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

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 5KJD entry

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

Chain ID	Initial residue	Terminal residue
A	GLN 12	THR 490
B	GLN 12	THR 490
C	GLN 12	THR 490
D	GLN 12	THR 490
E	GLN 12	THR 490

There are 45 helices in PDB entry 5KJD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	16	23	Right-handed alpha
Helix 2	AA2	A	67	71	Right-handed 310
Helix 3	AA3	A	95	105	Right-handed alpha
Helix 4	AA4	A	119	125	Right-handed alpha
Helix 5	AA5	A	258	263	Right-handed alpha
Helix 6	AA6	A	267	270	Right-handed 310
Helix 7	AA7	A	333	337	Right-handed 310
Helix 8	AA8	A	338	342	Right-handed 310
Helix 9	AA9	A	375	379	Right-handed 310
Helix 10	AB1	B	16	23	Right-handed alpha
Helix 11	AB2	B	67	71	Right-handed 310
Helix 12	AB3	B	95	105	Right-handed alpha
Helix 13	AB4	B	119	125	Right-handed alpha
Helix 14	AB5	B	258	263	Right-handed alpha
Helix 15	AB6	B	267	270	Right-handed 310
Helix 16	AB7	B	333	337	Right-handed 310
Helix 17	AB8	B	338	342	Right-handed 310
Helix 18	AB9	B	375	379	Right-handed 310
Helix 19	AC1	C	16	23	Right-handed alpha
Helix 20	AC2	C	67	71	Right-handed 310
Helix 21	AC3	C	95	105	Right-handed alpha
Helix 22	AC4	C	119	125	Right-handed alpha
Helix 23	AC5	C	258	263	Right-handed alpha
Helix 24	AC6	C	267	270	Right-handed 310
Helix 25	AC7	C	333	337	Right-handed 310
Helix 26	AC8	C	338	342	Right-handed 310
Helix 27	AC9	C	375	379	Right-handed 310
Helix 28	AD1	D	16	23	Right-handed alpha
Helix 29	AD2	D	67	71	Right-handed 310
Helix 30	AD3	D	95	105	Right-handed alpha
Helix 31	AD4	D	119	125	Right-handed alpha
Helix 32	AD5	D	258	263	Right-handed alpha
Helix 33	AD6	D	267	270	Right-handed 310
Helix 34	AD7	D	333	337	Right-handed 310
Helix 35	AD8	D	338	342	Right-handed 310
Helix 36	AD9	D	375	379	Right-handed 310
Helix 37	AE1	E	16	23	Right-handed alpha
Helix 38	AE2	E	67	71	Right-handed 310
Helix 39	AE3	E	95	105	Right-handed alpha
Helix 40	AE4	E	119	125	Right-handed alpha
Helix 41	AE5	E	258	263	Right-handed alpha
Helix 42	AE6	E	267	270	Right-handed 310
Helix 43	AE7	E	333	337	Right-handed 310
Helix 44	AE8	E	338	342	Right-handed 310
Helix 45	AE9	E	375	379	Right-handed 310

There are 50 sheets in PDB entry 5KJD. 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, AF4, AF5,

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	31	34	first strand
Strand 2	A	87	92	anti-parallel
Strand 3	A	74	80	anti-parallel
Strand 4	A	48	52	anti-parallel
Strand 5	A	485	489	anti-parallel

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There are 5 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	38	40	first strand
Strand 2	A	471	474	anti-parallel
Strand 3	A	454	461	anti-parallel
Strand 4	A	441	449	anti-parallel
Strand 5	A	422	423	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	38	40	first strand
Strand 2	A	471	474	anti-parallel
Strand 3	A	454	461	anti-parallel
Strand 4	A	441	449	anti-parallel
Strand 5	A	428	431	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	A	59	60	first strand
Strand 2	A	63	64	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	A	137	141	first strand
Strand 2	A	144	148	anti-parallel
Strand 3	A	155	157	anti-parallel
Strand 4	A	164	167	anti-parallel

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There are 4 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	185	187	first strand
Strand 2	A	198	206	anti-parallel
Strand 3	A	209	217	anti-parallel
Strand 4	A	223	232	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	A	240	242	first strand
Strand 2	A	246	251	anti-parallel
Strand 3	A	280	286	anti-parallel
Strand 4	A	293	297	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	A	254	256	first strand
Strand 2	A	272	274	anti-parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	301	311	first strand
Strand 2	A	314	322	anti-parallel
Strand 3	A	345	353	anti-parallel
Strand 4	A	358	365	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	A	369	373	first strand
Strand 2	A	385	390	anti-parallel
Strand 3	A	402	407	anti-parallel
Strand 4	A	413	417	anti-parallel

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There are 5 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	31	34	first strand
Strand 2	B	87	92	anti-parallel
Strand 3	B	74	80	anti-parallel
Strand 4	B	48	52	anti-parallel
Strand 5	B	485	489	anti-parallel

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There are 5 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	38	40	first strand
Strand 2	B	471	474	anti-parallel
Strand 3	B	454	461	anti-parallel
Strand 4	B	441	449	anti-parallel
Strand 5	B	422	423	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	38	40	first strand
Strand 2	B	471	474	anti-parallel
Strand 3	B	454	461	anti-parallel
Strand 4	B	441	449	anti-parallel
Strand 5	B	428	431	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	B	59	60	first strand
Strand 2	B	63	64	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	B	137	141	first strand
Strand 2	B	144	148	anti-parallel
Strand 3	B	155	157	anti-parallel
Strand 4	B	164	167	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	B	185	187	first strand
Strand 2	B	198	206	anti-parallel
Strand 3	B	209	217	anti-parallel
Strand 4	B	223	232	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	240	242	first strand
Strand 2	B	246	251	anti-parallel
Strand 3	B	280	286	anti-parallel
Strand 4	B	293	297	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	B	254	256	first strand
Strand 2	B	272	274	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	301	311	first strand
Strand 2	B	314	322	anti-parallel
Strand 3	B	345	353	anti-parallel
Strand 4	B	358	365	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	369	373	first strand
Strand 2	B	385	390	anti-parallel
Strand 3	B	402	407	anti-parallel
Strand 4	B	413	417	anti-parallel

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There are 5 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	31	34	first strand
Strand 2	C	87	92	anti-parallel
Strand 3	C	74	80	anti-parallel
Strand 4	C	48	52	anti-parallel
Strand 5	C	485	489	anti-parallel

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There are 5 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	38	40	first strand
Strand 2	C	471	474	anti-parallel
Strand 3	C	454	461	anti-parallel
Strand 4	C	441	449	anti-parallel
Strand 5	C	422	423	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	C	38	40	first strand
Strand 2	C	471	474	anti-parallel
Strand 3	C	454	461	anti-parallel
Strand 4	C	441	449	anti-parallel
Strand 5	C	428	431	anti-parallel

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There are 2 strands in AC6 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	63	64	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	137	141	first strand
Strand 2	C	144	148	anti-parallel
Strand 3	C	155	157	anti-parallel
Strand 4	C	164	167	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	185	187	first strand
Strand 2	C	198	206	anti-parallel
Strand 3	C	209	217	anti-parallel
Strand 4	C	223	232	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	240	242	first strand
Strand 2	C	246	251	anti-parallel
Strand 3	C	280	286	anti-parallel
Strand 4	C	293	297	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	C	254	256	first strand
Strand 2	C	272	274	anti-parallel

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There are 4 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	301	311	first strand
Strand 2	C	314	322	anti-parallel
Strand 3	C	345	353	anti-parallel
Strand 4	C	358	365	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	C	369	373	first strand
Strand 2	C	385	390	anti-parallel
Strand 3	C	402	407	anti-parallel
Strand 4	C	413	417	anti-parallel

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There are 5 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	31	34	first strand
Strand 2	D	87	92	anti-parallel
Strand 3	D	74	80	anti-parallel
Strand 4	D	48	52	anti-parallel
Strand 5	D	485	489	anti-parallel

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There are 5 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	38	40	first strand
Strand 2	D	471	474	anti-parallel
Strand 3	D	454	461	anti-parallel
Strand 4	D	441	449	anti-parallel
Strand 5	D	422	423	anti-parallel

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There are 5 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	38	40	first strand
Strand 2	D	471	474	anti-parallel
Strand 3	D	454	461	anti-parallel
Strand 4	D	441	449	anti-parallel
Strand 5	D	428	431	anti-parallel

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There are 2 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	59	60	first strand
Strand 2	D	63	64	anti-parallel

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There are 4 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	137	141	first strand
Strand 2	D	144	148	anti-parallel
Strand 3	D	155	157	anti-parallel
Strand 4	D	164	167	anti-parallel

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There are 4 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	185	187	first strand
Strand 2	D	198	206	anti-parallel
Strand 3	D	209	217	anti-parallel
Strand 4	D	223	232	anti-parallel

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There are 4 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	240	242	first strand
Strand 2	D	246	251	anti-parallel
Strand 3	D	280	286	anti-parallel
Strand 4	D	293	297	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	D	254	256	first strand
Strand 2	D	272	274	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	D	301	311	first strand
Strand 2	D	314	322	anti-parallel
Strand 3	D	345	353	anti-parallel
Strand 4	D	358	365	anti-parallel

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There are 4 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	369	373	first strand
Strand 2	D	385	390	anti-parallel
Strand 3	D	402	407	anti-parallel
Strand 4	D	413	417	anti-parallel

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There are 5 strands in AE5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	31	34	first strand
Strand 2	E	87	92	anti-parallel
Strand 3	E	74	80	anti-parallel
Strand 4	E	48	52	anti-parallel
Strand 5	E	485	489	anti-parallel

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There are 5 strands in AE6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	38	40	first strand
Strand 2	E	471	474	anti-parallel
Strand 3	E	454	461	anti-parallel
Strand 4	E	441	449	anti-parallel
Strand 5	E	422	423	anti-parallel

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There are 5 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	38	40	first strand
Strand 2	E	471	474	anti-parallel
Strand 3	E	454	461	anti-parallel
Strand 4	E	441	449	anti-parallel
Strand 5	E	428	431	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	E	59	60	first strand
Strand 2	E	63	64	anti-parallel

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There are 4 strands in AE9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	137	141	first strand
Strand 2	E	144	148	anti-parallel
Strand 3	E	155	157	anti-parallel
Strand 4	E	164	167	anti-parallel

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There are 4 strands in AF1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	185	187	first strand
Strand 2	E	198	206	anti-parallel
Strand 3	E	209	217	anti-parallel
Strand 4	E	223	232	anti-parallel

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There are 4 strands in AF2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	240	242	first strand
Strand 2	E	246	251	anti-parallel
Strand 3	E	280	286	anti-parallel
Strand 4	E	293	297	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	E	254	256	first strand
Strand 2	E	272	274	anti-parallel

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There are 4 strands in AF4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	301	311	first strand
Strand 2	E	314	322	anti-parallel
Strand 3	E	345	353	anti-parallel
Strand 4	E	358	365	anti-parallel

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There are 4 strands in AF5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	369	373	first strand
Strand 2	E	385	390	anti-parallel
Strand 3	E	402	407	anti-parallel
Strand 4	E	413	417	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: 5KJD

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