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

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 9GDQ entry

There are 11 chains in PDB entry 9GDQ (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
G	ILE 253	PRO 323
K	MET 6	GLU 115
T	G -12	C 56
N	G -56	C 12
H	MET 6	GLU 115

There are142 helices in PDB entry 9GDQ. 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	9	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	207	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	354	Right-handed alpha
Helix 13	AB4	C	358	371	Right-handed alpha
Helix 14	AB5	C	377	389	Right-handed alpha
Helix 15	AB6	C	398	409	Right-handed alpha
Helix 16	AB7	C	421	438	Right-handed alpha
Helix 17	AB8	C	455	482	Right-handed alpha
Helix 18	AB9	C	494	509	Right-handed alpha
Helix 19	AC1	C	519	528	Right-handed alpha
Helix 20	AC2	C	544	549	Right-handed alpha
Helix 21	AC3	C	551	555	Right-handed 310
Helix 22	AC4	C	607	612	Right-handed alpha
Helix 23	AC5	C	648	650	Right-handed 310
Helix 24	AC6	C	664	668	Right-handed 310
Helix 25	AC7	C	670	674	Right-handed 310
Helix 26	AC8	C	675	686	Right-handed alpha
Helix 27	AC9	C	687	689	Right-handed 310
Helix 28	AD1	C	704	713	Right-handed alpha
Helix 29	AD2	C	820	825	Right-handed alpha
Helix 30	AD3	C	859	863	Right-handed 310
Helix 31	AD4	C	896	907	Right-handed alpha
Helix 32	AD5	C	942	979	Right-handed alpha
Helix 33	AD6	C	1007	1038	Right-handed alpha
Helix 34	AD7	C	1081	1085	Right-handed 310
Helix 35	AD8	C	1101	1107	Right-handed alpha
Helix 36	AD9	C	1109	1134	Right-handed alpha
Helix 37	AE1	C	1137	1150	Right-handed alpha
Helix 38	AE2	C	1159	1163	Right-handed 310
Helix 39	AE3	C	1164	1175	Right-handed alpha
Helix 40	AE4	C	1190	1201	Right-handed alpha
Helix 41	AE5	C	1270	1281	Right-handed alpha
Helix 42	AE6	C	1282	1291	Right-handed alpha
Helix 43	AE7	C	1296	1310	Right-handed alpha
Helix 44	AE8	C	1319	1332	Right-handed alpha
Helix 45	AE9	D	26	33	Right-handed alpha
Helix 46	AF1	D	58	63	Right-handed alpha
Helix 47	AF2	D	77	81	Right-handed 310
Helix 48	AF3	D	94	100	Right-handed 310
Helix 49	AF4	D	114	119	Right-handed alpha
Helix 50	AF5	D	131	140	Right-handed alpha
Helix 51	AF6	D	161	172	Right-handed alpha
Helix 52	AF7	D	181	192	Right-handed alpha
Helix 53	AF8	D	193	208	Right-handed alpha
Helix 54	AF9	D	210	231	Right-handed alpha
Helix 55	AG1	D	233	236	Right-handed 310
Helix 56	AG2	D	246	250	Right-handed 310
Helix 57	AG3	D	263	286	Right-handed alpha
Helix 58	AG4	D	288	308	Right-handed alpha
Helix 59	AG5	D	326	332	Right-handed alpha
Helix 60	AG6	D	336	342	Right-handed alpha
Helix 61	AG7	D	370	377	Right-handed alpha
Helix 62	AG8	D	377	388	Right-handed alpha
Helix 63	AG9	D	393	404	Right-handed alpha
Helix 64	AH1	D	405	416	Right-handed alpha
Helix 65	AH2	D	417	419	Right-handed 310
Helix 66	AH3	D	430	432	Right-handed 310
Helix 67	AH4	D	450	452	Right-handed 310
Helix 68	AH5	D	453	458	Right-handed alpha
Helix 69	AH6	D	473	483	Right-handed alpha
Helix 70	AH7	D	504	514	Right-handed alpha
Helix 71	AH8	D	529	539	Right-handed alpha
Helix 72	AH9	D	574	583	Right-handed alpha
Helix 73	AI1	D	588	592	Right-handed 310
Helix 74	AI2	D	597	613	Right-handed alpha
Helix 75	AI3	D	614	636	Right-handed alpha
Helix 76	AI4	D	648	666	Right-handed alpha
Helix 77	AI5	D	674	702	Right-handed alpha
Helix 78	AI6	D	720	728	Right-handed alpha
Helix 79	AI7	D	733	742	Right-handed alpha
Helix 80	AI8	D	768	805	Right-handed alpha
Helix 81	AI9	D	834	840	Right-handed alpha
Helix 82	AJ1	D	865	875	Right-handed alpha
Helix 83	AJ2	D	896	900	Right-handed alpha
Helix 84	AJ3	D	914	925	Right-handed alpha
Helix 85	AJ4	D	926	929	Right-handed 310
Helix 86	AJ5	D	1137	1146	Right-handed alpha
Helix 87	AJ6	D	1215	1223	Right-handed alpha
Helix 88	AJ7	D	1224	1243	Right-handed alpha
Helix 89	AJ8	D	1248	1260	Right-handed alpha
Helix 90	AJ9	D	1281	1295	Right-handed alpha
Helix 91	AK1	D	1309	1314	Right-handed alpha
Helix 92	AK2	D	1317	1325	Right-handed alpha
Helix 93	AK3	D	1326	1338	Right-handed alpha
Helix 94	AK4	D	1345	1353	Right-handed alpha
Helix 95	AK5	D	1358	1360	Right-handed 310
Helix 96	AK6	D	1361	1374	Right-handed alpha
Helix 97	AK7	E	7	14	Right-handed alpha
Helix 98	AK8	E	15	32	Right-handed alpha
Helix 99	AK9	E	45	57	Right-handed alpha
Helix 100	AL1	E	60	74	Right-handed alpha
Helix 101	AL2	A	34	50	Right-handed alpha
Helix 102	AL3	A	77	87	Right-handed alpha
Helix 103	AL4	A	213	235	Right-handed alpha
Helix 104	AL5	B	34	50	Right-handed alpha
Helix 105	AL6	B	77	87	Right-handed alpha
Helix 106	AL7	B	156	160	Right-handed 310
Helix 107	AL8	B	213	229	Right-handed alpha
Helix 108	AL9	F	98	109	Right-handed alpha
Helix 109	AM1	F	114	138	Right-handed alpha
Helix 110	AM2	F	141	155	Right-handed alpha
Helix 111	AM3	F	159	163	Right-handed alpha
Helix 112	AM4	F	224	243	Right-handed alpha
Helix 113	AM5	F	250	266	Right-handed alpha
Helix 114	AM6	F	270	300	Right-handed alpha
Helix 115	AM7	F	308	313	Right-handed alpha
Helix 116	AM8	F	320	330	Right-handed alpha
Helix 117	AM9	F	334	347	Right-handed alpha
Helix 118	AN1	F	351	360	Right-handed 310
Helix 119	AN2	F	361	400	Right-handed alpha
Helix 120	AN3	F	401	403	Right-handed 310
Helix 121	AN4	F	408	426	Right-handed alpha
Helix 122	AN5	F	428	432	Right-handed 310
Helix 123	AN6	F	434	455	Right-handed alpha
Helix 124	AN7	F	461	483	Right-handed alpha
Helix 125	AN8	F	489	494	Right-handed alpha
Helix 126	AN9	F	498	507	Right-handed alpha
Helix 127	AO1	F	526	531	Right-handed 310
Helix 128	AO2	F	538	557	Right-handed alpha
Helix 129	AO3	F	560	572	Right-handed alpha
Helix 130	AO4	F	580	588	Right-handed alpha
Helix 131	AO5	F	591	607	Right-handed alpha
Helix 132	AO6	F	608	611	Right-handed 310
Helix 133	AO7	F	612	617	Right-handed alpha
Helix 134	AO8	G	264	274	Right-handed alpha
Helix 135	AO9	G	286	292	Right-handed alpha
Helix 136	AP1	G	297	312	Right-handed alpha
Helix 137	AP2	K	36	49	Right-handed alpha
Helix 138	AP3	K	55	65	Right-handed alpha
Helix 139	AP4	K	73	87	Right-handed alpha
Helix 140	AP5	H	36	49	Right-handed alpha
Helix 141	AP6	H	55	65	Right-handed alpha
Helix 142	AP7	H	73	88	Right-handed alpha

There are 48 sheets in PDB entry 9GDQ. 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, AE9, AF1, AF2, AF3,

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	104	anti-parallel
Strand 4	C	117	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	238	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	606	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	652	654	anti-parallel

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There are 2 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	633	638	first strand
Strand 2	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	727	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 3 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	957	959	first strand
Strand 2	D	982	985	anti-parallel
Strand 3	D	991	995	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	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	17	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	17	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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There are 5 strands in AE9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	32	33	first strand
Strand 2	K	23	25	anti-parallel
Strand 3	K	14	16	anti-parallel
Strand 4	K	8	10	anti-parallel
Strand 5	K	111	113	anti-parallel

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There are 2 strands in AF1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	97	100	first strand
Strand 2	K	104	107	anti-parallel

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There are 5 strands in AF2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	32	34	first strand
Strand 2	H	22	25	anti-parallel
Strand 3	H	14	17	anti-parallel
Strand 4	H	8	10	anti-parallel
Strand 5	H	111	113	anti-parallel

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There are 2 strands in AF3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	97	100	first strand
Strand 2	H	104	107	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: 9GDQ

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