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

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 9PUD entry

There are 12 chains in PDB entry 9PUD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LEU 5	PHE 354
B	SER 2	ASN 340
G	ASN 5	GLU 63
R	SER 66	ARG 347
S	TYR 1	TYR 1
S	GLY 3	GLY 3
C	LEU 5	PHE 354
D	SER 2	ASN 340
E	ASN 5	GLU 63
F	SER 66	ARG 347
H	TYR 1	TYR 1
H	GLY 3	GLY 3

There are 50 helices in PDB entry 9PUD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	9	31	Right-handed alpha
Helix 2	AA2	A	45	53	Right-handed alpha
Helix 3	AA3	A	207	212	Right-handed alpha
Helix 4	AA4	A	228	232	Right-handed 310
Helix 5	AA5	A	241	255	Right-handed alpha
Helix 6	AA6	A	270	281	Right-handed alpha
Helix 7	AA7	A	295	310	Right-handed alpha
Helix 8	AA8	A	330	351	Right-handed alpha
Helix 9	AA9	B	3	25	Right-handed alpha
Helix 10	AB1	B	29	34	Right-handed alpha
Helix 11	AB2	G	6	24	Right-handed alpha
Helix 12	AB3	G	29	44	Right-handed alpha
Helix 13	AB4	G	55	59	Right-handed 310
Helix 14	AB5	R	67	98	Right-handed alpha
Helix 15	AB6	R	103	121	Right-handed alpha
Helix 16	AB7	R	122	133	Right-handed alpha
Helix 17	AB8	R	137	173	Right-handed alpha
Helix 18	AB9	R	173	181	Right-handed alpha
Helix 19	AC1	R	182	197	Right-handed alpha
Helix 20	AC2	R	197	207	Right-handed alpha
Helix 21	AC3	R	226	242	Right-handed alpha
Helix 22	AC4	R	243	262	Right-handed alpha
Helix 23	AC5	R	263	268	Right-handed 310
Helix 24	AC6	R	272	306	Right-handed alpha
Helix 25	AC7	R	313	339	Right-handed alpha
Helix 26	AC8	C	9	31	Right-handed alpha
Helix 27	AC9	C	45	53	Right-handed alpha
Helix 28	AD1	C	207	212	Right-handed alpha
Helix 29	AD2	C	228	232	Right-handed 310
Helix 30	AD3	C	241	255	Right-handed alpha
Helix 31	AD4	C	270	281	Right-handed alpha
Helix 32	AD5	C	295	310	Right-handed alpha
Helix 33	AD6	C	330	351	Right-handed alpha
Helix 34	AD7	D	3	25	Right-handed alpha
Helix 35	AD8	D	29	34	Right-handed alpha
Helix 36	AD9	E	6	24	Right-handed alpha
Helix 37	AE1	E	29	44	Right-handed alpha
Helix 38	AE2	E	55	59	Right-handed 310
Helix 39	AE3	F	67	98	Right-handed alpha
Helix 40	AE4	F	103	121	Right-handed alpha
Helix 41	AE5	F	122	133	Right-handed alpha
Helix 42	AE6	F	137	173	Right-handed alpha
Helix 43	AE7	F	173	181	Right-handed alpha
Helix 44	AE8	F	182	197	Right-handed alpha
Helix 45	AE9	F	197	207	Right-handed alpha
Helix 46	AF1	F	226	242	Right-handed alpha
Helix 47	AF2	F	243	262	Right-handed alpha
Helix 48	AF3	F	263	268	Right-handed 310
Helix 49	AF4	F	272	306	Right-handed alpha
Helix 50	AF5	F	313	339	Right-handed alpha

There are 18 sheets in PDB entry 9PUD. 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,

There are 6 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	185	190	first strand
Strand 2	A	195	200	anti-parallel
Strand 3	A	33	39	parallel
Strand 4	A	220	226	parallel
Strand 5	A	263	269	parallel
Strand 6	A	319	322	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	B	58	63	first strand
Strand 2	B	69	74	anti-parallel
Strand 3	B	78	83	anti-parallel
Strand 4	B	89	94	anti-parallel

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There are 4 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	100	105	first strand
Strand 2	B	111	116	anti-parallel
Strand 3	B	120	125	anti-parallel
Strand 4	B	134	140	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	B	146	153	first strand
Strand 2	B	156	161	anti-parallel
Strand 3	B	166	170	anti-parallel
Strand 4	B	175	180	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	189	192	first strand
Strand 2	B	198	202	anti-parallel
Strand 3	B	208	212	anti-parallel
Strand 4	B	218	220	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	B	229	234	first strand
Strand 2	B	240	245	anti-parallel
Strand 3	B	253	254	anti-parallel
Strand 4	B	259	260	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	B	273	278	first strand
Strand 2	B	284	289	anti-parallel
Strand 3	B	294	298	anti-parallel
Strand 4	B	304	308	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	B	317	320	first strand
Strand 2	B	327	330	anti-parallel
Strand 3	B	337	338	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	R	208	213	first strand
Strand 2	R	216	221	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	C	185	190	first strand
Strand 2	C	195	200	anti-parallel
Strand 3	C	33	39	parallel
Strand 4	C	220	226	parallel
Strand 5	C	263	269	parallel
Strand 6	C	319	322	parallel

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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	58	63	first strand
Strand 2	D	69	74	anti-parallel
Strand 3	D	78	83	anti-parallel
Strand 4	D	89	94	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	100	105	first strand
Strand 2	D	111	116	anti-parallel
Strand 3	D	120	125	anti-parallel
Strand 4	D	134	140	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	146	153	first strand
Strand 2	D	156	161	anti-parallel
Strand 3	D	166	170	anti-parallel
Strand 4	D	175	180	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	189	192	first strand
Strand 2	D	198	202	anti-parallel
Strand 3	D	208	212	anti-parallel
Strand 4	D	218	220	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	D	229	234	first strand
Strand 2	D	240	245	anti-parallel
Strand 3	D	253	254	anti-parallel
Strand 4	D	259	260	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	D	273	278	first strand
Strand 2	D	284	289	anti-parallel
Strand 3	D	294	298	anti-parallel
Strand 4	D	304	308	anti-parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	317	320	first strand
Strand 2	D	327	330	anti-parallel
Strand 3	D	337	338	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	F	208	213	first strand
Strand 2	F	216	221	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: 9PUD

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