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

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 6NDF entry

There are 18 chains in PDB entry 6NDF (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASN 3	SER 133
B	CYS 1	PHE 122
C	LEU 172	PHE 362
D	ASN 3	SER 133
E	CYS 1	PHE 122
F	LEU 172	PHE 362
G	ASN 3	SER 133
H	CYS 1	PHE 122
I	LEU 172	PHE 362
J	ASN 3	SER 133
K	CYS 1	PHE 122
L	LEU 172	PHE 362
M	ASN 3	SER 133
N	CYS 1	PHE 122
O	LEU 172	PHE 362
P	ASN 3	SER 133
Q	CYS 1	PHE 122
R	LEU 172	PHE 362

There are 90 helices in PDB entry 6NDF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	24	35	Right-handed alpha
Helix 2	AA2	A	46	61	Right-handed alpha
Helix 3	AA3	A	110	112	Right-handed 310
Helix 4	AA4	B	21	31	Right-handed alpha
Helix 5	AA5	B	43	58	Right-handed alpha
Helix 6	AA6	C	187	201	Right-handed alpha
Helix 7	AA7	C	231	240	Right-handed alpha
Helix 8	AA8	C	251	263	Right-handed alpha
Helix 9	AA9	C	288	290	Right-handed 310
Helix 10	AB1	C	291	302	Right-handed alpha
Helix 11	AB2	C	312	318	Right-handed alpha
Helix 12	AB3	C	322	333	Right-handed alpha
Helix 13	AB4	C	336	340	Right-handed alpha
Helix 14	AB5	C	346	352	Right-handed 310
Helix 15	AB6	C	353	361	Right-handed alpha
Helix 16	AB7	D	24	34	Right-handed alpha
Helix 17	AB8	D	46	61	Right-handed alpha
Helix 18	AB9	D	110	112	Right-handed 310
Helix 19	AC1	E	21	31	Right-handed alpha
Helix 20	AC2	E	43	58	Right-handed alpha
Helix 21	AC3	F	187	201	Right-handed alpha
Helix 22	AC4	F	231	242	Right-handed alpha
Helix 23	AC5	F	251	264	Right-handed alpha
Helix 24	AC6	F	288	290	Right-handed 310
Helix 25	AC7	F	291	302	Right-handed alpha
Helix 26	AC8	F	312	318	Right-handed alpha
Helix 27	AC9	F	322	333	Right-handed alpha
Helix 28	AD1	F	336	340	Right-handed alpha
Helix 29	AD2	F	346	352	Right-handed 310
Helix 30	AD3	F	353	360	Right-handed alpha
Helix 31	AD4	G	24	34	Right-handed alpha
Helix 32	AD5	G	46	61	Right-handed alpha
Helix 33	AD6	G	110	112	Right-handed 310
Helix 34	AD7	H	21	31	Right-handed alpha
Helix 35	AD8	H	43	58	Right-handed alpha
Helix 36	AD9	I	187	201	Right-handed alpha
Helix 37	AE1	I	231	242	Right-handed alpha
Helix 38	AE2	I	251	263	Right-handed alpha
Helix 39	AE3	I	288	290	Right-handed 310
Helix 40	AE4	I	291	302	Right-handed alpha
Helix 41	AE5	I	312	318	Right-handed alpha
Helix 42	AE6	I	322	333	Right-handed alpha
Helix 43	AE7	I	336	340	Right-handed alpha
Helix 44	AE8	I	346	352	Right-handed 310
Helix 45	AE9	I	353	361	Right-handed alpha
Helix 46	AF1	J	24	34	Right-handed alpha
Helix 47	AF2	J	46	61	Right-handed alpha
Helix 48	AF3	J	109	112	Right-handed 310
Helix 49	AF4	K	21	31	Right-handed alpha
Helix 50	AF5	K	43	56	Right-handed alpha
Helix 51	AF6	L	187	201	Right-handed alpha
Helix 52	AF7	L	231	240	Right-handed alpha
Helix 53	AF8	L	251	263	Right-handed alpha
Helix 54	AF9	L	288	290	Right-handed 310
Helix 55	AG1	L	291	302	Right-handed alpha
Helix 56	AG2	L	312	317	Right-handed alpha
Helix 57	AG3	L	322	333	Right-handed alpha
Helix 58	AG4	L	336	340	Right-handed alpha
Helix 59	AG5	L	346	352	Right-handed 310
Helix 60	AG6	L	353	360	Right-handed alpha
Helix 61	AG7	M	24	35	Right-handed alpha
Helix 62	AG8	M	46	61	Right-handed alpha
Helix 63	AG9	M	110	112	Right-handed 310
Helix 64	AH1	N	21	31	Right-handed alpha
Helix 65	AH2	N	43	55	Right-handed alpha
Helix 66	AH3	O	187	201	Right-handed alpha
Helix 67	AH4	O	231	240	Right-handed alpha
Helix 68	AH5	O	251	263	Right-handed alpha
Helix 69	AH6	O	288	290	Right-handed 310
Helix 70	AH7	O	291	302	Right-handed alpha
Helix 71	AH8	O	312	318	Right-handed alpha
Helix 72	AH9	O	322	333	Right-handed alpha
Helix 73	AI1	O	336	340	Right-handed alpha
Helix 74	AI2	O	346	352	Right-handed 310
Helix 75	AI3	O	353	361	Right-handed alpha
Helix 76	AI4	P	24	34	Right-handed alpha
Helix 77	AI5	P	46	61	Right-handed alpha
Helix 78	AI6	P	110	112	Right-handed 310
Helix 79	AI7	Q	21	31	Right-handed alpha
Helix 80	AI8	Q	43	55	Right-handed alpha
Helix 81	AI9	R	187	201	Right-handed alpha
Helix 82	AJ1	R	231	240	Right-handed alpha
Helix 83	AJ2	R	251	263	Right-handed alpha
Helix 84	AJ3	R	288	290	Right-handed 310
Helix 85	AJ4	R	291	302	Right-handed alpha
Helix 86	AJ5	R	312	318	Right-handed alpha
Helix 87	AJ6	R	322	333	Right-handed alpha
Helix 88	AJ7	R	336	340	Right-handed alpha
Helix 89	AJ8	R	346	349	Right-handed 310
Helix 90	AJ9	R	350	361	Right-handed alpha

There are 31 sheets in PDB entry 6NDF. 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,

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	9	11	first strand
Strand 2	A	14	23	anti-parallel
Strand 3	A	125	132	anti-parallel
Strand 4	A	40	41	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	116	119	first strand
Strand 2	A	104	108	anti-parallel
Strand 3	A	67	74	anti-parallel
Strand 4	B	76	78	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	B	6	8	first strand
Strand 2	B	11	13	anti-parallel

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There are 3 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	15	20	first strand
Strand 2	B	116	121	anti-parallel
Strand 3	B	37	38	anti-parallel

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There are 3 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	62	68	first strand
Strand 2	B	94	101	anti-parallel
Strand 3	B	104	111	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	C	220	224	first strand
Strand 2	C	209	216	anti-parallel
Strand 3	C	173	180	parallel
Strand 4	C	275	282	parallel
Strand 5	C	305	311	parallel
Strand 6	C	341	344	parallel

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There are 4 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	9	11	first strand
Strand 2	D	14	23	anti-parallel
Strand 3	D	125	131	anti-parallel
Strand 4	D	40	41	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	116	119	first strand
Strand 2	D	104	108	anti-parallel
Strand 3	D	67	74	anti-parallel
Strand 4	E	76	78	anti-parallel

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There are 4 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	6	8	first strand
Strand 2	E	11	20	anti-parallel
Strand 3	E	116	121	anti-parallel
Strand 4	E	37	38	anti-parallel

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There are 3 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	62	68	first strand
Strand 2	E	94	100	anti-parallel
Strand 3	E	105	111	anti-parallel

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There are 6 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	220	224	first strand
Strand 2	F	209	216	anti-parallel
Strand 3	F	173	180	parallel
Strand 4	F	275	282	parallel
Strand 5	F	305	311	parallel
Strand 6	F	341	344	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	G	9	11	first strand
Strand 2	G	14	23	anti-parallel
Strand 3	G	125	131	anti-parallel
Strand 4	G	40	41	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	G	116	119	first strand
Strand 2	G	104	108	anti-parallel
Strand 3	G	67	74	anti-parallel
Strand 4	H	76	78	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	H	6	8	first strand
Strand 2	H	11	20	anti-parallel
Strand 3	H	116	121	anti-parallel
Strand 4	H	37	38	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	H	62	68	first strand
Strand 2	H	94	100	anti-parallel
Strand 3	H	105	111	anti-parallel

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There are 6 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	220	224	first strand
Strand 2	I	209	216	anti-parallel
Strand 3	I	173	180	parallel
Strand 4	I	275	282	parallel
Strand 5	I	304	311	parallel
Strand 6	I	341	344	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	J	9	11	first strand
Strand 2	J	14	23	anti-parallel
Strand 3	J	125	131	anti-parallel
Strand 4	J	40	41	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	J	116	119	first strand
Strand 2	J	104	107	anti-parallel
Strand 3	J	69	74	anti-parallel
Strand 4	K	76	78	anti-parallel

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There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	6	8	first strand
Strand 2	K	11	20	anti-parallel
Strand 3	K	116	121	anti-parallel
Strand 4	K	37	38	anti-parallel

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There are 6 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	6	8	first strand
Strand 2	K	11	20	anti-parallel
Strand 3	K	116	121	anti-parallel
Strand 4	K	62	68	parallel
Strand 5	K	94	101	anti-parallel
Strand 6	K	104	111	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	L	220	224	first strand
Strand 2	L	209	216	anti-parallel
Strand 3	L	173	180	parallel
Strand 4	L	275	282	parallel
Strand 5	L	304	311	parallel
Strand 6	L	341	344	parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	9	11	first strand
Strand 2	M	14	23	anti-parallel
Strand 3	M	125	132	anti-parallel
Strand 4	M	40	41	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	116	119	first strand
Strand 2	M	104	108	anti-parallel
Strand 3	M	67	73	anti-parallel
Strand 4	N	77	78	anti-parallel

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There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	6	8	first strand
Strand 2	N	11	20	anti-parallel
Strand 3	N	116	121	anti-parallel
Strand 4	N	37	38	anti-parallel

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There are 3 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	62	68	first strand
Strand 2	N	94	100	anti-parallel
Strand 3	N	105	111	anti-parallel

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There are 6 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	220	224	first strand
Strand 2	O	209	216	anti-parallel
Strand 3	O	173	180	parallel
Strand 4	O	275	282	parallel
Strand 5	O	305	311	parallel
Strand 6	O	341	344	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	P	9	11	first strand
Strand 2	P	14	23	anti-parallel
Strand 3	P	125	132	anti-parallel
Strand 4	P	40	41	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	P	116	119	first strand
Strand 2	P	104	108	anti-parallel
Strand 3	P	67	74	anti-parallel
Strand 4	Q	76	78	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	Q	6	8	first strand
Strand 2	Q	11	20	anti-parallel
Strand 3	Q	116	121	anti-parallel
Strand 4	Q	37	38	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	Q	62	68	first strand
Strand 2	Q	94	100	anti-parallel
Strand 3	Q	105	111	anti-parallel

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There are 6 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	R	220	224	first strand
Strand 2	R	209	216	anti-parallel
Strand 3	R	173	180	parallel
Strand 4	R	275	282	parallel
Strand 5	R	305	311	parallel
Strand 6	R	341	344	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: 6NDF

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