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

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 4DDQ entry

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

Chain ID	Initial residue	Terminal residue
A	SER 32	THR 489
B	ARG 33	THR 489
C	ARG 33	ALA 386

There are105 helices in PDB entry 4DDQ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	43	56	Right-handed alpha
Helix 2	2	A	67	78	Right-handed alpha
Helix 3	3	A	81	93	Right-handed alpha
Helix 4	4	A	131	137	Right-handed alpha
Helix 5	5	A	165	171	Right-handed alpha
Helix 6	6	A	187	201	Right-handed alpha
Helix 7	7	A	205	211	Right-handed alpha
Helix 8	8	A	226	237	Right-handed alpha
Helix 9	9	A	269	283	Right-handed alpha
Helix 10	10	A	312	324	Right-handed alpha
Helix 11	11	A	346	389	Right-handed alpha
Helix 12	12	A	389	399	Right-handed alpha
Helix 13	13	A	402	415	Right-handed alpha
Helix 14	14	A	417	426	Right-handed alpha
Helix 15	15	A	428	432	Right-handed 310
Helix 16	16	A	433	460	Right-handed alpha
Helix 17	17	A	460	480	Right-handed alpha
Helix 18	18	B	43	56	Right-handed alpha
Helix 19	19	B	67	78	Right-handed alpha
Helix 20	20	B	82	93	Right-handed alpha
Helix 21	21	B	120	123	Right-handed 310
Helix 22	22	B	131	137	Right-handed alpha
Helix 23	23	B	138	142	Right-handed 310
Helix 24	24	B	165	171	Right-handed alpha
Helix 25	25	B	187	201	Right-handed alpha
Helix 26	26	B	205	211	Right-handed alpha
Helix 27	27	B	226	237	Right-handed alpha
Helix 28	28	B	269	284	Right-handed alpha
Helix 29	29	B	312	324	Right-handed alpha
Helix 30	30	B	346	389	Right-handed alpha
Helix 31	31	B	389	399	Right-handed alpha
Helix 32	32	B	402	415	Right-handed alpha
Helix 33	33	B	417	426	Right-handed alpha
Helix 34	34	B	428	432	Right-handed 310
Helix 35	35	B	433	460	Right-handed alpha
Helix 36	36	B	460	480	Right-handed alpha
Helix 37	37	C	43	55	Right-handed alpha
Helix 38	38	C	67	78	Right-handed alpha
Helix 39	39	C	82	95	Right-handed alpha
Helix 40	40	C	132	137	Right-handed alpha
Helix 41	41	C	165	171	Right-handed alpha
Helix 42	42	C	187	201	Right-handed alpha
Helix 43	43	C	205	211	Right-handed alpha
Helix 44	44	C	227	237	Right-handed alpha
Helix 45	45	C	269	283	Right-handed alpha
Helix 46	46	C	312	324	Right-handed alpha
Helix 47	47	C	346	389	Right-handed alpha
Helix 48	48	C	389	400	Right-handed alpha
Helix 49	49	C	402	415	Right-handed alpha
Helix 50	50	C	417	426	Right-handed alpha
Helix 51	51	C	428	432	Right-handed 310
Helix 52	52	C	433	460	Right-handed alpha
Helix 53	53	C	460	480	Right-handed alpha
Helix 54	54	D	43	56	Right-handed alpha
Helix 55	55	D	67	78	Right-handed alpha
Helix 56	56	D	82	93	Right-handed alpha
Helix 57	57	D	131	137	Right-handed alpha
Helix 58	58	D	165	171	Right-handed alpha
Helix 59	59	D	187	201	Right-handed alpha
Helix 60	60	D	205	211	Right-handed alpha
Helix 61	61	D	226	237	Right-handed alpha
Helix 62	62	D	269	283	Right-handed alpha
Helix 63	63	D	312	324	Right-handed alpha
Helix 64	64	D	346	389	Right-handed alpha
Helix 65	65	D	389	400	Right-handed alpha
Helix 66	66	D	402	415	Right-handed alpha
Helix 67	67	D	417	426	Right-handed alpha
Helix 68	68	D	428	432	Right-handed 310
Helix 69	69	D	433	460	Right-handed alpha
Helix 70	70	D	460	480	Right-handed alpha
Helix 71	71	E	43	56	Right-handed alpha
Helix 72	72	E	67	78	Right-handed alpha
Helix 73	73	E	82	93	Right-handed alpha
Helix 74	74	E	120	123	Right-handed 310
Helix 75	75	E	131	137	Right-handed alpha
Helix 76	76	E	165	171	Right-handed alpha
Helix 77	77	E	187	201	Right-handed alpha
Helix 78	78	E	205	210	Right-handed alpha
Helix 79	79	E	226	237	Right-handed alpha
Helix 80	80	E	269	283	Right-handed alpha
Helix 81	81	E	312	324	Right-handed alpha
Helix 82	82	E	346	389	Right-handed alpha
Helix 83	83	E	389	399	Right-handed alpha
Helix 84	84	E	402	415	Right-handed alpha
Helix 85	85	E	417	427	Right-handed alpha
Helix 86	86	E	428	432	Right-handed 310
Helix 87	87	E	433	460	Right-handed alpha
Helix 88	88	E	460	480	Right-handed alpha
Helix 89	89	F	43	57	Right-handed alpha
Helix 90	90	F	67	78	Right-handed alpha
Helix 91	91	F	82	93	Right-handed alpha
Helix 92	92	F	132	137	Right-handed alpha
Helix 93	93	F	165	171	Right-handed alpha
Helix 94	94	F	187	201	Right-handed alpha
Helix 95	95	F	205	211	Right-handed alpha
Helix 96	96	F	226	237	Right-handed alpha
Helix 97	97	F	269	283	Right-handed alpha
Helix 98	98	F	312	324	Right-handed alpha
Helix 99	99	F	346	389	Right-handed alpha
Helix 100	100	F	389	399	Right-handed alpha
Helix 101	101	F	402	415	Right-handed alpha
Helix 102	102	F	417	426	Right-handed alpha
Helix 103	103	F	428	432	Right-handed 310
Helix 104	104	F	433	460	Right-handed alpha
Helix 105	105	F	460	480	Right-handed alpha

There are 33 sheets in PDB entry 4DDQ. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, AA, AB, AC, AD, AE, AF, AG,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	65	66	first strand
Strand 2	A	125	128	anti-parallel
Strand 3	A	104	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	146	148	first strand
Strand 2	A	155	157	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	172	176	first strand
Strand 2	A	179	183	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	327	333	first strand
Strand 2	A	238	244	anti-parallel
Strand 3	A	222	224	anti-parallel
Strand 4	A	485	487	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	246	251	first strand
Strand 2	A	257	263	anti-parallel
Strand 3	A	303	307	anti-parallel
Strand 4	A	289	294	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	335	337	first strand
Strand 2	A	342	344	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	65	66	first strand
Strand 2	B	125	128	anti-parallel
Strand 3	B	104	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	146	148	first strand
Strand 2	B	155	157	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	327	333	first strand
Strand 2	B	238	244	anti-parallel
Strand 3	B	223	224	anti-parallel
Strand 4	B	486	487	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	247	251	first strand
Strand 2	B	257	261	anti-parallel
Strand 3	B	303	307	anti-parallel
Strand 4	B	289	294	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	335	337	first strand
Strand 2	B	342	344	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	65	66	first strand
Strand 2	C	125	128	anti-parallel
Strand 3	C	104	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	146	148	first strand
Strand 2	C	155	157	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	223	224	first strand
Strand 2	C	486	487	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	238	244	first strand
Strand 2	C	327	333	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	246	251	first strand
Strand 2	C	257	263	anti-parallel
Strand 3	C	303	307	anti-parallel
Strand 4	C	289	294	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	335	337	first strand
Strand 2	C	342	344	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	65	66	first strand
Strand 2	D	125	128	anti-parallel
Strand 3	D	104	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	146	148	first strand
Strand 2	D	155	157	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	172	173	first strand
Strand 2	D	182	183	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	327	333	first strand
Strand 2	D	238	244	anti-parallel
Strand 3	D	222	224	anti-parallel
Strand 4	D	485	487	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	246	251	first strand
Strand 2	D	257	263	anti-parallel
Strand 3	D	303	307	anti-parallel
Strand 4	D	289	294	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	335	338	first strand
Strand 2	D	341	344	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	65	66	first strand
Strand 2	E	125	128	anti-parallel
Strand 3	E	104	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	146	148	first strand
Strand 2	E	155	157	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	327	333	first strand
Strand 2	E	238	244	anti-parallel
Strand 3	E	222	224	anti-parallel
Strand 4	E	485	487	parallel

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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	E	246	251	first strand
Strand 2	E	257	263	anti-parallel
Strand 3	E	303	307	anti-parallel
Strand 4	E	289	294	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	335	338	first strand
Strand 2	E	341	344	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	65	66	first strand
Strand 2	F	125	128	anti-parallel
Strand 3	F	104	107	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	146	148	first strand
Strand 2	F	155	157	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	327	333	first strand
Strand 2	F	238	244	anti-parallel
Strand 3	F	223	224	anti-parallel
Strand 4	F	486	487	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	246	251	first strand
Strand 2	F	257	263	anti-parallel
Strand 3	F	303	307	anti-parallel
Strand 4	F	289	294	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	335	337	first strand
Strand 2	F	342	344	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: 4DDQ

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