Analysis of interatomic Contacts of Structural Units in PDB entry:
4D4P

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 4D4P entry

There are 5 chains in PDB entry 4D4P (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 0	PRO 417
B	ALA 0	SER 335
C	SER 343	PRO 418
E	MET 1	GLY 334
G	ALA 0	VAL 142

There are 16 helices in PDB entry 4D4P. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	213	218	Right-handed alpha
Helix 2	2	A	378	383	Right-handed alpha
Helix 3	3	A	402	405	Right-handed 310
Helix 4	4	A	406	414	Right-handed alpha
Helix 5	5	B	213	218	Right-handed alpha
Helix 6	6	C	378	384	Right-handed alpha
Helix 7	7	C	402	405	Right-handed 310
Helix 8	8	C	406	416	Right-handed alpha
Helix 9	9	E	213	218	Right-handed alpha
Helix 10	10	G	213	219	Right-handed alpha
Helix 11	11	G	353	355	Right-handed 310
Helix 12	12	G	378	383	Right-handed alpha
Helix 13	13	G	402	405	Right-handed 310
Helix 14	14	G	406	414	Right-handed alpha
Helix 15	15	H	378	383	Right-handed alpha
Helix 16	16	H	406	414	Right-handed alpha

There are 36 sheets in PDB entry 4D4P. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE, AF, AG, AH, AI, BA, BB, BC, BD, BE, BF, BG, CA, CB, EA, EB, EC, ED, EE, EF, EG, GA, GB, GC, GD, GE, GF, GG, GH, GI, HA, HB,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	23	28	first strand
Strand 2	A	3	8	anti-parallel
Strand 3	A	328	333	anti-parallel
Strand 4	A	321	324	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	38	43	first strand
Strand 2	A	47	52	anti-parallel
Strand 3	A	57	62	anti-parallel
Strand 4	A	76	83	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	89	94	first strand
Strand 2	A	98	103	anti-parallel
Strand 3	A	108	112	anti-parallel
Strand 4	A	115	121	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	133	137	first strand
Strand 2	A	140	145	anti-parallel
Strand 3	A	148	155	anti-parallel
Strand 4	A	165	176	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	182	187	first strand
Strand 2	A	191	196	anti-parallel
Strand 3	A	201	206	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	224	227	first strand
Strand 2	A	232	236	anti-parallel
Strand 3	A	241	245	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	263	268	first strand
Strand 2	A	272	277	anti-parallel
Strand 3	A	287	293	anti-parallel
Strand 4	A	311	316	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	348	351	first strand
Strand 2	A	396	400	parallel
Strand 3	A	387	389	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	356	358	first strand
Strand 2	A	363	367	anti-parallel
Strand 3	A	373	377	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	23	28	first strand
Strand 2	B	4	8	anti-parallel
Strand 3	B	328	332	anti-parallel
Strand 4	B	321	324	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	38	43	first strand
Strand 2	B	47	52	anti-parallel
Strand 3	B	57	62	anti-parallel
Strand 4	B	76	82	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	89	94	first strand
Strand 2	B	98	103	anti-parallel
Strand 3	B	108	112	anti-parallel
Strand 4	B	115	121	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	132	137	first strand
Strand 2	B	140	145	anti-parallel
Strand 3	B	148	155	anti-parallel
Strand 4	B	165	176	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	182	188	first strand
Strand 2	B	191	196	anti-parallel
Strand 3	B	201	206	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	224	227	first strand
Strand 2	B	232	236	anti-parallel
Strand 3	B	241	245	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	263	268	first strand
Strand 2	B	272	279	anti-parallel
Strand 3	B	286	293	anti-parallel
Strand 4	B	311	316	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	348	351	first strand
Strand 2	C	396	400	parallel
Strand 3	C	387	389	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	356	358	first strand
Strand 2	C	363	367	anti-parallel
Strand 3	C	373	377	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	27	29	first strand
Strand 2	E	3	8	anti-parallel
Strand 3	E	328	333	anti-parallel
Strand 4	E	321	324	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	38	43	first strand
Strand 2	E	47	52	anti-parallel
Strand 3	E	57	62	anti-parallel
Strand 4	E	76	82	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	89	94	first strand
Strand 2	E	98	103	anti-parallel
Strand 3	E	108	112	anti-parallel
Strand 4	E	115	121	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	132	137	first strand
Strand 2	E	140	145	anti-parallel
Strand 3	E	148	155	anti-parallel
Strand 4	E	165	176	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	182	187	first strand
Strand 2	E	191	196	anti-parallel
Strand 3	E	201	206	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	223	228	first strand
Strand 2	E	231	236	anti-parallel
Strand 3	E	241	246	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	263	268	first strand
Strand 2	E	272	279	anti-parallel
Strand 3	E	286	293	anti-parallel
Strand 4	E	311	316	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	23	28	first strand
Strand 2	G	3	8	anti-parallel
Strand 3	G	328	333	anti-parallel
Strand 4	G	321	324	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	38	43	first strand
Strand 2	G	47	52	anti-parallel
Strand 3	G	57	62	anti-parallel
Strand 4	G	76	83	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	89	94	first strand
Strand 2	G	98	103	anti-parallel
Strand 3	G	108	112	anti-parallel
Strand 4	G	115	121	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	133	137	first strand
Strand 2	G	140	144	anti-parallel
Strand 3	G	148	154	anti-parallel
Strand 4	G	167	176	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	182	187	first strand
Strand 2	G	191	196	anti-parallel
Strand 3	G	201	206	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	224	227	first strand
Strand 2	G	232	236	anti-parallel
Strand 3	G	241	245	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	263	268	first strand
Strand 2	G	272	277	anti-parallel
Strand 3	G	287	293	anti-parallel
Strand 4	G	311	316	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	349	351	first strand
Strand 2	G	396	400	parallel
Strand 3	G	387	389	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	356	358	first strand
Strand 2	G	363	367	anti-parallel
Strand 3	G	373	377	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	348	351	first strand
Strand 2	H	396	400	parallel
Strand 3	H	387	389	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	356	358	first strand
Strand 2	H	363	367	anti-parallel
Strand 3	H	373	377	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: 4D4P

Analysis of interatomic Contacts of Structural Units in PDB entry:
4D4P