Analysis of interatomic Contacts of Structural Units in PDB entry:
3NDN

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 3NDN entry

There are 7 chains in PDB entry 3NDN (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 6	THR 218
A	HIS 220	SER 406
B	SER 6	THR 218
B	HIS 220	SER 406
C	SER 6	THR 218
C	HIS 220	SER 406
D	SER 6	VAL 127

There are 78 helices in PDB entry 3NDN. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	18	26	Right-handed alpha
Helix 2	2	A	50	59	Right-handed alpha
Helix 3	3	A	72	87	Right-handed alpha
Helix 4	4	A	96	107	Right-handed alpha
Helix 5	5	A	122	131	Right-handed alpha
Helix 6	6	A	131	136	Right-handed alpha
Helix 7	7	A	147	155	Right-handed alpha
Helix 8	8	A	176	187	Right-handed alpha
Helix 9	9	A	198	203	Right-handed alpha
Helix 10	10	A	205	209	Right-handed 310
Helix 11	11	A	235	240	Right-handed alpha
Helix 12	12	A	241	251	Right-handed alpha
Helix 13	13	A	255	266	Right-handed alpha
Helix 14	14	A	268	289	Right-handed alpha
Helix 15	15	A	306	314	Right-handed alpha
Helix 16	16	A	328	330	Right-handed 310
Helix 17	17	A	331	343	Right-handed alpha
Helix 18	18	A	361	365	Right-handed 310
Helix 19	19	A	370	378	Right-handed alpha
Helix 20	20	A	393	406	Right-handed alpha
Helix 21	21	B	18	26	Right-handed alpha
Helix 22	22	B	50	59	Right-handed alpha
Helix 23	23	B	72	87	Right-handed alpha
Helix 24	24	B	96	107	Right-handed alpha
Helix 25	25	B	122	131	Right-handed alpha
Helix 26	26	B	131	136	Right-handed alpha
Helix 27	27	B	147	155	Right-handed alpha
Helix 28	28	B	176	187	Right-handed alpha
Helix 29	29	B	198	203	Right-handed alpha
Helix 30	30	B	205	209	Right-handed 310
Helix 31	31	B	235	241	Right-handed alpha
Helix 32	32	B	241	251	Right-handed alpha
Helix 33	33	B	255	266	Right-handed alpha
Helix 34	34	B	268	290	Right-handed alpha
Helix 35	35	B	306	314	Right-handed alpha
Helix 36	36	B	328	330	Right-handed 310
Helix 37	37	B	331	343	Right-handed alpha
Helix 38	38	B	361	365	Right-handed 310
Helix 39	39	B	370	378	Right-handed alpha
Helix 40	40	B	393	406	Right-handed alpha
Helix 41	41	C	18	26	Right-handed alpha
Helix 42	42	C	50	59	Right-handed alpha
Helix 43	43	C	72	87	Right-handed alpha
Helix 44	44	C	96	107	Right-handed alpha
Helix 45	45	C	122	131	Right-handed alpha
Helix 46	46	C	131	136	Right-handed alpha
Helix 47	47	C	147	155	Right-handed alpha
Helix 48	48	C	176	187	Right-handed alpha
Helix 49	49	C	198	203	Right-handed alpha
Helix 50	50	C	205	209	Right-handed 310
Helix 51	51	C	235	241	Right-handed alpha
Helix 52	52	C	241	251	Right-handed alpha
Helix 53	53	C	255	289	Right-handed alpha
Helix 54	54	C	306	314	Right-handed alpha
Helix 55	55	C	328	330	Right-handed 310
Helix 56	56	C	331	343	Right-handed alpha
Helix 57	57	C	361	365	Right-handed 310
Helix 58	58	C	370	377	Right-handed alpha
Helix 59	59	C	393	406	Right-handed alpha
Helix 60	60	D	18	26	Right-handed alpha
Helix 61	61	D	50	59	Right-handed alpha
Helix 62	62	D	72	87	Right-handed alpha
Helix 63	63	D	96	107	Right-handed alpha
Helix 64	64	D	122	131	Right-handed alpha
Helix 65	65	D	131	136	Right-handed alpha
Helix 66	66	D	147	155	Right-handed alpha
Helix 67	67	D	176	186	Right-handed alpha
Helix 68	68	D	198	203	Right-handed alpha
Helix 69	69	D	205	209	Right-handed 310
Helix 70	70	D	235	241	Right-handed alpha
Helix 71	71	D	241	251	Right-handed alpha
Helix 72	72	D	255	266	Right-handed alpha
Helix 73	73	D	268	288	Right-handed alpha
Helix 74	74	D	306	314	Right-handed alpha
Helix 75	75	D	331	343	Right-handed alpha
Helix 76	76	D	361	365	Right-handed 310
Helix 77	77	D	370	377	Right-handed alpha
Helix 78	78	D	393	406	Right-handed alpha

There are 8 sheets in PDB entry 3NDN. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

There are 7 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	90	94	first strand
Strand 2	A	230	234	anti-parallel
Strand 3	A	212	216	anti-parallel
Strand 4	A	190	194	parallel
Strand 5	A	161	165	parallel
Strand 6	A	114	118	parallel
Strand 7	A	139	143	parallel

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There are 5 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	293	297	first strand
Strand 2	A	320	325	anti-parallel
Strand 3	A	384	388	anti-parallel
Strand 4	A	358	360	anti-parallel
Strand 5	A	347	348	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	B	90	94	first strand
Strand 2	B	230	234	anti-parallel
Strand 3	B	212	216	anti-parallel
Strand 4	B	190	194	parallel
Strand 5	B	161	165	parallel
Strand 6	B	114	118	parallel
Strand 7	B	139	143	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	B	293	297	first strand
Strand 2	B	320	325	anti-parallel
Strand 3	B	384	388	anti-parallel
Strand 4	B	358	360	anti-parallel
Strand 5	B	347	348	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	90	94	first strand
Strand 2	C	230	234	anti-parallel
Strand 3	C	212	216	anti-parallel
Strand 4	C	190	194	parallel
Strand 5	C	161	165	parallel
Strand 6	C	114	118	parallel
Strand 7	C	139	143	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	C	293	297	first strand
Strand 2	C	320	325	anti-parallel
Strand 3	C	384	388	anti-parallel
Strand 4	C	358	360	anti-parallel
Strand 5	C	347	348	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	90	94	first strand
Strand 2	D	230	234	anti-parallel
Strand 3	D	212	216	anti-parallel
Strand 4	D	190	194	parallel
Strand 5	D	161	165	parallel
Strand 6	D	114	118	parallel
Strand 7	D	139	143	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	293	297	first strand
Strand 2	D	320	325	anti-parallel
Strand 3	D	384	388	anti-parallel
Strand 4	D	358	360	anti-parallel
Strand 5	D	347	348	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: 3NDN

Analysis of interatomic Contacts of Structural Units in PDB entry:
3NDN