Analysis of interatomic Contacts of Structural Units in PDB entry:
5JD4

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 5JD4 entry

There are 5 chains in PDB entry 5JD4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLN -1	THR 315
B	GLN -1	THR 315
C	GLN -1	THR 315
D	GLN -1	THR 315
E	GLN -1	PRO 47

There are104 helices in PDB entry 5JD4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	3	20	Right-handed alpha
Helix 2	AA2	A	23	27	Right-handed 310
Helix 3	AA3	A	28	44	Right-handed alpha
Helix 4	AA4	A	96	98	Right-handed 310
Helix 5	AA5	A	99	111	Right-handed alpha
Helix 6	AA6	A	128	144	Right-handed alpha
Helix 7	AA7	A	145	148	Right-handed 310
Helix 8	AA8	A	161	178	Right-handed alpha
Helix 9	AA9	A	198	204	Right-handed alpha
Helix 10	AB1	A	211	223	Right-handed alpha
Helix 11	AB2	A	235	239	Right-handed 310
Helix 12	AB3	A	258	272	Right-handed alpha
Helix 13	AB4	A	295	314	Right-handed alpha
Helix 14	AB5	B	3	20	Right-handed alpha
Helix 15	AB6	B	23	27	Right-handed 310
Helix 16	AB7	B	28	44	Right-handed alpha
Helix 17	AB8	B	96	98	Right-handed 310
Helix 18	AB9	B	99	111	Right-handed alpha
Helix 19	AC1	B	128	144	Right-handed alpha
Helix 20	AC2	B	145	148	Right-handed 310
Helix 21	AC3	B	161	178	Right-handed alpha
Helix 22	AC4	B	198	204	Right-handed alpha
Helix 23	AC5	B	211	223	Right-handed alpha
Helix 24	AC6	B	235	239	Right-handed 310
Helix 25	AC7	B	258	272	Right-handed alpha
Helix 26	AC8	B	295	314	Right-handed alpha
Helix 27	AC9	C	3	20	Right-handed alpha
Helix 28	AD1	C	23	27	Right-handed 310
Helix 29	AD2	C	28	44	Right-handed alpha
Helix 30	AD3	C	96	98	Right-handed 310
Helix 31	AD4	C	99	111	Right-handed alpha
Helix 32	AD5	C	128	144	Right-handed alpha
Helix 33	AD6	C	145	148	Right-handed 310
Helix 34	AD7	C	161	177	Right-handed alpha
Helix 35	AD8	C	198	204	Right-handed alpha
Helix 36	AD9	C	211	223	Right-handed alpha
Helix 37	AE1	C	235	239	Right-handed 310
Helix 38	AE2	C	258	272	Right-handed alpha
Helix 39	AE3	C	295	313	Right-handed alpha
Helix 40	AE4	D	3	20	Right-handed alpha
Helix 41	AE5	D	23	27	Right-handed 310
Helix 42	AE6	D	28	44	Right-handed alpha
Helix 43	AE7	D	96	98	Right-handed 310
Helix 44	AE8	D	99	111	Right-handed alpha
Helix 45	AE9	D	128	144	Right-handed alpha
Helix 46	AF1	D	145	148	Right-handed 310
Helix 47	AF2	D	161	177	Right-handed alpha
Helix 48	AF3	D	198	204	Right-handed alpha
Helix 49	AF4	D	211	223	Right-handed alpha
Helix 50	AF5	D	235	239	Right-handed 310
Helix 51	AF6	D	258	272	Right-handed alpha
Helix 52	AF7	D	295	313	Right-handed alpha
Helix 53	AF8	E	3	19	Right-handed alpha
Helix 54	AF9	E	23	27	Right-handed 310
Helix 55	AG1	E	28	44	Right-handed alpha
Helix 56	AG2	E	96	98	Right-handed 310
Helix 57	AG3	E	99	111	Right-handed alpha
Helix 58	AG4	E	128	144	Right-handed alpha
Helix 59	AG5	E	145	148	Right-handed 310
Helix 60	AG6	E	161	178	Right-handed alpha
Helix 61	AG7	E	198	204	Right-handed alpha
Helix 62	AG8	E	211	223	Right-handed alpha
Helix 63	AG9	E	235	239	Right-handed 310
Helix 64	AH1	E	258	272	Right-handed alpha
Helix 65	AH2	E	295	314	Right-handed alpha
Helix 66	AH3	F	3	20	Right-handed alpha
Helix 67	AH4	F	23	27	Right-handed 310
Helix 68	AH5	F	28	44	Right-handed alpha
Helix 69	AH6	F	96	98	Right-handed 310
Helix 70	AH7	F	99	111	Right-handed alpha
Helix 71	AH8	F	128	144	Right-handed alpha
Helix 72	AH9	F	145	148	Right-handed 310
Helix 73	AI1	F	161	178	Right-handed alpha
Helix 74	AI2	F	198	204	Right-handed alpha
Helix 75	AI3	F	211	223	Right-handed alpha
Helix 76	AI4	F	235	239	Right-handed 310
Helix 77	AI5	F	258	272	Right-handed alpha
Helix 78	AI6	F	295	314	Right-handed alpha
Helix 79	AI7	G	3	20	Right-handed alpha
Helix 80	AI8	G	23	27	Right-handed 310
Helix 81	AI9	G	28	44	Right-handed alpha
Helix 82	AJ1	G	96	98	Right-handed 310
Helix 83	AJ2	G	99	111	Right-handed alpha
Helix 84	AJ3	G	128	144	Right-handed alpha
Helix 85	AJ4	G	145	148	Right-handed 310
Helix 86	AJ5	G	161	177	Right-handed alpha
Helix 87	AJ6	G	198	204	Right-handed alpha
Helix 88	AJ7	G	211	223	Right-handed alpha
Helix 89	AJ8	G	235	239	Right-handed 310
Helix 90	AJ9	G	258	272	Right-handed alpha
Helix 91	AK1	G	295	313	Right-handed alpha
Helix 92	AK2	H	3	20	Right-handed alpha
Helix 93	AK3	H	23	27	Right-handed 310
Helix 94	AK4	H	28	44	Right-handed alpha
Helix 95	AK5	H	96	98	Right-handed 310
Helix 96	AK6	H	99	111	Right-handed alpha
Helix 97	AK7	H	128	144	Right-handed alpha
Helix 98	AK8	H	145	148	Right-handed 310
Helix 99	AK9	H	161	178	Right-handed alpha
Helix 100	AL1	H	198	204	Right-handed alpha
Helix 101	AL2	H	211	223	Right-handed alpha
Helix 102	AL3	H	235	239	Right-handed 310
Helix 103	AL4	H	258	272	Right-handed alpha
Helix 104	AL5	H	295	314	Right-handed alpha

There are 3 sheets in PDB entry 5JD4. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3,

There are 16 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	52	59	first strand
Strand 2	A	64	71	anti-parallel
Strand 3	A	113	118	anti-parallel
Strand 4	A	80	86	parallel
Strand 5	A	150	160	parallel
Strand 6	A	184	188	parallel
Strand 7	A	248	253	parallel
Strand 8	A	276	281	parallel
Strand 9	H	276	281	anti-parallel
Strand 10	H	248	253	parallel
Strand 11	H	184	188	parallel
Strand 12	H	150	160	parallel
Strand 13	H	80	86	parallel
Strand 14	H	113	118	parallel
Strand 15	H	64	71	anti-parallel
Strand 16	H	52	59	anti-parallel

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There are 32 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	52	59	first strand
Strand 2	B	64	71	anti-parallel
Strand 3	B	113	118	anti-parallel
Strand 4	B	80	86	parallel
Strand 5	B	150	160	parallel
Strand 6	B	184	188	parallel
Strand 7	B	248	253	parallel
Strand 8	B	276	281	parallel
Strand 9	E	276	281	anti-parallel
Strand 10	E	248	253	parallel
Strand 11	E	184	188	parallel
Strand 12	E	150	160	parallel
Strand 13	E	80	86	parallel
Strand 14	E	113	118	parallel
Strand 15	E	64	71	anti-parallel
Strand 16	E	52	59	anti-parallel
Strand 17	G	52	59	anti-parallel
Strand 18	G	64	71	anti-parallel
Strand 19	G	113	118	anti-parallel
Strand 20	G	80	86	parallel
Strand 21	G	150	160	parallel
Strand 22	G	184	188	parallel
Strand 23	G	248	253	parallel
Strand 24	G	276	281	parallel
Strand 25	D	276	281	anti-parallel
Strand 26	D	248	253	parallel
Strand 27	D	184	188	parallel
Strand 28	D	150	160	parallel
Strand 29	D	80	86	parallel
Strand 30	D	113	118	parallel
Strand 31	D	64	71	anti-parallel
Strand 32	D	52	59	anti-parallel

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There are 16 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	52	59	first strand
Strand 2	C	64	71	anti-parallel
Strand 3	C	113	118	anti-parallel
Strand 4	C	80	86	parallel
Strand 5	C	150	160	parallel
Strand 6	C	184	188	parallel
Strand 7	C	248	253	parallel
Strand 8	C	276	281	parallel
Strand 9	F	276	281	anti-parallel
Strand 10	F	248	253	parallel
Strand 11	F	184	188	parallel
Strand 12	F	150	160	parallel
Strand 13	F	80	86	parallel
Strand 14	F	113	118	parallel
Strand 15	F	64	71	anti-parallel
Strand 16	F	52	59	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: 5JD4

Analysis of interatomic Contacts of Structural Units in PDB entry:
5JD4