Analysis of interatomic Contacts of Structural Units in PDB entry:
4D0D

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 4D0D entry

There are 12 chains in PDB entry 4D0D (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 1	GLY 275
B	LEU 2	GLU 97
C	VAL 1	LEU 8
D	GLU 1	PRO 272
E	LEU 2	PHE 98
F	VAL 1	LEU 8
G	GLU 1	TRP 270
H	LEU 2	GLU 97
I	VAL 1	LEU 8
J	GLU 1	SER 274
K	LEU 2	PHE 98
L	VAL 1	LEU 8

There are 23 helices in PDB entry 4D0D. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	47	54	Right-handed alpha
Helix 2	2	A	55	84	Right-handed alpha
Helix 3	3	A	137	145	Right-handed alpha
Helix 4	4	A	148	159	Right-handed alpha
Helix 5	5	A	159	172	Right-handed alpha
Helix 6	6	A	172	177	Right-handed alpha
Helix 7	7	D	47	54	Right-handed alpha
Helix 8	8	D	55	84	Right-handed alpha
Helix 9	9	D	137	145	Right-handed alpha
Helix 10	10	D	148	159	Right-handed alpha
Helix 11	11	D	159	172	Right-handed alpha
Helix 12	12	D	172	177	Right-handed alpha
Helix 13	13	G	55	84	Right-handed alpha
Helix 14	14	G	137	147	Right-handed alpha
Helix 15	15	G	148	159	Right-handed alpha
Helix 16	16	G	159	172	Right-handed alpha
Helix 17	17	G	172	177	Right-handed alpha
Helix 18	18	J	47	54	Right-handed alpha
Helix 19	19	J	55	84	Right-handed alpha
Helix 20	20	J	137	145	Right-handed alpha
Helix 21	21	J	148	159	Right-handed alpha
Helix 22	22	J	159	172	Right-handed alpha
Helix 23	23	J	172	177	Right-handed alpha

There are 28 sheets in PDB entry 4D0D. Click on sheet of interest to get list of strands forming it: AA, AB, AC, BA, BB, BC, BD, A, DB, C, EA, EB, EC, ED, GA, GB, GC, HA, HB, HC, HD, JA, JB, JC, KA, KB, KC, KD,

There are 8 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	44	45	first strand
Strand 2	A	31	37	anti-parallel
Strand 3	A	22	28	anti-parallel
Strand 4	A	2	12	anti-parallel
Strand 5	A	92	102	anti-parallel
Strand 6	A	105	115	anti-parallel
Strand 7	A	118	124	anti-parallel
Strand 8	A	129	132	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	184	190	first strand
Strand 2	A	195	204	anti-parallel
Strand 3	A	237	245	anti-parallel
Strand 4	A	225	231	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	218	219	first strand
Strand 2	A	210	215	anti-parallel
Strand 3	A	253	258	anti-parallel
Strand 4	A	266	269	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	5	10	first strand
Strand 2	B	20	29	anti-parallel
Strand 3	B	61	69	anti-parallel
Strand 4	B	54	55	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	5	10	first strand
Strand 2	B	20	29	anti-parallel
Strand 3	B	61	69	anti-parallel
Strand 4	B	48	50	anti-parallel

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There are 2 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	54	55	first strand
Strand 2	B	61	69	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	43	44	first strand
Strand 2	B	35	40	anti-parallel
Strand 3	B	77	82	anti-parallel
Strand 4	B	90	94	anti-parallel

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There are 8 strands in A sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	44	45	first strand
Strand 2	D	31	37	anti-parallel
Strand 3	D	22	28	anti-parallel
Strand 4	D	2	12	anti-parallel
Strand 5	D	92	102	anti-parallel
Strand 6	D	105	115	anti-parallel
Strand 7	D	118	124	anti-parallel
Strand 8	D	129	132	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	184	191	first strand
Strand 2	D	194	204	anti-parallel
Strand 3	D	237	245	anti-parallel
Strand 4	D	224	231	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	218	219	first strand
Strand 2	D	210	215	anti-parallel
Strand 3	D	253	258	anti-parallel
Strand 4	D	266	268	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	5	10	first strand
Strand 2	E	20	29	anti-parallel
Strand 3	E	61	69	anti-parallel
Strand 4	E	54	55	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	5	10	first strand
Strand 2	E	20	29	anti-parallel
Strand 3	E	61	69	anti-parallel
Strand 4	E	48	50	anti-parallel

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There are 2 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	54	55	first strand
Strand 2	E	61	69	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	43	44	first strand
Strand 2	E	35	40	anti-parallel
Strand 3	E	77	82	anti-parallel
Strand 4	E	90	93	anti-parallel

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There are 8 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	43	45	first strand
Strand 2	G	31	37	anti-parallel
Strand 3	G	22	28	anti-parallel
Strand 4	G	2	12	anti-parallel
Strand 5	G	92	102	anti-parallel
Strand 6	G	106	115	anti-parallel
Strand 7	G	118	124	anti-parallel
Strand 8	G	129	132	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	184	190	first strand
Strand 2	G	195	204	anti-parallel
Strand 3	G	237	245	anti-parallel
Strand 4	G	224	231	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	218	220	first strand
Strand 2	G	210	215	anti-parallel
Strand 3	G	253	258	anti-parallel
Strand 4	G	266	268	anti-parallel

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There are 4 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	5	10	first strand
Strand 2	H	20	29	anti-parallel
Strand 3	H	61	69	anti-parallel
Strand 4	H	54	55	parallel

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There are 4 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	5	10	first strand
Strand 2	H	20	29	anti-parallel
Strand 3	H	61	69	anti-parallel
Strand 4	H	48	49	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	54	55	first strand
Strand 2	H	61	69	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	43	44	first strand
Strand 2	H	35	40	anti-parallel
Strand 3	H	77	82	anti-parallel
Strand 4	H	90	93	anti-parallel

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There are 8 strands in JA sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	43	45	first strand
Strand 2	J	31	37	anti-parallel
Strand 3	J	22	28	anti-parallel
Strand 4	J	2	12	anti-parallel
Strand 5	J	92	102	anti-parallel
Strand 6	J	105	115	anti-parallel
Strand 7	J	118	124	anti-parallel
Strand 8	J	129	132	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	184	191	first strand
Strand 2	J	194	204	anti-parallel
Strand 3	J	237	245	anti-parallel
Strand 4	J	224	231	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	218	219	first strand
Strand 2	J	210	215	anti-parallel
Strand 3	J	253	258	anti-parallel
Strand 4	J	266	269	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	5	10	first strand
Strand 2	K	20	29	anti-parallel
Strand 3	K	61	69	anti-parallel
Strand 4	K	54	55	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	5	10	first strand
Strand 2	K	20	29	anti-parallel
Strand 3	K	61	69	anti-parallel
Strand 4	K	48	50	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	54	55	first strand
Strand 2	K	61	69	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	43	44	first strand
Strand 2	K	35	40	anti-parallel
Strand 3	K	77	82	anti-parallel
Strand 4	K	90	93	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: 4D0D

Analysis of interatomic Contacts of Structural Units in PDB entry:
4D0D