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

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 9PKZ entry

There are 5 chains in PDB entry 9PKZ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PRO 33	LYS 443
D	PRO 33	LYS 443
C	PRO 33	LYS 443
B	PRO 33	LYS 443
E	ASN 54	LEU 494

There are 44 helices in PDB entry 9PKZ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	38	43	Right-handed alpha
Helix 2	AA2	A	95	98	Right-handed 310
Helix 3	AA3	A	110	117	Right-handed 310
Helix 4	AA4	A	168	171	Right-handed 310
Helix 5	AA5	A	244	249	Right-handed alpha
Helix 6	AA6	A	252	263	Right-handed alpha
Helix 7	AA7	A	264	267	Right-handed 310
Helix 8	AA8	A	272	295	Right-handed alpha
Helix 9	AA9	A	305	334	Right-handed alpha
Helix 10	AB1	A	335	336	Right-handed 310
Helix 11	AB2	A	400	400	Right-handed 310
Helix 12	AB3	A	401	439	Right-handed alpha
Helix 13	AB4	D	34	41	Right-handed alpha
Helix 14	AB5	D	244	251	Right-handed alpha
Helix 15	AB6	D	251	264	Right-handed alpha
Helix 16	AB7	D	265	267	Right-handed 310
Helix 17	AB8	D	272	295	Right-handed alpha
Helix 18	AB9	D	305	333	Right-handed alpha
Helix 19	AC1	D	402	435	Right-handed alpha
Helix 20	AC2	C	34	41	Right-handed alpha
Helix 21	AC3	C	110	117	Right-handed 310
Helix 22	AC4	C	246	251	Right-handed alpha
Helix 23	AC5	C	251	263	Right-handed alpha
Helix 24	AC6	C	264	267	Right-handed 310
Helix 25	AC7	C	272	295	Right-handed alpha
Helix 26	AC8	C	305	333	Right-handed alpha
Helix 27	AC9	C	334	336	Right-handed 310
Helix 28	AD1	C	404	435	Right-handed alpha
Helix 29	AD2	B	34	42	Right-handed alpha
Helix 30	AD3	B	110	117	Right-handed 310
Helix 31	AD4	B	245	251	Right-handed alpha
Helix 32	AD5	B	251	262	Right-handed alpha
Helix 33	AD6	B	263	267	Right-handed 310
Helix 34	AD7	B	272	294	Right-handed alpha
Helix 35	AD8	B	305	332	Right-handed alpha
Helix 36	AD9	B	402	439	Right-handed alpha
Helix 37	AE1	E	55	64	Right-handed alpha
Helix 38	AE2	E	133	137	Right-handed 310
Helix 39	AE3	E	265	270	Right-handed alpha
Helix 40	AE4	E	272	284	Right-handed alpha
Helix 41	AE5	E	285	289	Right-handed 310
Helix 42	AE6	E	293	316	Right-handed alpha
Helix 43	AE7	E	326	352	Right-handed alpha
Helix 44	AE8	E	468	493	Right-handed alpha

There are 24 sheets in PDB entry 9PKZ. 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, AC1, AC2, AC3, AC4, AC5, AC6,

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	107	109	first strand
Strand 2	A	140	144	anti-parallel
Strand 3	A	149	161	anti-parallel
Strand 4	A	81	93	anti-parallel
Strand 5	A	61	76	anti-parallel
Strand 6	A	190	194	parallel

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There are 5 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	127	132	first strand
Strand 2	A	149	161	anti-parallel
Strand 3	A	81	93	anti-parallel
Strand 4	A	61	76	anti-parallel
Strand 5	A	200	202	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	A	122	123	first strand
Strand 2	A	181	182	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	A	173	178	first strand
Strand 2	A	234	242	anti-parallel
Strand 3	A	211	213	anti-parallel

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There are 3 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	173	178	first strand
Strand 2	A	234	242	anti-parallel
Strand 3	A	218	221	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	224	225	first strand
Strand 2	A	230	231	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	D	61	65	first strand
Strand 2	D	190	194	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	D	67	69	first strand
Strand 2	D	200	202	parallel

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There are 5 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	71	76	first strand
Strand 2	D	81	93	anti-parallel
Strand 3	D	149	161	anti-parallel
Strand 4	D	140	144	anti-parallel
Strand 5	D	108	109	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	71	76	first strand
Strand 2	D	81	93	anti-parallel
Strand 3	D	149	161	anti-parallel
Strand 4	D	127	132	anti-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	122	123	first strand
Strand 2	D	173	182	anti-parallel
Strand 3	D	233	241	anti-parallel
Strand 4	D	212	218	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	D	224	226	first strand
Strand 2	D	229	231	anti-parallel

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There are 6 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	106	108	first strand
Strand 2	C	140	145	anti-parallel
Strand 3	C	149	161	anti-parallel
Strand 4	C	81	93	anti-parallel
Strand 5	C	61	76	anti-parallel
Strand 6	C	190	194	parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	127	132	first strand
Strand 2	C	149	161	anti-parallel
Strand 3	C	81	93	anti-parallel
Strand 4	C	61	76	anti-parallel
Strand 5	C	200	202	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	C	122	123	first strand
Strand 2	C	173	186	anti-parallel
Strand 3	C	230	242	anti-parallel
Strand 4	C	211	220	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	C	122	123	first strand
Strand 2	C	173	186	anti-parallel
Strand 3	C	230	242	anti-parallel
Strand 4	C	224	225	anti-parallel

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There are 6 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	106	109	first strand
Strand 2	B	140	145	anti-parallel
Strand 3	B	149	161	anti-parallel
Strand 4	B	81	93	anti-parallel
Strand 5	B	61	76	anti-parallel
Strand 6	B	190	194	parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	127	132	first strand
Strand 2	B	149	161	anti-parallel
Strand 3	B	81	93	anti-parallel
Strand 4	B	61	76	anti-parallel
Strand 5	B	200	202	parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	122	123	first strand
Strand 2	B	177	182	anti-parallel
Strand 3	B	233	237	anti-parallel
Strand 4	B	218	221	anti-parallel

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There are 3 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	173	174	first strand
Strand 2	B	240	242	anti-parallel
Strand 3	B	211	213	anti-parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	224	225	first strand
Strand 2	B	230	231	anti-parallel

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There are 5 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	147	149	first strand
Strand 2	E	179	180	anti-parallel
Strand 3	E	100	112	anti-parallel
Strand 4	E	80	95	anti-parallel
Strand 5	E	210	214	parallel

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There are 5 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	160	164	first strand
Strand 2	E	169	176	anti-parallel
Strand 3	E	100	112	anti-parallel
Strand 4	E	80	95	anti-parallel
Strand 5	E	220	222	parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	142	143	first strand
Strand 2	E	193	206	anti-parallel
Strand 3	E	250	262	anti-parallel
Strand 4	E	243	246	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: 9PKZ

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