Analysis of interatomic Contacts of Structural Units in PDB entry:
8UPK

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 8UPK entry

There are 2 chains in PDB entry 8UPK (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 9	GLY 747
B	GLU 9	GLY 747

There are 53 helices in PDB entry 8UPK. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	47	52	Right-handed alpha
Helix 2	AA2	A	54	59	Right-handed alpha
Helix 3	AA3	A	62	66	Right-handed 310
Helix 4	AA4	A	68	73	Right-handed alpha
Helix 5	AA5	A	74	82	Right-handed alpha
Helix 6	AA6	A	117	130	Right-handed alpha
Helix 7	AA7	A	137	154	Right-handed alpha
Helix 8	AA8	A	189	193	Right-handed 310
Helix 9	AA9	A	194	202	Right-handed alpha
Helix 10	AB1	A	242	253	Right-handed alpha
Helix 11	AB2	A	283	330	Right-handed alpha
Helix 12	AB3	A	332	340	Right-handed alpha
Helix 13	AB4	A	340	348	Right-handed alpha
Helix 14	AB5	A	369	379	Right-handed alpha
Helix 15	AB6	A	393	398	Right-handed alpha
Helix 16	AB7	A	399	403	Right-handed 310
Helix 17	AB8	A	475	487	Right-handed alpha
Helix 18	AB9	A	490	525	Right-handed alpha
Helix 19	AC1	A	525	537	Right-handed alpha
Helix 20	AC2	A	543	573	Right-handed alpha
Helix 21	AC3	A	589	601	Right-handed alpha
Helix 22	AC4	A	601	608	Right-handed alpha
Helix 23	AC5	A	624	642	Right-handed alpha
Helix 24	AC6	A	664	668	Right-handed 310
Helix 25	AC7	A	684	692	Right-handed alpha
Helix 26	AC8	A	709	722	Right-handed alpha
Helix 27	AC9	B	18	22	Right-handed 310
Helix 28	AD1	B	46	52	Right-handed alpha
Helix 29	AD2	B	55	59	Right-handed 310
Helix 30	AD3	B	62	67	Right-handed alpha
Helix 31	AD4	B	68	74	Right-handed alpha
Helix 32	AD5	B	74	82	Right-handed alpha
Helix 33	AD6	B	123	130	Right-handed alpha
Helix 34	AD7	B	131	134	Right-handed 310
Helix 35	AD8	B	138	154	Right-handed alpha
Helix 36	AD9	B	189	193	Right-handed 310
Helix 37	AE1	B	194	204	Right-handed alpha
Helix 38	AE2	B	242	253	Right-handed alpha
Helix 39	AE3	B	283	327	Right-handed alpha
Helix 40	AE4	B	332	340	Right-handed alpha
Helix 41	AE5	B	340	346	Right-handed alpha
Helix 42	AE6	B	369	381	Right-handed alpha
Helix 43	AE7	B	398	402	Right-handed 310
Helix 44	AE8	B	461	468	Right-handed alpha
Helix 45	AE9	B	475	543	Right-handed alpha
Helix 46	AF1	B	544	547	Right-handed 310
Helix 47	AF2	B	548	574	Right-handed alpha
Helix 48	AF3	B	590	601	Right-handed alpha
Helix 49	AF4	B	601	608	Right-handed alpha
Helix 50	AF5	B	624	642	Right-handed alpha
Helix 51	AF6	B	664	668	Right-handed 310
Helix 52	AF7	B	684	692	Right-handed alpha
Helix 53	AF8	B	710	722	Right-handed alpha

There are 13 sheets in PDB entry 8UPK. 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,

There are 4 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	29	33	first strand
Strand 2	A	103	110	anti-parallel
Strand 3	A	93	100	anti-parallel
Strand 4	A	83	86	anti-parallel

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There are 2 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	43	44	first strand
Strand 2	A	219	220	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	170	175	first strand
Strand 2	A	157	162	anti-parallel
Strand 3	A	268	276	anti-parallel
Strand 4	A	256	263	anti-parallel
Strand 5	A	206	209	anti-parallel

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There are 5 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	362	365	first strand
Strand 2	A	352	355	anti-parallel
Strand 3	A	423	428	anti-parallel
Strand 4	A	410	415	anti-parallel
Strand 5	A	388	391	anti-parallel

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There are 2 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	431	438	first strand
Strand 2	A	462	470	anti-parallel

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There are 2 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	446	447	first strand
Strand 2	A	454	455	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	A	587	588	first strand
Strand 2	A	621	622	anti-parallel

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There are 5 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	610	613	first strand
Strand 2	A	648	655	parallel
Strand 3	A	672	678	anti-parallel
Strand 4	A	736	742	anti-parallel
Strand 5	A	726	730	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	B	83	87	first strand
Strand 2	B	92	99	anti-parallel
Strand 3	B	104	110	anti-parallel
Strand 4	B	29	34	anti-parallel
Strand 5	B	39	44	anti-parallel
Strand 6	B	219	220	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	B	187	188	first strand
Strand 2	B	169	176	anti-parallel
Strand 3	B	157	163	anti-parallel
Strand 4	B	267	276	anti-parallel
Strand 5	B	256	264	anti-parallel
Strand 6	B	206	209	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	362	365	first strand
Strand 2	B	352	355	anti-parallel
Strand 3	B	423	428	anti-parallel
Strand 4	B	410	415	anti-parallel
Strand 5	B	388	391	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	587	589	first strand
Strand 2	B	620	622	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	611	613	first strand
Strand 2	B	649	655	parallel
Strand 3	B	672	678	anti-parallel
Strand 4	B	736	742	anti-parallel
Strand 5	B	726	730	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: 8UPK

Analysis of interatomic Contacts of Structural Units in PDB entry:
8UPK