Analysis of interatomic Contacts of Structural Units in PDB entry:
9GDP

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 9GDP entry

There are 10 chains in PDB entry 9GDP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
C	TYR 3	ASP 1340
D	GLU 16	GLN 1374
E	VAL 6	GLU 74
A	SER 4	VAL 238
B	SER 4	VAL 233
F	ARG 95	LEU 619
H	A -5	G -1
G	ILE 253	PRO 323
T	A -42	C 12
L	G -12	T 42

There are139 helices in PDB entry 9GDP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	C	4	10	Right-handed alpha
Helix 2	AA2	C	28	40	Right-handed alpha
Helix 3	AA3	C	48	57	Right-handed alpha
Helix 4	AA4	C	81	89	Right-handed alpha
Helix 5	AA5	C	206	212	Right-handed alpha
Helix 6	AA6	C	216	225	Right-handed alpha
Helix 7	AA7	C	242	247	Right-handed alpha
Helix 8	AA8	C	257	261	Right-handed 310
Helix 9	AA9	C	274	279	Right-handed alpha
Helix 10	AB1	C	289	294	Right-handed alpha
Helix 11	AB2	C	318	329	Right-handed alpha
Helix 12	AB3	C	345	353	Right-handed alpha
Helix 13	AB4	C	358	371	Right-handed alpha
Helix 14	AB5	C	377	390	Right-handed alpha
Helix 15	AB6	C	398	410	Right-handed alpha
Helix 16	AB7	C	421	438	Right-handed alpha
Helix 17	AB8	C	455	480	Right-handed alpha
Helix 18	AB9	C	488	492	Right-handed 310
Helix 19	AC1	C	495	509	Right-handed alpha
Helix 20	AC2	C	519	528	Right-handed alpha
Helix 21	AC3	C	544	549	Right-handed alpha
Helix 22	AC4	C	551	555	Right-handed 310
Helix 23	AC5	C	608	614	Right-handed alpha
Helix 24	AC6	C	648	650	Right-handed 310
Helix 25	AC7	C	662	667	Right-handed alpha
Helix 26	AC8	C	670	674	Right-handed 310
Helix 27	AC9	C	675	686	Right-handed alpha
Helix 28	AD1	C	687	689	Right-handed 310
Helix 29	AD2	C	704	713	Right-handed alpha
Helix 30	AD3	C	738	741	Right-handed 310
Helix 31	AD4	C	820	825	Right-handed alpha
Helix 32	AD5	C	896	906	Right-handed alpha
Helix 33	AD6	C	942	972	Right-handed alpha
Helix 34	AD7	C	1022	1038	Right-handed alpha
Helix 35	AD8	C	1081	1085	Right-handed 310
Helix 36	AD9	C	1099	1103	Right-handed 310
Helix 37	AE1	C	1109	1134	Right-handed alpha
Helix 38	AE2	C	1137	1150	Right-handed alpha
Helix 39	AE3	C	1159	1163	Right-handed 310
Helix 40	AE4	C	1164	1175	Right-handed alpha
Helix 41	AE5	C	1190	1201	Right-handed alpha
Helix 42	AE6	C	1270	1281	Right-handed alpha
Helix 43	AE7	C	1282	1291	Right-handed alpha
Helix 44	AE8	C	1296	1309	Right-handed alpha
Helix 45	AE9	C	1319	1332	Right-handed alpha
Helix 46	AF1	D	26	33	Right-handed alpha
Helix 47	AF2	D	58	63	Right-handed alpha
Helix 48	AF3	D	77	81	Right-handed 310
Helix 49	AF4	D	95	100	Right-handed 310
Helix 50	AF5	D	114	119	Right-handed alpha
Helix 51	AF6	D	122	129	Right-handed alpha
Helix 52	AF7	D	131	140	Right-handed alpha
Helix 53	AF8	D	161	173	Right-handed alpha
Helix 54	AF9	D	181	191	Right-handed alpha
Helix 55	AG1	D	193	207	Right-handed alpha
Helix 56	AG2	D	210	231	Right-handed alpha
Helix 57	AG3	D	233	236	Right-handed 310
Helix 58	AG4	D	246	250	Right-handed 310
Helix 59	AG5	D	263	286	Right-handed alpha
Helix 60	AG6	D	288	308	Right-handed alpha
Helix 61	AG7	D	326	332	Right-handed alpha
Helix 62	AG8	D	336	341	Right-handed alpha
Helix 63	AG9	D	370	377	Right-handed alpha
Helix 64	AH1	D	377	388	Right-handed alpha
Helix 65	AH2	D	393	404	Right-handed alpha
Helix 66	AH3	D	405	417	Right-handed alpha
Helix 67	AH4	D	430	432	Right-handed 310
Helix 68	AH5	D	450	452	Right-handed 310
Helix 69	AH6	D	453	458	Right-handed alpha
Helix 70	AH7	D	473	483	Right-handed alpha
Helix 71	AH8	D	504	514	Right-handed alpha
Helix 72	AH9	D	529	539	Right-handed alpha
Helix 73	AI1	D	574	581	Right-handed alpha
Helix 74	AI2	D	588	592	Right-handed 310
Helix 75	AI3	D	597	612	Right-handed alpha
Helix 76	AI4	D	614	636	Right-handed alpha
Helix 77	AI5	D	640	644	Right-handed 310
Helix 78	AI6	D	648	670	Right-handed alpha
Helix 79	AI7	D	674	702	Right-handed alpha
Helix 80	AI8	D	720	728	Right-handed alpha
Helix 81	AI9	D	733	742	Right-handed alpha
Helix 82	AJ1	D	768	805	Right-handed alpha
Helix 83	AJ2	D	834	840	Right-handed alpha
Helix 84	AJ3	D	865	875	Right-handed alpha
Helix 85	AJ4	D	896	900	Right-handed alpha
Helix 86	AJ5	D	914	925	Right-handed alpha
Helix 87	AJ6	D	926	928	Right-handed 310
Helix 88	AJ7	D	1137	1146	Right-handed alpha
Helix 89	AJ8	D	1215	1223	Right-handed alpha
Helix 90	AJ9	D	1224	1243	Right-handed alpha
Helix 91	AK1	D	1248	1260	Right-handed alpha
Helix 92	AK2	D	1281	1294	Right-handed alpha
Helix 93	AK3	D	1307	1314	Right-handed alpha
Helix 94	AK4	D	1317	1325	Right-handed alpha
Helix 95	AK5	D	1326	1338	Right-handed alpha
Helix 96	AK6	D	1345	1352	Right-handed alpha
Helix 97	AK7	D	1358	1360	Right-handed 310
Helix 98	AK8	D	1361	1374	Right-handed alpha
Helix 99	AK9	E	7	14	Right-handed alpha
Helix 100	AL1	E	15	32	Right-handed alpha
Helix 101	AL2	E	45	56	Right-handed alpha
Helix 102	AL3	E	60	74	Right-handed alpha
Helix 103	AL4	A	34	48	Right-handed alpha
Helix 104	AL5	A	77	86	Right-handed alpha
Helix 105	AL6	A	213	234	Right-handed alpha
Helix 106	AL7	B	34	50	Right-handed alpha
Helix 107	AL8	B	77	87	Right-handed alpha
Helix 108	AL9	B	156	160	Right-handed 310
Helix 109	AM1	B	213	228	Right-handed alpha
Helix 110	AM2	F	98	109	Right-handed alpha
Helix 111	AM3	F	114	138	Right-handed alpha
Helix 112	AM4	F	141	155	Right-handed alpha
Helix 113	AM5	F	159	163	Right-handed alpha
Helix 114	AM6	F	224	243	Right-handed alpha
Helix 115	AM7	F	250	266	Right-handed alpha
Helix 116	AM8	F	270	300	Right-handed alpha
Helix 117	AM9	F	308	318	Right-handed alpha
Helix 118	AN1	F	320	330	Right-handed alpha
Helix 119	AN2	F	334	360	Right-handed alpha
Helix 120	AN3	F	363	400	Right-handed alpha
Helix 121	AN4	F	401	403	Right-handed 310
Helix 122	AN5	F	408	426	Right-handed alpha
Helix 123	AN6	F	427	432	Right-handed 310
Helix 124	AN7	F	434	455	Right-handed alpha
Helix 125	AN8	F	461	483	Right-handed alpha
Helix 126	AN9	F	487	496	Right-handed alpha
Helix 127	AO1	F	498	508	Right-handed alpha
Helix 128	AO2	F	526	531	Right-handed 310
Helix 129	AO3	F	538	558	Right-handed alpha
Helix 130	AO4	F	560	572	Right-handed alpha
Helix 131	AO5	F	580	586	Right-handed alpha
Helix 132	AO6	F	591	607	Right-handed alpha
Helix 133	AO7	F	608	611	Right-handed 310
Helix 134	AO8	F	612	617	Right-handed alpha
Helix 135	AO9	G	257	262	Right-handed 310
Helix 136	AP1	G	264	274	Right-handed alpha
Helix 137	AP2	G	278	283	Right-handed alpha
Helix 138	AP3	G	285	291	Right-handed alpha
Helix 139	AP4	G	297	312	Right-handed alpha

There are 44 sheets in PDB entry 9GDP. 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, AC2, AC3, AC4, AC5, AC6, AC7, AC8, AC9, AD1, AD2, AD3, AD4, AD5, AD6, AD7, AD8, AD9, AE1, AE2, AE3, AE4, AE5, AE6, AE7, AE8,

There are 3 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	13	14	first strand
Strand 2	C	1181	1182	parallel
Strand 3	C	700	701	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	C	59	60	first strand
Strand 2	C	66	75	anti-parallel
Strand 3	C	93	105	anti-parallel
Strand 4	C	114	128	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	C	136	138	first strand
Strand 2	C	141	145	anti-parallel
Strand 3	C	512	514	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	451	454	first strand
Strand 2	C	147	151	anti-parallel
Strand 3	C	529	531	parallel
Strand 4	C	572	574	anti-parallel

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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	154	159	first strand
Strand 2	C	172	177	anti-parallel
Strand 3	C	184	188	anti-parallel
Strand 4	C	194	198	anti-parallel
Strand 5	C	204	205	anti-parallel

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There are 3 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	236	239	first strand
Strand 2	C	227	233	anti-parallel
Strand 3	C	333	336	anti-parallel

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There are 2 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	301	302	first strand
Strand 2	C	309	311	anti-parallel

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There are 3 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	580	581	first strand
Strand 2	C	587	595	anti-parallel
Strand 3	C	598	607	anti-parallel

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There are 6 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	580	581	first strand
Strand 2	C	587	595	anti-parallel
Strand 3	C	652	654	anti-parallel
Strand 4	C	616	617	parallel
Strand 5	C	633	638	anti-parallel
Strand 6	C	641	646	anti-parallel

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There are 3 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	716	717	first strand
Strand 2	C	782	785	anti-parallel
Strand 3	C	768	769	anti-parallel

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There are 4 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	748	752	first strand
Strand 2	C	731	736	anti-parallel
Strand 3	C	722	727	anti-parallel
Strand 4	C	776	777	anti-parallel

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There are 2 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	757	758	first strand
Strand 2	C	764	765	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	789	790	first strand
Strand 2	C	793	794	anti-parallel

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There are 8 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	1208	1209	first strand
Strand 2	C	1224	1233	anti-parallel
Strand 3	C	1065	1067	anti-parallel
Strand 4	C	1073	1080	anti-parallel
Strand 5	C	815	819	parallel
Strand 6	C	1096	1098	anti-parallel
Strand 7	C	798	804	parallel
Strand 8	C	1224	1233	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	830	841	first strand
Strand 2	C	1046	1058	anti-parallel
Strand 3	C	926	935	anti-parallel
Strand 4	C	876	877	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	849	850	first strand
Strand 2	C	886	889	anti-parallel
Strand 3	C	913	915	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	882	884	first strand
Strand 2	C	918	919	anti-parallel

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There are 8 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1243	1245	first strand
Strand 2	D	350	357	anti-parallel
Strand 3	D	465	469	anti-parallel
Strand 4	D	421	424	anti-parallel
Strand 5	D	434	442	anti-parallel
Strand 6	D	365	369	parallel
Strand 7	D	447	449	anti-parallel
Strand 8	D	350	357	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	C	1268	1269	first strand
Strand 2	D	345	346	anti-parallel

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There are 3 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	1334	1339	first strand
Strand 2	D	19	24	anti-parallel
Strand 3	D	1340	1341	anti-parallel

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There are 3 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	34	37	first strand
Strand 2	D	102	112	parallel
Strand 3	D	238	244	anti-parallel

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There are 3 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	159	160	first strand
Strand 2	D	144	148	anti-parallel
Strand 3	D	177	179	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	253	254	first strand
Strand 2	D	260	262	anti-parallel
Strand 3	F	513	514	parallel

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There are 3 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	526	527	first strand
Strand 2	D	547	557	parallel
Strand 3	D	563	573	anti-parallel

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There are 2 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	703	707	first strand
Strand 2	D	713	717	anti-parallel

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There are 2 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	809	811	first strand
Strand 2	D	894	895	parallel

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There are 2 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	820	822	first strand
Strand 2	D	880	882	anti-parallel

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There are 2 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	825	826	first strand
Strand 2	D	831	833	anti-parallel

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There are 2 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	848	849	first strand
Strand 2	D	856	858	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	991	995	first strand
Strand 2	D	982	985	anti-parallel
Strand 3	D	956	959	anti-parallel
Strand 4	D	1010	1011	anti-parallel

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There are 2 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1155	1156	first strand
Strand 2	D	1208	1210	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1184	1189	first strand
Strand 2	D	1173	1179	anti-parallel
Strand 3	D	1161	1164	anti-parallel
Strand 4	D	1202	1203	anti-parallel

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There are 3 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	1278	1280	first strand
Strand 2	D	1262	1267	anti-parallel
Strand 3	D	1300	1304	anti-parallel

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There are 4 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	12	20	first strand
Strand 2	A	23	31	anti-parallel
Strand 3	A	200	208	anti-parallel
Strand 4	A	181	190	anti-parallel

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There are 5 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	116	117	first strand
Strand 2	A	98	106	anti-parallel
Strand 3	A	140	151	anti-parallel
Strand 4	A	52	61	anti-parallel
Strand 5	A	171	173	anti-parallel

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There are 2 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	90	92	first strand
Strand 2	A	122	124	anti-parallel

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There are 2 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	109	112	first strand
Strand 2	A	130	134	anti-parallel

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There are 2 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	153	154	first strand
Strand 2	A	176	177	anti-parallel

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There are 4 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	13	18	first strand
Strand 2	B	23	31	anti-parallel
Strand 3	B	196	208	anti-parallel
Strand 4	B	181	193	anti-parallel

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There are 5 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	116	117	first strand
Strand 2	B	98	106	anti-parallel
Strand 3	B	140	151	anti-parallel
Strand 4	B	52	61	anti-parallel
Strand 5	B	172	173	anti-parallel

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There are 2 strands in AE5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	90	92	first strand
Strand 2	B	122	124	anti-parallel

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There are 2 strands in AE6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	109	112	first strand
Strand 2	B	130	134	anti-parallel

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There are 2 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	153	154	first strand
Strand 2	B	176	177	anti-parallel

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There are 2 strands in AE8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	164	166	first strand
Strand 2	F	268	269	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: 9GDP

Analysis of interatomic Contacts of Structural Units in PDB entry:
9GDP