THR 501
B	ASP 6	THR 501
C	ASP 6	THR 501
D	ASP 6	THR 501
E	ASP 6	THR 501
F	ASP 6	THR 501

There are120 helices in PDB entry 3JD0. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	8	29	Right-handed alpha
Helix 2	2	A	37	52	Right-handed alpha
Helix 3	3	A	100	118	Right-handed alpha
Helix 4	4	A	132	136	Right-handed 310
Helix 5	5	A	137	155	Right-handed alpha
Helix 6	6	A	172	185	Right-handed alpha
Helix 7	7	A	191	197	Right-handed 310
Helix 8	8	A	202	206	Right-handed 310
Helix 9	9	A	210	228	Right-handed alpha
Helix 10	10	A	229	234	Right-handed alpha
Helix 11	11	A	255	266	Right-handed alpha
Helix 12	12	A	287	298	Right-handed alpha
Helix 13	13	A	313	317	Right-handed 310
Helix 14	14	A	353	364	Right-handed alpha
Helix 15	15	A	369	374	Right-handed alpha
Helix 16	16	A	375	388	Right-handed alpha
Helix 17	17	A	398	421	Right-handed alpha
Helix 18	18	A	433	442	Right-handed alpha
Helix 19	19	A	444	472	Right-handed alpha
Helix 20	20	A	476	495	Right-handed alpha
Helix 21	21	B	8	29	Right-handed alpha
Helix 22	22	B	37	52	Right-handed alpha
Helix 23	23	B	100	118	Right-handed alpha
Helix 24	24	B	132	136	Right-handed 310
Helix 25	25	B	137	155	Right-handed alpha
Helix 26	26	B	172	185	Right-handed alpha
Helix 27	27	B	191	197	Right-handed 310
Helix 28	28	B	202	206	Right-handed 310
Helix 29	29	B	210	228	Right-handed alpha
Helix 30	30	B	229	234	Right-handed alpha
Helix 31	31	B	255	266	Right-handed alpha
Helix 32	32	B	287	298	Right-handed alpha
Helix 33	33	B	313	317	Right-handed 310
Helix 34	34	B	353	364	Right-handed alpha
Helix 35	35	B	369	374	Right-handed alpha
Helix 36	36	B	375	388	Right-handed alpha
Helix 37	37	B	398	421	Right-handed alpha
Helix 38	38	B	433	442	Right-handed alpha
Helix 39	39	B	444	472	Right-handed alpha
Helix 40	40	B	476	495	Right-handed alpha
Helix 41	41	C	8	29	Right-handed alpha
Helix 42	42	C	37	52	Right-handed alpha
Helix 43	43	C	100	118	Right-handed alpha
Helix 44	44	C	132	136	Right-handed 310
Helix 45	45	C	137	155	Right-handed alpha
Helix 46	46	C	172	185	Right-handed alpha
Helix 47	47	C	191	197	Right-handed 310
Helix 48	48	C	202	206	Right-handed 310
Helix 49	49	C	210	228	Right-handed alpha
Helix 50	50	C	229	234	Right-handed alpha
Helix 51	51	C	255	266	Right-handed alpha
Helix 52	52	C	287	298	Right-handed alpha
Helix 53	53	C	313	317	Right-handed 310
Helix 54	54	C	353	364	Right-handed alpha
Helix 55	55	C	369	374	Right-handed alpha
Helix 56	56	C	375	388	Right-handed alpha
Helix 57	57	C	398	422	Right-handed alpha
Helix 58	58	C	433	442	Right-handed alpha
Helix 59	59	C	444	472	Right-handed alpha
Helix 60	60	C	476	495	Right-handed alpha
Helix 61	61	D	8	29	Right-handed alpha
Helix 62	62	D	37	52	Right-handed alpha
Helix 63	63	D	100	118	Right-handed alpha
Helix 64	64	D	132	136	Right-handed 310
Helix 65	65	D	137	155	Right-handed alpha
Helix 66	66	D	172	185	Right-handed alpha
Helix 67	67	D	191	197	Right-handed 310
Helix 68	68	D	202	206	Right-handed 310
Helix 69	69	D	210	228	Right-handed alpha
Helix 70	70	D	229	234	Right-handed alpha
Helix 71	71	D	255	266	Right-handed alpha
Helix 72	72	D	287	298	Right-handed alpha
Helix 73	73	D	313	317	Right-handed 310
Helix 74	74	D	353	364	Right-handed alpha
Helix 75	75	D	369	374	Right-handed alpha
Helix 76	76	D	375	388	Right-handed alpha
Helix 77	77	D	398	421	Right-handed alpha
Helix 78	78	D	433	442	Right-handed alpha
Helix 79	79	D	444	472	Right-handed alpha
Helix 80	80	D	476	495	Right-handed alpha
Helix 81	81	E	8	29	Right-handed alpha
Helix 82	82	E	37	52	Right-handed alpha
Helix 83	83	E	100	118	Right-handed alpha
Helix 84	84	E	132	136	Right-handed 310
Helix 85	85	E	137	155	Right-handed alpha
Helix 86	86	E	172	185	Right-handed alpha
Helix 87	87	E	191	197	Right-handed 310
Helix 88	88	E	202	206	Right-handed 310
Helix 89	89	E	210	228	Right-handed alpha
Helix 90	90	E	229	234	Right-handed alpha
Helix 91	91	E	255	266	Right-handed alpha
Helix 92	92	E	287	298	Right-handed alpha
Helix 93	93	E	313	317	Right-handed 310
Helix 94	94	E	353	364	Right-handed alpha
Helix 95	95	E	369	374	Right-handed alpha
Helix 96	96	E	375	388	Right-handed alpha
Helix 97	97	E	398	421	Right-handed alpha
Helix 98	98	E	433	442	Right-handed alpha
Helix 99	99	E	444	472	Right-handed alpha
Helix 100	100	E	476	495	Right-handed alpha
Helix 101	101	F	8	29	Right-handed alpha
Helix 102	102	F	37	52	Right-handed alpha
Helix 103	103	F	100	118	Right-handed alpha
Helix 104	104	F	132	136	Right-handed 310
Helix 105	105	F	137	155	Right-handed alpha
Helix 106	106	F	172	185	Right-handed alpha
Helix 107	107	F	191	197	Right-handed 310
Helix 108	108	F	202	206	Right-handed 310
Helix 109	109	F	210	228	Right-handed alpha
Helix 110	110	F	229	234	Right-handed alpha
Helix 111	111	F	255	266	Right-handed alpha
Helix 112	112	F	287	298	Right-handed alpha
Helix 113	113	F	313	317	Right-handed 310
Helix 114	114	F	353	364	Right-handed alpha
Helix 115	115	F	369	374	Right-handed alpha
Helix 116	116	F	375	388	Right-handed alpha
Helix 117	117	F	398	422	Right-handed alpha
Helix 118	118	F	433	442	Right-handed alpha
Helix 119	119	F	444	472	Right-handed alpha
Helix 120	120	F	476	495	Right-handed alpha

There are 24 sheets in PDB entry 3JD0. 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,

There are 8 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	93	96	first strand
Strand 2	A	123	130	parallel
Strand 3	A	77	81	anti-parallel
Strand 4	A	57	60	anti-parallel
Strand 5	E	57	60	anti-parallel
Strand 6	E	77	81	anti-parallel
Strand 7	E	123	130	anti-parallel
Strand 8	E	93	96	parallel

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There are 10 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	163	164	first strand
Strand 2	A	89	90	parallel
Strand 3	A	123	130	parallel
Strand 4	A	77	81	anti-parallel
Strand 5	A	57	60	anti-parallel
Strand 6	E	57	60	anti-parallel
Strand 7	E	77	81	anti-parallel
Strand 8	E	123	130	anti-parallel
Strand 9	E	89	90	parallel
Strand 10	E	163	164	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	63	66	first strand
Strand 2	A	72	75	anti-parallel

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There are 2 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	246	247	first strand
Strand 2	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	272	275	first strand
Strand 2	A	278	281	anti-parallel

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There are 8 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	93	96	first strand
Strand 2	B	123	130	parallel
Strand 3	B	77	81	anti-parallel
Strand 4	B	57	60	anti-parallel
Strand 5	D	57	60	anti-parallel
Strand 6	D	77	81	anti-parallel
Strand 7	D	123	130	anti-parallel
Strand 8	D	93	96	parallel

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There are 10 strands in G sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	163	164	first strand
Strand 2	B	89	90	parallel
Strand 3	B	123	130	parallel
Strand 4	B	77	81	anti-parallel
Strand 5	B	57	60	anti-parallel
Strand 6	D	57	60	anti-parallel
Strand 7	D	77	81	anti-parallel
Strand 8	D	123	130	anti-parallel
Strand 9	D	89	90	parallel
Strand 10	D	163	164	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	63	66	first strand
Strand 2	B	72	75	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	B	246	247	first strand
Strand 2	B	269	270	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	272	275	first strand
Strand 2	B	278	281	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	93	96	first strand
Strand 2	C	123	130	parallel
Strand 3	C	77	81	anti-parallel
Strand 4	C	57	60	anti-parallel
Strand 5	F	57	60	anti-parallel
Strand 6	F	77	81	anti-parallel
Strand 7	F	123	130	anti-parallel
Strand 8	F	93	96	parallel

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There are 10 strands in L sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	163	164	first strand
Strand 2	C	89	90	parallel
Strand 3	C	123	130	parallel
Strand 4	C	77	81	anti-parallel
Strand 5	C	57	60	anti-parallel
Strand 6	F	57	60	anti-parallel
Strand 7	F	77	81	anti-parallel
Strand 8	F	123	130	anti-parallel
Strand 9	F	89	90	parallel
Strand 10	F	163	164	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	63	66	first strand
Strand 2	C	72	75	anti-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	C	246	247	first strand
Strand 2	C	269	270	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	C	272	275	first strand
Strand 2	C	278	281	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	63	66	first strand
Strand 2	D	72	75	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	246	247	first strand
Strand 2	D	269	270	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	D	272	275	first strand
Strand 2	D	278	281	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	63	66	first strand
Strand 2	E	72	75	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	246	247	first strand
Strand 2	E	269	270	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	E	272	275	first strand
Strand 2	E	278	281	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	F	63	66	first strand
Strand 2	F	72	75	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	246	247	first strand
Strand 2	F	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	F	272	275	first strand
Strand 2	F	278	281	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: 3JD0

Analysis of interatomic Contacts of Structural Units in PDB entry:
3JD0