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

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 6KDY entry

There are 8 chains in PDB entry 6KDY (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 3	ASP 337
B	SER 14	TYR 354
C	GLY 3	ASP 337
D	GLY 13	TYR 354
E	VAL 4	ASP 337
F	SER 14	TYR 354
G	GLY 3	ASP 337
H	SER 14	TYR 354

There are105 helices in PDB entry 6KDY. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	15	30	Right-handed alpha
Helix 2	AA2	A	54	65	Right-handed alpha
Helix 3	AA3	A	82	91	Right-handed alpha
Helix 4	AA4	A	146	163	Right-handed alpha
Helix 5	AA5	A	177	194	Right-handed alpha
Helix 6	AA6	A	205	215	Right-handed alpha
Helix 7	AA7	A	216	219	Right-handed 310
Helix 8	AA8	A	230	241	Right-handed alpha
Helix 9	AA9	A	242	245	Right-handed 310
Helix 10	AB1	A	253	255	Right-handed 310
Helix 11	AB2	A	266	270	Right-handed 310
Helix 12	AB3	A	277	292	Right-handed alpha
Helix 13	AB4	A	293	311	Right-handed alpha
Helix 14	AB5	A	323	337	Right-handed alpha
Helix 15	AB6	B	25	40	Right-handed alpha
Helix 16	AB7	B	59	74	Right-handed alpha
Helix 17	AB8	B	89	92	Right-handed 310
Helix 18	AB9	B	93	102	Right-handed alpha
Helix 19	AC1	B	134	139	Right-handed 310
Helix 20	AC2	B	157	174	Right-handed alpha
Helix 21	AC3	B	188	205	Right-handed alpha
Helix 22	AC4	B	216	226	Right-handed alpha
Helix 23	AC5	B	241	250	Right-handed alpha
Helix 24	AC6	B	288	302	Right-handed alpha
Helix 25	AC7	B	304	322	Right-handed alpha
Helix 26	AC8	B	334	352	Right-handed alpha
Helix 27	AC9	C	15	30	Right-handed alpha
Helix 28	AD1	C	54	65	Right-handed alpha
Helix 29	AD2	C	82	91	Right-handed alpha
Helix 30	AD3	C	146	164	Right-handed alpha
Helix 31	AD4	C	177	195	Right-handed alpha
Helix 32	AD5	C	205	215	Right-handed alpha
Helix 33	AD6	C	216	219	Right-handed 310
Helix 34	AD7	C	230	241	Right-handed alpha
Helix 35	AD8	C	242	246	Right-handed 310
Helix 36	AD9	C	266	270	Right-handed 310
Helix 37	AE1	C	277	291	Right-handed alpha
Helix 38	AE2	C	293	311	Right-handed alpha
Helix 39	AE3	C	315	319	Right-handed 310
Helix 40	AE4	C	323	337	Right-handed alpha
Helix 41	AE5	D	25	40	Right-handed alpha
Helix 42	AE6	D	59	74	Right-handed alpha
Helix 43	AE7	D	89	92	Right-handed 310
Helix 44	AE8	D	93	102	Right-handed alpha
Helix 45	AE9	D	134	139	Right-handed 310
Helix 46	AF1	D	157	175	Right-handed alpha
Helix 47	AF2	D	188	205	Right-handed alpha
Helix 48	AF3	D	216	226	Right-handed alpha
Helix 49	AF4	D	227	230	Right-handed 310
Helix 50	AF5	D	241	250	Right-handed alpha
Helix 51	AF6	D	288	302	Right-handed alpha
Helix 52	AF7	D	304	322	Right-handed alpha
Helix 53	AF8	D	326	330	Right-handed 310
Helix 54	AF9	D	334	352	Right-handed alpha
Helix 55	AG1	E	15	30	Right-handed alpha
Helix 56	AG2	E	54	65	Right-handed alpha
Helix 57	AG3	E	82	91	Right-handed alpha
Helix 58	AG4	E	146	163	Right-handed alpha
Helix 59	AG5	E	177	194	Right-handed alpha
Helix 60	AG6	E	205	215	Right-handed alpha
Helix 61	AG7	E	216	219	Right-handed 310
Helix 62	AG8	E	225	229	Right-handed 310
Helix 63	AG9	E	230	241	Right-handed alpha
Helix 64	AH1	E	253	255	Right-handed 310
Helix 65	AH2	E	266	270	Right-handed 310
Helix 66	AH3	E	277	291	Right-handed alpha
Helix 67	AH4	E	293	311	Right-handed alpha
Helix 68	AH5	E	323	337	Right-handed alpha
Helix 69	AH6	F	25	41	Right-handed alpha
Helix 70	AH7	F	59	74	Right-handed alpha
Helix 71	AH8	F	89	92	Right-handed 310
Helix 72	AH9	F	93	102	Right-handed alpha
Helix 73	AI1	F	134	139	Right-handed 310
Helix 74	AI2	F	157	174	Right-handed alpha
Helix 75	AI3	F	188	205	Right-handed alpha
Helix 76	AI4	F	216	226	Right-handed alpha
Helix 77	AI5	F	241	251	Right-handed alpha
Helix 78	AI6	F	288	302	Right-handed alpha
Helix 79	AI7	F	304	322	Right-handed alpha
Helix 80	AI8	F	334	352	Right-handed alpha
Helix 81	AI9	G	15	30	Right-handed alpha
Helix 82	AJ1	G	54	65	Right-handed alpha
Helix 83	AJ2	G	82	91	Right-handed alpha
Helix 84	AJ3	G	146	163	Right-handed alpha
Helix 85	AJ4	G	177	195	Right-handed alpha
Helix 86	AJ5	G	205	215	Right-handed alpha
Helix 87	AJ6	G	216	219	Right-handed 310
Helix 88	AJ7	G	230	240	Right-handed alpha
Helix 89	AJ8	G	242	246	Right-handed 310
Helix 90	AJ9	G	277	292	Right-handed alpha
Helix 91	AK1	G	293	311	Right-handed alpha
Helix 92	AK2	G	323	337	Right-handed alpha
Helix 93	AK3	H	25	41	Right-handed alpha
Helix 94	AK4	H	59	74	Right-handed alpha
Helix 95	AK5	H	89	92	Right-handed 310
Helix 96	AK6	H	93	102	Right-handed alpha
Helix 97	AK7	H	157	174	Right-handed alpha
Helix 98	AK8	H	188	205	Right-handed alpha
Helix 99	AK9	H	216	226	Right-handed alpha
Helix 100	AL1	H	227	230	Right-handed 310
Helix 101	AL2	H	241	252	Right-handed alpha
Helix 102	AL3	H	288	302	Right-handed alpha
Helix 103	AL4	H	304	322	Right-handed alpha
Helix 104	AL5	H	326	330	Right-handed 310
Helix 105	AL6	H	334	352	Right-handed alpha

There are 16 sheets in PDB entry 6KDY. 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,

There are 10 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	34	38	first strand
Strand 2	A	5	10	parallel
Strand 3	A	66	69	parallel
Strand 4	A	257	259	parallel
Strand 5	A	249	251	anti-parallel
Strand 6	A	95	101	anti-parallel
Strand 7	A	114	120	anti-parallel
Strand 8	A	221	224	parallel
Strand 9	A	167	172	parallel
Strand 10	A	199	204	parallel

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There are 2 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	44	45	first strand
Strand 2	A	51	52	anti-parallel

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There are 4 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	124	134	first strand
Strand 2	A	137	145	anti-parallel
Strand 3	B	148	156	anti-parallel
Strand 4	B	140	143	anti-parallel

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There are 10 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	44	48	first strand
Strand 2	B	15	20	parallel
Strand 3	B	75	78	parallel
Strand 4	B	267	271	parallel
Strand 5	B	258	262	anti-parallel
Strand 6	B	106	112	anti-parallel
Strand 7	B	125	131	anti-parallel
Strand 8	B	232	235	parallel
Strand 9	B	178	183	parallel
Strand 10	B	210	215	parallel

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There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	5	9	first strand
Strand 2	C	34	38	parallel

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There are 2 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	44	45	first strand
Strand 2	C	51	52	anti-parallel

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There are 8 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	67	68	first strand
Strand 2	C	257	259	parallel
Strand 3	C	250	251	anti-parallel
Strand 4	C	95	101	anti-parallel
Strand 5	C	114	120	anti-parallel
Strand 6	C	221	224	parallel
Strand 7	C	167	172	parallel
Strand 8	C	199	204	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	C	124	134	first strand
Strand 2	C	137	145	anti-parallel
Strand 3	D	148	156	anti-parallel
Strand 4	D	140	145	anti-parallel

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There are 10 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	44	48	first strand
Strand 2	D	15	20	parallel
Strand 3	D	75	78	parallel
Strand 4	D	267	271	parallel
Strand 5	D	258	262	anti-parallel
Strand 6	D	106	112	anti-parallel
Strand 7	D	125	131	anti-parallel
Strand 8	D	232	235	parallel
Strand 9	D	178	183	parallel
Strand 10	D	210	215	parallel

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There are 10 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	34	38	first strand
Strand 2	E	5	10	parallel
Strand 3	E	66	69	parallel
Strand 4	E	257	259	parallel
Strand 5	E	249	251	anti-parallel
Strand 6	E	95	101	anti-parallel
Strand 7	E	114	120	anti-parallel
Strand 8	E	221	224	parallel
Strand 9	E	167	172	parallel
Strand 10	E	199	204	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	E	124	134	first strand
Strand 2	E	137	145	anti-parallel
Strand 3	F	148	156	anti-parallel
Strand 4	F	140	145	anti-parallel

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There are 10 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	45	48	first strand
Strand 2	F	16	20	parallel
Strand 3	F	75	78	parallel
Strand 4	F	267	271	parallel
Strand 5	F	258	262	anti-parallel
Strand 6	F	106	112	anti-parallel
Strand 7	F	125	131	anti-parallel
Strand 8	F	232	235	parallel
Strand 9	F	178	183	parallel
Strand 10	F	210	215	parallel

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There are 10 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	34	38	first strand
Strand 2	G	5	10	parallel
Strand 3	G	66	69	parallel
Strand 4	G	257	259	parallel
Strand 5	G	249	251	anti-parallel
Strand 6	G	95	101	anti-parallel
Strand 7	G	114	120	anti-parallel
Strand 8	G	221	224	parallel
Strand 9	G	167	172	parallel
Strand 10	G	199	204	parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	44	45	first strand
Strand 2	G	51	52	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	G	124	134	first strand
Strand 2	G	137	145	anti-parallel
Strand 3	H	148	156	anti-parallel
Strand 4	H	135	143	anti-parallel

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There are 10 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	45	48	first strand
Strand 2	H	16	20	parallel
Strand 3	H	75	78	parallel
Strand 4	H	267	271	parallel
Strand 5	H	258	262	anti-parallel
Strand 6	H	106	112	anti-parallel
Strand 7	H	125	131	anti-parallel
Strand 8	H	232	235	parallel
Strand 9	H	178	183	parallel
Strand 10	H	210	215	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: 6KDY

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