Analysis of interatomic Contacts of Structural Units in PDB entry:
5D98

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 5D98 entry

There are 6 chains in PDB entry 5D98 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	THR 4	THR 708
B	MET 1	SER 753
C	MET 1	LYS 771
D	THR 4	THR 708
E	MET 1	SER 753
F	MET 1	LYS 771

There are181 helices in PDB entry 5D98. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	4	13	Right-handed alpha
Helix 2	AA2	A	14	28	Right-handed alpha
Helix 3	AA3	A	34	50	Right-handed alpha
Helix 4	AA4	A	68	77	Right-handed alpha
Helix 5	AA5	A	77	83	Right-handed alpha
Helix 6	AA6	A	111	124	Right-handed alpha
Helix 7	AA7	A	125	127	Right-handed 310
Helix 8	AA8	A	146	168	Right-handed alpha
Helix 9	AA9	A	188	197	Right-handed alpha
Helix 10	AB1	A	205	215	Right-handed alpha
Helix 11	AB2	A	221	234	Right-handed alpha
Helix 12	AB3	A	239	244	Right-handed alpha
Helix 13	AB4	A	276	281	Right-handed alpha
Helix 14	AB5	A	285	292	Right-handed alpha
Helix 15	AB6	A	293	298	Right-handed 310
Helix 16	AB7	A	309	327	Right-handed alpha
Helix 17	AB8	A	334	342	Right-handed alpha
Helix 18	AB9	A	351	361	Right-handed alpha
Helix 19	AC1	A	380	391	Right-handed alpha
Helix 20	AC2	A	411	428	Right-handed alpha
Helix 21	AC3	A	429	452	Right-handed alpha
Helix 22	AC4	A	557	566	Right-handed alpha
Helix 23	AC5	A	568	590	Right-handed alpha
Helix 24	AC6	A	593	601	Right-handed alpha
Helix 25	AC7	A	619	634	Right-handed alpha
Helix 26	AC8	A	636	658	Right-handed alpha
Helix 27	AC9	A	666	677	Right-handed alpha
Helix 28	AD1	A	681	702	Right-handed alpha
Helix 29	AD2	B	5	10	Right-handed 310
Helix 30	AD3	B	13	18	Right-handed alpha
Helix 31	AD4	B	19	21	Right-handed 310
Helix 32	AD5	B	35	50	Right-handed alpha
Helix 33	AD6	B	86	99	Right-handed alpha
Helix 34	AD7	B	104	120	Right-handed alpha
Helix 35	AD8	B	121	127	Right-handed 310
Helix 36	AD9	B	141	158	Right-handed alpha
Helix 37	AE1	B	164	178	Right-handed alpha
Helix 38	AE2	B	216	224	Right-handed alpha
Helix 39	AE3	B	250	268	Right-handed alpha
Helix 40	AE4	B	277	295	Right-handed alpha
Helix 41	AE5	B	310	315	Right-handed alpha
Helix 42	AE6	B	316	328	Right-handed alpha
Helix 43	AE7	B	335	348	Right-handed alpha
Helix 44	AE8	B	374	379	Right-handed alpha
Helix 45	AE9	B	380	382	Right-handed 310
Helix 46	AF1	B	383	394	Right-handed alpha
Helix 47	AF2	B	413	426	Right-handed alpha
Helix 48	AF3	B	456	474	Right-handed alpha
Helix 49	AF4	B	506	514	Right-handed 310
Helix 50	AF5	B	519	537	Right-handed alpha
Helix 51	AF6	B	541	560	Right-handed alpha
Helix 52	AF7	B	571	584	Right-handed alpha
Helix 53	AF8	B	608	615	Right-handed alpha
Helix 54	AF9	B	618	626	Right-handed alpha
Helix 55	AG1	B	674	696	Right-handed alpha
Helix 56	AG2	B	709	728	Right-handed alpha
Helix 57	AG3	B	732	753	Right-handed alpha
Helix 58	AG4	C	2	17	Right-handed alpha
Helix 59	AG5	C	17	26	Right-handed alpha
Helix 60	AG6	C	30	38	Right-handed alpha
Helix 61	AG7	C	46	57	Right-handed alpha
Helix 62	AG8	C	64	72	Right-handed alpha
Helix 63	AG9	C	99	109	Right-handed alpha
Helix 64	AH1	C	114	120	Right-handed alpha
Helix 65	AH2	C	122	134	Right-handed alpha
Helix 66	AH3	C	162	175	Right-handed alpha
Helix 67	AH4	C	182	190	Right-handed alpha
Helix 68	AH5	C	191	202	Right-handed alpha
Helix 69	AH6	C	206	218	Right-handed alpha
Helix 70	AH7	C	232	237	Right-handed alpha
Helix 71	AH8	C	238	243	Right-handed alpha
Helix 72	AH9	C	258	280	Right-handed alpha
Helix 73	AI1	C	284	295	Right-handed alpha
Helix 74	AI2	C	306	312	Right-handed alpha
Helix 75	AI3	C	317	327	Right-handed alpha
Helix 76	AI4	C	402	418	Right-handed alpha
Helix 77	AI5	C	420	425	Right-handed alpha
Helix 78	AI6	C	444	456	Right-handed alpha
Helix 79	AI7	C	456	467	Right-handed alpha
Helix 80	AI8	C	558	575	Right-handed alpha
Helix 81	AI9	C	581	589	Right-handed alpha
Helix 82	AJ1	C	591	596	Right-handed alpha
Helix 83	AJ2	C	597	604	Right-handed alpha
Helix 84	AJ3	C	605	607	Right-handed 310
Helix 85	AJ4	C	608	610	Right-handed 310
Helix 86	AJ5	C	611	626	Right-handed alpha
Helix 87	AJ6	C	633	641	Right-handed alpha
Helix 88	AJ7	C	642	646	Right-handed 310
Helix 89	AJ8	C	704	709	Right-handed alpha
Helix 90	AJ9	C	725	731	Right-handed 310
Helix 91	AK1	C	760	771	Right-handed alpha
Helix 92	AK2	D	5	13	Right-handed alpha
Helix 93	AK3	D	14	28	Right-handed alpha
Helix 94	AK4	D	34	50	Right-handed alpha
Helix 95	AK5	D	68	83	Right-handed alpha
Helix 96	AK6	D	112	124	Right-handed alpha
Helix 97	AK7	D	125	127	Right-handed 310
Helix 98	AK8	D	146	168	Right-handed alpha
Helix 99	AK9	D	188	197	Right-handed alpha
Helix 100	AL1	D	205	215	Right-handed alpha
Helix 101	AL2	D	221	234	Right-handed alpha
Helix 102	AL3	D	239	244	Right-handed alpha
Helix 103	AL4	D	276	281	Right-handed alpha
Helix 104	AL5	D	285	292	Right-handed alpha
Helix 105	AL6	D	293	298	Right-handed 310
Helix 106	AL7	D	309	327	Right-handed alpha
Helix 107	AL8	D	334	342	Right-handed alpha
Helix 108	AL9	D	351	361	Right-handed alpha
Helix 109	AM1	D	380	391	Right-handed alpha
Helix 110	AM2	D	411	428	Right-handed alpha
Helix 111	AM3	D	429	452	Right-handed alpha
Helix 112	AM4	D	557	566	Right-handed alpha
Helix 113	AM5	D	568	590	Right-handed alpha
Helix 114	AM6	D	593	601	Right-handed alpha
Helix 115	AM7	D	619	634	Right-handed alpha
Helix 116	AM8	D	636	658	Right-handed alpha
Helix 117	AM9	D	666	678	Right-handed alpha
Helix 118	AN1	D	681	702	Right-handed alpha
Helix 119	AN2	E	5	10	Right-handed 310
Helix 120	AN3	E	13	18	Right-handed alpha
Helix 121	AN4	E	19	21	Right-handed 310
Helix 122	AN5	E	35	50	Right-handed alpha
Helix 123	AN6	E	86	99	Right-handed alpha
Helix 124	AN7	E	104	120	Right-handed alpha
Helix 125	AN8	E	121	127	Right-handed 310
Helix 126	AN9	E	141	158	Right-handed alpha
Helix 127	AO1	E	164	178	Right-handed alpha
Helix 128	AO2	E	216	224	Right-handed alpha
Helix 129	AO3	E	250	268	Right-handed alpha
Helix 130	AO4	E	277	295	Right-handed alpha
Helix 131	AO5	E	310	315	Right-handed alpha
Helix 132	AO6	E	316	328	Right-handed alpha
Helix 133	AO7	E	335	348	Right-handed alpha
Helix 134	AO8	E	374	379	Right-handed alpha
Helix 135	AO9	E	380	382	Right-handed 310
Helix 136	AP1	E	383	394	Right-handed alpha
Helix 137	AP2	E	413	426	Right-handed alpha
Helix 138	AP3	E	456	474	Right-handed alpha
Helix 139	AP4	E	506	514	Right-handed 310
Helix 140	AP5	E	519	537	Right-handed alpha
Helix 141	AP6	E	541	560	Right-handed alpha
Helix 142	AP7	E	571	584	Right-handed alpha
Helix 143	AP8	E	608	615	Right-handed alpha
Helix 144	AP9	E	618	626	Right-handed alpha
Helix 145	AQ1	E	674	696	Right-handed alpha
Helix 146	AQ2	E	697	700	Right-handed 310
Helix 147	AQ3	E	709	728	Right-handed alpha
Helix 148	AQ4	E	732	753	Right-handed alpha
Helix 149	AQ5	F	2	17	Right-handed alpha
Helix 150	AQ6	F	17	26	Right-handed alpha
Helix 151	AQ7	F	30	38	Right-handed alpha
Helix 152	AQ8	F	46	57	Right-handed alpha
Helix 153	AQ9	F	64	72	Right-handed alpha
Helix 154	AR1	F	99	109	Right-handed alpha
Helix 155	AR2	F	114	120	Right-handed alpha
Helix 156	AR3	F	122	134	Right-handed alpha
Helix 157	AR4	F	162	175	Right-handed alpha
Helix 158	AR5	F	182	190	Right-handed alpha
Helix 159	AR6	F	191	202	Right-handed alpha
Helix 160	AR7	F	206	218	Right-handed alpha
Helix 161	AR8	F	232	238	Right-handed alpha
Helix 162	AR9	F	238	242	Right-handed alpha
Helix 163	AS1	F	258	280	Right-handed alpha
Helix 164	AS2	F	284	295	Right-handed alpha
Helix 165	AS3	F	306	312	Right-handed alpha
Helix 166	AS4	F	317	327	Right-handed alpha
Helix 167	AS5	F	402	418	Right-handed alpha
Helix 168	AS6	F	420	425	Right-handed alpha
Helix 169	AS7	F	444	456	Right-handed alpha
Helix 170	AS8	F	456	467	Right-handed alpha
Helix 171	AS9	F	558	575	Right-handed alpha
Helix 172	AT1	F	581	589	Right-handed alpha
Helix 173	AT2	F	591	596	Right-handed alpha
Helix 174	AT3	F	597	604	Right-handed alpha
Helix 175	AT4	F	605	607	Right-handed 310
Helix 176	AT5	F	611	626	Right-handed alpha
Helix 177	AT6	F	633	641	Right-handed alpha
Helix 178	AT7	F	642	646	Right-handed 310
Helix 179	AT8	F	704	709	Right-handed alpha
Helix 180	AT9	F	725	729	Right-handed 310
Helix 181	AU1	F	760	771	Right-handed alpha

There are 43 sheets in PDB entry 5D98. 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,

There are 5 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	61	63	first strand
Strand 2	A	94	96	anti-parallel
Strand 3	A	102	108	anti-parallel
Strand 4	A	128	133	parallel
Strand 5	A	138	140	anti-parallel

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There are 3 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	271	273	first strand
Strand 2	A	480	491	anti-parallel
Strand 3	A	456	466	anti-parallel

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There are 5 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	271	273	first strand
Strand 2	A	480	491	anti-parallel
Strand 3	A	502	510	anti-parallel
Strand 4	A	544	556	anti-parallel
Strand 5	A	523	531	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	A	348	349	first strand
Strand 2	B	366	369	parallel
Strand 3	B	358	360	anti-parallel

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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	611	616	first strand
Strand 2	A	602	608	anti-parallel
Strand 3	B	2	3	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	A	663	664	first strand
Strand 2	B	484	486	anti-parallel
Strand 3	B	300	306	anti-parallel
Strand 4	B	447	454	anti-parallel
Strand 5	B	438	444	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	B	56	57	first strand
Strand 2	B	64	65	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	B	131	133	first strand
Strand 2	B	138	140	anti-parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	180	186	first strand
Strand 2	B	209	215	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	B	225	226	first strand
Strand 2	B	349	352	parallel
Strand 3	B	401	404	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	228	229	first strand
Strand 2	B	243	244	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	B	492	493	first strand
Strand 2	B	496	497	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	140	141	first strand
Strand 2	C	247	248	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	147	151	first strand
Strand 2	C	224	227	anti-parallel

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There are 2 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	296	299	first strand
Strand 2	C	302	305	anti-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	C	335	337	first strand
Strand 2	C	340	344	anti-parallel
Strand 3	C	373	379	anti-parallel
Strand 4	C	382	389	anti-parallel
Strand 5	C	392	398	anti-parallel
Strand 6	C	497	498	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	351	353	first strand
Strand 2	C	367	369	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	435	436	first strand
Strand 2	C	441	442	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	C	469	470	first strand
Strand 2	C	492	493	anti-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	516	517	first strand
Strand 2	C	521	522	anti-parallel

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There are 2 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	683	684	first strand
Strand 2	C	689	690	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	C	713	714	first strand
Strand 2	C	747	751	anti-parallel
Strand 3	C	738	741	anti-parallel

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There are 5 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	61	63	first strand
Strand 2	D	94	96	anti-parallel
Strand 3	D	102	108	anti-parallel
Strand 4	D	128	133	parallel
Strand 5	D	138	140	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	271	274	first strand
Strand 2	D	480	491	anti-parallel
Strand 3	D	456	466	anti-parallel

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There are 5 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	271	274	first strand
Strand 2	D	480	491	anti-parallel
Strand 3	D	502	510	anti-parallel
Strand 4	D	544	556	anti-parallel
Strand 5	D	523	531	anti-parallel

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There are 3 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	348	350	first strand
Strand 2	E	366	369	parallel
Strand 3	E	358	360	anti-parallel

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There are 3 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	611	616	first strand
Strand 2	D	602	608	anti-parallel
Strand 3	E	2	3	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	E	56	57	first strand
Strand 2	E	64	65	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	E	131	133	first strand
Strand 2	E	138	140	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	E	180	186	first strand
Strand 2	E	209	215	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	E	243	246	first strand
Strand 2	E	225	229	anti-parallel
Strand 3	E	349	352	parallel
Strand 4	E	401	404	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	E	438	444	first strand
Strand 2	E	447	454	anti-parallel
Strand 3	E	300	306	anti-parallel
Strand 4	E	484	486	anti-parallel

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There are 2 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	492	493	first strand
Strand 2	E	496	497	anti-parallel

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There are 3 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	140	141	first strand
Strand 2	F	247	248	anti-parallel
Strand 3	F	243	244	anti-parallel

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There are 2 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	147	151	first strand
Strand 2	F	224	227	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	F	296	298	first strand
Strand 2	F	303	305	anti-parallel

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There are 6 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	335	337	first strand
Strand 2	F	340	344	anti-parallel
Strand 3	F	373	379	anti-parallel
Strand 4	F	382	389	anti-parallel
Strand 5	F	392	398	anti-parallel
Strand 6	F	497	498	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	F	351	353	first strand
Strand 2	F	367	369	anti-parallel

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There are 2 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	435	436	first strand
Strand 2	F	441	442	anti-parallel

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There are 2 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	469	470	first strand
Strand 2	F	492	493	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	F	516	517	first strand
Strand 2	F	521	522	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	F	683	684	first strand
Strand 2	F	689	690	anti-parallel

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There are 3 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	713	714	first strand
Strand 2	F	747	751	anti-parallel
Strand 3	F	738	741	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: 5D98

Analysis of interatomic Contacts of Structural Units in PDB entry:
5D98