Analysis of interatomic Contacts of Structural Units in PDB entry:
5KNB

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 5KNB entry

There are 3 chains in PDB entry 5KNB (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	GLU 587
B	SER -5	SER 586
C	MET 1	ILE 136

There are119 helices in PDB entry 5KNB. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	90	99	Right-handed alpha
Helix 2	AA2	A	213	220	Right-handed alpha
Helix 3	AA3	A	237	249	Right-handed alpha
Helix 4	AA4	A	262	273	Right-handed alpha
Helix 5	AA5	A	284	287	Right-handed 310
Helix 6	AA6	A	299	305	Right-handed alpha
Helix 7	AA7	A	305	319	Right-handed alpha
Helix 8	AA8	A	330	345	Right-handed alpha
Helix 9	AA9	A	350	354	Right-handed 310
Helix 10	AB1	A	357	367	Right-handed alpha
Helix 11	AB2	A	399	407	Right-handed alpha
Helix 12	AB3	A	437	450	Right-handed alpha
Helix 13	AB4	A	452	475	Right-handed alpha
Helix 14	AB5	A	483	500	Right-handed alpha
Helix 15	AB6	A	514	538	Right-handed alpha
Helix 16	AB7	A	542	547	Right-handed alpha
Helix 17	AB8	A	549	554	Right-handed alpha
Helix 18	AB9	A	568	586	Right-handed alpha
Helix 19	AC1	B	90	99	Right-handed alpha
Helix 20	AC2	B	213	220	Right-handed alpha
Helix 21	AC3	B	237	249	Right-handed alpha
Helix 22	AC4	B	263	273	Right-handed alpha
Helix 23	AC5	B	274	276	Right-handed 310
Helix 24	AC6	B	284	287	Right-handed 310
Helix 25	AC7	B	301	319	Right-handed alpha
Helix 26	AC8	B	330	345	Right-handed alpha
Helix 27	AC9	B	357	367	Right-handed alpha
Helix 28	AD1	B	392	396	Right-handed 310
Helix 29	AD2	B	399	407	Right-handed alpha
Helix 30	AD3	B	416	422	Right-handed alpha
Helix 31	AD4	B	437	450	Right-handed alpha
Helix 32	AD5	B	452	478	Right-handed alpha
Helix 33	AD6	B	479	482	Right-handed 310
Helix 34	AD7	B	483	500	Right-handed alpha
Helix 35	AD8	B	514	539	Right-handed alpha
Helix 36	AD9	B	541	548	Right-handed alpha
Helix 37	AE1	B	549	558	Right-handed alpha
Helix 38	AE2	B	559	562	Right-handed 310
Helix 39	AE3	B	567	572	Right-handed alpha
Helix 40	AE4	B	572	586	Right-handed alpha
Helix 41	AE5	C	90	99	Right-handed alpha
Helix 42	AE6	C	213	219	Right-handed alpha
Helix 43	AE7	C	237	248	Right-handed alpha
Helix 44	AE8	C	263	273	Right-handed alpha
Helix 45	AE9	C	301	319	Right-handed alpha
Helix 46	AF1	C	330	345	Right-handed alpha
Helix 47	AF2	C	350	354	Right-handed 310
Helix 48	AF3	C	357	367	Right-handed alpha
Helix 49	AF4	C	392	396	Right-handed 310
Helix 50	AF5	C	399	406	Right-handed alpha
Helix 51	AF6	C	416	422	Right-handed alpha
Helix 52	AF7	C	437	449	Right-handed alpha
Helix 53	AF8	C	452	475	Right-handed alpha
Helix 54	AF9	C	484	500	Right-handed alpha
Helix 55	AG1	C	514	539	Right-handed alpha
Helix 56	AG2	C	541	559	Right-handed alpha
Helix 57	AG3	C	567	584	Right-handed alpha
Helix 58	AG4	D	132	137	Right-handed alpha
Helix 59	AG5	D	156	168	Right-handed alpha
Helix 60	AG6	D	187	201	Right-handed alpha
Helix 61	AG7	D	202	205	Right-handed 310
Helix 62	AG8	D	217	222	Right-handed alpha
Helix 63	AG9	D	222	237	Right-handed alpha
Helix 64	AH1	D	249	264	Right-handed alpha
Helix 65	AH2	D	276	286	Right-handed alpha
Helix 66	AH3	D	313	321	Right-handed alpha
Helix 67	AH4	D	330	335	Right-handed alpha
Helix 68	AH5	D	351	356	Right-handed 310
Helix 69	AH6	D	364	390	Right-handed alpha
Helix 70	AH7	D	397	412	Right-handed alpha
Helix 71	AH8	D	422	435	Right-handed alpha
Helix 72	AH9	D	449	454	Right-handed alpha
Helix 73	AI1	E	64	68	Right-handed 310
Helix 74	AI2	E	82	86	Right-handed 310
Helix 75	AI3	E	132	137	Right-handed alpha
Helix 76	AI4	E	156	168	Right-handed alpha
Helix 77	AI5	E	187	201	Right-handed alpha
Helix 78	AI6	E	202	205	Right-handed 310
Helix 79	AI7	E	217	238	Right-handed alpha
Helix 80	AI8	E	249	264	Right-handed alpha
Helix 81	AI9	E	269	273	Right-handed 310
Helix 82	AJ1	E	276	286	Right-handed alpha
Helix 83	AJ2	E	307	310	Right-handed 310
Helix 84	AJ3	E	313	321	Right-handed alpha
Helix 85	AJ4	E	330	335	Right-handed alpha
Helix 86	AJ5	E	351	355	Right-handed 310
Helix 87	AJ6	E	364	390	Right-handed alpha
Helix 88	AJ7	E	395	411	Right-handed alpha
Helix 89	AJ8	E	422	435	Right-handed alpha
Helix 90	AJ9	E	436	437	Right-handed 310
Helix 91	AK1	E	438	442	Right-handed 310
Helix 92	AK2	E	446	454	Right-handed alpha
Helix 93	AK3	F	132	137	Right-handed alpha
Helix 94	AK4	F	156	167	Right-handed alpha
Helix 95	AK5	F	187	200	Right-handed alpha
Helix 96	AK6	F	217	222	Right-handed 310
Helix 97	AK7	F	223	238	Right-handed alpha
Helix 98	AK8	F	250	264	Right-handed alpha
Helix 99	AK9	F	269	273	Right-handed 310
Helix 100	AL1	F	276	286	Right-handed alpha
Helix 101	AL2	F	307	310	Right-handed 310
Helix 102	AL3	F	313	323	Right-handed alpha
Helix 103	AL4	F	330	336	Right-handed alpha
Helix 104	AL5	F	351	356	Right-handed alpha
Helix 105	AL6	F	364	390	Right-handed alpha
Helix 106	AL7	F	391	394	Right-handed 310
Helix 107	AL8	F	395	412	Right-handed alpha
Helix 108	AL9	F	422	435	Right-handed alpha
Helix 109	AM1	F	438	442	Right-handed 310
Helix 110	AM2	F	446	454	Right-handed alpha
Helix 111	AM3	G	9	61	Right-handed alpha
Helix 112	AM4	G	128	173	Right-handed alpha
Helix 113	AM5	G	173	205	Right-handed alpha
Helix 114	AM6	H	10	15	Right-handed alpha
Helix 115	AM7	H	16	20	Right-handed 310
Helix 116	AM8	H	31	43	Right-handed alpha
Helix 117	AM9	H	52	56	Right-handed alpha
Helix 118	AN1	H	59	65	Right-handed alpha
Helix 119	AN2	H	85	98	Right-handed alpha

There are 33 sheets in PDB entry 5KNB. 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,

There are 35 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	4	5	first strand
Strand 2	D	69	72	anti-parallel
Strand 3	D	29	33	anti-parallel
Strand 4	D	39	48	anti-parallel
Strand 5	D	51	56	anti-parallel
Strand 6	D	15	19	anti-parallel
Strand 7	D	8	12	anti-parallel
Strand 8	C	35	43	anti-parallel
Strand 9	C	27	30	anti-parallel
Strand 10	C	63	66	anti-parallel
Strand 11	C	3	10	anti-parallel
Strand 12	C	13	17	anti-parallel
Strand 13	C	46	51	anti-parallel
Strand 14	C	35	43	anti-parallel
Strand 15	D	8	12	anti-parallel
Strand 16	D	15	19	anti-parallel
Strand 17	D	51	56	anti-parallel
Strand 18	D	39	48	anti-parallel
Strand 19	A	3	10	anti-parallel
Strand 20	A	63	70	anti-parallel
Strand 21	A	26	30	anti-parallel
Strand 22	A	35	43	anti-parallel
Strand 23	A	46	51	anti-parallel
Strand 24	A	13	17	anti-parallel
Strand 25	A	3	10	anti-parallel
Strand 26	A	63	70	anti-parallel
Strand 27	A	26	30	anti-parallel
Strand 28	A	35	43	anti-parallel
Strand 29	E	8	12	anti-parallel
Strand 30	E	15	18	anti-parallel
Strand 31	E	51	56	anti-parallel
Strand 32	E	39	48	anti-parallel
Strand 33	E	29	33	anti-parallel
Strand 34	E	69	72	anti-parallel
Strand 35	E	4	5	anti-parallel

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There are 21 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	4	5	first strand
Strand 2	E	69	72	anti-parallel
Strand 3	E	29	33	anti-parallel
Strand 4	E	39	48	anti-parallel
Strand 5	B	4	10	anti-parallel
Strand 6	B	13	17	anti-parallel
Strand 7	B	46	51	anti-parallel
Strand 8	B	35	43	anti-parallel
Strand 9	B	26	30	anti-parallel
Strand 10	B	63	70	anti-parallel
Strand 11	B	4	10	anti-parallel
Strand 12	B	13	17	anti-parallel
Strand 13	B	46	51	anti-parallel
Strand 14	B	35	43	anti-parallel
Strand 15	F	8	12	anti-parallel
Strand 16	F	15	19	anti-parallel
Strand 17	F	51	56	anti-parallel
Strand 18	F	39	48	anti-parallel
Strand 19	F	28	33	anti-parallel
Strand 20	F	69	76	anti-parallel
Strand 21	F	4	5	anti-parallel

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There are 15 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	4	5	first strand
Strand 2	F	69	76	anti-parallel
Strand 3	F	28	33	anti-parallel
Strand 4	F	39	48	anti-parallel
Strand 5	C	3	10	anti-parallel
Strand 6	C	63	66	anti-parallel
Strand 7	C	27	30	anti-parallel
Strand 8	C	35	43	anti-parallel
Strand 9	D	8	12	anti-parallel
Strand 10	D	15	19	anti-parallel
Strand 11	D	51	56	anti-parallel
Strand 12	D	39	48	anti-parallel
Strand 13	D	29	33	anti-parallel
Strand 14	D	69	72	anti-parallel
Strand 15	D	4	5	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	72	75	first strand
Strand 2	A	189	192	anti-parallel

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There are 7 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	83	84	first strand
Strand 2	A	289	295	parallel
Strand 3	A	253	261	parallel
Strand 4	A	323	329	parallel
Strand 5	A	381	390	parallel
Strand 6	A	370	373	anti-parallel
Strand 7	A	201	202	anti-parallel

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There are 8 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	83	84	first strand
Strand 2	A	289	295	parallel
Strand 3	A	253	261	parallel
Strand 4	A	323	329	parallel
Strand 5	A	381	390	parallel
Strand 6	A	227	231	parallel
Strand 7	A	411	412	parallel
Strand 8	A	434	435	anti-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	A	102	103	first strand
Strand 2	D	115	116	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	A	145	150	first strand
Strand 2	A	135	142	anti-parallel
Strand 3	A	118	122	anti-parallel
Strand 4	A	165	167	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	A	129	130	first strand
Strand 2	A	157	161	anti-parallel
Strand 3	A	174	178	anti-parallel
Strand 4	A	181	185	anti-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	B	72	75	first strand
Strand 2	B	189	192	anti-parallel

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There are 7 strands in AB2 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	289	294	parallel
Strand 3	B	253	259	parallel
Strand 4	B	323	329	parallel
Strand 5	B	381	390	parallel
Strand 6	B	370	373	anti-parallel
Strand 7	B	201	203	anti-parallel

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There are 8 strands in AB3 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	289	294	parallel
Strand 3	B	253	259	parallel
Strand 4	B	323	329	parallel
Strand 5	B	381	390	parallel
Strand 6	B	227	231	parallel
Strand 7	B	411	412	parallel
Strand 8	B	434	435	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	B	102	103	first strand
Strand 2	E	115	116	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	B	147	150	first strand
Strand 2	B	135	139	anti-parallel
Strand 3	B	118	122	anti-parallel
Strand 4	B	165	167	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	129	130	first strand
Strand 2	B	157	162	anti-parallel
Strand 3	B	174	177	anti-parallel
Strand 4	B	182	185	anti-parallel

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There are 2 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	72	75	first strand
Strand 2	C	189	192	anti-parallel

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There are 7 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	83	84	first strand
Strand 2	C	289	294	parallel
Strand 3	C	253	259	parallel
Strand 4	C	323	329	parallel
Strand 5	C	381	388	parallel
Strand 6	C	372	373	anti-parallel
Strand 7	C	201	202	anti-parallel

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There are 8 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	83	84	first strand
Strand 2	C	289	294	parallel
Strand 3	C	253	259	parallel
Strand 4	C	323	329	parallel
Strand 5	C	381	388	parallel
Strand 6	C	227	229	parallel
Strand 7	C	411	412	parallel
Strand 8	C	434	435	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	C	147	150	first strand
Strand 2	C	135	139	anti-parallel
Strand 3	C	118	122	anti-parallel
Strand 4	C	165	167	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	129	130	first strand
Strand 2	C	157	162	anti-parallel
Strand 3	C	174	178	anti-parallel
Strand 4	C	181	185	anti-parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	78	81	first strand
Strand 2	D	107	110	anti-parallel

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There are 7 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	89	90	first strand
Strand 2	D	207	210	parallel
Strand 3	D	177	183	parallel
Strand 4	D	242	248	parallel
Strand 5	D	297	305	parallel
Strand 6	D	149	151	parallel
Strand 7	D	327	328	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	D	121	122	first strand
Strand 2	D	290	291	anti-parallel

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There are 2 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	78	81	first strand
Strand 2	E	107	110	anti-parallel

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There are 8 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	89	90	first strand
Strand 2	E	207	213	parallel
Strand 3	E	177	186	parallel
Strand 4	E	242	248	parallel
Strand 5	E	297	305	parallel
Strand 6	E	149	151	parallel
Strand 7	E	325	328	parallel
Strand 8	E	348	349	anti-parallel

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There are 2 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	121	122	first strand
Strand 2	E	290	291	anti-parallel

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There are 2 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	78	81	first strand
Strand 2	F	107	110	anti-parallel

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There are 8 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	89	90	first strand
Strand 2	F	208	210	parallel
Strand 3	F	180	183	parallel
Strand 4	F	242	248	parallel
Strand 5	F	297	305	parallel
Strand 6	F	149	151	parallel
Strand 7	F	325	328	parallel
Strand 8	F	348	349	anti-parallel

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There are 2 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	121	122	first strand
Strand 2	F	290	291	anti-parallel

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There are 2 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	128	129	first strand
Strand 2	F	169	170	anti-parallel

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There are 2 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	89	91	first strand
Strand 2	G	106	108	anti-parallel

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There are 2 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	94	97	first strand
Strand 2	G	100	103	anti-parallel

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There are 4 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	22	25	first strand
Strand 2	H	5	8	parallel
Strand 3	H	47	51	parallel
Strand 4	H	72	76	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: 5KNB

Analysis of interatomic Contacts of Structural Units in PDB entry:
5KNB