Analysis of interatomic Contacts of Structural Units in PDB entry:
5JD3

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 5JD3 entry

There are 6 chains in PDB entry 5JD3 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 0	SER 217
B	GLY 0	SER 217
C	GLY 0	SER 217
D	GLY 0	SER 217
E	GLY 0	SER 217
F	GLY 0	ARG 179

There are101 helices in PDB entry 5JD3. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	14	19	Right-handed alpha
Helix 2	AA2	A	37	50	Right-handed alpha
Helix 3	AA3	A	51	54	Right-handed 310
Helix 4	AA4	A	66	78	Right-handed alpha
Helix 5	AA5	A	79	82	Right-handed 310
Helix 6	AA6	A	91	101	Right-handed alpha
Helix 7	AA7	A	104	108	Right-handed 310
Helix 8	AA8	A	110	126	Right-handed alpha
Helix 9	AA9	A	127	129	Right-handed 310
Helix 10	AB1	A	146	167	Right-handed alpha
Helix 11	AB2	A	172	181	Right-handed alpha
Helix 12	AB3	A	185	189	Right-handed 310
Helix 13	AB4	A	197	212	Right-handed alpha
Helix 14	AB5	B	14	19	Right-handed alpha
Helix 15	AB6	B	37	50	Right-handed alpha
Helix 16	AB7	B	51	54	Right-handed 310
Helix 17	AB8	B	66	78	Right-handed alpha
Helix 18	AB9	B	79	82	Right-handed 310
Helix 19	AC1	B	91	101	Right-handed alpha
Helix 20	AC2	B	104	108	Right-handed 310
Helix 21	AC3	B	110	126	Right-handed alpha
Helix 22	AC4	B	146	167	Right-handed alpha
Helix 23	AC5	B	172	181	Right-handed alpha
Helix 24	AC6	B	185	190	Right-handed alpha
Helix 25	AC7	B	197	212	Right-handed alpha
Helix 26	AC8	C	14	19	Right-handed alpha
Helix 27	AC9	C	37	50	Right-handed alpha
Helix 28	AD1	C	66	73	Right-handed alpha
Helix 29	AD2	C	73	78	Right-handed alpha
Helix 30	AD3	C	79	82	Right-handed 310
Helix 31	AD4	C	91	101	Right-handed alpha
Helix 32	AD5	C	104	108	Right-handed 310
Helix 33	AD6	C	110	126	Right-handed alpha
Helix 34	AD7	C	127	129	Right-handed 310
Helix 35	AD8	C	146	167	Right-handed alpha
Helix 36	AD9	C	172	181	Right-handed alpha
Helix 37	AE1	C	185	189	Right-handed 310
Helix 38	AE2	C	197	212	Right-handed alpha
Helix 39	AE3	D	14	19	Right-handed alpha
Helix 40	AE4	D	37	50	Right-handed alpha
Helix 41	AE5	D	51	54	Right-handed 310
Helix 42	AE6	D	66	78	Right-handed alpha
Helix 43	AE7	D	79	82	Right-handed 310
Helix 44	AE8	D	91	101	Right-handed alpha
Helix 45	AE9	D	110	126	Right-handed alpha
Helix 46	AF1	D	146	166	Right-handed alpha
Helix 47	AF2	D	172	181	Right-handed alpha
Helix 48	AF3	D	185	189	Right-handed 310
Helix 49	AF4	D	197	212	Right-handed alpha
Helix 50	AF5	E	14	19	Right-handed alpha
Helix 51	AF6	E	37	50	Right-handed alpha
Helix 52	AF7	E	66	73	Right-handed alpha
Helix 53	AF8	E	73	78	Right-handed alpha
Helix 54	AF9	E	79	82	Right-handed 310
Helix 55	AG1	E	91	101	Right-handed alpha
Helix 56	AG2	E	110	126	Right-handed alpha
Helix 57	AG3	E	146	167	Right-handed alpha
Helix 58	AG4	E	172	181	Right-handed alpha
Helix 59	AG5	E	185	189	Right-handed 310
Helix 60	AG6	E	197	212	Right-handed alpha
Helix 61	AG7	F	14	19	Right-handed alpha
Helix 62	AG8	F	22	26	Right-handed 310
Helix 63	AG9	F	37	50	Right-handed alpha
Helix 64	AH1	F	51	54	Right-handed 310
Helix 65	AH2	F	66	73	Right-handed alpha
Helix 66	AH3	F	73	78	Right-handed alpha
Helix 67	AH4	F	79	82	Right-handed 310
Helix 68	AH5	F	91	101	Right-handed alpha
Helix 69	AH6	F	110	126	Right-handed alpha
Helix 70	AH7	F	127	129	Right-handed 310
Helix 71	AH8	F	146	167	Right-handed alpha
Helix 72	AH9	F	172	181	Right-handed alpha
Helix 73	AI1	F	185	189	Right-handed 310
Helix 74	AI2	F	197	212	Right-handed alpha
Helix 75	AI3	G	14	19	Right-handed alpha
Helix 76	AI4	G	22	26	Right-handed 310
Helix 77	AI5	G	37	50	Right-handed alpha
Helix 78	AI6	G	51	54	Right-handed 310
Helix 79	AI7	G	66	73	Right-handed alpha
Helix 80	AI8	G	73	78	Right-handed alpha
Helix 81	AI9	G	79	82	Right-handed 310
Helix 82	AJ1	G	91	101	Right-handed alpha
Helix 83	AJ2	G	104	108	Right-handed 310
Helix 84	AJ3	G	110	126	Right-handed alpha
Helix 85	AJ4	G	127	129	Right-handed 310
Helix 86	AJ5	G	146	167	Right-handed alpha
Helix 87	AJ6	G	172	181	Right-handed alpha
Helix 88	AJ7	G	185	189	Right-handed 310
Helix 89	AJ8	G	197	212	Right-handed alpha
Helix 90	AJ9	H	14	19	Right-handed alpha
Helix 91	AK1	H	22	26	Right-handed 310
Helix 92	AK2	H	37	50	Right-handed alpha
Helix 93	AK3	H	66	73	Right-handed alpha
Helix 94	AK4	H	73	78	Right-handed alpha
Helix 95	AK5	H	79	82	Right-handed 310
Helix 96	AK6	H	91	101	Right-handed alpha
Helix 97	AK7	H	110	126	Right-handed alpha
Helix 98	AK8	H	146	167	Right-handed alpha
Helix 99	AK9	H	172	181	Right-handed alpha
Helix 100	AL1	H	185	189	Right-handed 310
Helix 101	AL2	H	197	213	Right-handed alpha

There are 8 sheets in PDB entry 5JD3. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 5 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	56	61	first strand
Strand 2	A	8	13	parallel
Strand 3	A	85	89	parallel
Strand 4	A	131	135	parallel
Strand 5	A	169	171	parallel

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There are 5 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	56	61	first strand
Strand 2	B	8	13	parallel
Strand 3	B	85	89	parallel
Strand 4	B	131	135	parallel
Strand 5	B	169	171	parallel

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There are 5 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	56	61	first strand
Strand 2	C	8	13	parallel
Strand 3	C	85	89	parallel
Strand 4	C	131	135	parallel
Strand 5	C	169	171	parallel

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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	56	61	first strand
Strand 2	D	8	13	parallel
Strand 3	D	85	89	parallel
Strand 4	D	131	135	parallel
Strand 5	D	169	171	parallel

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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	56	61	first strand
Strand 2	E	8	13	parallel
Strand 3	E	85	89	parallel
Strand 4	E	131	135	parallel
Strand 5	E	169	171	parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	56	59	first strand
Strand 2	F	8	13	parallel
Strand 3	F	85	89	parallel
Strand 4	F	131	135	parallel
Strand 5	F	169	171	parallel

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There are 5 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	56	59	first strand
Strand 2	G	8	13	parallel
Strand 3	G	85	89	parallel
Strand 4	G	131	135	parallel
Strand 5	G	169	171	parallel

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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	56	59	first strand
Strand 2	H	8	13	parallel
Strand 3	H	85	89	parallel
Strand 4	H	132	135	parallel
Strand 5	H	169	171	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: 5JD3

Analysis of interatomic Contacts of Structural Units in PDB entry:
5JD3