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

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 9GDO entry

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

Chain ID	Initial residue	Terminal residue
T	G -12	T 45
N	A -45	C 12
G	ILE 253	ASN 321
C	TYR 3	ASP 1340
D	GLU 16	GLN 1377
E	ALA 2	ALA 82
A	SER 4	VAL 238
B	SER 4	VAL 233
F	ARG 95	LEU 619

There are140 helices in PDB entry 9GDO. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	G	258	262	Right-handed 310
Helix 2	AA2	G	264	272	Right-handed alpha
Helix 3	AA3	G	278	283	Right-handed alpha
Helix 4	AA4	G	285	291	Right-handed alpha
Helix 5	AA5	G	297	311	Right-handed alpha
Helix 6	AA6	C	4	9	Right-handed alpha
Helix 7	AA7	C	28	40	Right-handed alpha
Helix 8	AA8	C	48	57	Right-handed alpha
Helix 9	AA9	C	81	89	Right-handed alpha
Helix 10	AB1	C	206	212	Right-handed alpha
Helix 11	AB2	C	216	225	Right-handed alpha
Helix 12	AB3	C	242	247	Right-handed alpha
Helix 13	AB4	C	257	261	Right-handed 310
Helix 14	AB5	C	274	279	Right-handed alpha
Helix 15	AB6	C	289	294	Right-handed alpha
Helix 16	AB7	C	318	328	Right-handed alpha
Helix 17	AB8	C	345	354	Right-handed alpha
Helix 18	AB9	C	358	371	Right-handed alpha
Helix 19	AC1	C	377	391	Right-handed alpha
Helix 20	AC2	C	398	410	Right-handed alpha
Helix 21	AC3	C	421	438	Right-handed alpha
Helix 22	AC4	C	455	481	Right-handed alpha
Helix 23	AC5	C	488	492	Right-handed 310
Helix 24	AC6	C	494	509	Right-handed alpha
Helix 25	AC7	C	519	528	Right-handed alpha
Helix 26	AC8	C	544	549	Right-handed alpha
Helix 27	AC9	C	551	555	Right-handed 310
Helix 28	AD1	C	608	614	Right-handed alpha
Helix 29	AD2	C	648	650	Right-handed 310
Helix 30	AD3	C	662	667	Right-handed alpha
Helix 31	AD4	C	670	674	Right-handed 310
Helix 32	AD5	C	675	686	Right-handed alpha
Helix 33	AD6	C	704	713	Right-handed alpha
Helix 34	AD7	C	738	741	Right-handed 310
Helix 35	AD8	C	820	825	Right-handed alpha
Helix 36	AD9	C	896	906	Right-handed alpha
Helix 37	AE1	C	942	981	Right-handed alpha
Helix 38	AE2	C	986	992	Right-handed alpha
Helix 39	AE3	C	994	1000	Right-handed 310
Helix 40	AE4	C	1004	1019	Right-handed alpha
Helix 41	AE5	C	1019	1038	Right-handed alpha
Helix 42	AE6	C	1081	1085	Right-handed 310
Helix 43	AE7	C	1099	1103	Right-handed 310
Helix 44	AE8	C	1109	1134	Right-handed alpha
Helix 45	AE9	C	1137	1150	Right-handed alpha
Helix 46	AF1	C	1164	1175	Right-handed alpha
Helix 47	AF2	C	1190	1201	Right-handed alpha
Helix 48	AF3	C	1237	1242	Right-handed alpha
Helix 49	AF4	C	1270	1281	Right-handed alpha
Helix 50	AF5	C	1282	1291	Right-handed alpha
Helix 51	AF6	C	1296	1309	Right-handed alpha
Helix 52	AF7	C	1319	1332	Right-handed alpha
Helix 53	AF8	D	26	33	Right-handed alpha
Helix 54	AF9	D	58	63	Right-handed alpha
Helix 55	AG1	D	77	81	Right-handed 310
Helix 56	AG2	D	94	100	Right-handed 310
Helix 57	AG3	D	114	119	Right-handed alpha
Helix 58	AG4	D	122	129	Right-handed alpha
Helix 59	AG5	D	131	140	Right-handed alpha
Helix 60	AG6	D	161	173	Right-handed alpha
Helix 61	AG7	D	181	190	Right-handed alpha
Helix 62	AG8	D	193	207	Right-handed alpha
Helix 63	AG9	D	210	231	Right-handed alpha
Helix 64	AH1	D	233	236	Right-handed 310
Helix 65	AH2	D	246	250	Right-handed 310
Helix 66	AH3	D	263	285	Right-handed alpha
Helix 67	AH4	D	288	308	Right-handed alpha
Helix 68	AH5	D	326	332	Right-handed alpha
Helix 69	AH6	D	336	341	Right-handed alpha
Helix 70	AH7	D	370	377	Right-handed alpha
Helix 71	AH8	D	377	388	Right-handed alpha
Helix 72	AH9	D	393	404	Right-handed alpha
Helix 73	AI1	D	405	416	Right-handed alpha
Helix 74	AI2	D	430	432	Right-handed 310
Helix 75	AI3	D	450	452	Right-handed 310
Helix 76	AI4	D	453	458	Right-handed alpha
Helix 77	AI5	D	473	483	Right-handed alpha
Helix 78	AI6	D	504	514	Right-handed alpha
Helix 79	AI7	D	529	539	Right-handed alpha
Helix 80	AI8	D	574	581	Right-handed alpha
Helix 81	AI9	D	588	592	Right-handed 310
Helix 82	AJ1	D	597	612	Right-handed alpha
Helix 83	AJ2	D	614	636	Right-handed alpha
Helix 84	AJ3	D	648	670	Right-handed alpha
Helix 85	AJ4	D	674	702	Right-handed alpha
Helix 86	AJ5	D	720	728	Right-handed alpha
Helix 87	AJ6	D	733	742	Right-handed alpha
Helix 88	AJ7	D	768	805	Right-handed alpha
Helix 89	AJ8	D	834	840	Right-handed alpha
Helix 90	AJ9	D	865	876	Right-handed alpha
Helix 91	AK1	D	896	900	Right-handed alpha
Helix 92	AK2	D	914	925	Right-handed alpha
Helix 93	AK3	D	926	928	Right-handed 310
Helix 94	AK4	D	1137	1146	Right-handed alpha
Helix 95	AK5	D	1215	1223	Right-handed alpha
Helix 96	AK6	D	1224	1243	Right-handed alpha
Helix 97	AK7	D	1248	1260	Right-handed alpha
Helix 98	AK8	D	1281	1294	Right-handed alpha
Helix 99	AK9	D	1307	1314	Right-handed alpha
Helix 100	AL1	D	1317	1325	Right-handed alpha
Helix 101	AL2	D	1326	1338	Right-handed alpha
Helix 102	AL3	D	1345	1352	Right-handed alpha
Helix 103	AL4	D	1358	1360	Right-handed 310
Helix 104	AL5	D	1361	1377	Right-handed alpha
Helix 105	AL6	E	7	14	Right-handed alpha
Helix 106	AL7	E	15	32	Right-handed alpha
Helix 107	AL8	E	45	56	Right-handed alpha
Helix 108	AL9	E	60	82	Right-handed alpha
Helix 109	AM1	A	34	48	Right-handed alpha
Helix 110	AM2	A	77	87	Right-handed alpha
Helix 111	AM3	A	213	234	Right-handed alpha
Helix 112	AM4	B	34	50	Right-handed alpha
Helix 113	AM5	B	77	87	Right-handed alpha
Helix 114	AM6	B	156	160	Right-handed 310
Helix 115	AM7	B	213	229	Right-handed alpha
Helix 116	AM8	F	98	109	Right-handed alpha
Helix 117	AM9	F	114	138	Right-handed alpha
Helix 118	AN1	F	141	155	Right-handed alpha
Helix 119	AN2	F	159	163	Right-handed alpha
Helix 120	AN3	F	224	243	Right-handed alpha
Helix 121	AN4	F	250	266	Right-handed alpha
Helix 122	AN5	F	270	300	Right-handed alpha
Helix 123	AN6	F	308	313	Right-handed alpha
Helix 124	AN7	F	313	318	Right-handed alpha
Helix 125	AN8	F	320	330	Right-handed alpha
Helix 126	AN9	F	334	360	Right-handed alpha
Helix 127	AO1	F	363	400	Right-handed alpha
Helix 128	AO2	F	401	403	Right-handed 310
Helix 129	AO3	F	408	426	Right-handed alpha
Helix 130	AO4	F	428	432	Right-handed 310
Helix 131	AO5	F	434	455	Right-handed alpha
Helix 132	AO6	F	461	483	Right-handed alpha
Helix 133	AO7	F	487	496	Right-handed alpha
Helix 134	AO8	F	498	507	Right-handed alpha
Helix 135	AO9	F	526	531	Right-handed 310
Helix 136	AP1	F	538	557	Right-handed alpha
Helix 137	AP2	F	560	572	Right-handed alpha
Helix 138	AP3	F	580	589	Right-handed alpha
Helix 139	AP4	F	591	607	Right-handed alpha
Helix 140	AP5	F	612	617	Right-handed alpha

There are 44 sheets in PDB entry 9GDO. 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	116	anti-parallel

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There are 4 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	59	60	first strand
Strand 2	C	66	75	anti-parallel
Strand 3	C	93	105	anti-parallel
Strand 4	C	119	128	anti-parallel

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There are 3 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	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 AA5 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 AA6 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 AA7 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 AA8 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 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	598	607	anti-parallel

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There are 6 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	580	581	first strand
Strand 2	C	587	595	anti-parallel
Strand 3	C	652	653	anti-parallel
Strand 4	C	615	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 AB2 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 AB3 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	728	anti-parallel
Strand 4	C	776	777	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	757	758	first strand
Strand 2	C	764	765	anti-parallel

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There are 2 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	789	790	first strand
Strand 2	C	793	794	anti-parallel

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There are 8 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	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	816	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 AB7 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 AB8 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 AB9 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 AC1 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 AC2 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 AC3 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 AC4 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 AC5 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 AC6 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 AC7 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 AC8 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 AC9 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 AD1 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 AD2 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 AD3 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 AD4 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 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	1178	anti-parallel
Strand 3	D	1161	1165	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	20	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: 9GDO

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