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

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 9YUP entry

There are 4 chains in PDB entry 9YUP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ARG -20	SER 284
B	GLN -2	LEU 281
C	GLY 12	SER 284
D	ASP 11	HIS 279

There are 55 helices in PDB entry 9YUP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	-20	-3	Right-handed alpha
Helix 2	AA2	A	12	23	Right-handed alpha
Helix 3	AA3	A	29	36	Right-handed alpha
Helix 4	AA4	A	39	59	Right-handed alpha
Helix 5	AA5	A	92	101	Right-handed alpha
Helix 6	AA6	A	102	104	Right-handed 310
Helix 7	AA7	A	128	139	Right-handed alpha
Helix 8	AA8	A	173	188	Right-handed alpha
Helix 9	AA9	A	191	205	Right-handed alpha
Helix 10	AB1	A	206	213	Right-handed alpha
Helix 11	AB2	A	217	223	Right-handed alpha
Helix 12	AB3	A	226	230	Right-handed 310
Helix 13	AB4	A	243	246	Right-handed 310
Helix 14	AB5	A	247	268	Right-handed alpha
Helix 15	AB6	A	270	278	Right-handed alpha
Helix 16	AB7	B	11	24	Right-handed alpha
Helix 17	AB8	B	29	36	Right-handed alpha
Helix 18	AB9	B	39	59	Right-handed alpha
Helix 19	AC1	B	92	101	Right-handed alpha
Helix 20	AC2	B	102	104	Right-handed 310
Helix 21	AC3	B	128	139	Right-handed alpha
Helix 22	AC4	B	173	188	Right-handed alpha
Helix 23	AC5	B	191	206	Right-handed alpha
Helix 24	AC6	B	206	211	Right-handed alpha
Helix 25	AC7	B	215	222	Right-handed alpha
Helix 26	AC8	B	226	230	Right-handed 310
Helix 27	AC9	B	243	246	Right-handed 310
Helix 28	AD1	B	247	267	Right-handed alpha
Helix 29	AD2	B	267	280	Right-handed alpha
Helix 30	AD3	C	13	23	Right-handed alpha
Helix 31	AD4	C	29	36	Right-handed alpha
Helix 32	AD5	C	39	59	Right-handed alpha
Helix 33	AD6	C	92	101	Right-handed alpha
Helix 34	AD7	C	102	104	Right-handed 310
Helix 35	AD8	C	128	139	Right-handed alpha
Helix 36	AD9	C	173	188	Right-handed alpha
Helix 37	AE1	C	191	205	Right-handed alpha
Helix 38	AE2	C	206	213	Right-handed alpha
Helix 39	AE3	C	218	223	Right-handed alpha
Helix 40	AE4	C	224	225	Right-handed 310
Helix 41	AE5	C	226	230	Right-handed 310
Helix 42	AE6	C	243	246	Right-handed 310
Helix 43	AE7	C	247	283	Right-handed alpha
Helix 44	AE8	D	12	23	Right-handed alpha
Helix 45	AE9	D	29	35	Right-handed alpha
Helix 46	AF1	D	39	59	Right-handed alpha
Helix 47	AF2	D	92	101	Right-handed alpha
Helix 48	AF3	D	102	104	Right-handed 310
Helix 49	AF4	D	128	139	Right-handed alpha
Helix 50	AF5	D	173	189	Right-handed alpha
Helix 51	AF6	D	191	213	Right-handed alpha
Helix 52	AF7	D	215	223	Right-handed alpha
Helix 53	AF8	D	226	230	Right-handed 310
Helix 54	AF9	D	243	246	Right-handed 310
Helix 55	AG1	D	247	279	Right-handed alpha

There are 10 sheets in PDB entry 9YUP. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

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	A	67	71	first strand
Strand 2	A	77	81	anti-parallel
Strand 3	A	84	88	anti-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	A	147	148	first strand
Strand 2	A	154	160	anti-parallel
Strand 3	A	163	169	anti-parallel
Strand 4	A	235	241	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	B	67	71	first strand
Strand 2	B	77	81	anti-parallel
Strand 3	B	84	88	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	B	142	143	first strand
Strand 2	B	154	160	anti-parallel
Strand 3	B	147	148	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	B	142	143	first strand
Strand 2	B	154	160	anti-parallel
Strand 3	B	163	169	anti-parallel
Strand 4	B	235	241	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	67	71	first strand
Strand 2	C	77	81	anti-parallel
Strand 3	C	84	88	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	C	147	148	first strand
Strand 2	C	154	160	anti-parallel
Strand 3	C	163	169	anti-parallel
Strand 4	C	235	241	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	D	67	71	first strand
Strand 2	D	77	81	anti-parallel
Strand 3	D	84	88	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	D	142	143	first strand
Strand 2	D	154	160	anti-parallel
Strand 3	D	147	148	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	D	142	143	first strand
Strand 2	D	154	160	anti-parallel
Strand 3	D	163	169	anti-parallel
Strand 4	D	235	241	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: 9YUP

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