Analysis of interatomic Contacts of Structural Units in PDB entry:
5D8D

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 5D8D entry

There are 6 chains in PDB entry 5D8D (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 2	LEU 304
B	SER 2	LEU 304
C	SER 2	LEU 304
D	SER 2	GLU 305
E	SER 2	THR 307
F	SER 2	GLU 305

There are 70 helices in PDB entry 5D8D. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	2	8	Right-handed alpha
Helix 2	AA2	A	20	38	Right-handed alpha
Helix 3	AA3	A	51	58	Right-handed 310
Helix 4	AA4	A	73	82	Right-handed alpha
Helix 5	AA5	A	90	98	Right-handed alpha
Helix 6	AA6	A	99	109	Right-handed alpha
Helix 7	AA7	A	125	134	Right-handed alpha
Helix 8	AA8	A	158	170	Right-handed alpha
Helix 9	AA9	A	228	246	Right-handed alpha
Helix 10	AB1	A	279	287	Right-handed alpha
Helix 11	AB2	A	291	302	Right-handed alpha
Helix 12	AB3	B	20	38	Right-handed alpha
Helix 13	AB4	B	53	58	Right-handed 310
Helix 14	AB5	B	73	82	Right-handed alpha
Helix 15	AB6	B	90	98	Right-handed alpha
Helix 16	AB7	B	99	109	Right-handed alpha
Helix 17	AB8	B	125	134	Right-handed alpha
Helix 18	AB9	B	155	157	Right-handed 310
Helix 19	AC1	B	158	168	Right-handed alpha
Helix 20	AC2	B	228	246	Right-handed alpha
Helix 21	AC3	B	279	287	Right-handed alpha
Helix 22	AC4	B	291	301	Right-handed alpha
Helix 23	AC5	B	302	304	Right-handed 310
Helix 24	AC6	C	3	8	Right-handed alpha
Helix 25	AC7	C	20	38	Right-handed alpha
Helix 26	AC8	C	51	58	Right-handed 310
Helix 27	AC9	C	73	82	Right-handed alpha
Helix 28	AD1	C	90	98	Right-handed alpha
Helix 29	AD2	C	99	110	Right-handed alpha
Helix 30	AD3	C	125	134	Right-handed alpha
Helix 31	AD4	C	161	170	Right-handed alpha
Helix 32	AD5	C	228	246	Right-handed alpha
Helix 33	AD6	C	279	287	Right-handed alpha
Helix 34	AD7	C	291	302	Right-handed alpha
Helix 35	AD8	D	4	7	Right-handed 310
Helix 36	AD9	D	20	38	Right-handed alpha
Helix 37	AE1	D	51	58	Right-handed 310
Helix 38	AE2	D	73	82	Right-handed alpha
Helix 39	AE3	D	90	98	Right-handed alpha
Helix 40	AE4	D	99	110	Right-handed alpha
Helix 41	AE5	D	125	134	Right-handed alpha
Helix 42	AE6	D	157	168	Right-handed alpha
Helix 43	AE7	D	228	246	Right-handed alpha
Helix 44	AE8	D	279	287	Right-handed alpha
Helix 45	AE9	D	291	302	Right-handed alpha
Helix 46	AF1	E	3	8	Right-handed alpha
Helix 47	AF2	E	20	38	Right-handed alpha
Helix 48	AF3	E	51	58	Right-handed 310
Helix 49	AF4	E	73	82	Right-handed alpha
Helix 50	AF5	E	90	98	Right-handed alpha
Helix 51	AF6	E	99	109	Right-handed alpha
Helix 52	AF7	E	125	134	Right-handed alpha
Helix 53	AF8	E	158	163	Right-handed alpha
Helix 54	AF9	E	228	246	Right-handed alpha
Helix 55	AG1	E	279	287	Right-handed alpha
Helix 56	AG2	E	291	301	Right-handed alpha
Helix 57	AG3	E	302	304	Right-handed 310
Helix 58	AG4	F	3	8	Right-handed alpha
Helix 59	AG5	F	20	38	Right-handed alpha
Helix 60	AG6	F	51	58	Right-handed 310
Helix 61	AG7	F	73	82	Right-handed alpha
Helix 62	AG8	F	90	98	Right-handed alpha
Helix 63	AG9	F	99	109	Right-handed alpha
Helix 64	AH1	F	125	133	Right-handed alpha
Helix 65	AH2	F	157	161	Right-handed 310
Helix 66	AH3	F	163	168	Right-handed alpha
Helix 67	AH4	F	228	246	Right-handed alpha
Helix 68	AH5	F	279	287	Right-handed alpha
Helix 69	AH6	F	291	301	Right-handed alpha
Helix 70	AH7	F	302	304	Right-handed 310

There are 24 sheets in PDB entry 5D8D. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2, AC3, AC4, AC5, AC6,

There are 3 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	41	45	first strand
Strand 2	A	9	13	parallel
Strand 3	A	60	63	parallel

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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	117	120	first strand
Strand 2	A	173	177	anti-parallel
Strand 3	A	137	141	anti-parallel
Strand 4	A	151	153	anti-parallel

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There are 3 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	192	193	first strand
Strand 2	A	181	189	anti-parallel
Strand 3	A	197	198	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	192	193	first strand
Strand 2	A	181	189	anti-parallel
Strand 3	A	252	259	anti-parallel
Strand 4	A	264	270	anti-parallel

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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	41	45	first strand
Strand 2	B	9	13	parallel
Strand 3	B	60	63	parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	117	120	first strand
Strand 2	B	173	177	anti-parallel
Strand 3	B	137	141	anti-parallel
Strand 4	B	151	153	anti-parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	192	193	first strand
Strand 2	B	181	189	anti-parallel
Strand 3	B	197	199	anti-parallel

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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	192	193	first strand
Strand 2	B	181	189	anti-parallel
Strand 3	B	252	259	anti-parallel
Strand 4	B	264	270	anti-parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	41	45	first strand
Strand 2	C	9	13	parallel
Strand 3	C	60	63	parallel

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There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	117	119	first strand
Strand 2	C	173	177	anti-parallel
Strand 3	C	137	141	anti-parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	192	193	first strand
Strand 2	C	181	189	anti-parallel
Strand 3	C	197	198	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	192	193	first strand
Strand 2	C	181	189	anti-parallel
Strand 3	C	252	259	anti-parallel
Strand 4	C	264	270	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	41	45	first strand
Strand 2	D	9	13	parallel
Strand 3	D	60	63	parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	117	120	first strand
Strand 2	D	173	177	anti-parallel
Strand 3	D	137	141	anti-parallel
Strand 4	D	151	153	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	192	193	first strand
Strand 2	D	181	189	anti-parallel
Strand 3	D	197	199	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	192	193	first strand
Strand 2	D	181	189	anti-parallel
Strand 3	D	251	259	anti-parallel
Strand 4	D	264	270	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	41	45	first strand
Strand 2	E	9	13	parallel
Strand 3	E	60	63	parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	117	120	first strand
Strand 2	E	173	177	anti-parallel
Strand 3	E	137	141	anti-parallel
Strand 4	E	151	153	anti-parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	192	193	first strand
Strand 2	E	182	189	anti-parallel
Strand 3	E	197	198	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	192	193	first strand
Strand 2	E	182	189	anti-parallel
Strand 3	E	252	258	anti-parallel
Strand 4	E	264	270	anti-parallel

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There are 3 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	41	45	first strand
Strand 2	F	9	13	parallel
Strand 3	F	60	63	parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	117	119	first strand
Strand 2	F	174	176	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	192	193	first strand
Strand 2	F	184	189	anti-parallel
Strand 3	F	197	198	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	192	193	first strand
Strand 2	F	184	189	anti-parallel
Strand 3	F	252	259	anti-parallel
Strand 4	F	263	270	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: 5D8D

Analysis of interatomic Contacts of Structural Units in PDB entry:
5D8D