Analysis of interatomic Contacts of Structural Units in PDB entry:
7APD

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 7APD entry

There are 10 chains in PDB entry 7APD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
G	GLY 156	ALA 307
B	THR 308	CYS 596
C	THR 308	PHE 594
D	THR 308	PHE 594
E	THR 308	PHE 594
F	THR 308	THR 593
A	THR 308	MET 591
H	GLY 156	ASN 303
P	T 1	T 40
T	C 42	A 77

There are 96 helices in PDB entry 7APD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	G	160	172	Right-handed alpha
Helix 2	AA2	G	200	212	Right-handed alpha
Helix 3	AA3	G	242	254	Right-handed alpha
Helix 4	AA4	G	271	281	Right-handed alpha
Helix 5	AA5	G	295	300	Right-handed alpha
Helix 6	AA6	B	312	324	Right-handed alpha
Helix 7	AA7	B	327	337	Right-handed alpha
Helix 8	AA8	B	342	351	Right-handed alpha
Helix 9	AA9	B	353	376	Right-handed alpha
Helix 10	AB1	B	377	388	Right-handed alpha
Helix 11	AB2	B	395	405	Right-handed alpha
Helix 12	AB3	B	408	421	Right-handed alpha
Helix 13	AB4	B	438	451	Right-handed alpha
Helix 14	AB5	B	460	464	Right-handed 310
Helix 15	AB6	B	466	471	Right-handed 310
Helix 16	AB7	B	481	491	Right-handed alpha
Helix 17	AB8	B	492	498	Right-handed alpha
Helix 18	AB9	B	529	531	Right-handed 310
Helix 19	AC1	B	532	537	Right-handed alpha
Helix 20	AC2	B	560	571	Right-handed alpha
Helix 21	AC3	B	571	576	Right-handed alpha
Helix 22	AC4	B	591	595	Right-handed 310
Helix 23	AC5	C	312	324	Right-handed alpha
Helix 24	AC6	C	327	339	Right-handed alpha
Helix 25	AC7	C	342	350	Right-handed alpha
Helix 26	AC8	C	353	374	Right-handed alpha
Helix 27	AC9	C	377	389	Right-handed alpha
Helix 28	AD1	C	395	405	Right-handed alpha
Helix 29	AD2	C	408	420	Right-handed alpha
Helix 30	AD3	C	439	450	Right-handed alpha
Helix 31	AD4	C	456	471	Right-handed 310
Helix 32	AD5	C	481	491	Right-handed alpha
Helix 33	AD6	C	492	498	Right-handed alpha
Helix 34	AD7	C	529	533	Right-handed 310
Helix 35	AD8	C	560	571	Right-handed alpha
Helix 36	AD9	D	312	324	Right-handed alpha
Helix 37	AE1	D	327	338	Right-handed alpha
Helix 38	AE2	D	342	350	Right-handed alpha
Helix 39	AE3	D	353	376	Right-handed alpha
Helix 40	AE4	D	377	387	Right-handed alpha
Helix 41	AE5	D	395	405	Right-handed alpha
Helix 42	AE6	D	408	422	Right-handed alpha
Helix 43	AE7	D	439	450	Right-handed alpha
Helix 44	AE8	D	456	460	Right-handed 310
Helix 45	AE9	D	462	471	Right-handed 310
Helix 46	AF1	D	481	491	Right-handed alpha
Helix 47	AF2	D	492	498	Right-handed alpha
Helix 48	AF3	D	529	533	Right-handed 310
Helix 49	AF4	D	560	571	Right-handed alpha
Helix 50	AF5	E	312	324	Right-handed alpha
Helix 51	AF6	E	327	339	Right-handed alpha
Helix 52	AF7	E	342	349	Right-handed alpha
Helix 53	AF8	E	353	374	Right-handed alpha
Helix 54	AF9	E	377	389	Right-handed alpha
Helix 55	AG1	E	395	406	Right-handed alpha
Helix 56	AG2	E	408	422	Right-handed alpha
Helix 57	AG3	E	438	450	Right-handed alpha
Helix 58	AG4	E	456	471	Right-handed 310
Helix 59	AG5	E	481	491	Right-handed alpha
Helix 60	AG6	E	492	498	Right-handed alpha
Helix 61	AG7	E	532	536	Right-handed 310
Helix 62	AG8	E	560	571	Right-handed alpha
Helix 63	AG9	F	312	324	Right-handed alpha
Helix 64	AH1	F	327	339	Right-handed alpha
Helix 65	AH2	F	342	351	Right-handed alpha
Helix 66	AH3	F	353	375	Right-handed alpha
Helix 67	AH4	F	377	389	Right-handed alpha
Helix 68	AH5	F	395	405	Right-handed alpha
Helix 69	AH6	F	408	422	Right-handed alpha
Helix 70	AH7	F	438	450	Right-handed alpha
Helix 71	AH8	F	456	462	Right-handed 310
Helix 72	AH9	F	466	470	Right-handed 310
Helix 73	AI1	F	481	492	Right-handed alpha
Helix 74	AI2	F	494	498	Right-handed 310
Helix 75	AI3	F	532	538	Right-handed 310
Helix 76	AI4	F	560	571	Right-handed alpha
Helix 77	AI5	A	312	323	Right-handed alpha
Helix 78	AI6	A	327	339	Right-handed alpha
Helix 79	AI7	A	342	351	Right-handed alpha
Helix 80	AI8	A	353	376	Right-handed alpha
Helix 81	AI9	A	377	386	Right-handed alpha
Helix 82	AJ1	A	395	405	Right-handed alpha
Helix 83	AJ2	A	408	422	Right-handed alpha
Helix 84	AJ3	A	438	450	Right-handed alpha
Helix 85	AJ4	A	456	460	Right-handed 310
Helix 86	AJ5	A	466	470	Right-handed 310
Helix 87	AJ6	A	481	491	Right-handed alpha
Helix 88	AJ7	A	493	497	Right-handed 310
Helix 89	AJ8	A	560	576	Right-handed alpha
Helix 90	AJ9	H	160	172	Right-handed alpha
Helix 91	AK1	H	174	178	Right-handed 310
Helix 92	AK2	H	200	213	Right-handed alpha
Helix 93	AK3	H	242	255	Right-handed alpha
Helix 94	AK4	H	257	259	Right-handed 310
Helix 95	AK5	H	270	281	Right-handed alpha
Helix 96	AK6	H	293	298	Right-handed alpha

There are 13 sheets in PDB entry 7APD. 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,

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	G	189	197	first strand
Strand 2	G	230	241	anti-parallel
Strand 3	G	215	221	anti-parallel

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There are 3 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	518	522	first strand
Strand 2	B	428	432	parallel
Strand 3	B	540	543	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	B	501	504	first strand
Strand 2	B	510	513	anti-parallel

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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	453	455	first strand
Strand 2	C	475	478	parallel
Strand 3	C	518	522	parallel
Strand 4	C	429	432	parallel
Strand 5	C	540	543	parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	501	503	first strand
Strand 2	C	511	513	anti-parallel

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There are 5 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	454	455	first strand
Strand 2	D	475	478	parallel
Strand 3	D	518	521	parallel
Strand 4	D	428	432	parallel
Strand 5	D	540	543	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	501	503	first strand
Strand 2	D	511	513	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	E	475	478	first strand
Strand 2	E	518	521	parallel
Strand 3	E	428	432	parallel
Strand 4	E	540	543	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	E	501	503	first strand
Strand 2	E	511	513	anti-parallel

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There are 5 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	453	454	first strand
Strand 2	F	475	480	parallel
Strand 3	F	518	522	parallel
Strand 4	F	429	432	parallel
Strand 5	F	540	543	parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	501	503	first strand
Strand 2	F	511	513	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	A	477	480	first strand
Strand 2	A	518	522	parallel
Strand 3	A	428	432	parallel
Strand 4	A	540	543	parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	261	264	first strand
Strand 2	H	189	197	anti-parallel
Strand 3	H	229	241	anti-parallel
Strand 4	H	215	224	anti-parallel
Strand 5	H	287	290	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: 7APD

Analysis of interatomic Contacts of Structural Units in PDB entry:
7APD