Analysis of interatomic Contacts of Structural Units in PDB entry:
4PKI

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 4PKI entry

There are 3 chains in PDB entry 4PKI (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 5	GLU 72
A	GLY 74	PHE 375
G	MET 52	GLU 1307

There are 31 helices in PDB entry 4PKI. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	44	48	Right-handed 310
Helix 2	AA2	A	55	61	Right-handed alpha
Helix 3	AA3	A	78	92	Right-handed alpha
Helix 4	AA4	A	97	101	Right-handed 310
Helix 5	AA5	A	112	126	Right-handed alpha
Helix 6	AA6	A	137	145	Right-handed alpha
Helix 7	AA7	A	172	175	Right-handed 310
Helix 8	AA8	A	181	195	Right-handed alpha
Helix 9	AA9	A	205	217	Right-handed alpha
Helix 10	AB1	A	222	233	Right-handed alpha
Helix 11	AB2	A	252	263	Right-handed alpha
Helix 12	AB3	A	264	268	Right-handed 310
Helix 13	AB4	A	273	284	Right-handed alpha
Helix 14	AB5	A	285	288	Right-handed 310
Helix 15	AB6	A	289	295	Right-handed alpha
Helix 16	AB7	A	301	305	Right-handed 310
Helix 17	AB8	A	308	321	Right-handed alpha
Helix 18	AB9	A	337	349	Right-handed alpha
Helix 19	AC1	A	359	366	Right-handed alpha
Helix 20	AC2	A	369	374	Right-handed alpha
Helix 21	AC3	G	56	62	Right-handed alpha
Helix 22	AC4	G	82	86	Right-handed 310
Helix 23	AC5	G	121	139	Right-handed alpha
Helix 24	AC6	G	154	159	Right-handed alpha
Helix 25	AC7	G	1182	1192	Right-handed alpha
Helix 26	AC8	G	1209	1221	Right-handed alpha
Helix 27	AC9	G	1237	1249	Right-handed alpha
Helix 28	AD1	G	1265	1275	Right-handed alpha
Helix 29	AD2	G	1276	1279	Right-handed 310
Helix 30	AD3	G	1295	1307	Right-handed alpha
Helix 31	AD4	G	1321	1346	Right-handed alpha

There are 9 sheets in PDB entry 4PKI. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

There are 6 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	29	32	first strand
Strand 2	A	16	21	anti-parallel
Strand 3	A	8	12	anti-parallel
Strand 4	A	103	107	parallel
Strand 5	A	131	136	parallel
Strand 6	A	357	358	anti-parallel

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There are 3 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	53	54	first strand
Strand 2	A	35	38	anti-parallel
Strand 3	A	65	68	anti-parallel

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There are 2 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	71	72	first strand
Strand 2	A	75	76	anti-parallel

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There are 3 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	169	170	first strand
Strand 2	A	160	166	anti-parallel
Strand 3	A	176	178	anti-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	A	169	170	first strand
Strand 2	A	160	166	anti-parallel
Strand 3	A	150	155	anti-parallel
Strand 4	A	297	300	parallel
Strand 5	A	329	330	parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	238	241	first strand
Strand 2	A	247	250	anti-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	77	80	first strand
Strand 2	G	67	74	anti-parallel
Strand 3	G	94	102	anti-parallel
Strand 4	G	108	116	anti-parallel
Strand 5	G	144	149	parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	88	90	first strand
Strand 2	G	166	168	parallel

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There are 5 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	1199	1201	first strand
Strand 2	G	1228	1230	parallel
Strand 3	G	1256	1258	parallel
Strand 4	G	1284	1286	parallel
Strand 5	G	1314	1316	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: 4PKI

Analysis of interatomic Contacts of Structural Units in PDB entry:
4PKI