Analysis of interatomic Contacts of Structural Units in PDB entry:
6NQD

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 6NQD entry

There are 12 chains in PDB entry 6NQD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ALA 30	ARG 504
B	GLY 514	LEU 660
C	GLN 1	VAL 111
D	ASP 1	LYS 107
E	ALA 30	ARG 504
F	GLY 514	LEU 660
G	GLN 1	VAL 111
H	ASP 1	LYS 107
I	ALA 30	ARG 504
J	GLY 514	LEU 660
K	GLN 1	VAL 111
L	ASP 1	LYS 107

There are 33 helices in PDB entry 6NQD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	96	98	Right-handed 310
Helix 2	AA2	A	99	114	Right-handed alpha
Helix 3	AA3	A	335	353	Right-handed alpha
Helix 4	AA4	A	387	391	Right-handed 310
Helix 5	AA5	A	476	481	Right-handed alpha
Helix 6	AA6	B	529	548	Right-handed alpha
Helix 7	AA7	B	573	593	Right-handed alpha
Helix 8	AA8	B	618	624	Right-handed alpha
Helix 9	AA9	B	627	635	Right-handed alpha
Helix 10	AB1	B	638	660	Right-handed alpha
Helix 11	AB2	D	79	83	Right-handed 310
Helix 12	AB3	E	96	98	Right-handed 310
Helix 13	AB4	E	99	114	Right-handed alpha
Helix 14	AB5	E	335	353	Right-handed alpha
Helix 15	AB6	E	387	391	Right-handed 310
Helix 16	AB7	E	476	481	Right-handed alpha
Helix 17	AB8	F	529	548	Right-handed alpha
Helix 18	AB9	F	573	593	Right-handed alpha
Helix 19	AC1	F	618	624	Right-handed alpha
Helix 20	AC2	F	627	635	Right-handed alpha
Helix 21	AC3	F	638	660	Right-handed alpha
Helix 22	AC4	H	79	83	Right-handed 310
Helix 23	AC5	I	96	98	Right-handed 310
Helix 24	AC6	I	99	114	Right-handed alpha
Helix 25	AC7	I	335	353	Right-handed alpha
Helix 26	AC8	I	387	391	Right-handed 310
Helix 27	AC9	I	476	481	Right-handed alpha
Helix 28	AD1	J	529	548	Right-handed alpha
Helix 29	AD2	J	573	593	Right-handed alpha
Helix 30	AD3	J	618	624	Right-handed alpha
Helix 31	AD4	J	627	635	Right-handed alpha
Helix 32	AD5	J	638	660	Right-handed alpha
Helix 33	AD6	L	79	83	Right-handed 310

There are 45 sheets in PDB entry 6NQD. 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, AE3, AE4, AE5, AE6, AE7, AE8, AE9,

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	494	496	first strand
Strand 2	A	35	40	anti-parallel
Strand 3	B	604	609	anti-parallel

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There are 4 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	45	46	first strand
Strand 2	A	488	491	anti-parallel
Strand 3	A	223	227	anti-parallel
Strand 4	A	243	245	anti-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	53	55	first strand
Strand 2	A	216	218	anti-parallel

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There are 2 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	93	94	first strand
Strand 2	A	236	237	anti-parallel

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There are 5 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	169	174	first strand
Strand 2	A	157	162	anti-parallel
Strand 3	A	129	131	anti-parallel
Strand 4	A	189	193	anti-parallel
Strand 5	A	181	183	anti-parallel

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There are 6 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	271	273	first strand
Strand 2	A	284	298	anti-parallel
Strand 3	A	329	334	anti-parallel
Strand 4	A	413	421	anti-parallel
Strand 5	A	382	385	anti-parallel
Strand 6	A	374	375	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	271	273	first strand
Strand 2	A	284	298	anti-parallel
Strand 3	A	443	454	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	A	300	312	first strand
Strand 2	A	315	324	anti-parallel

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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	393	395	first strand
Strand 2	A	358	361	anti-parallel
Strand 3	A	466	467	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	A	423	424	first strand
Strand 2	A	434	435	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	C	3	5	first strand
Strand 2	C	17	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 AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	58	59	first strand
Strand 2	C	45	52	anti-parallel
Strand 3	C	34	39	anti-parallel
Strand 4	C	88	95	anti-parallel
Strand 5	C	107	109	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	C	100	100	first strand
Strand 2	C	100	100	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	D	5	7	first strand
Strand 2	D	18	24	anti-parallel
Strand 3	D	70	76	anti-parallel
Strand 4	D	62	67	anti-parallel

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There are 6 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	10	12	first strand
Strand 2	D	102	105	parallel
Strand 3	D	84	87	anti-parallel
Strand 4	D	34	38	anti-parallel
Strand 5	D	45	49	anti-parallel
Strand 6	D	53	54	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	494	496	first strand
Strand 2	E	35	40	anti-parallel
Strand 3	F	604	609	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	45	46	first strand
Strand 2	E	488	491	anti-parallel
Strand 3	E	223	227	anti-parallel
Strand 4	E	243	245	anti-parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	53	55	first strand
Strand 2	E	216	218	anti-parallel

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There are 2 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	93	94	first strand
Strand 2	E	236	237	anti-parallel

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There are 5 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	169	174	first strand
Strand 2	E	157	162	anti-parallel
Strand 3	E	129	131	anti-parallel
Strand 4	E	189	193	anti-parallel
Strand 5	E	181	183	anti-parallel

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There are 6 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	271	273	first strand
Strand 2	E	284	298	anti-parallel
Strand 3	E	329	334	anti-parallel
Strand 4	E	413	421	anti-parallel
Strand 5	E	382	385	anti-parallel
Strand 6	E	374	375	anti-parallel

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There are 3 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	271	273	first strand
Strand 2	E	284	298	anti-parallel
Strand 3	E	443	454	anti-parallel

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There are 2 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	300	312	first strand
Strand 2	E	315	324	anti-parallel

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There are 3 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	393	395	first strand
Strand 2	E	358	361	anti-parallel
Strand 3	E	466	467	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	E	423	424	first strand
Strand 2	E	434	435	anti-parallel

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There are 4 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3	5	first strand
Strand 2	G	17	25	anti-parallel
Strand 3	G	77	82	anti-parallel
Strand 4	G	67	72	anti-parallel

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There are 5 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	58	59	first strand
Strand 2	G	45	52	anti-parallel
Strand 3	G	34	39	anti-parallel
Strand 4	G	88	95	anti-parallel
Strand 5	G	107	109	anti-parallel

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There are 2 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	100	100	first strand
Strand 2	G	100	100	anti-parallel

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There are 4 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	5	7	first strand
Strand 2	H	18	24	anti-parallel
Strand 3	H	70	76	anti-parallel
Strand 4	H	62	67	anti-parallel

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There are 6 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	12	first strand
Strand 2	H	102	105	parallel
Strand 3	H	84	87	anti-parallel
Strand 4	H	34	38	anti-parallel
Strand 5	H	45	49	anti-parallel
Strand 6	H	53	54	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	I	494	496	first strand
Strand 2	I	35	40	anti-parallel
Strand 3	J	604	609	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	45	46	first strand
Strand 2	I	488	491	anti-parallel
Strand 3	I	223	227	anti-parallel
Strand 4	I	243	245	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	I	53	55	first strand
Strand 2	I	216	218	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	I	93	94	first strand
Strand 2	I	236	237	anti-parallel

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There are 5 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	169	174	first strand
Strand 2	I	157	162	anti-parallel
Strand 3	I	129	131	anti-parallel
Strand 4	I	189	193	anti-parallel
Strand 5	I	181	183	anti-parallel

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There are 6 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	271	273	first strand
Strand 2	I	284	298	anti-parallel
Strand 3	I	329	334	anti-parallel
Strand 4	I	413	421	anti-parallel
Strand 5	I	382	385	anti-parallel
Strand 6	I	374	375	anti-parallel

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There are 3 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	271	273	first strand
Strand 2	I	284	298	anti-parallel
Strand 3	I	443	454	anti-parallel

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There are 2 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	300	312	first strand
Strand 2	I	315	324	anti-parallel

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There are 3 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	393	395	first strand
Strand 2	I	358	361	anti-parallel
Strand 3	I	466	467	parallel

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There are 2 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	423	424	first strand
Strand 2	I	434	435	anti-parallel

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There are 4 strands in AE5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	3	5	first strand
Strand 2	K	17	25	anti-parallel
Strand 3	K	77	82	anti-parallel
Strand 4	K	67	72	anti-parallel

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There are 5 strands in AE6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	58	59	first strand
Strand 2	K	45	52	anti-parallel
Strand 3	K	34	39	anti-parallel
Strand 4	K	88	95	anti-parallel
Strand 5	K	107	109	anti-parallel

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There are 2 strands in AE7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	100	100	first strand
Strand 2	K	100	100	anti-parallel

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There are 4 strands in AE8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	5	7	first strand
Strand 2	L	18	24	anti-parallel
Strand 3	L	70	76	anti-parallel
Strand 4	L	62	67	anti-parallel

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There are 6 strands in AE9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	12	first strand
Strand 2	L	102	105	parallel
Strand 3	L	84	87	anti-parallel
Strand 4	L	34	38	anti-parallel
Strand 5	L	45	49	anti-parallel
Strand 6	L	53	54	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: 6NQD

Analysis of interatomic Contacts of Structural Units in PDB entry:
6NQD