Analysis of interatomic Contacts of Structural Units in PDB entry:
1PK8

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 1PK8 entry

There are 8 chains in PDB entry 1PK8 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 112	ALA 417
B	ALA 113	ALA 417
C	ALA 113	ALA 417
D	ALA 112	ALA 417
E	ALA 112	GLN 416
F	ALA 113	ALA 417
G	ALA 112	ALA 417
H	ALA 112	ALA 417

There are 87 helices in PDB entry 1PK8. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	125	131	Right-handed alpha
Helix 2	2	A	147	149	Right-handed 310
Helix 3	3	A	198	208	Right-handed alpha
Helix 4	4	A	215	222	Right-handed alpha
Helix 5	5	A	224	240	Right-handed alpha
Helix 6	6	A	254	258	Right-handed 310
Helix 7	7	A	284	299	Right-handed alpha
Helix 8	8	A	350	361	Right-handed alpha
Helix 9	9	A	362	366	Right-handed 310
Helix 10	10	A	398	416	Right-handed alpha
Helix 11	11	B	125	131	Right-handed alpha
Helix 12	12	B	147	149	Right-handed 310
Helix 13	13	B	198	208	Right-handed alpha
Helix 14	14	B	215	222	Right-handed alpha
Helix 15	15	B	224	240	Right-handed alpha
Helix 16	16	B	254	258	Right-handed 310
Helix 17	17	B	284	299	Right-handed alpha
Helix 18	18	B	350	361	Right-handed alpha
Helix 19	19	B	362	366	Right-handed 310
Helix 20	20	B	398	416	Right-handed alpha
Helix 21	21	C	125	131	Right-handed alpha
Helix 22	22	C	136	138	Right-handed 310
Helix 23	23	C	147	149	Right-handed 310
Helix 24	24	C	198	208	Right-handed alpha
Helix 25	25	C	215	222	Right-handed alpha
Helix 26	26	C	224	240	Right-handed alpha
Helix 27	27	C	254	258	Right-handed 310
Helix 28	28	C	284	299	Right-handed alpha
Helix 29	29	C	350	361	Right-handed alpha
Helix 30	30	C	362	366	Right-handed 310
Helix 31	31	C	395	397	Right-handed 310
Helix 32	32	C	398	416	Right-handed alpha
Helix 33	33	D	125	131	Right-handed alpha
Helix 34	34	D	136	138	Right-handed 310
Helix 35	35	D	147	149	Right-handed 310
Helix 36	36	D	198	208	Right-handed alpha
Helix 37	37	D	215	222	Right-handed alpha
Helix 38	38	D	224	240	Right-handed alpha
Helix 39	39	D	254	258	Right-handed 310
Helix 40	40	D	284	299	Right-handed alpha
Helix 41	41	D	350	361	Right-handed alpha
Helix 42	42	D	362	366	Right-handed 310
Helix 43	43	D	398	416	Right-handed alpha
Helix 44	44	E	125	131	Right-handed alpha
Helix 45	45	E	147	149	Right-handed 310
Helix 46	46	E	198	208	Right-handed alpha
Helix 47	47	E	215	222	Right-handed alpha
Helix 48	48	E	224	240	Right-handed alpha
Helix 49	49	E	254	258	Right-handed 310
Helix 50	50	E	284	299	Right-handed alpha
Helix 51	51	E	350	362	Right-handed alpha
Helix 52	52	E	363	366	Right-handed 310
Helix 53	53	E	398	416	Right-handed alpha
Helix 54	54	F	125	131	Right-handed alpha
Helix 55	55	F	147	149	Right-handed 310
Helix 56	56	F	198	208	Right-handed alpha
Helix 57	57	F	215	222	Right-handed alpha
Helix 58	58	F	224	240	Right-handed alpha
Helix 59	59	F	254	258	Right-handed 310
Helix 60	60	F	284	299	Right-handed alpha
Helix 61	61	F	350	361	Right-handed alpha
Helix 62	62	F	362	366	Right-handed 310
Helix 63	63	F	395	397	Right-handed 310
Helix 64	64	F	398	416	Right-handed alpha
Helix 65	65	G	125	131	Right-handed alpha
Helix 66	66	G	136	138	Right-handed 310
Helix 67	67	G	147	149	Right-handed 310
Helix 68	68	G	198	208	Right-handed alpha
Helix 69	69	G	215	222	Right-handed alpha
Helix 70	70	G	224	240	Right-handed alpha
Helix 71	71	G	254	258	Right-handed 310
Helix 72	72	G	284	299	Right-handed alpha
Helix 73	73	G	350	361	Right-handed alpha
Helix 74	74	G	362	366	Right-handed 310
Helix 75	75	G	395	397	Right-handed 310
Helix 76	76	G	398	416	Right-handed alpha
Helix 77	77	H	125	131	Right-handed alpha
Helix 78	78	H	147	149	Right-handed 310
Helix 79	79	H	198	208	Right-handed alpha
Helix 80	80	H	215	222	Right-handed alpha
Helix 81	81	H	224	240	Right-handed alpha
Helix 82	82	H	254	258	Right-handed 310
Helix 83	83	H	284	299	Right-handed alpha
Helix 84	84	H	350	361	Right-handed alpha
Helix 85	85	H	362	366	Right-handed 310
Helix 86	86	H	395	397	Right-handed 310
Helix 87	87	H	398	417	Right-handed alpha

There are 24 sheets in PDB entry 1PK8. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	134	135	first strand
Strand 2	A	139	146	anti-parallel
Strand 3	A	114	119	parallel
Strand 4	A	182	185	parallel
Strand 5	A	212	213	parallel

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There are 7 strands in B sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	172	178	first strand
Strand 2	A	161	169	anti-parallel
Strand 3	A	151	156	anti-parallel
Strand 4	B	250	252	anti-parallel
Strand 5	B	302	306	anti-parallel
Strand 6	B	266	270	anti-parallel
Strand 7	B	279	282	anti-parallel

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There are 7 strands in C sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	279	282	first strand
Strand 2	A	266	270	anti-parallel
Strand 3	A	302	306	anti-parallel
Strand 4	A	250	252	anti-parallel
Strand 5	B	151	156	anti-parallel
Strand 6	B	161	165	anti-parallel
Strand 7	B	176	178	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	342	347	first strand
Strand 2	A	322	330	anti-parallel
Strand 3	A	310	319	anti-parallel
Strand 4	A	369	377	anti-parallel
Strand 5	A	382	388	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	134	135	first strand
Strand 2	B	139	146	anti-parallel
Strand 3	B	114	119	parallel
Strand 4	B	182	185	parallel
Strand 5	B	212	213	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	343	347	first strand
Strand 2	B	322	329	anti-parallel
Strand 3	B	310	319	anti-parallel
Strand 4	B	369	377	anti-parallel
Strand 5	B	382	388	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	134	135	first strand
Strand 2	C	139	146	anti-parallel
Strand 3	C	114	119	parallel
Strand 4	C	182	185	parallel
Strand 5	C	212	213	parallel

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There are 7 strands in H sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	176	178	first strand
Strand 2	C	161	165	anti-parallel
Strand 3	C	151	156	anti-parallel
Strand 4	D	250	252	anti-parallel
Strand 5	D	302	306	anti-parallel
Strand 6	D	266	270	anti-parallel
Strand 7	D	279	282	anti-parallel

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There are 7 strands in I sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	279	282	first strand
Strand 2	C	266	270	anti-parallel
Strand 3	C	302	306	anti-parallel
Strand 4	C	250	252	anti-parallel
Strand 5	D	151	156	anti-parallel
Strand 6	D	161	165	anti-parallel
Strand 7	D	176	178	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	345	347	first strand
Strand 2	C	322	328	anti-parallel
Strand 3	C	310	319	anti-parallel
Strand 4	C	369	377	anti-parallel
Strand 5	C	382	388	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	134	135	first strand
Strand 2	D	139	146	anti-parallel
Strand 3	D	114	119	parallel
Strand 4	D	182	185	parallel
Strand 5	D	212	213	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	342	347	first strand
Strand 2	D	322	330	anti-parallel
Strand 3	D	310	319	anti-parallel
Strand 4	D	369	377	anti-parallel
Strand 5	D	382	388	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	134	135	first strand
Strand 2	E	139	146	anti-parallel
Strand 3	E	114	119	parallel
Strand 4	E	182	185	parallel
Strand 5	E	212	213	parallel

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There are 7 strands in N sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	176	178	first strand
Strand 2	E	161	165	anti-parallel
Strand 3	E	151	156	anti-parallel
Strand 4	F	250	252	anti-parallel
Strand 5	F	302	306	anti-parallel
Strand 6	F	266	270	anti-parallel
Strand 7	F	279	282	anti-parallel

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There are 7 strands in O sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	279	282	first strand
Strand 2	E	266	270	anti-parallel
Strand 3	E	302	306	anti-parallel
Strand 4	E	250	252	anti-parallel
Strand 5	F	151	156	anti-parallel
Strand 6	F	161	165	anti-parallel
Strand 7	F	176	178	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	345	347	first strand
Strand 2	E	322	328	anti-parallel
Strand 3	E	310	319	anti-parallel
Strand 4	E	369	377	anti-parallel
Strand 5	E	382	388	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	134	135	first strand
Strand 2	F	139	146	anti-parallel
Strand 3	F	114	119	parallel
Strand 4	F	182	185	parallel
Strand 5	F	212	213	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	345	347	first strand
Strand 2	F	322	328	anti-parallel
Strand 3	F	310	319	anti-parallel
Strand 4	F	369	377	anti-parallel
Strand 5	F	382	388	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	134	135	first strand
Strand 2	G	139	146	anti-parallel
Strand 3	G	114	119	parallel
Strand 4	G	182	185	parallel
Strand 5	G	212	213	parallel

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There are 7 strands in T sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	176	178	first strand
Strand 2	G	161	165	anti-parallel
Strand 3	G	151	156	anti-parallel
Strand 4	H	250	252	anti-parallel
Strand 5	H	302	306	anti-parallel
Strand 6	H	266	270	anti-parallel
Strand 7	H	279	282	anti-parallel

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There are 7 strands in U sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	279	282	first strand
Strand 2	G	266	270	anti-parallel
Strand 3	G	302	306	anti-parallel
Strand 4	G	250	252	anti-parallel
Strand 5	H	151	156	anti-parallel
Strand 6	H	161	165	anti-parallel
Strand 7	H	176	178	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	343	347	first strand
Strand 2	G	322	329	anti-parallel
Strand 3	G	310	319	anti-parallel
Strand 4	G	369	377	anti-parallel
Strand 5	G	382	388	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	134	135	first strand
Strand 2	H	139	146	anti-parallel
Strand 3	H	114	119	parallel
Strand 4	H	182	185	parallel
Strand 5	H	212	213	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	345	347	first strand
Strand 2	H	322	328	anti-parallel
Strand 3	H	310	319	anti-parallel
Strand 4	H	369	377	anti-parallel
Strand 5	H	382	388	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: 1PK8

Analysis of interatomic Contacts of Structural Units in PDB entry:
1PK8