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

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 4PDW entry

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

Chain ID	Initial residue	Terminal residue
A	GLN 16	TYR 289
B	GLY 8	GLN 262
C	GLY 1	THR 231
D	THR 27	ASN 68

There are 23 helices in PDB entry 4PDW. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	36	40	Right-handed 310
Helix 2	AA2	A	46	50	Right-handed 310
Helix 3	AA3	A	62	65	Right-handed 310
Helix 4	AA4	A	66	71	Right-handed alpha
Helix 5	AA5	A	109	117	Right-handed alpha
Helix 6	AA6	A	165	170	Right-handed 310
Helix 7	AA7	A	214	218	Right-handed 310
Helix 8	AA8	B	35	37	Right-handed 310
Helix 9	AA9	B	43	47	Right-handed 310
Helix 10	AB1	B	56	60	Right-handed 310
Helix 11	AB2	B	83	87	Right-handed 310
Helix 12	AB3	B	89	98	Right-handed alpha
Helix 13	AB4	B	143	148	Right-handed 310
Helix 14	AB5	B	149	153	Right-handed 310
Helix 15	AB6	B	168	172	Right-handed 310
Helix 16	AB7	B	177	184	Right-handed 310
Helix 17	AB8	C	42	47	Right-handed alpha
Helix 18	AB9	C	63	66	Right-handed 310
Helix 19	AC1	C	89	94	Right-handed 310
Helix 20	AC2	C	95	102	Right-handed alpha
Helix 21	AC3	C	141	147	Right-handed alpha
Helix 22	AC4	D	34	38	Right-handed 310
Helix 23	AC5	D	49	54	Right-handed alpha

There are 12 sheets in PDB entry 4PDW. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

There are 2 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	18	20	first strand
Strand 2	A	56	57	anti-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	A	34	35	first strand
Strand 2	C	160	165	anti-parallel
Strand 3	C	111	117	anti-parallel
Strand 4	C	205	213	anti-parallel
Strand 5	C	51	52	anti-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	A	34	35	first strand
Strand 2	C	160	165	anti-parallel
Strand 3	C	111	117	anti-parallel
Strand 4	C	205	213	anti-parallel
Strand 5	C	68	71	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	75	84	first strand
Strand 2	A	237	255	anti-parallel
Strand 3	A	119	133	anti-parallel
Strand 4	A	197	198	anti-parallel

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There are 4 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	183	188	first strand
Strand 2	A	119	133	anti-parallel
Strand 3	A	237	255	anti-parallel
Strand 4	C	39	40	anti-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	A	99	100	first strand
Strand 2	A	223	228	anti-parallel
Strand 3	A	147	153	anti-parallel
Strand 4	A	175	179	anti-parallel

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There are 2 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	14	18	first strand
Strand 2	B	21	25	anti-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	B	32	33	first strand
Strand 2	B	196	201	parallel
Strand 3	B	99	111	anti-parallel
Strand 4	B	237	254	anti-parallel
Strand 5	B	64	65	anti-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	B	32	33	first strand
Strand 2	B	196	201	parallel
Strand 3	B	99	111	anti-parallel
Strand 4	B	237	254	anti-parallel
Strand 5	B	69	72	anti-parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	154	155	first strand
Strand 2	B	78	82	anti-parallel
Strand 3	B	218	229	anti-parallel
Strand 4	B	119	128	anti-parallel
Strand 5	B	186	190	anti-parallel

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There are 4 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	79	84	first strand
Strand 2	C	186	191	anti-parallel
Strand 3	C	126	132	anti-parallel
Strand 4	C	150	154	anti-parallel

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There are 3 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	174	175	first strand
Strand 2	C	104	108	anti-parallel
Strand 3	C	218	222	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: 4PDW

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