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

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 3NIF entry

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

Chain ID	Initial residue	Terminal residue
A	LEU 1	VAL 454
B	GLY 1	TRP 466
C	LEU 1	ALA 375

There are 59 helices in PDB entry 3NIF. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	151	158	Right-handed alpha
Helix 2	2	A	187	192	Right-handed alpha
Helix 3	3	A	200	207	Right-handed alpha
Helix 4	4	A	227	231	Right-handed 310
Helix 5	5	A	259	264	Right-handed alpha
Helix 6	6	A	440	442	Right-handed 310
Helix 7	7	B	3	8	Right-handed alpha
Helix 8	8	B	12	18	Right-handed alpha
Helix 9	9	B	41	47	Right-handed alpha
Helix 10	10	B	50	52	Right-handed 310
Helix 11	11	B	121	123	Right-handed 310
Helix 12	12	B	124	131	Right-handed alpha
Helix 13	13	B	133	143	Right-handed alpha
Helix 14	14	B	169	175	Right-handed alpha
Helix 15	15	B	200	210	Right-handed alpha
Helix 16	16	B	221	232	Right-handed alpha
Helix 17	17	B	232	237	Right-handed alpha
Helix 18	18	B	258	264	Right-handed 310
Helix 19	19	B	291	302	Right-handed alpha
Helix 20	20	B	314	325	Right-handed alpha
Helix 21	21	B	339	352	Right-handed alpha
Helix 22	22	B	435	439	Right-handed 310
Helix 23	23	C	151	158	Right-handed alpha
Helix 24	24	C	187	192	Right-handed alpha
Helix 25	25	C	200	207	Right-handed alpha
Helix 26	26	C	227	231	Right-handed 310
Helix 27	27	C	259	264	Right-handed alpha
Helix 28	28	C	440	442	Right-handed 310
Helix 29	29	D	3	8	Right-handed alpha
Helix 30	30	D	12	20	Right-handed alpha
Helix 31	31	D	41	47	Right-handed alpha
Helix 32	32	D	50	52	Right-handed 310
Helix 33	33	D	121	123	Right-handed 310
Helix 34	34	D	124	131	Right-handed alpha
Helix 35	35	D	133	143	Right-handed alpha
Helix 36	36	D	169	175	Right-handed alpha
Helix 37	37	D	199	210	Right-handed alpha
Helix 38	38	D	221	232	Right-handed alpha
Helix 39	39	D	232	237	Right-handed alpha
Helix 40	40	D	258	264	Right-handed 310
Helix 41	41	D	291	303	Right-handed alpha
Helix 42	42	D	314	325	Right-handed alpha
Helix 43	43	D	339	352	Right-handed alpha
Helix 44	44	D	435	439	Right-handed 310
Helix 45	45	D	448	452	Right-handed 310
Helix 46	46	E	28	32	Right-handed 310
Helix 47	47	E	62	65	Right-handed 310
Helix 48	48	E	87	91	Right-handed 310
Helix 49	49	F	79	83	Right-handed 310
Helix 50	50	F	121	127	Right-handed alpha
Helix 51	51	F	182	188	Right-handed alpha
Helix 52	52	H	28	32	Right-handed 310
Helix 53	53	H	62	65	Right-handed 310
Helix 54	54	H	74	76	Right-handed 310
Helix 55	55	H	87	91	Right-handed 310
Helix 56	56	H	206	209	Right-handed 310
Helix 57	57	L	79	83	Right-handed 310
Helix 58	58	L	121	128	Right-handed alpha
Helix 59	59	L	183	187	Right-handed alpha

There are 52 sheets in PDB entry 3NIF. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, AA, AB, AC, AD, AE, AF, AG, AH, AI, AJ, AK, AL, AM, AN, AO, AP, AQ, AR, AS, AT, AU, AV, AW, AX, AY, AZ,

There are 4 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	9	12	first strand
Strand 2	A	444	448	anti-parallel
Strand 3	A	434	439	anti-parallel
Strand 4	A	420	425	anti-parallel

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There are 4 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	23	27	first strand
Strand 2	A	33	39	anti-parallel
Strand 3	A	52	57	anti-parallel
Strand 4	A	67	68	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	76	79	first strand
Strand 2	A	82	87	anti-parallel
Strand 3	A	112	117	anti-parallel
Strand 4	A	120	121	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	97	100	first strand
Strand 2	A	103	108	anti-parallel
Strand 3	A	129	133	anti-parallel
Strand 4	A	140	143	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	173	175	first strand
Strand 2	A	180	185	anti-parallel
Strand 3	A	194	199	anti-parallel
Strand 4	A	220	221	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	239	242	first strand
Strand 2	A	252	257	anti-parallel
Strand 3	A	266	270	anti-parallel
Strand 4	A	276	281	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	293	296	first strand
Strand 2	A	305	310	anti-parallel
Strand 3	A	327	331	anti-parallel
Strand 4	A	345	348	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	314	317	first strand
Strand 2	A	321	324	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	360	364	first strand
Strand 2	A	373	378	anti-parallel
Strand 3	A	388	392	anti-parallel
Strand 4	A	405	408	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	394	395	first strand
Strand 2	A	398	399	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	38	40	first strand
Strand 2	B	23	26	anti-parallel
Strand 3	B	54	55	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	60	65	first strand
Strand 2	B	87	92	anti-parallel
Strand 3	B	425	431	parallel
Strand 4	B	411	418	anti-parallel
Strand 5	B	355	360	anti-parallel
Strand 6	B	385	386	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	83	84	first strand
Strand 2	B	97	105	anti-parallel
Strand 3	B	394	403	anti-parallel
Strand 4	B	366	373	anti-parallel
Strand 5	B	379	381	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	190	197	first strand
Strand 2	B	149	156	anti-parallel
Strand 3	B	112	119	parallel
Strand 4	B	243	250	parallel
Strand 5	B	304	310	parallel
Strand 6	B	329	332	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	453	456	first strand
Strand 2	B	459	462	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	9	12	first strand
Strand 2	C	444	448	anti-parallel
Strand 3	C	434	439	anti-parallel
Strand 4	C	420	425	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	23	27	first strand
Strand 2	C	33	39	anti-parallel
Strand 3	C	52	57	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	76	79	first strand
Strand 2	C	82	87	anti-parallel
Strand 3	C	112	117	anti-parallel
Strand 4	C	120	121	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	97	100	first strand
Strand 2	C	103	108	anti-parallel
Strand 3	C	129	133	anti-parallel
Strand 4	C	140	143	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	172	175	first strand
Strand 2	C	180	185	anti-parallel
Strand 3	C	194	199	anti-parallel
Strand 4	C	220	221	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	239	242	first strand
Strand 2	C	252	257	anti-parallel
Strand 3	C	266	270	anti-parallel
Strand 4	C	276	281	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	293	296	first strand
Strand 2	C	305	310	anti-parallel
Strand 3	C	327	331	anti-parallel
Strand 4	C	345	348	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	314	316	first strand
Strand 2	C	322	324	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	360	364	first strand
Strand 2	C	373	378	anti-parallel
Strand 3	C	388	392	anti-parallel
Strand 4	C	405	408	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	394	395	first strand
Strand 2	C	398	399	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	38	40	first strand
Strand 2	D	23	26	anti-parallel
Strand 3	D	54	55	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	60	65	first strand
Strand 2	D	87	92	anti-parallel
Strand 3	D	425	431	parallel
Strand 4	D	411	418	anti-parallel
Strand 5	D	355	360	anti-parallel
Strand 6	D	385	386	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	83	84	first strand
Strand 2	D	97	105	anti-parallel
Strand 3	D	394	403	anti-parallel
Strand 4	D	366	374	anti-parallel
Strand 5	D	378	381	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	190	197	first strand
Strand 2	D	149	156	anti-parallel
Strand 3	D	112	119	parallel
Strand 4	D	243	250	parallel
Strand 5	D	305	310	parallel
Strand 6	D	329	332	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	454	456	first strand
Strand 2	D	459	461	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	3	6	first strand
Strand 2	E	18	25	anti-parallel
Strand 3	E	78	83	anti-parallel
Strand 4	E	68	73	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	10	12	first strand
Strand 2	E	113	117	parallel
Strand 3	E	92	98	anti-parallel
Strand 4	E	34	40	anti-parallel
Strand 5	E	44	51	anti-parallel
Strand 6	E	58	60	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	10	12	first strand
Strand 2	E	113	117	parallel
Strand 3	E	92	98	anti-parallel
Strand 4	E	108	109	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	126	130	first strand
Strand 2	E	143	149	anti-parallel
Strand 3	E	185	188	anti-parallel
Strand 4	E	169	171	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	126	130	first strand
Strand 2	E	143	149	anti-parallel
Strand 3	E	181	183	anti-parallel
Strand 4	E	175	176	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	157	160	first strand
Strand 2	E	201	204	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	4	7	first strand
Strand 2	F	19	25	anti-parallel
Strand 3	F	70	75	anti-parallel
Strand 4	F	62	67	anti-parallel

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There are 6 strands in AL 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	102	106	parallel
Strand 3	F	85	90	anti-parallel
Strand 4	F	33	38	anti-parallel
Strand 5	F	44	49	anti-parallel
Strand 6	F	53	54	anti-parallel

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There are 4 strands in AM 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	102	106	parallel
Strand 3	F	85	90	anti-parallel
Strand 4	F	97	98	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	117	118	first strand
Strand 2	F	130	139	anti-parallel
Strand 3	F	173	181	anti-parallel
Strand 4	F	159	163	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	153	154	first strand
Strand 2	F	145	150	anti-parallel
Strand 3	F	192	197	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	3	6	first strand
Strand 2	H	18	25	anti-parallel
Strand 3	H	78	83	anti-parallel
Strand 4	H	68	73	anti-parallel

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There are 6 strands in AQ 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	113	117	parallel
Strand 3	H	92	98	anti-parallel
Strand 4	H	34	40	anti-parallel
Strand 5	H	44	51	anti-parallel
Strand 6	H	58	60	anti-parallel

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There are 4 strands in AR 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	113	117	parallel
Strand 3	H	92	98	anti-parallel
Strand 4	H	108	109	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	126	130	first strand
Strand 2	H	141	151	anti-parallel
Strand 3	H	181	190	anti-parallel
Strand 4	H	169	171	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	126	130	first strand
Strand 2	H	141	151	anti-parallel
Strand 3	H	181	190	anti-parallel
Strand 4	H	175	176	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	157	160	first strand
Strand 2	H	200	205	anti-parallel
Strand 3	H	210	215	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	4	7	first strand
Strand 2	L	19	25	anti-parallel
Strand 3	L	70	75	anti-parallel
Strand 4	L	62	67	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	13	first strand
Strand 2	L	102	106	parallel
Strand 3	L	85	90	anti-parallel
Strand 4	L	33	38	anti-parallel
Strand 5	L	44	49	anti-parallel
Strand 6	L	53	54	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	13	first strand
Strand 2	L	102	106	parallel
Strand 3	L	85	90	anti-parallel
Strand 4	L	97	98	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	114	118	first strand
Strand 2	L	129	139	anti-parallel
Strand 3	L	173	182	anti-parallel
Strand 4	L	159	163	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	153	155	first strand
Strand 2	L	145	150	anti-parallel
Strand 3	L	191	197	anti-parallel
Strand 4	L	205	210	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: 3NIF

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