Analysis of interatomic Contacts of Structural Units in PDB entry:
8PNQ

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 8PNQ entry

Note, this PDB entry contains modified residue(s) PHOSPHOSERINE (SEP) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 8 chains in PDB entry 8PNQ (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	ARG 716
B	MET 1	LYS 757
C	MET 1	GLU 249
V	A 1	U 51
M	A 10	A 18
G	SER 2	THR 6
G	PRO 8	THR 20
G	PRO 22	PRO 26

There are 72 helices in PDB entry 8PNQ. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	1	9	Right-handed alpha
Helix 2	AA2	A	10	23	Right-handed alpha
Helix 3	AA3	A	31	50	Right-handed alpha
Helix 4	AA4	A	83	99	Right-handed alpha
Helix 5	AA5	A	126	139	Right-handed alpha
Helix 6	AA6	A	164	185	Right-handed alpha
Helix 7	AA7	A	187	194	Right-handed alpha
Helix 8	AA8	A	195	198	Right-handed 310
Helix 9	AA9	A	209	217	Right-handed alpha
Helix 10	AB1	A	225	235	Right-handed alpha
Helix 11	AB2	A	240	249	Right-handed alpha
Helix 12	AB3	A	302	313	Right-handed alpha
Helix 13	AB4	A	330	351	Right-handed alpha
Helix 14	AB5	A	363	370	Right-handed alpha
Helix 15	AB6	A	382	384	Right-handed 310
Helix 16	AB7	A	405	415	Right-handed alpha
Helix 17	AB8	A	433	452	Right-handed alpha
Helix 18	AB9	A	453	476	Right-handed alpha
Helix 19	AC1	A	533	538	Right-handed 310
Helix 20	AC2	A	572	580	Right-handed alpha
Helix 21	AC3	A	582	604	Right-handed alpha
Helix 22	AC4	A	607	613	Right-handed alpha
Helix 23	AC5	A	632	650	Right-handed alpha
Helix 24	AC6	A	652	674	Right-handed alpha
Helix 25	AC7	A	682	692	Right-handed alpha
Helix 26	AC8	A	697	716	Right-handed alpha
Helix 27	AC9	B	5	11	Right-handed 310
Helix 28	AD1	B	14	22	Right-handed 310
Helix 29	AD2	B	35	49	Right-handed alpha
Helix 30	AD3	B	84	99	Right-handed alpha
Helix 31	AD4	B	101	117	Right-handed alpha
Helix 32	AD5	B	118	125	Right-handed 310
Helix 33	AD6	B	138	153	Right-handed alpha
Helix 34	AD7	B	156	160	Right-handed 310
Helix 35	AD8	B	162	174	Right-handed alpha
Helix 36	AD9	B	214	222	Right-handed alpha
Helix 37	AE1	B	245	265	Right-handed alpha
Helix 38	AE2	B	275	293	Right-handed alpha
Helix 39	AE3	B	309	313	Right-handed 310
Helix 40	AE4	B	314	326	Right-handed alpha
Helix 41	AE5	B	330	346	Right-handed alpha
Helix 42	AE6	B	369	376	Right-handed 310
Helix 43	AE7	B	382	393	Right-handed alpha
Helix 44	AE8	B	412	426	Right-handed alpha
Helix 45	AE9	B	428	433	Right-handed alpha
Helix 46	AF1	B	455	474	Right-handed alpha
Helix 47	AF2	B	505	512	Right-handed 310
Helix 48	AF3	B	518	536	Right-handed alpha
Helix 49	AF4	B	540	559	Right-handed alpha
Helix 50	AF5	B	572	583	Right-handed alpha
Helix 51	AF6	B	585	589	Right-handed 310
Helix 52	AF7	B	590	594	Right-handed 310
Helix 53	AF8	B	607	612	Right-handed alpha
Helix 54	AF9	B	617	625	Right-handed alpha
Helix 55	AG1	B	679	700	Right-handed alpha
Helix 56	AG2	B	701	704	Right-handed 310
Helix 57	AG3	B	713	733	Right-handed alpha
Helix 58	AG4	B	736	756	Right-handed alpha
Helix 59	AG5	C	2	13	Right-handed alpha
Helix 60	AG6	C	14	22	Right-handed alpha
Helix 61	AG7	C	24	33	Right-handed alpha
Helix 62	AG8	C	42	51	Right-handed alpha
Helix 63	AG9	C	62	67	Right-handed alpha
Helix 64	AH1	C	92	103	Right-handed alpha
Helix 65	AH2	C	110	115	Right-handed alpha
Helix 66	AH3	C	115	127	Right-handed alpha
Helix 67	AH4	C	155	168	Right-handed alpha
Helix 68	AH5	C	169	172	Right-handed 310
Helix 69	AH6	C	179	194	Right-handed alpha
Helix 70	AH7	C	199	212	Right-handed alpha
Helix 71	AH8	C	225	230	Right-handed alpha
Helix 72	AH9	C	231	236	Right-handed alpha

There are 16 sheets in PDB entry 8PNQ. 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,

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	60	61	first strand
Strand 2	A	53	54	anti-parallel
Strand 3	A	73	74	anti-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	76	78	first strand
Strand 2	A	109	111	anti-parallel
Strand 3	A	116	123	anti-parallel
Strand 4	A	144	149	parallel
Strand 5	A	154	156	anti-parallel

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There are 6 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	258	259	first strand
Strand 2	A	679	680	anti-parallel
Strand 3	B	483	486	anti-parallel
Strand 4	B	298	304	anti-parallel
Strand 5	B	446	453	anti-parallel
Strand 6	B	437	443	anti-parallel

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There are 6 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	290	293	first strand
Strand 2	A	496	506	anti-parallel
Strand 3	A	517	526	anti-parallel
Strand 4	A	556	571	anti-parallel
Strand 5	A	541	551	anti-parallel
Strand 6	A	317	324	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	A	290	293	first strand
Strand 2	A	496	506	anti-parallel
Strand 3	A	480	490	anti-parallel
Strand 4	A	358	360	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	A	377	380	first strand
Strand 2	B	364	368	parallel
Strand 3	B	355	359	anti-parallel
Strand 4	A	391	392	anti-parallel

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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	627	631	first strand
Strand 2	A	619	624	anti-parallel
Strand 3	B	2	3	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	B	54	57	first strand
Strand 2	B	64	67	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	B	128	130	first strand
Strand 2	B	135	137	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	B	178	181	first strand
Strand 2	B	210	213	anti-parallel

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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	184	192	first strand
Strand 2	B	199	207	anti-parallel
Strand 3	B	677	678	parallel

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There are 5 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	240	244	first strand
Strand 2	B	223	228	anti-parallel
Strand 3	B	348	350	parallel
Strand 4	B	400	402	anti-parallel
Strand 5	B	396	397	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	489	492	first strand
Strand 2	B	495	498	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	B	667	668	first strand
Strand 2	C	57	60	anti-parallel
Strand 3	C	88	91	anti-parallel
Strand 4	C	78	79	anti-parallel

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There are 2 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	129	135	first strand
Strand 2	C	240	245	anti-parallel

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There are 2 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	141	148	first strand
Strand 2	C	214	220	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: 8PNQ

Analysis of interatomic Contacts of Structural Units in PDB entry:
8PNQ