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

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 9UPB entry

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

Chain ID	Initial residue	Terminal residue
A	ASP 628	SER 982
B	ILE 4	CYS 399
C	ASP 16	GLU 68
D	ASN 8	ASP 252

There are 53 helices in PDB entry 9UPB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	642	653	Right-handed alpha
Helix 2	AA2	A	687	691	Right-handed 310
Helix 3	AA3	A	693	708	Right-handed alpha
Helix 4	AA4	A	715	738	Right-handed alpha
Helix 5	AA5	A	741	762	Right-handed alpha
Helix 6	AA6	A	763	765	Right-handed 310
Helix 7	AA7	A	771	795	Right-handed alpha
Helix 8	AA8	A	802	814	Right-handed alpha
Helix 9	AA9	A	819	827	Right-handed alpha
Helix 10	AB1	A	828	833	Right-handed alpha
Helix 11	AB2	A	834	849	Right-handed alpha
Helix 12	AB3	A	851	862	Right-handed alpha
Helix 13	AB4	A	863	872	Right-handed alpha
Helix 14	AB5	A	873	890	Right-handed alpha
Helix 15	AB6	A	901	909	Right-handed alpha
Helix 16	AB7	A	912	923	Right-handed alpha
Helix 17	AB8	A	935	939	Right-handed 310
Helix 18	AB9	A	951	957	Right-handed alpha
Helix 19	AC1	A	961	968	Right-handed alpha
Helix 20	AC2	B	5	20	Right-handed alpha
Helix 21	AC3	B	21	30	Right-handed alpha
Helix 22	AC4	B	33	37	Right-handed 310
Helix 23	AC5	B	46	54	Right-handed alpha
Helix 24	AC6	B	57	72	Right-handed alpha
Helix 25	AC7	B	76	98	Right-handed alpha
Helix 26	AC8	B	104	127	Right-handed alpha
Helix 27	AC9	B	136	155	Right-handed alpha
Helix 28	AD1	B	167	183	Right-handed alpha
Helix 29	AD2	B	184	186	Right-handed 310
Helix 30	AD3	B	187	198	Right-handed alpha
Helix 31	AD4	B	205	223	Right-handed alpha
Helix 32	AD5	B	225	240	Right-handed alpha
Helix 33	AD6	B	244	261	Right-handed alpha
Helix 34	AD7	B	267	274	Right-handed alpha
Helix 35	AD8	B	279	287	Right-handed alpha
Helix 36	AD9	B	290	301	Right-handed alpha
Helix 37	AE1	B	301	308	Right-handed alpha
Helix 38	AE2	B	310	315	Right-handed alpha
Helix 39	AE3	B	317	334	Right-handed alpha
Helix 40	AE4	B	340	350	Right-handed alpha
Helix 41	AE5	B	356	370	Right-handed alpha
Helix 42	AE6	C	50	63	Right-handed alpha
Helix 43	AE7	D	46	51	Right-handed 310
Helix 44	AE8	D	53	63	Right-handed alpha
Helix 45	AE9	D	69	82	Right-handed alpha
Helix 46	AF1	D	94	106	Right-handed alpha
Helix 47	AF2	D	122	137	Right-handed alpha
Helix 48	AF3	D	138	140	Right-handed 310
Helix 49	AF4	D	153	163	Right-handed alpha
Helix 50	AF5	D	172	182	Right-handed alpha
Helix 51	AF6	D	197	204	Right-handed alpha
Helix 52	AF7	D	204	218	Right-handed alpha
Helix 53	AF8	D	234	241	Right-handed alpha

There are 6 sheets in PDB entry 9UPB. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 2 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	897	900	first strand
Strand 2	A	931	934	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	B	265	266	first strand
Strand 2	C	39	40	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	337	339	first strand
Strand 2	B	383	386	anti-parallel
Strand 3	B	375	376	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	D	87	88	first strand
Strand 2	D	227	228	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	D	116	118	first strand
Strand 2	D	192	194	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	D	147	148	first strand
Strand 2	D	170	171	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: 9UPB

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