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

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 8GPG entry

There are 9 chains in PDB entry 8GPG (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLN 1	SER 124
B	ASP 1	LYS 112
C	GLN 1	SER 124
D	ASP 1	LYS 112
E	GLN 1	SER 124
F	ASP 1	LYS 112
X	ASN 33	GLN 653
Y	ASN 33	GLN 653
Z	ASN 33	GLN 653

There are 33 helices in PDB entry 8GPG. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	86	90	Right-handed 310
Helix 2	AA2	B	84	88	Right-handed 310
Helix 3	AA3	C	86	90	Right-handed 310
Helix 4	AA4	D	84	88	Right-handed 310
Helix 5	AA5	X	99	105	Right-handed alpha
Helix 6	AA6	X	106	115	Right-handed alpha
Helix 7	AA7	X	335	351	Right-handed alpha
Helix 8	AA8	X	368	373	Right-handed alpha
Helix 9	AA9	X	475	481	Right-handed alpha
Helix 10	AB1	X	529	537	Right-handed alpha
Helix 11	AB2	X	571	595	Right-handed alpha
Helix 12	AB3	X	618	625	Right-handed alpha
Helix 13	AB4	X	627	636	Right-handed alpha
Helix 14	AB5	X	638	652	Right-handed alpha
Helix 15	AB6	Y	99	116	Right-handed alpha
Helix 16	AB7	Y	335	356	Right-handed alpha
Helix 17	AB8	Y	368	373	Right-handed alpha
Helix 18	AB9	Y	388	392	Right-handed 310
Helix 19	AC1	Y	474	483	Right-handed alpha
Helix 20	AC2	Y	529	537	Right-handed alpha
Helix 21	AC3	Y	571	596	Right-handed alpha
Helix 22	AC4	Y	618	624	Right-handed alpha
Helix 23	AC5	Y	627	636	Right-handed alpha
Helix 24	AC6	Y	638	652	Right-handed alpha
Helix 25	AC7	Z	99	116	Right-handed alpha
Helix 26	AC8	Z	335	353	Right-handed alpha
Helix 27	AC9	Z	387	391	Right-handed 310
Helix 28	AD1	Z	475	481	Right-handed alpha
Helix 29	AD2	Z	529	537	Right-handed alpha
Helix 30	AD3	Z	572	595	Right-handed alpha
Helix 31	AD4	Z	618	623	Right-handed alpha
Helix 32	AD5	Z	627	636	Right-handed alpha
Helix 33	AD6	Z	638	653	Right-handed alpha

There are 38 sheets in PDB entry 8GPG. 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, AC7, AC8, AC9, AD1, AD2, AD3, AD4, AD5, AD6, AD7, AD8, AD9, AE1, AE2,

There are 4 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	4	7	first strand
Strand 2	A	17	24	anti-parallel
Strand 3	A	77	83	anti-parallel
Strand 4	A	67	71	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	A	11	12	first strand
Strand 2	A	121	122	parallel

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There are 5 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	57	59	first strand
Strand 2	A	46	51	anti-parallel
Strand 3	A	33	39	anti-parallel
Strand 4	A	92	102	anti-parallel
Strand 5	A	106	114	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	5	7	first strand
Strand 2	B	19	24	anti-parallel
Strand 3	B	75	80	anti-parallel
Strand 4	B	67	72	anti-parallel

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There are 6 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	10	13	first strand
Strand 2	B	107	111	parallel
Strand 3	B	89	95	anti-parallel
Strand 4	B	38	43	anti-parallel
Strand 5	B	50	54	anti-parallel
Strand 6	B	58	59	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	C	3	7	first strand
Strand 2	C	18	25	anti-parallel
Strand 3	C	77	82	anti-parallel
Strand 4	C	67	72	anti-parallel

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There are 5 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	57	59	first strand
Strand 2	C	44	51	anti-parallel
Strand 3	C	33	40	anti-parallel
Strand 4	C	92	102	anti-parallel
Strand 5	C	106	114	anti-parallel

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There are 4 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	5	7	first strand
Strand 2	D	19	24	anti-parallel
Strand 3	D	75	80	anti-parallel
Strand 4	D	67	72	anti-parallel

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There are 6 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	10	13	first strand
Strand 2	D	107	111	parallel
Strand 3	D	89	95	anti-parallel
Strand 4	D	38	43	anti-parallel
Strand 5	D	50	54	anti-parallel
Strand 6	D	58	59	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	E	3	7	first strand
Strand 2	E	16	25	anti-parallel
Strand 3	E	77	85	anti-parallel
Strand 4	E	67	72	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	57	59	first strand
Strand 2	E	44	51	anti-parallel
Strand 3	E	33	40	anti-parallel
Strand 4	E	91	102	anti-parallel
Strand 5	E	106	114	anti-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	E	57	59	first strand
Strand 2	E	44	51	anti-parallel
Strand 3	E	33	40	anti-parallel
Strand 4	E	91	102	anti-parallel
Strand 5	E	118	120	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	F	5	7	first strand
Strand 2	F	19	24	anti-parallel
Strand 3	F	75	80	anti-parallel
Strand 4	F	67	72	anti-parallel

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There are 6 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	10	13	first strand
Strand 2	F	107	111	parallel
Strand 3	F	89	95	anti-parallel
Strand 4	F	38	43	anti-parallel
Strand 5	F	50	54	anti-parallel
Strand 6	F	58	59	anti-parallel

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There are 3 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	494	499	first strand
Strand 2	X	35	40	anti-parallel
Strand 3	X	603	609	anti-parallel

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There are 5 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	45	47	first strand
Strand 2	X	486	491	anti-parallel
Strand 3	X	233	237	anti-parallel
Strand 4	X	253	255	anti-parallel
Strand 5	X	83	85	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	91	94	first strand
Strand 2	X	246	249	anti-parallel

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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	269	271	first strand
Strand 2	X	446	456	anti-parallel
Strand 3	X	294	305	anti-parallel
Strand 4	X	281	283	anti-parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	269	271	first strand
Strand 2	X	446	456	anti-parallel
Strand 3	X	468	470	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	332	334	first strand
Strand 2	X	413	415	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	X	358	359	first strand
Strand 2	X	465	466	parallel

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There are 2 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	374	378	first strand
Strand 2	X	381	385	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	494	499	first strand
Strand 2	Y	35	40	anti-parallel
Strand 3	Y	603	609	anti-parallel

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There are 5 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	45	47	first strand
Strand 2	Y	486	491	anti-parallel
Strand 3	Y	233	238	anti-parallel
Strand 4	Y	252	255	anti-parallel
Strand 5	Y	84	85	anti-parallel

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There are 2 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	53	55	first strand
Strand 2	Y	226	228	anti-parallel

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There are 2 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	91	93	first strand
Strand 2	Y	247	249	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	269	271	first strand
Strand 2	Y	448	456	anti-parallel
Strand 3	Y	294	303	anti-parallel
Strand 4	Y	281	283	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	269	271	first strand
Strand 2	Y	448	456	anti-parallel
Strand 3	Y	466	470	anti-parallel
Strand 4	Y	359	361	parallel

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There are 2 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	332	333	first strand
Strand 2	Y	414	415	anti-parallel

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There are 3 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	374	378	first strand
Strand 2	Y	381	385	anti-parallel
Strand 3	Y	418	419	anti-parallel

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There are 3 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	495	499	first strand
Strand 2	Z	35	39	anti-parallel
Strand 3	Z	603	609	anti-parallel

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There are 5 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	45	47	first strand
Strand 2	Z	486	491	anti-parallel
Strand 3	Z	233	238	anti-parallel
Strand 4	Z	252	255	anti-parallel
Strand 5	Z	83	85	anti-parallel

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There are 2 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	53	55	first strand
Strand 2	Z	226	228	anti-parallel

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There are 2 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	91	94	first strand
Strand 2	Z	246	249	anti-parallel

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There are 4 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	270	271	first strand
Strand 2	Z	448	456	anti-parallel
Strand 3	Z	294	303	anti-parallel
Strand 4	Z	281	283	anti-parallel

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There are 4 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	270	271	first strand
Strand 2	Z	448	456	anti-parallel
Strand 3	Z	466	470	anti-parallel
Strand 4	Z	359	361	parallel

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There are 2 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	332	334	first strand
Strand 2	Z	413	415	anti-parallel

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There are 3 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	374	378	first strand
Strand 2	Z	381	385	anti-parallel
Strand 3	Z	418	419	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: 8GPG

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