Analysis of interatomic Contacts of Structural Units in PDB entry:
5D3M

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 5D3M entry

There are 6 chains in PDB entry 5D3M (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLY 1	SER 280
B	ALA 2	LYS 282
C	SER 8	LYS 175
D	ILE 6	LYS 264
E	GLY 1	SER 280
F	ALA 2	GLU 19

There are 96 helices in PDB entry 5D3M. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	45	55	Right-handed alpha
Helix 2	AA2	A	78	83	Right-handed alpha
Helix 3	AA3	A	92	97	Right-handed alpha
Helix 4	AA4	A	101	106	Right-handed alpha
Helix 5	AA5	A	108	113	Right-handed alpha
Helix 6	AA6	A	116	131	Right-handed alpha
Helix 7	AA7	A	133	137	Right-handed 310
Helix 8	AA8	A	140	144	Right-handed 310
Helix 9	AA9	A	145	159	Right-handed alpha
Helix 10	AB1	A	175	194	Right-handed alpha
Helix 11	AB2	A	226	231	Right-handed alpha
Helix 12	AB3	A	233	240	Right-handed alpha
Helix 13	AB4	A	245	256	Right-handed alpha
Helix 14	AB5	A	268	280	Right-handed alpha
Helix 15	AB6	B	45	53	Right-handed alpha
Helix 16	AB7	B	79	86	Right-handed alpha
Helix 17	AB8	B	94	98	Right-handed 310
Helix 18	AB9	B	102	108	Right-handed alpha
Helix 19	AC1	B	108	114	Right-handed alpha
Helix 20	AC2	B	117	132	Right-handed alpha
Helix 21	AC3	B	137	141	Right-handed 310
Helix 22	AC4	B	142	146	Right-handed 310
Helix 23	AC5	B	147	161	Right-handed alpha
Helix 24	AC6	B	177	193	Right-handed alpha
Helix 25	AC7	B	205	211	Right-handed alpha
Helix 26	AC8	B	230	235	Right-handed alpha
Helix 27	AC9	B	235	242	Right-handed alpha
Helix 28	AD1	B	247	259	Right-handed alpha
Helix 29	AD2	B	269	277	Right-handed alpha
Helix 30	AD3	C	15	30	Right-handed alpha
Helix 31	AD4	C	44	54	Right-handed alpha
Helix 32	AD5	C	55	75	Right-handed alpha
Helix 33	AD6	C	84	101	Right-handed alpha
Helix 34	AD7	C	106	120	Right-handed alpha
Helix 35	AD8	C	120	130	Right-handed alpha
Helix 36	AD9	C	134	144	Right-handed alpha
Helix 37	AE1	C	146	164	Right-handed alpha
Helix 38	AE2	D	20	38	Right-handed alpha
Helix 39	AE3	D	42	59	Right-handed alpha
Helix 40	AE4	D	62	70	Right-handed alpha
Helix 41	AE5	D	72	85	Right-handed alpha
Helix 42	AE6	D	104	130	Right-handed alpha
Helix 43	AE7	D	131	139	Right-handed alpha
Helix 44	AE8	D	143	149	Right-handed 310
Helix 45	AE9	D	152	183	Right-handed alpha
Helix 46	AF1	D	197	199	Right-handed 310
Helix 47	AF2	D	200	224	Right-handed alpha
Helix 48	AF3	D	245	264	Right-handed alpha
Helix 49	AF4	E	45	55	Right-handed alpha
Helix 50	AF5	E	78	83	Right-handed alpha
Helix 51	AF6	E	92	97	Right-handed alpha
Helix 52	AF7	E	101	106	Right-handed alpha
Helix 53	AF8	E	108	113	Right-handed alpha
Helix 54	AF9	E	116	131	Right-handed alpha
Helix 55	AG1	E	133	137	Right-handed 310
Helix 56	AG2	E	140	144	Right-handed 310
Helix 57	AG3	E	145	160	Right-handed alpha
Helix 58	AG4	E	175	194	Right-handed alpha
Helix 59	AG5	E	226	231	Right-handed alpha
Helix 60	AG6	E	233	240	Right-handed alpha
Helix 61	AG7	E	245	256	Right-handed alpha
Helix 62	AG8	E	268	280	Right-handed alpha
Helix 63	AG9	F	45	53	Right-handed alpha
Helix 64	AH1	F	79	86	Right-handed alpha
Helix 65	AH2	F	94	98	Right-handed 310
Helix 66	AH3	F	102	108	Right-handed alpha
Helix 67	AH4	F	108	114	Right-handed alpha
Helix 68	AH5	F	117	132	Right-handed alpha
Helix 69	AH6	F	137	141	Right-handed 310
Helix 70	AH7	F	142	146	Right-handed 310
Helix 71	AH8	F	147	161	Right-handed alpha
Helix 72	AH9	F	177	193	Right-handed alpha
Helix 73	AI1	F	205	211	Right-handed alpha
Helix 74	AI2	F	230	235	Right-handed alpha
Helix 75	AI3	F	235	242	Right-handed alpha
Helix 76	AI4	F	247	259	Right-handed alpha
Helix 77	AI5	F	269	277	Right-handed alpha
Helix 78	AI6	F	277	282	Right-handed alpha
Helix 79	AI7	G	15	30	Right-handed alpha
Helix 80	AI8	G	44	54	Right-handed alpha
Helix 81	AI9	G	55	75	Right-handed alpha
Helix 82	AJ1	G	84	101	Right-handed alpha
Helix 83	AJ2	G	106	121	Right-handed alpha
Helix 84	AJ3	G	123	130	Right-handed alpha
Helix 85	AJ4	G	136	144	Right-handed alpha
Helix 86	AJ5	G	145	164	Right-handed alpha
Helix 87	AJ6	H	20	38	Right-handed alpha
Helix 88	AJ7	H	41	59	Right-handed alpha
Helix 89	AJ8	H	62	70	Right-handed alpha
Helix 90	AJ9	H	72	85	Right-handed alpha
Helix 91	AK1	H	104	130	Right-handed alpha
Helix 92	AK2	H	131	142	Right-handed alpha
Helix 93	AK3	H	143	149	Right-handed 310
Helix 94	AK4	H	152	183	Right-handed alpha
Helix 95	AK5	H	200	224	Right-handed alpha
Helix 96	AK6	H	245	264	Right-handed alpha

There are 8 sheets in PDB entry 5D3M. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 3 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	28	31	first strand
Strand 2	A	2	6	anti-parallel
Strand 3	A	67	69	anti-parallel

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There are 6 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	86	90	first strand
Strand 2	A	164	168	parallel
Strand 3	A	196	200	parallel
Strand 4	A	36	39	parallel
Strand 5	A	212	217	parallel
Strand 6	A	220	225	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	B	23	29	first strand
Strand 2	B	4	10	anti-parallel
Strand 3	B	63	66	anti-parallel
Strand 4	B	69	71	anti-parallel

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There are 6 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	87	90	first strand
Strand 2	B	166	170	parallel
Strand 3	B	197	201	parallel
Strand 4	B	35	40	parallel
Strand 5	B	214	219	parallel
Strand 6	B	222	227	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	E	28	31	first strand
Strand 2	E	2	6	anti-parallel
Strand 3	E	67	69	anti-parallel

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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	86	90	first strand
Strand 2	E	164	168	parallel
Strand 3	E	196	200	parallel
Strand 4	E	36	39	parallel
Strand 5	E	212	217	parallel
Strand 6	E	220	225	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	F	21	29	first strand
Strand 2	F	4	11	anti-parallel
Strand 3	F	63	66	anti-parallel
Strand 4	F	69	71	anti-parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	87	90	first strand
Strand 2	F	166	170	parallel
Strand 3	F	197	201	parallel
Strand 4	F	35	40	parallel
Strand 5	F	214	219	parallel
Strand 6	F	222	227	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: 5D3M

Analysis of interatomic Contacts of Structural Units in PDB entry:
5D3M