Analysis of interatomic Contacts of Structural Units in PDB entry:
2J04

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 2J04 entry

There are 4 chains in PDB entry 2J04 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 2	MET 588
B	SER 165	HIS 675
C	LEU 3	MET 588
D	ARG 167	HIS 675

There are 40 helices in PDB entry 2J04. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	52	54	Right-handed 310
Helix 2	2	A	306	317	Right-handed alpha
Helix 3	3	A	385	395	Right-handed alpha
Helix 4	4	A	411	416	Right-handed 310
Helix 5	5	A	422	433	Right-handed alpha
Helix 6	6	A	433	443	Right-handed alpha
Helix 7	7	A	451	465	Right-handed alpha
Helix 8	8	A	466	469	Right-handed 310
Helix 9	9	A	471	485	Right-handed alpha
Helix 10	10	A	510	513	Right-handed 310
Helix 11	11	A	555	558	Right-handed 310
Helix 12	12	A	564	574	Right-handed alpha
Helix 13	13	B	166	175	Right-handed alpha
Helix 14	14	B	177	192	Right-handed alpha
Helix 15	15	B	199	204	Right-handed 310
Helix 16	16	B	222	226	Right-handed 310
Helix 17	17	B	240	245	Right-handed alpha
Helix 18	18	B	274	276	Right-handed 310
Helix 19	19	B	495	497	Right-handed 310
Helix 20	20	B	498	503	Right-handed alpha
Helix 21	21	C	52	54	Right-handed 310
Helix 22	22	C	306	317	Right-handed alpha
Helix 23	23	C	385	395	Right-handed alpha
Helix 24	24	C	411	416	Right-handed 310
Helix 25	25	C	422	433	Right-handed alpha
Helix 26	26	C	433	443	Right-handed alpha
Helix 27	27	C	451	465	Right-handed alpha
Helix 28	28	C	466	469	Right-handed 310
Helix 29	29	C	471	485	Right-handed alpha
Helix 30	30	C	510	513	Right-handed 310
Helix 31	31	C	555	558	Right-handed 310
Helix 32	32	C	564	574	Right-handed alpha
Helix 33	33	D	169	175	Right-handed alpha
Helix 34	34	D	177	192	Right-handed alpha
Helix 35	35	D	199	204	Right-handed 310
Helix 36	36	D	222	226	Right-handed 310
Helix 37	37	D	240	245	Right-handed alpha
Helix 38	38	D	274	276	Right-handed 310
Helix 39	39	D	495	497	Right-handed 310
Helix 40	40	D	498	503	Right-handed alpha

There are 36 sheets in PDB entry 2J04. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE, AF, AG, AH, AI, AJ, BA, BB, BC, BD, BE, BF, BG, BH, CA, CB, CC, CD, CE, CF, CG, CH, CI, CJ, A, DB, C, DD, DE, DF, G, DH,

There are 4 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	7	9	first strand
Strand 2	A	366	372	anti-parallel
Strand 3	A	344	352	anti-parallel
Strand 4	A	330	338	anti-parallel

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There are 4 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	21	23	first strand
Strand 2	A	29	32	anti-parallel
Strand 3	A	37	42	anti-parallel
Strand 4	A	56	61	anti-parallel

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There are 4 strands in AC sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	88	93	first strand
Strand 2	A	100	104	anti-parallel
Strand 3	A	109	113	anti-parallel
Strand 4	A	116	120	anti-parallel

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There are 4 strands in AD sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	132	137	first strand
Strand 2	A	144	148	anti-parallel
Strand 3	A	152	157	anti-parallel
Strand 4	A	169	175	anti-parallel

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There are 4 strands in AE sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	185	191	first strand
Strand 2	A	194	199	anti-parallel
Strand 3	A	204	207	anti-parallel
Strand 4	A	218	222	anti-parallel

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There are 4 strands in AF sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	232	235	first strand
Strand 2	A	238	242	anti-parallel
Strand 3	A	246	251	anti-parallel
Strand 4	A	256	261	anti-parallel

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There are 4 strands in AG sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	270	273	first strand
Strand 2	A	280	284	anti-parallel
Strand 3	A	289	294	anti-parallel
Strand 4	A	298	301	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	495	500	first strand
Strand 2	A	503	508	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	518	520	first strand
Strand 2	A	526	528	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	551	553	first strand
Strand 2	A	542	544	anti-parallel
Strand 3	A	586	587	anti-parallel

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There are 3 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	261	266	first strand
Strand 2	B	253	258	anti-parallel
Strand 3	B	613	616	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	270	272	first strand
Strand 2	B	283	287	anti-parallel
Strand 3	B	665	670	anti-parallel
Strand 4	B	656	660	anti-parallel
Strand 5	B	645	647	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	298	300	first strand
Strand 2	B	310	318	anti-parallel
Strand 3	B	339	347	anti-parallel
Strand 4	B	353	361	anti-parallel
Strand 5	B	407	409	parallel

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There are 4 strands in BD sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	366	371	first strand
Strand 2	B	383	388	anti-parallel
Strand 3	B	393	397	anti-parallel
Strand 4	B	416	418	anti-parallel

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There are 4 strands in BE sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	425	430	first strand
Strand 2	B	435	440	anti-parallel
Strand 3	B	444	449	anti-parallel
Strand 4	B	458	461	anti-parallel

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There are 4 strands in BF sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	467	473	first strand
Strand 2	B	481	486	anti-parallel
Strand 3	B	490	494	anti-parallel
Strand 4	B	504	508	anti-parallel

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There are 4 strands in BG sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	517	520	first strand
Strand 2	B	525	529	anti-parallel
Strand 3	B	534	539	anti-parallel
Strand 4	B	547	551	anti-parallel

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There are 4 strands in BH sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	556	560	first strand
Strand 2	B	569	572	anti-parallel
Strand 3	B	576	578	anti-parallel
Strand 4	B	601	604	anti-parallel

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There are 4 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	7	10	first strand
Strand 2	C	365	372	anti-parallel
Strand 3	C	344	352	anti-parallel
Strand 4	C	330	338	anti-parallel

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There are 4 strands in CB sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	21	23	first strand
Strand 2	C	29	31	anti-parallel
Strand 3	C	38	42	anti-parallel
Strand 4	C	56	60	anti-parallel

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There are 4 strands in CC sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	88	93	first strand
Strand 2	C	100	104	anti-parallel
Strand 3	C	109	112	anti-parallel
Strand 4	C	117	120	anti-parallel

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There are 4 strands in CD sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	132	137	first strand
Strand 2	C	144	148	anti-parallel
Strand 3	C	152	157	anti-parallel
Strand 4	C	169	175	anti-parallel

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There are 4 strands in CE sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	185	191	first strand
Strand 2	C	194	199	anti-parallel
Strand 3	C	204	207	anti-parallel
Strand 4	C	218	222	anti-parallel

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There are 4 strands in CF sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	231	235	first strand
Strand 2	C	238	242	anti-parallel
Strand 3	C	246	251	anti-parallel
Strand 4	C	256	261	anti-parallel

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There are 4 strands in CG sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	269	273	first strand
Strand 2	C	280	284	anti-parallel
Strand 3	C	289	294	anti-parallel
Strand 4	C	298	301	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	495	500	first strand
Strand 2	C	503	508	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	518	520	first strand
Strand 2	C	526	528	anti-parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	551	553	first strand
Strand 2	C	542	544	anti-parallel
Strand 3	C	586	587	anti-parallel

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There are 3 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	261	265	first strand
Strand 2	D	254	258	anti-parallel
Strand 3	D	613	616	parallel

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

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	270	272	first strand
Strand 2	D	283	287	anti-parallel
Strand 3	D	665	670	anti-parallel
Strand 4	D	656	660	anti-parallel
Strand 5	D	645	647	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	D	298	300	first strand
Strand 2	D	310	318	anti-parallel
Strand 3	D	339	347	anti-parallel
Strand 4	D	353	361	anti-parallel
Strand 5	D	407	409	parallel

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There are 4 strands in DD sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	366	371	first strand
Strand 2	D	383	388	anti-parallel
Strand 3	D	393	397	anti-parallel
Strand 4	D	416	418	anti-parallel

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There are 4 strands in DE sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	425	430	first strand
Strand 2	D	435	440	anti-parallel
Strand 3	D	444	449	anti-parallel
Strand 4	D	458	461	anti-parallel

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There are 4 strands in DF sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	467	473	first strand
Strand 2	D	481	486	anti-parallel
Strand 3	D	490	494	anti-parallel
Strand 4	D	504	508	anti-parallel

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There are 4 strands in G sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	517	520	first strand
Strand 2	D	525	529	anti-parallel
Strand 3	D	534	539	anti-parallel
Strand 4	D	547	551	anti-parallel

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There are 4 strands in DH sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	556	560	first strand
Strand 2	D	569	572	anti-parallel
Strand 3	D	576	578	anti-parallel
Strand 4	D	601	604	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: 2J04

Analysis of interatomic Contacts of Structural Units in PDB entry:
2J04