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

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 8CPK entry

There are 2 chains in PDB entry 8CPK (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA -3	ALA 380
B	SER -2	LYS 272

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

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	107	113	Right-handed alpha
Helix 2	AA2	A	298	302	Right-handed 310
Helix 3	AA3	B	107	113	Right-handed alpha
Helix 4	AA4	B	298	302	Right-handed 310
Helix 5	AA5	C	107	113	Right-handed alpha
Helix 6	AA6	C	298	302	Right-handed 310
Helix 7	AA7	D	107	113	Right-handed alpha
Helix 8	AA8	D	298	302	Right-handed 310

There are 14 sheets in PDB entry 8CPK. 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,

There are 13 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	5	8	first strand
Strand 2	A	29	34	anti-parallel
Strand 3	A	55	60	parallel
Strand 4	A	77	81	parallel
Strand 5	A	98	102	parallel
Strand 6	A	141	145	parallel
Strand 7	A	161	166	parallel
Strand 8	A	205	210	parallel
Strand 9	A	239	242	parallel
Strand 10	A	266	270	parallel
Strand 11	A	292	295	parallel
Strand 12	A	332	335	parallel
Strand 13	A	360	363	parallel

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There are 25 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	11	17	first strand
Strand 2	A	20	25	anti-parallel
Strand 3	A	44	48	parallel
Strand 4	A	71	74	parallel
Strand 5	A	93	96	parallel
Strand 6	A	133	136	parallel
Strand 7	A	154	156	parallel
Strand 8	A	198	200	parallel
Strand 9	A	226	228	parallel
Strand 10	A	254	256	parallel
Strand 11	A	281	283	parallel
Strand 12	A	319	321	parallel
Strand 13	A	346	348	parallel
Strand 14	A	374	377	parallel
Strand 15	B	368	371	anti-parallel
Strand 16	B	340	343	parallel
Strand 17	B	311	314	parallel
Strand 18	B	273	276	parallel
Strand 19	B	248	251	parallel
Strand 20	B	219	223	parallel
Strand 21	B	192	195	parallel
Strand 22	B	148	151	parallel
Strand 23	B	127	130	parallel
Strand 24	B	86	88	parallel
Strand 25	B	66	68	parallel

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There are 25 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	66	68	first strand
Strand 2	A	86	88	parallel
Strand 3	A	127	130	parallel
Strand 4	A	148	151	parallel
Strand 5	A	192	195	parallel
Strand 6	A	219	223	parallel
Strand 7	A	248	251	parallel
Strand 8	A	273	276	parallel
Strand 9	A	311	314	parallel
Strand 10	A	340	343	parallel
Strand 11	A	368	371	parallel
Strand 12	B	374	377	anti-parallel
Strand 13	B	346	348	parallel
Strand 14	B	319	321	parallel
Strand 15	B	281	283	parallel
Strand 16	B	254	256	parallel
Strand 17	B	226	228	parallel
Strand 18	B	198	200	parallel
Strand 19	B	154	156	parallel
Strand 20	B	133	145	parallel
Strand 21	B	93	102	parallel
Strand 22	B	71	74	parallel
Strand 23	B	44	48	parallel
Strand 24	B	20	25	parallel
Strand 25	B	11	17	anti-parallel

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There are 13 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	5	8	first strand
Strand 2	B	29	34	anti-parallel
Strand 3	B	55	60	parallel
Strand 4	B	77	81	parallel
Strand 5	B	93	102	parallel
Strand 6	B	133	145	parallel
Strand 7	B	161	166	parallel
Strand 8	B	205	210	parallel
Strand 9	B	239	242	parallel
Strand 10	B	266	270	parallel
Strand 11	B	292	295	parallel
Strand 12	B	332	335	parallel
Strand 13	B	360	363	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	A	116	119	first strand
Strand 2	A	169	175	anti-parallel
Strand 3	A	178	185	anti-parallel

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There are 3 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	116	119	first strand
Strand 2	B	169	175	anti-parallel
Strand 3	B	178	185	anti-parallel

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There are 13 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	5	8	first strand
Strand 2	C	29	34	anti-parallel
Strand 3	C	55	60	parallel
Strand 4	C	77	81	parallel
Strand 5	C	98	102	parallel
Strand 6	C	141	145	parallel
Strand 7	C	161	166	parallel
Strand 8	C	205	210	parallel
Strand 9	C	239	242	parallel
Strand 10	C	266	270	parallel
Strand 11	C	292	295	parallel
Strand 12	C	332	335	parallel
Strand 13	C	360	363	parallel

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There are 14 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	11	13	first strand
Strand 2	C	20	25	anti-parallel
Strand 3	C	44	48	parallel
Strand 4	C	71	74	parallel
Strand 5	C	93	96	parallel
Strand 6	C	133	136	parallel
Strand 7	C	154	156	parallel
Strand 8	C	198	200	parallel
Strand 9	C	226	228	parallel
Strand 10	C	254	256	parallel
Strand 11	C	281	283	parallel
Strand 12	C	319	321	parallel
Strand 13	C	346	348	parallel
Strand 14	C	374	376	parallel

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There are 11 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	66	68	first strand
Strand 2	C	86	88	parallel
Strand 3	C	127	130	parallel
Strand 4	C	148	151	parallel
Strand 5	C	192	195	parallel
Strand 6	C	219	223	parallel
Strand 7	C	248	251	parallel
Strand 8	C	273	276	parallel
Strand 9	C	311	314	parallel
Strand 10	C	340	343	parallel
Strand 11	C	368	371	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	116	119	first strand
Strand 2	C	169	175	anti-parallel
Strand 3	C	178	185	anti-parallel

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There are 13 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	5	8	first strand
Strand 2	D	29	34	anti-parallel
Strand 3	D	55	60	parallel
Strand 4	D	77	81	parallel
Strand 5	D	98	102	parallel
Strand 6	D	141	145	parallel
Strand 7	D	161	166	parallel
Strand 8	D	205	210	parallel
Strand 9	D	239	242	parallel
Strand 10	D	266	270	parallel
Strand 11	D	292	295	parallel
Strand 12	D	332	335	parallel
Strand 13	D	360	363	parallel

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There are 14 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	11	13	first strand
Strand 2	D	20	25	anti-parallel
Strand 3	D	44	48	parallel
Strand 4	D	71	74	parallel
Strand 5	D	93	96	parallel
Strand 6	D	133	136	parallel
Strand 7	D	154	156	parallel
Strand 8	D	198	200	parallel
Strand 9	D	226	228	parallel
Strand 10	D	254	256	parallel
Strand 11	D	281	283	parallel
Strand 12	D	319	321	parallel
Strand 13	D	346	348	parallel
Strand 14	D	374	376	parallel

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There are 11 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	66	68	first strand
Strand 2	D	86	88	parallel
Strand 3	D	127	130	parallel
Strand 4	D	148	151	parallel
Strand 5	D	192	195	parallel
Strand 6	D	219	223	parallel
Strand 7	D	248	251	parallel
Strand 8	D	273	276	parallel
Strand 9	D	311	314	parallel
Strand 10	D	340	343	parallel
Strand 11	D	368	371	parallel

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There are 3 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	116	119	first strand
Strand 2	D	169	175	anti-parallel
Strand 3	D	178	185	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: 8CPK

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