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

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 6DDD entry

There are 27 chains in PDB entry 6DDD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASN 3	ILE 115
B	ALA 2	LYS 275
C	PRO 2	LEU 117
D	MET 1	ILE 100
E	MET 1	LYS 111
F	ARG 4	PHE 90
G	HIS 2	ILE 101
H	ALA 2	ILE 94
I	SER 16	VAL 92
J	GLY 2	THR 60
K	GLU 5	GLU 61
L	THR 2	LYS 216
M	ALA 2	GLU 57
N	ALA 2	GLY 51
O	ARG 2	GLU 47
P	VAL 2	ALA 45
Q	PRO 2	LYS 65
R	MET 1	GLY 37
S	PRO 28	LEU 206
V	ARG 2	ARG 144
W	GLN 3	VAL 121
X	LYS 2	ASP 137
Y	MET 1	GLU 136
Z	TYR 3	VAL 122
a	ASP 6	GLY 116
1	U 4	A 2919
2	G 5	U 108

There are 63 helices in PDB entry 6DDD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	99	105	Right-handed 310
Helix 2	AA2	B	30	34	Right-handed 310
Helix 3	AA3	B	197	202	Right-handed 310
Helix 4	AA4	B	221	225	Right-handed 310
Helix 5	AA5	B	264	268	Right-handed 310
Helix 6	AA6	C	9	20	Right-handed alpha
Helix 7	AA7	C	25	29	Right-handed 310
Helix 8	AA8	C	31	70	Right-handed alpha
Helix 9	AA9	C	71	73	Right-handed 310
Helix 10	AB1	C	76	83	Right-handed alpha
Helix 11	AB2	C	91	102	Right-handed alpha
Helix 12	AB3	C	102	115	Right-handed alpha
Helix 13	AB4	E	17	22	Right-handed alpha
Helix 14	AB5	E	28	39	Right-handed alpha
Helix 15	AB6	E	43	62	Right-handed alpha
Helix 16	AB7	F	34	46	Right-handed alpha
Helix 17	AB8	H	14	24	Right-handed alpha
Helix 18	AB9	H	45	53	Right-handed alpha
Helix 19	AC1	K	10	23	Right-handed alpha
Helix 20	AC2	K	23	35	Right-handed alpha
Helix 21	AC3	K	40	60	Right-handed alpha
Helix 22	AC4	L	70	80	Right-handed alpha
Helix 23	AC5	L	106	110	Right-handed 310
Helix 24	AC6	L	128	135	Right-handed alpha
Helix 25	AC7	M	16	26	Right-handed alpha
Helix 26	AC8	M	41	50	Right-handed alpha
Helix 27	AC9	N	11	17	Right-handed alpha
Helix 28	AD1	N	18	20	Right-handed 310
Helix 29	AD2	P	9	18	Right-handed alpha
Helix 30	AD3	P	18	24	Right-handed alpha
Helix 31	AD4	P	25	39	Right-handed alpha
Helix 32	AD5	Q	37	44	Right-handed alpha
Helix 33	AD6	Q	51	58	Right-handed alpha
Helix 34	AD7	R	29	32	Right-handed 310
Helix 35	AD8	S	29	44	Right-handed alpha
Helix 36	AD9	S	102	119	Right-handed alpha
Helix 37	AE1	S	135	146	Right-handed alpha
Helix 38	AE2	S	163	168	Right-handed alpha
Helix 39	AE3	S	179	181	Right-handed 310
Helix 40	AE4	S	183	189	Right-handed alpha
Helix 41	AE5	S	195	206	Right-handed alpha
Helix 42	AE6	V	25	39	Right-handed alpha
Helix 43	AE7	V	59	63	Right-handed 310
Helix 44	AE8	V	90	97	Right-handed alpha
Helix 45	AE9	V	97	108	Right-handed alpha
Helix 46	AF1	V	113	121	Right-handed alpha
Helix 47	AF2	V	133	137	Right-handed 310
Helix 48	AF3	W	104	109	Right-handed alpha
Helix 49	AF4	W	111	118	Right-handed alpha
Helix 50	AF5	X	50	54	Right-handed 310
Helix 51	AF6	X	56	60	Right-handed 310
Helix 52	AF7	X	92	99	Right-handed alpha
Helix 53	AF8	X	129	136	Right-handed alpha
Helix 54	AF9	Y	44	58	Right-handed alpha
Helix 55	AG1	Y	110	122	Right-handed alpha
Helix 56	AG2	Z	9	28	Right-handed alpha
Helix 57	AG3	Z	34	42	Right-handed alpha
Helix 58	AG4	Z	46	54	Right-handed alpha
Helix 59	AG5	Z	55	64	Right-handed alpha
Helix 60	AG6	Z	81	87	Right-handed alpha
Helix 61	AG7	Z	87	93	Right-handed alpha
Helix 62	AG8	a	7	17	Right-handed alpha
Helix 63	AG9	a	103	110	Right-handed alpha

There are 41 sheets in PDB entry 6DDD. 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, AD7, AD8, AD9, AE1, AE2, AE3, AE4, AE5,

There are 6 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	83	90	first strand
Strand 2	A	27	34	anti-parallel
Strand 3	A	41	52	anti-parallel
Strand 4	A	60	66	anti-parallel
Strand 5	A	71	77	anti-parallel
Strand 6	W	76	79	anti-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	B	3	4	first strand
Strand 2	B	18	19	anti-parallel

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There are 3 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	76	82	first strand
Strand 2	B	91	96	anti-parallel
Strand 3	B	100	105	anti-parallel

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There are 4 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	129	131	first strand
Strand 2	B	189	192	anti-parallel
Strand 3	B	140	142	anti-parallel
Strand 4	B	162	163	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	171	175	first strand
Strand 2	B	181	185	anti-parallel
Strand 3	B	270	272	anti-parallel

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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	11	14	first strand
Strand 2	D	3	6	anti-parallel
Strand 3	D	38	41	anti-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	19	23	first strand
Strand 2	D	91	99	anti-parallel
Strand 3	D	58	67	anti-parallel
Strand 4	D	32	35	anti-parallel

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There are 2 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	71	77	first strand
Strand 2	D	82	88	anti-parallel

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There are 3 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	3	10	first strand
Strand 2	E	101	108	anti-parallel
Strand 3	E	70	77	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	E	82	87	first strand
Strand 2	E	93	98	anti-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	F	7	10	first strand
Strand 2	F	24	29	anti-parallel
Strand 3	F	75	84	anti-parallel
Strand 4	F	49	58	anti-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	20	21	first strand
Strand 2	G	9	11	anti-parallel
Strand 3	G	68	71	anti-parallel
Strand 4	G	78	79	anti-parallel

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There are 3 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	26	27	first strand
Strand 2	G	32	33	anti-parallel
Strand 3	G	63	64	anti-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	40	44	first strand
Strand 2	G	56	60	anti-parallel

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There are 2 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	81	84	first strand
Strand 2	G	91	94	anti-parallel

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There are 4 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	39	44	first strand
Strand 2	H	26	31	anti-parallel
Strand 3	H	85	91	parallel
Strand 4	H	76	80	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	64	65	first strand
Strand 2	H	68	69	anti-parallel

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There are 3 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	44	46	first strand
Strand 2	I	67	69	anti-parallel
Strand 3	I	59	61	anti-parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	54	55	first strand
Strand 2	I	84	91	parallel
Strand 3	I	73	80	anti-parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	13	17	first strand
Strand 2	J	25	29	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	J	33	40	first strand
Strand 2	J	43	50	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	L	5	16	first strand
Strand 2	L	22	29	anti-parallel
Strand 3	L	194	198	anti-parallel
Strand 4	L	177	189	anti-parallel
Strand 5	L	115	121	anti-parallel
Strand 6	L	208	213	anti-parallel
Strand 7	L	5	16	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	38	39	first strand
Strand 2	L	48	51	anti-parallel
Strand 3	L	89	91	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	L	54	55	first strand
Strand 2	L	85	86	anti-parallel

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There are 2 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	5	7	first strand
Strand 2	M	34	36	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	N	27	29	first strand
Strand 2	N	36	38	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	O	3	8	first strand
Strand 2	O	15	21	anti-parallel

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There are 2 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	32	36	first strand
Strand 2	O	41	45	anti-parallel

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There are 3 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	15	16	first strand
Strand 2	Q	22	24	anti-parallel
Strand 3	Q	48	49	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	R	2	3	first strand
Strand 2	R	34	35	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	R	15	19	first strand
Strand 2	R	22	26	anti-parallel

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There are 3 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	S	174	177	first strand
Strand 2	S	152	156	parallel
Strand 3	S	191	194	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	V	123	125	first strand
Strand 2	V	54	58	parallel
Strand 3	V	16	20	parallel
Strand 4	V	139	140	parallel

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There are 2 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	V	74	78	first strand
Strand 2	V	85	89	anti-parallel

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There are 5 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	W	7	9	first strand
Strand 2	W	18	24	anti-parallel
Strand 3	W	38	45	anti-parallel
Strand 4	W	57	64	anti-parallel
Strand 5	W	83	87	anti-parallel

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There are 3 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	X	75	77	first strand
Strand 2	X	109	111	parallel
Strand 3	X	127	128	parallel

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There are 2 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	32	36	first strand
Strand 2	Y	129	133	anti-parallel

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There are 3 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	40	43	first strand
Strand 2	Y	89	97	anti-parallel
Strand 3	Y	72	76	anti-parallel

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There are 2 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	63	66	first strand
Strand 2	Y	104	107	anti-parallel

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There are 3 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Z	29	33	first strand
Strand 2	Z	115	121	anti-parallel
Strand 3	Z	101	108	anti-parallel

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There are 3 strands in AE5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	a	30	34	first strand
Strand 2	a	41	45	anti-parallel
Strand 3	a	52	56	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: 6DDD

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