Analysis of interatomic Contacts of Structural Units in PDB entry:
4D41

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 4D41 entry

There are 5 chains in PDB entry 4D41 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASN 3	LYS 256
B	ASN 3	LYS 256
C	ASN 3	LYS 256
D	ASN 3	LYS 256
E	ASN 3	ILE 255

There are115 helices in PDB entry 4D41. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	19	31	Right-handed alpha
Helix 2	2	A	41	52	Right-handed alpha
Helix 3	3	A	53	55	Right-handed 310
Helix 4	4	A	69	85	Right-handed alpha
Helix 5	5	A	98	103	Right-handed alpha
Helix 6	6	A	105	109	Right-handed 310
Helix 7	7	A	110	122	Right-handed alpha
Helix 8	8	A	122	134	Right-handed alpha
Helix 9	9	A	147	151	Right-handed 310
Helix 10	10	A	157	179	Right-handed alpha
Helix 11	11	A	196	201	Right-handed 310
Helix 12	12	A	203	215	Right-handed alpha
Helix 13	13	A	222	235	Right-handed alpha
Helix 14	14	A	236	239	Right-handed 310
Helix 15	15	A	251	254	Right-handed 310
Helix 16	16	B	19	31	Right-handed alpha
Helix 17	17	B	41	52	Right-handed alpha
Helix 18	18	B	53	55	Right-handed 310
Helix 19	19	B	69	85	Right-handed alpha
Helix 20	20	B	98	103	Right-handed alpha
Helix 21	21	B	105	109	Right-handed 310
Helix 22	22	B	110	122	Right-handed alpha
Helix 23	23	B	122	133	Right-handed alpha
Helix 24	24	B	134	136	Right-handed 310
Helix 25	25	B	147	151	Right-handed 310
Helix 26	26	B	157	179	Right-handed alpha
Helix 27	27	B	196	201	Right-handed 310
Helix 28	28	B	203	215	Right-handed alpha
Helix 29	29	B	222	235	Right-handed alpha
Helix 30	30	B	236	239	Right-handed 310
Helix 31	31	B	251	254	Right-handed 310
Helix 32	32	C	19	31	Right-handed alpha
Helix 33	33	C	41	52	Right-handed alpha
Helix 34	34	C	53	55	Right-handed 310
Helix 35	35	C	69	85	Right-handed alpha
Helix 36	36	C	110	122	Right-handed alpha
Helix 37	37	C	122	133	Right-handed alpha
Helix 38	38	C	134	136	Right-handed 310
Helix 39	39	C	147	151	Right-handed 310
Helix 40	40	C	157	179	Right-handed alpha
Helix 41	41	C	196	201	Right-handed 310
Helix 42	42	C	203	215	Right-handed alpha
Helix 43	43	C	222	235	Right-handed alpha
Helix 44	44	C	236	239	Right-handed 310
Helix 45	45	C	251	253	Right-handed 310
Helix 46	46	D	19	31	Right-handed alpha
Helix 47	47	D	41	43	Right-handed 310
Helix 48	48	D	44	52	Right-handed alpha
Helix 49	49	D	69	85	Right-handed alpha
Helix 50	50	D	105	109	Right-handed 310
Helix 51	51	D	110	122	Right-handed alpha
Helix 52	52	D	122	134	Right-handed alpha
Helix 53	53	D	147	151	Right-handed 310
Helix 54	54	D	157	179	Right-handed alpha
Helix 55	55	D	196	201	Right-handed 310
Helix 56	56	D	203	215	Right-handed alpha
Helix 57	57	D	222	235	Right-handed alpha
Helix 58	58	D	236	239	Right-handed 310
Helix 59	59	D	251	254	Right-handed 310
Helix 60	60	E	19	31	Right-handed alpha
Helix 61	61	E	41	52	Right-handed alpha
Helix 62	62	E	53	55	Right-handed 310
Helix 63	63	E	69	85	Right-handed alpha
Helix 64	64	E	98	103	Right-handed alpha
Helix 65	65	E	105	109	Right-handed 310
Helix 66	66	E	110	122	Right-handed alpha
Helix 67	67	E	122	134	Right-handed alpha
Helix 68	68	E	147	151	Right-handed 310
Helix 69	69	E	157	179	Right-handed alpha
Helix 70	70	E	196	201	Right-handed 310
Helix 71	71	E	203	215	Right-handed alpha
Helix 72	72	E	222	235	Right-handed alpha
Helix 73	73	E	236	239	Right-handed 310
Helix 74	74	E	251	253	Right-handed 310
Helix 75	75	F	19	31	Right-handed alpha
Helix 76	76	F	41	52	Right-handed alpha
Helix 77	77	F	53	55	Right-handed 310
Helix 78	78	F	69	85	Right-handed alpha
Helix 79	79	F	105	109	Right-handed 310
Helix 80	80	F	110	122	Right-handed alpha
Helix 81	81	F	122	134	Right-handed alpha
Helix 82	82	F	147	151	Right-handed 310
Helix 83	83	F	157	179	Right-handed alpha
Helix 84	84	F	196	201	Right-handed 310
Helix 85	85	F	203	215	Right-handed alpha
Helix 86	86	F	222	235	Right-handed alpha
Helix 87	87	F	236	239	Right-handed 310
Helix 88	88	F	251	253	Right-handed 310
Helix 89	89	G	19	31	Right-handed alpha
Helix 90	90	G	41	53	Right-handed alpha
Helix 91	91	G	69	85	Right-handed alpha
Helix 92	92	G	105	109	Right-handed 310
Helix 93	93	G	110	122	Right-handed alpha
Helix 94	94	G	122	134	Right-handed alpha
Helix 95	95	G	147	151	Right-handed 310
Helix 96	96	G	157	179	Right-handed alpha
Helix 97	97	G	196	201	Right-handed 310
Helix 98	98	G	203	215	Right-handed alpha
Helix 99	99	G	222	235	Right-handed alpha
Helix 100	100	G	236	239	Right-handed 310
Helix 101	101	G	251	253	Right-handed 310
Helix 102	102	H	19	31	Right-handed alpha
Helix 103	103	H	41	53	Right-handed alpha
Helix 104	104	H	69	85	Right-handed alpha
Helix 105	105	H	98	102	Right-handed 310
Helix 106	106	H	105	109	Right-handed 310
Helix 107	107	H	110	122	Right-handed alpha
Helix 108	108	H	122	134	Right-handed alpha
Helix 109	109	H	147	151	Right-handed 310
Helix 110	110	H	158	179	Right-handed alpha
Helix 111	111	H	196	201	Right-handed 310
Helix 112	112	H	203	215	Right-handed alpha
Helix 113	113	H	222	235	Right-handed alpha
Helix 114	114	H	236	239	Right-handed 310
Helix 115	115	H	251	254	Right-handed 310

There are 12 sheets in PDB entry 4D41. Click on sheet of interest to get list of strands forming it: AA, AB, BA, CA, A, EA, EB, EC, FA, FB, GA, HA,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	62	64	first strand
Strand 2	A	34	39	parallel
Strand 3	A	8	12	parallel
Strand 4	A	89	92	parallel
Strand 5	A	140	146	parallel
Strand 6	A	183	190	parallel
Strand 7	A	245	248	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	153	154	first strand
Strand 2	C	255	256	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	62	64	first strand
Strand 2	B	34	39	parallel
Strand 3	B	8	12	parallel
Strand 4	B	89	92	parallel
Strand 5	B	140	146	parallel
Strand 6	B	183	190	parallel
Strand 7	B	245	248	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	62	64	first strand
Strand 2	C	34	39	parallel
Strand 3	C	8	12	parallel
Strand 4	C	89	92	parallel
Strand 5	C	140	146	parallel
Strand 6	C	183	190	parallel
Strand 7	C	245	248	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	62	64	first strand
Strand 2	D	34	39	parallel
Strand 3	D	8	12	parallel
Strand 4	D	89	92	parallel
Strand 5	D	140	146	parallel
Strand 6	D	183	190	parallel
Strand 7	D	245	248	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	62	64	first strand
Strand 2	E	34	39	parallel
Strand 3	E	8	12	parallel
Strand 4	E	89	92	parallel
Strand 5	E	140	146	parallel
Strand 6	E	183	190	parallel
Strand 7	E	245	248	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	153	154	first strand
Strand 2	G	255	256	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	255	256	first strand
Strand 2	G	153	154	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	62	64	first strand
Strand 2	F	34	39	parallel
Strand 3	F	8	12	parallel
Strand 4	F	89	92	parallel
Strand 5	F	140	146	parallel
Strand 6	F	183	190	parallel
Strand 7	F	245	248	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	255	256	first strand
Strand 2	H	153	154	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	62	64	first strand
Strand 2	G	34	39	parallel
Strand 3	G	8	12	parallel
Strand 4	G	89	92	parallel
Strand 5	G	140	146	parallel
Strand 6	G	183	190	parallel
Strand 7	G	245	248	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	62	64	first strand
Strand 2	H	34	39	parallel
Strand 3	H	8	12	parallel
Strand 4	H	89	92	parallel
Strand 5	H	140	146	parallel
Strand 6	H	183	190	parallel
Strand 7	H	245	248	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: 4D41

Analysis of interatomic Contacts of Structural Units in PDB entry:
4D41