Analysis of interatomic Contacts of Structural Units in PDB entry:
3D54

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 3D54 entry

There are 15 chains in PDB entry 3D54 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 2	ARG 603
B	MET 1	LEU 82
C	MET 1	LEU 82
D	MET 1	ILE 85
D	ASN 87	LYS 212
E	LYS 2	ARG 603
F	MET 1	LEU 82
G	MET 1	LEU 82
H	MET 1	ILE 85
H	ASN 87	LYS 212
I	LYS 2	ARG 603
J	MET 1	LEU 82
K	MET 1	LEU 82
L	MET 1	ILE 85
L	ASN 87	LYS 212

There are100 helices in PDB entry 3D54. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	5	14	Right-handed alpha
Helix 2	2	A	18	29	Right-handed alpha
Helix 3	3	A	38	45	Right-handed alpha
Helix 4	4	A	73	79	Right-handed alpha
Helix 5	5	A	80	97	Right-handed alpha
Helix 6	6	A	115	127	Right-handed alpha
Helix 7	7	A	128	130	Right-handed 310
Helix 8	8	A	161	163	Right-handed 310
Helix 9	9	A	211	228	Right-handed alpha
Helix 10	10	A	241	247	Right-handed alpha
Helix 11	11	A	247	252	Right-handed alpha
Helix 12	12	A	262	264	Right-handed 310
Helix 13	13	A	272	278	Right-handed alpha
Helix 14	14	A	296	304	Right-handed alpha
Helix 15	15	A	334	339	Right-handed alpha
Helix 16	16	A	366	371	Right-handed alpha
Helix 17	17	A	407	414	Right-handed alpha
Helix 18	18	A	416	432	Right-handed alpha
Helix 19	19	A	452	470	Right-handed alpha
Helix 20	20	A	524	527	Right-handed 310
Helix 21	21	A	528	540	Right-handed alpha
Helix 22	22	A	553	562	Right-handed alpha
Helix 23	23	B	18	31	Right-handed alpha
Helix 24	24	B	53	68	Right-handed alpha
Helix 25	25	C	18	31	Right-handed alpha
Helix 26	26	C	53	67	Right-handed alpha
Helix 27	27	D	16	25	Right-handed alpha
Helix 28	28	D	52	56	Right-handed 310
Helix 29	29	D	60	65	Right-handed alpha
Helix 30	30	D	68	79	Right-handed alpha
Helix 31	31	D	85	95	Right-handed alpha
Helix 32	32	D	166	168	Right-handed 310
Helix 33	33	D	201	211	Right-handed alpha
Helix 34	34	E	5	14	Right-handed alpha
Helix 35	35	E	18	29	Right-handed alpha
Helix 36	36	E	38	45	Right-handed alpha
Helix 37	37	E	73	79	Right-handed alpha
Helix 38	38	E	80	97	Right-handed alpha
Helix 39	39	E	115	127	Right-handed alpha
Helix 40	40	E	161	163	Right-handed 310
Helix 41	41	E	211	228	Right-handed alpha
Helix 42	42	E	241	247	Right-handed alpha
Helix 43	43	E	247	252	Right-handed alpha
Helix 44	44	E	262	264	Right-handed 310
Helix 45	45	E	272	278	Right-handed alpha
Helix 46	46	E	296	304	Right-handed alpha
Helix 47	47	E	334	339	Right-handed alpha
Helix 48	48	E	366	371	Right-handed alpha
Helix 49	49	E	407	414	Right-handed alpha
Helix 50	50	E	416	432	Right-handed alpha
Helix 51	51	E	452	470	Right-handed alpha
Helix 52	52	E	524	527	Right-handed 310
Helix 53	53	E	528	540	Right-handed alpha
Helix 54	54	E	553	562	Right-handed alpha
Helix 55	55	F	18	31	Right-handed alpha
Helix 56	56	F	53	68	Right-handed alpha
Helix 57	57	G	18	31	Right-handed alpha
Helix 58	58	G	53	67	Right-handed alpha
Helix 59	59	H	16	25	Right-handed alpha
Helix 60	60	H	52	56	Right-handed 310
Helix 61	61	H	60	65	Right-handed alpha
Helix 62	62	H	68	79	Right-handed alpha
Helix 63	63	H	85	95	Right-handed alpha
Helix 64	64	H	166	168	Right-handed 310
Helix 65	65	H	186	190	Right-handed 310
Helix 66	66	H	201	211	Right-handed alpha
Helix 67	67	I	5	14	Right-handed alpha
Helix 68	68	I	18	29	Right-handed alpha
Helix 69	69	I	38	45	Right-handed alpha
Helix 70	70	I	73	79	Right-handed alpha
Helix 71	71	I	80	97	Right-handed alpha
Helix 72	72	I	115	127	Right-handed alpha
Helix 73	73	I	128	130	Right-handed 310
Helix 74	74	I	161	163	Right-handed 310
Helix 75	75	I	211	228	Right-handed alpha
Helix 76	76	I	241	247	Right-handed alpha
Helix 77	77	I	247	252	Right-handed alpha
Helix 78	78	I	262	264	Right-handed 310
Helix 79	79	I	272	278	Right-handed alpha
Helix 80	80	I	296	304	Right-handed alpha
Helix 81	81	I	334	339	Right-handed alpha
Helix 82	82	I	366	371	Right-handed alpha
Helix 83	83	I	407	412	Right-handed alpha
Helix 84	84	I	416	432	Right-handed alpha
Helix 85	85	I	452	470	Right-handed alpha
Helix 86	86	I	524	527	Right-handed 310
Helix 87	87	I	528	540	Right-handed alpha
Helix 88	88	I	553	562	Right-handed alpha
Helix 89	89	J	18	31	Right-handed alpha
Helix 90	90	J	53	68	Right-handed alpha
Helix 91	91	K	18	31	Right-handed alpha
Helix 92	92	K	53	68	Right-handed alpha
Helix 93	93	L	16	25	Right-handed alpha
Helix 94	94	L	52	56	Right-handed 310
Helix 95	95	L	60	65	Right-handed alpha
Helix 96	96	L	68	79	Right-handed alpha
Helix 97	97	L	85	95	Right-handed alpha
Helix 98	98	L	166	168	Right-handed 310
Helix 99	99	L	186	190	Right-handed 310
Helix 100	100	L	201	211	Right-handed alpha

There are 30 sheets in PDB entry 3D54. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, AA, AB, AC, AD,

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	56	58	first strand
Strand 2	A	63	71	anti-parallel
Strand 3	A	149	159	anti-parallel
Strand 4	A	101	111	anti-parallel
Strand 5	A	133	140	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	233	236	first strand
Strand 2	A	284	289	anti-parallel
Strand 3	A	174	179	anti-parallel
Strand 4	A	307	315	anti-parallel
Strand 5	A	256	260	anti-parallel
Strand 6	A	319	324	parallel
Strand 7	A	327	333	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	390	391	first strand
Strand 2	A	399	405	anti-parallel
Strand 3	A	496	502	anti-parallel
Strand 4	A	436	441	anti-parallel
Strand 5	A	474	476	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	444	445	first strand
Strand 2	A	493	494	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	484	485	first strand
Strand 2	A	488	489	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	544	546	first strand
Strand 2	A	579	585	anti-parallel
Strand 3	A	513	520	anti-parallel
Strand 4	A	595	602	anti-parallel
Strand 5	A	566	569	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	75	81	first strand
Strand 2	B	3	12	anti-parallel
Strand 3	B	39	50	anti-parallel
Strand 4	C	36	49	anti-parallel
Strand 5	C	4	12	anti-parallel
Strand 6	C	75	81	anti-parallel

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There are 9 strands in H sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	29	33	first strand
Strand 2	D	4	8	parallel
Strand 3	D	44	47	parallel
Strand 4	D	81	84	parallel
Strand 5	D	180	183	parallel
Strand 6	D	170	174	anti-parallel
Strand 7	D	154	159	anti-parallel
Strand 8	D	114	119	anti-parallel
Strand 9	D	135	139	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	13	15	first strand
Strand 2	D	49	50	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	101	103	first strand
Strand 2	D	146	148	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	56	58	first strand
Strand 2	E	63	71	anti-parallel
Strand 3	E	149	159	anti-parallel
Strand 4	E	101	111	anti-parallel
Strand 5	E	133	140	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	233	236	first strand
Strand 2	E	284	289	anti-parallel
Strand 3	E	174	179	anti-parallel
Strand 4	E	307	315	anti-parallel
Strand 5	E	256	260	anti-parallel
Strand 6	E	319	324	parallel
Strand 7	E	327	333	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	390	391	first strand
Strand 2	E	399	405	anti-parallel
Strand 3	E	496	502	anti-parallel
Strand 4	E	436	441	anti-parallel
Strand 5	E	474	476	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	444	445	first strand
Strand 2	E	493	494	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	484	485	first strand
Strand 2	E	488	489	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	544	546	first strand
Strand 2	E	579	585	anti-parallel
Strand 3	E	514	520	anti-parallel
Strand 4	E	595	602	anti-parallel
Strand 5	E	566	569	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	75	81	first strand
Strand 2	F	3	12	anti-parallel
Strand 3	F	36	50	anti-parallel
Strand 4	G	36	49	anti-parallel
Strand 5	G	5	12	anti-parallel
Strand 6	G	75	81	anti-parallel

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There are 9 strands in R sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	29	33	first strand
Strand 2	H	4	8	parallel
Strand 3	H	44	47	parallel
Strand 4	H	81	84	parallel
Strand 5	H	180	183	parallel
Strand 6	H	170	174	anti-parallel
Strand 7	H	154	159	anti-parallel
Strand 8	H	114	119	anti-parallel
Strand 9	H	135	139	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	13	15	first strand
Strand 2	H	49	50	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	101	103	first strand
Strand 2	H	146	148	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	56	58	first strand
Strand 2	I	63	71	anti-parallel
Strand 3	I	149	159	anti-parallel
Strand 4	I	101	111	anti-parallel
Strand 5	I	133	140	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	233	236	first strand
Strand 2	I	284	289	anti-parallel
Strand 3	I	174	179	anti-parallel
Strand 4	I	307	315	anti-parallel
Strand 5	I	256	260	anti-parallel
Strand 6	I	319	324	parallel
Strand 7	I	327	333	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	390	391	first strand
Strand 2	I	399	405	anti-parallel
Strand 3	I	496	502	anti-parallel
Strand 4	I	436	441	anti-parallel
Strand 5	I	474	476	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	444	445	first strand
Strand 2	I	493	494	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	484	485	first strand
Strand 2	I	488	489	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	544	546	first strand
Strand 2	I	579	585	anti-parallel
Strand 3	I	514	520	anti-parallel
Strand 4	I	595	600	anti-parallel
Strand 5	I	568	569	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	75	81	first strand
Strand 2	J	3	12	anti-parallel
Strand 3	J	39	50	anti-parallel
Strand 4	K	36	48	anti-parallel
Strand 5	K	5	12	anti-parallel
Strand 6	K	75	81	anti-parallel

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There are 9 strands in AB sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	29	33	first strand
Strand 2	L	4	8	parallel
Strand 3	L	44	47	parallel
Strand 4	L	81	84	parallel
Strand 5	L	180	183	parallel
Strand 6	L	170	174	anti-parallel
Strand 7	L	154	159	anti-parallel
Strand 8	L	114	119	anti-parallel
Strand 9	L	135	139	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	13	15	first strand
Strand 2	L	49	50	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	101	103	first strand
Strand 2	L	146	148	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: 3D54

Analysis of interatomic Contacts of Structural Units in PDB entry:
3D54