Analysis of interatomic Contacts of Structural Units in PDB entry:
1PDW

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 1PDW entry

There are 8 chains in PDB entry 1PDW (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 2	LYS 188
B	ALA 202	LYS 388
C	ALA 1002	LYS 1188
D	ALA 1202	LYS 1388
E	ALA 2002	LEU 2190
F	ALA 2202	LYS 2388
G	ALA 3002	HIS 3192
H	ALA 3202	LYS 3388

There are 84 helices in PDB entry 1PDW. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	15	29	Right-handed alpha
Helix 2	2	A	58	63	Right-handed alpha
Helix 3	3	A	75	84	Right-handed alpha
Helix 4	4	A	85	98	Right-handed alpha
Helix 5	5	A	109	115	Right-handed alpha
Helix 6	6	A	126	128	Right-handed 310
Helix 7	7	A	129	134	Right-handed alpha
Helix 8	8	A	157	159	Right-handed 310
Helix 9	9	A	160	174	Right-handed alpha
Helix 10	10	A	174	183	Right-handed alpha
Helix 11	11	B	215	229	Right-handed alpha
Helix 12	12	B	258	262	Right-handed alpha
Helix 13	13	B	275	284	Right-handed alpha
Helix 14	14	B	285	298	Right-handed alpha
Helix 15	15	B	308	315	Right-handed alpha
Helix 16	16	B	326	328	Right-handed 310
Helix 17	17	B	329	335	Right-handed alpha
Helix 18	18	B	357	359	Right-handed 310
Helix 19	19	B	360	383	Right-handed alpha
Helix 20	20	B	384	386	Right-handed 310
Helix 21	21	C	1015	1029	Right-handed alpha
Helix 22	22	C	1058	1062	Right-handed alpha
Helix 23	23	C	1075	1085	Right-handed alpha
Helix 24	24	C	1085	1098	Right-handed alpha
Helix 25	25	C	1109	1115	Right-handed alpha
Helix 26	26	C	1126	1128	Right-handed 310
Helix 27	27	C	1129	1135	Right-handed alpha
Helix 28	28	C	1157	1159	Right-handed 310
Helix 29	29	C	1160	1174	Right-handed alpha
Helix 30	30	C	1174	1183	Right-handed alpha
Helix 31	31	C	1184	1186	Right-handed 310
Helix 32	32	D	1215	1229	Right-handed alpha
Helix 33	33	D	1258	1263	Right-handed alpha
Helix 34	34	D	1275	1285	Right-handed alpha
Helix 35	35	D	1285	1298	Right-handed alpha
Helix 36	36	D	1309	1315	Right-handed alpha
Helix 37	37	D	1326	1328	Right-handed 310
Helix 38	38	D	1329	1334	Right-handed alpha
Helix 39	39	D	1357	1359	Right-handed 310
Helix 40	40	D	1360	1374	Right-handed alpha
Helix 41	41	D	1374	1383	Right-handed alpha
Helix 42	42	D	1384	1386	Right-handed 310
Helix 43	43	E	2015	2029	Right-handed alpha
Helix 44	44	E	2058	2064	Right-handed alpha
Helix 45	45	E	2075	2083	Right-handed alpha
Helix 46	46	E	2085	2098	Right-handed alpha
Helix 47	47	E	2109	2115	Right-handed alpha
Helix 48	48	E	2126	2128	Right-handed 310
Helix 49	49	E	2129	2135	Right-handed alpha
Helix 50	50	E	2157	2159	Right-handed 310
Helix 51	51	E	2160	2174	Right-handed alpha
Helix 52	52	E	2174	2183	Right-handed alpha
Helix 53	53	E	2184	2186	Right-handed 310
Helix 54	54	F	2215	2229	Right-handed alpha
Helix 55	55	F	2258	2264	Right-handed alpha
Helix 56	56	F	2275	2285	Right-handed alpha
Helix 57	57	F	2285	2298	Right-handed alpha
Helix 58	58	F	2309	2315	Right-handed alpha
Helix 59	59	F	2326	2328	Right-handed 310
Helix 60	60	F	2329	2334	Right-handed alpha
Helix 61	61	F	2357	2359	Right-handed 310
Helix 62	62	F	2360	2374	Right-handed alpha
Helix 63	63	F	2374	2383	Right-handed alpha
Helix 64	64	F	2384	2386	Right-handed 310
Helix 65	65	G	3015	3029	Right-handed alpha
Helix 66	66	G	3058	3062	Right-handed alpha
Helix 67	67	G	3075	3085	Right-handed alpha
Helix 68	68	G	3085	3098	Right-handed alpha
Helix 69	69	G	3109	3115	Right-handed alpha
Helix 70	70	G	3126	3128	Right-handed 310
Helix 71	71	G	3129	3135	Right-handed alpha
Helix 72	72	G	3157	3159	Right-handed 310
Helix 73	73	G	3160	3186	Right-handed alpha
Helix 74	74	H	3215	3229	Right-handed alpha
Helix 75	75	H	3258	3262	Right-handed alpha
Helix 76	76	H	3263	3265	Right-handed 310
Helix 77	77	H	3275	3284	Right-handed alpha
Helix 78	78	H	3285	3298	Right-handed alpha
Helix 79	79	H	3309	3315	Right-handed alpha
Helix 80	80	H	3326	3328	Right-handed 310
Helix 81	81	H	3329	3334	Right-handed alpha
Helix 82	82	H	3357	3359	Right-handed 310
Helix 83	83	H	3360	3383	Right-handed alpha
Helix 84	84	H	3384	3386	Right-handed 310

There are 20 sheets in PDB entry 1PDW. 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,

There are 7 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	56	57	first strand
Strand 2	A	32	37	parallel
Strand 3	A	5	10	parallel
Strand 4	A	69	72	parallel
Strand 5	A	101	105	parallel
Strand 6	A	152	155	parallel
Strand 7	A	146	149	anti-parallel

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There are 4 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	44	45	first strand
Strand 2	A	51	53	anti-parallel
Strand 3	B	251	253	anti-parallel
Strand 4	B	244	245	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	122	123	first strand
Strand 2	A	140	141	parallel

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There are 7 strands in D sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	256	257	first strand
Strand 2	B	232	237	parallel
Strand 3	B	205	210	parallel
Strand 4	B	269	272	parallel
Strand 5	B	301	305	parallel
Strand 6	B	352	355	parallel
Strand 7	B	346	349	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	322	323	first strand
Strand 2	B	340	341	parallel

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There are 7 strands in F sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1056	1057	first strand
Strand 2	C	1032	1037	parallel
Strand 3	C	1005	1010	parallel
Strand 4	C	1069	1072	parallel
Strand 5	C	1101	1105	parallel
Strand 6	C	1152	1155	parallel
Strand 7	C	1146	1149	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1044	1045	first strand
Strand 2	C	1051	1053	anti-parallel
Strand 3	D	1251	1252	anti-parallel
Strand 4	D	1244	1245	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	C	1122	1123	first strand
Strand 2	C	1140	1141	parallel

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There are 7 strands in I sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1256	1257	first strand
Strand 2	D	1232	1237	parallel
Strand 3	D	1205	1210	parallel
Strand 4	D	1269	1272	parallel
Strand 5	D	1301	1305	parallel
Strand 6	D	1352	1355	parallel
Strand 7	D	1346	1349	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1322	1323	first strand
Strand 2	D	1340	1341	parallel

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There are 7 strands in K sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	2056	2057	first strand
Strand 2	E	2032	2037	parallel
Strand 3	E	2005	2010	parallel
Strand 4	E	2069	2072	parallel
Strand 5	E	2101	2105	parallel
Strand 6	E	2152	2155	parallel
Strand 7	E	2146	2149	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	2044	2045	first strand
Strand 2	E	2051	2053	anti-parallel
Strand 3	F	2251	2253	anti-parallel
Strand 4	F	2244	2245	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	E	2122	2123	first strand
Strand 2	E	2140	2141	parallel

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There are 7 strands in N sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	2256	2257	first strand
Strand 2	F	2232	2237	parallel
Strand 3	F	2205	2210	parallel
Strand 4	F	2269	2272	parallel
Strand 5	F	2301	2305	parallel
Strand 6	F	2352	2355	parallel
Strand 7	F	2346	2349	anti-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	F	2322	2323	first strand
Strand 2	F	2340	2341	parallel

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There are 7 strands in P sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3056	3057	first strand
Strand 2	G	3032	3037	parallel
Strand 3	G	3005	3010	parallel
Strand 4	G	3069	3072	parallel
Strand 5	G	3101	3105	parallel
Strand 6	G	3152	3155	parallel
Strand 7	G	3146	3149	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3044	3045	first strand
Strand 2	G	3051	3052	anti-parallel
Strand 3	H	3251	3253	anti-parallel
Strand 4	H	3244	3245	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3122	3123	first strand
Strand 2	G	3140	3141	parallel

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There are 7 strands in S sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	3256	3257	first strand
Strand 2	H	3232	3237	parallel
Strand 3	H	3205	3210	parallel
Strand 4	H	3269	3272	parallel
Strand 5	H	3301	3305	parallel
Strand 6	H	3352	3355	parallel
Strand 7	H	3346	3349	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	H	3322	3323	first strand
Strand 2	H	3340	3341	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: 1PDW

Analysis of interatomic Contacts of Structural Units in PDB entry:
1PDW