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

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 9VDX entry

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

Chain ID	Initial residue	Terminal residue
C	CYS 1	LYS 332
H	TYR 2	LEU 258
L	ALA 1	SER 273
M	ALA 1	LYS 323

There are 63 helices in PDB entry 9VDX. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	C	24	36	Right-handed alpha
Helix 2	AA2	C	51	56	Right-handed alpha
Helix 3	AA3	C	66	82	Right-handed alpha
Helix 4	AA4	C	86	90	Right-handed 310
Helix 5	AA5	C	101	121	Right-handed alpha
Helix 6	AA6	C	131	137	Right-handed alpha
Helix 7	AA7	C	168	170	Right-handed 310
Helix 8	AA8	C	171	180	Right-handed alpha
Helix 9	AA9	C	188	194	Right-handed alpha
Helix 10	AB1	C	216	220	Right-handed 310
Helix 11	AB2	C	223	241	Right-handed alpha
Helix 12	AB3	C	243	247	Right-handed 310
Helix 13	AB4	C	249	253	Right-handed 310
Helix 14	AB5	C	256	260	Right-handed 310
Helix 15	AB6	C	261	281	Right-handed alpha
Helix 16	AB7	C	282	289	Right-handed 310
Helix 17	AB8	C	305	310	Right-handed alpha
Helix 18	AB9	C	314	319	Right-handed 310
Helix 19	AC1	C	325	329	Right-handed 310
Helix 20	AC2	H	11	31	Right-handed alpha
Helix 21	AC3	H	31	36	Right-handed alpha
Helix 22	AC4	H	56	61	Right-handed alpha
Helix 23	AC5	H	106	111	Right-handed alpha
Helix 24	AC6	H	112	116	Right-handed 310
Helix 25	AC7	H	199	201	Right-handed 310
Helix 26	AC8	H	214	220	Right-handed 310
Helix 27	AC9	H	231	249	Right-handed alpha
Helix 28	AD1	H	250	255	Right-handed 310
Helix 29	AD2	L	6	10	Right-handed 310
Helix 30	AD3	L	18	23	Right-handed 310
Helix 31	AD4	L	31	56	Right-handed alpha
Helix 32	AD5	L	70	74	Right-handed 310
Helix 33	AD6	L	79	82	Right-handed 310
Helix 34	AD7	L	83	111	Right-handed alpha
Helix 35	AD8	L	115	133	Right-handed alpha
Helix 36	AD9	L	133	140	Right-handed alpha
Helix 37	AE1	L	141	145	Right-handed 310
Helix 38	AE2	L	151	164	Right-handed alpha
Helix 39	AE3	L	165	169	Right-handed 310
Helix 40	AE4	L	170	199	Right-handed alpha
Helix 41	AE5	L	208	221	Right-handed alpha
Helix 42	AE6	L	225	250	Right-handed alpha
Helix 43	AE7	L	260	262	Right-handed 310
Helix 44	AE8	L	263	268	Right-handed alpha
Helix 45	AE9	L	269	273	Right-handed 310
Helix 46	AF1	M	2	6	Right-handed 310
Helix 47	AF2	M	24	26	Right-handed 310
Helix 48	AF3	M	52	77	Right-handed alpha
Helix 49	AF4	M	80	87	Right-handed alpha
Helix 50	AF5	M	88	90	Right-handed 310
Helix 51	AF6	M	110	138	Right-handed alpha
Helix 52	AF7	M	142	160	Right-handed alpha
Helix 53	AF8	M	160	167	Right-handed alpha
Helix 54	AF9	M	168	172	Right-handed 310
Helix 55	AG1	M	177	191	Right-handed alpha
Helix 56	AG2	M	193	196	Right-handed 310
Helix 57	AG3	M	197	224	Right-handed alpha
Helix 58	AG4	M	225	228	Right-handed 310
Helix 59	AG5	M	231	238	Right-handed alpha
Helix 60	AG6	M	240	255	Right-handed alpha
Helix 61	AG7	M	261	285	Right-handed alpha
Helix 62	AG8	M	291	299	Right-handed alpha
Helix 63	AG9	M	314	318	Right-handed 310

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

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	C	8	9	first strand
Strand 2	C	22	23	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	H	66	69	first strand
Strand 2	H	75	78	anti-parallel

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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	90	92	first strand
Strand 2	H	101	103	anti-parallel

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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	134	136	first strand
Strand 2	H	164	174	anti-parallel
Strand 3	H	179	187	anti-parallel
Strand 4	H	193	197	anti-parallel

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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	134	136	first strand
Strand 2	H	164	174	anti-parallel
Strand 3	H	156	158	anti-parallel
Strand 4	H	208	209	parallel
Strand 5	H	202	203	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	H	144	145	first strand
Strand 2	M	12	13	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	L	25	26	first strand
Strand 2	L	29	30	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	M	28	29	first strand
Strand 2	M	49	50	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	M	33	34	first strand
Strand 2	M	45	46	anti-parallel

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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	92	93	first strand
Strand 2	M	175	176	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: 9VDX

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