Analysis of interatomic Contacts of Structural Units in PDB entry:
8D4S

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 8D4S entry

There are 8 chains in PDB entry 8D4S (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ILE 16	ARG 238
C	ILE 16	ARG 238
E	ILE 16	ARG 238
G	ILE 16	ARG 238
F	SER 47	ASP 145
B	SER 47	ASP 145
H	SER 47	ASP 145
D	SER 47	ASP 130

There are 20 helices in PDB entry 8D4S. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	57	61	Right-handed 310
Helix 2	AA2	A	163	169	Right-handed alpha
Helix 3	AA3	A	229	238	Right-handed alpha
Helix 4	AA4	C	57	61	Right-handed 310
Helix 5	AA5	C	163	171	Right-handed alpha
Helix 6	AA6	C	229	238	Right-handed alpha
Helix 7	AA7	E	57	61	Right-handed 310
Helix 8	AA8	E	163	171	Right-handed alpha
Helix 9	AA9	E	229	237	Right-handed alpha
Helix 10	AB1	G	57	61	Right-handed 310
Helix 11	AB2	G	163	171	Right-handed alpha
Helix 12	AB3	G	229	238	Right-handed alpha
Helix 13	AB4	F	77	94	Right-handed alpha
Helix 14	AB5	F	96	103	Right-handed alpha
Helix 15	AB6	B	78	94	Right-handed alpha
Helix 16	AB7	B	96	103	Right-handed alpha
Helix 17	AB8	H	78	94	Right-handed alpha
Helix 18	AB9	H	96	103	Right-handed alpha
Helix 19	AC1	D	78	94	Right-handed alpha
Helix 20	AC2	D	96	103	Right-handed alpha

There are 16 sheets in PDB entry 8D4S. 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,

There are 7 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	20	21	first strand
Strand 2	A	155	160	anti-parallel
Strand 3	A	136	141	anti-parallel
Strand 4	A	199	202	anti-parallel
Strand 5	A	205	213	anti-parallel
Strand 6	A	221	225	anti-parallel
Strand 7	A	179	182	anti-parallel

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There are 6 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	20	21	first strand
Strand 2	A	155	160	anti-parallel
Strand 3	A	136	141	anti-parallel
Strand 4	A	199	202	anti-parallel
Strand 5	A	205	213	anti-parallel
Strand 6	B	61	62	anti-parallel

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There are 12 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	117	121	first strand
Strand 2	B	106	112	anti-parallel
Strand 3	B	137	144	anti-parallel
Strand 4	B	48	57	parallel
Strand 5	B	65	71	anti-parallel
Strand 6	A	40	50	anti-parallel
Strand 7	A	53	56	anti-parallel
Strand 8	A	105	109	anti-parallel
Strand 9	A	82	91	anti-parallel
Strand 10	A	65	69	anti-parallel
Strand 11	A	30	37	anti-parallel
Strand 12	A	40	50	anti-parallel

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There are 7 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	20	21	first strand
Strand 2	C	155	160	anti-parallel
Strand 3	C	136	141	anti-parallel
Strand 4	C	199	202	anti-parallel
Strand 5	C	205	213	anti-parallel
Strand 6	C	221	225	anti-parallel
Strand 7	C	179	182	anti-parallel

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There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	20	21	first strand
Strand 2	C	155	160	anti-parallel
Strand 3	C	136	141	anti-parallel
Strand 4	C	199	202	anti-parallel
Strand 5	C	205	213	anti-parallel
Strand 6	D	61	62	anti-parallel

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There are 12 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	117	121	first strand
Strand 2	D	105	112	anti-parallel
Strand 3	D	137	145	anti-parallel
Strand 4	D	48	57	parallel
Strand 5	D	65	71	anti-parallel
Strand 6	C	42	50	anti-parallel
Strand 7	C	53	56	anti-parallel
Strand 8	C	105	109	anti-parallel
Strand 9	C	82	91	anti-parallel
Strand 10	C	64	69	anti-parallel
Strand 11	C	30	36	anti-parallel
Strand 12	C	42	50	anti-parallel

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There are 7 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	20	21	first strand
Strand 2	E	155	160	anti-parallel
Strand 3	E	136	141	anti-parallel
Strand 4	E	199	202	anti-parallel
Strand 5	E	205	213	anti-parallel
Strand 6	E	221	225	anti-parallel
Strand 7	E	179	182	anti-parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	20	21	first strand
Strand 2	E	155	160	anti-parallel
Strand 3	E	136	141	anti-parallel
Strand 4	E	199	202	anti-parallel
Strand 5	E	205	213	anti-parallel
Strand 6	F	61	62	anti-parallel

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There are 12 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	117	121	first strand
Strand 2	F	105	112	anti-parallel
Strand 3	F	137	145	anti-parallel
Strand 4	F	48	57	parallel
Strand 5	F	65	71	anti-parallel
Strand 6	E	40	50	anti-parallel
Strand 7	E	53	56	anti-parallel
Strand 8	E	105	109	anti-parallel
Strand 9	E	82	91	anti-parallel
Strand 10	E	64	69	anti-parallel
Strand 11	E	30	37	anti-parallel
Strand 12	E	40	50	anti-parallel

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There are 7 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	20	21	first strand
Strand 2	G	155	160	anti-parallel
Strand 3	G	136	141	anti-parallel
Strand 4	G	199	202	anti-parallel
Strand 5	G	205	213	anti-parallel
Strand 6	G	221	225	anti-parallel
Strand 7	G	179	182	anti-parallel

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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	20	21	first strand
Strand 2	G	155	160	anti-parallel
Strand 3	G	136	141	anti-parallel
Strand 4	G	199	202	anti-parallel
Strand 5	G	205	213	anti-parallel
Strand 6	H	61	62	anti-parallel

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There are 12 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	117	121	first strand
Strand 2	H	106	112	anti-parallel
Strand 3	H	137	144	anti-parallel
Strand 4	H	48	57	parallel
Strand 5	H	65	71	anti-parallel
Strand 6	G	40	50	anti-parallel
Strand 7	G	53	56	anti-parallel
Strand 8	G	105	109	anti-parallel
Strand 9	G	82	91	anti-parallel
Strand 10	G	65	69	anti-parallel
Strand 11	G	30	37	anti-parallel
Strand 12	G	40	50	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	75	76	first strand
Strand 2	F	132	133	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	75	77	first strand
Strand 2	B	131	133	anti-parallel

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There are 2 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	75	77	first strand
Strand 2	H	131	133	anti-parallel

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There are 2 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	75	77	first strand
Strand 2	D	131	133	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: 8D4S

Analysis of interatomic Contacts of Structural Units in PDB entry:
8D4S