Analysis of interatomic Contacts of Structural Units in PDB entry:
8D9D

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 8D9D entry

There are 6 chains in PDB entry 8D9D (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 2	LYS 412
B	TYR 22	ASN 456
C	GLU 338	ALA 1456
D	ALA 155	ILE 598
E	G 2	C 12
F	A 4	A 22

There are 98 helices in PDB entry 8D9D. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	5	7	Right-handed 310
Helix 2	AA2	A	8	20	Right-handed alpha
Helix 3	AA3	A	22	32	Right-handed alpha
Helix 4	AA4	A	33	35	Right-handed 310
Helix 5	AA5	A	50	52	Right-handed 310
Helix 6	AA6	A	62	72	Right-handed alpha
Helix 7	AA7	A	87	91	Right-handed 310
Helix 8	AA8	A	113	116	Right-handed 310
Helix 9	AA9	A	128	146	Right-handed alpha
Helix 10	AB1	A	173	177	Right-handed 310
Helix 11	AB2	A	178	189	Right-handed alpha
Helix 12	AB3	A	209	227	Right-handed alpha
Helix 13	AB4	A	236	247	Right-handed alpha
Helix 14	AB5	A	248	250	Right-handed 310
Helix 15	AB6	A	251	261	Right-handed alpha
Helix 16	AB7	A	264	283	Right-handed alpha
Helix 17	AB8	A	291	302	Right-handed alpha
Helix 18	AB9	A	306	312	Right-handed alpha
Helix 19	AC1	A	335	342	Right-handed 310
Helix 20	AC2	A	343	347	Right-handed 310
Helix 21	AC3	A	349	359	Right-handed alpha
Helix 22	AC4	A	388	410	Right-handed alpha
Helix 23	AC5	B	39	63	Right-handed alpha
Helix 24	AC6	B	67	81	Right-handed alpha
Helix 25	AC7	B	92	108	Right-handed alpha
Helix 26	AC8	B	113	134	Right-handed alpha
Helix 27	AC9	B	139	147	Right-handed alpha
Helix 28	AD1	B	155	162	Right-handed alpha
Helix 29	AD2	B	162	170	Right-handed alpha
Helix 30	AD3	B	191	196	Right-handed alpha
Helix 31	AD4	B	213	236	Right-handed alpha
Helix 32	AD5	B	237	242	Right-handed alpha
Helix 33	AD6	B	246	252	Right-handed alpha
Helix 34	AD7	B	275	283	Right-handed alpha
Helix 35	AD8	B	285	299	Right-handed alpha
Helix 36	AD9	B	302	317	Right-handed alpha
Helix 37	AE1	B	319	333	Right-handed alpha
Helix 38	AE2	B	337	345	Right-handed alpha
Helix 39	AE3	B	345	353	Right-handed alpha
Helix 40	AE4	B	366	373	Right-handed alpha
Helix 41	AE5	B	384	389	Right-handed alpha
Helix 42	AE6	B	390	400	Right-handed alpha
Helix 43	AE7	B	404	417	Right-handed alpha
Helix 44	AE8	B	419	433	Right-handed alpha
Helix 45	AE9	B	443	456	Right-handed alpha
Helix 46	AF1	C	409	420	Right-handed alpha
Helix 47	AF2	C	420	425	Right-handed alpha
Helix 48	AF3	C	482	492	Right-handed alpha
Helix 49	AF4	C	522	524	Right-handed 310
Helix 50	AF5	C	597	606	Right-handed alpha
Helix 51	AF6	C	614	630	Right-handed alpha
Helix 52	AF7	C	642	655	Right-handed alpha
Helix 53	AF8	C	658	663	Right-handed 310
Helix 54	AF9	C	679	685	Right-handed alpha
Helix 55	AG1	C	693	701	Right-handed alpha
Helix 56	AG2	C	707	716	Right-handed alpha
Helix 57	AG3	C	725	733	Right-handed 310
Helix 58	AG4	C	734	760	Right-handed alpha
Helix 59	AG5	C	760	773	Right-handed alpha
Helix 60	AG6	C	775	780	Right-handed alpha
Helix 61	AG7	C	784	799	Right-handed alpha
Helix 62	AG8	C	863	873	Right-handed alpha
Helix 63	AG9	C	909	931	Right-handed alpha
Helix 64	AH1	C	935	959	Right-handed alpha
Helix 65	AH2	C	960	962	Right-handed 310
Helix 66	AH3	C	969	994	Right-handed alpha
Helix 67	AH4	C	1014	1033	Right-handed alpha
Helix 68	AH5	C	1077	1081	Right-handed 310
Helix 69	AH6	C	1085	1100	Right-handed alpha
Helix 70	AH7	C	1104	1126	Right-handed alpha
Helix 71	AH8	C	1129	1134	Right-handed 310
Helix 72	AH9	C	1142	1146	Right-handed 310
Helix 73	AI1	C	1148	1151	Right-handed 310
Helix 74	AI2	C	1152	1164	Right-handed alpha
Helix 75	AI3	C	1187	1190	Right-handed 310
Helix 76	AI4	C	1194	1198	Right-handed 310
Helix 77	AI5	C	1207	1214	Right-handed alpha
Helix 78	AI6	C	1215	1224	Right-handed alpha
Helix 79	AI7	C	1231	1240	Right-handed alpha
Helix 80	AI8	C	1269	1273	Right-handed alpha
Helix 81	AI9	C	1299	1303	Right-handed 310
Helix 82	AJ1	C	1322	1343	Right-handed alpha
Helix 83	AJ2	C	1384	1399	Right-handed alpha
Helix 84	AJ3	C	1400	1406	Right-handed alpha
Helix 85	AJ4	C	1410	1421	Right-handed alpha
Helix 86	AJ5	C	1423	1443	Right-handed alpha
Helix 87	AJ6	C	1451	1456	Right-handed alpha
Helix 88	AJ7	D	158	164	Right-handed alpha
Helix 89	AJ8	D	212	236	Right-handed alpha
Helix 90	AJ9	D	266	268	Right-handed 310
Helix 91	AK1	D	333	337	Right-handed 310
Helix 92	AK2	D	357	371	Right-handed alpha
Helix 93	AK3	D	386	391	Right-handed alpha
Helix 94	AK4	D	397	413	Right-handed alpha
Helix 95	AK5	D	446	451	Right-handed alpha
Helix 96	AK6	D	475	482	Right-handed alpha
Helix 97	AK7	D	493	505	Right-handed alpha
Helix 98	AK8	D	521	529	Right-handed alpha

There are 19 sheets in PDB entry 8D9D. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1,

There are 4 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	54	58	first strand
Strand 2	A	43	48	anti-parallel
Strand 3	A	77	84	anti-parallel
Strand 4	A	101	103	anti-parallel

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There are 4 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	54	58	first strand
Strand 2	A	43	48	anti-parallel
Strand 3	A	77	84	anti-parallel
Strand 4	A	317	318	anti-parallel

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There are 3 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	106	111	first strand
Strand 2	A	164	169	anti-parallel
Strand 3	A	155	159	anti-parallel

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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	36	38	first strand
Strand 2	C	1448	1450	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	B	152	153	first strand
Strand 2	B	183	187	anti-parallel
Strand 3	B	206	210	anti-parallel
Strand 4	B	201	203	anti-parallel

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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	516	520	first strand
Strand 2	C	372	380	parallel
Strand 3	C	355	367	anti-parallel
Strand 4	C	340	351	anti-parallel
Strand 5	C	498	502	anti-parallel
Strand 6	C	526	529	anti-parallel

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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	431	438	first strand
Strand 2	C	449	457	anti-parallel
Strand 3	C	385	391	anti-parallel
Strand 4	C	473	477	anti-parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	609	611	first strand
Strand 2	C	581	586	parallel
Strand 3	C	555	568	anti-parallel
Strand 4	C	537	548	anti-parallel
Strand 5	C	633	636	parallel
Strand 6	C	689	692	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	C	850	852	first strand
Strand 2	C	1038	1051	anti-parallel
Strand 3	C	856	861	anti-parallel
Strand 4	C	1005	1009	anti-parallel
Strand 5	C	997	1000	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	850	852	first strand
Strand 2	C	1038	1051	anti-parallel
Strand 3	C	1054	1064	anti-parallel
Strand 4	C	1067	1075	anti-parallel

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There are 3 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	1135	1138	first strand
Strand 2	C	1174	1181	anti-parallel
Strand 3	C	1192	1193	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	1135	1138	first strand
Strand 2	C	1174	1181	anti-parallel
Strand 3	C	1205	1206	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1296	1297	first strand
Strand 2	C	1304	1305	anti-parallel

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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1356	1357	first strand
Strand 2	C	1346	1348	anti-parallel
Strand 3	C	1379	1381	anti-parallel

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There are 7 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	170	174	first strand
Strand 2	D	593	597	anti-parallel
Strand 3	D	570	576	anti-parallel
Strand 4	D	340	345	anti-parallel
Strand 5	D	374	378	parallel
Strand 6	D	419	423	parallel
Strand 7	D	453	455	parallel

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There are 6 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	193	195	first strand
Strand 2	D	460	464	anti-parallel
Strand 3	D	467	471	anti-parallel
Strand 4	D	537	539	parallel
Strand 5	D	554	558	parallel
Strand 6	D	547	551	anti-parallel

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There are 6 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	247	259	first strand
Strand 2	D	270	274	anti-parallel
Strand 3	D	283	287	anti-parallel
Strand 4	D	314	319	parallel
Strand 5	D	301	308	anti-parallel
Strand 6	D	247	259	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	295	296	first strand
Strand 2	D	485	486	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	563	564	first strand
Strand 2	D	567	568	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: 8D9D

Analysis of interatomic Contacts of Structural Units in PDB entry:
8D9D