Analysis of interatomic Contacts of Structural Units in PDB entry:
5T88

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 5T88 entry

There are 2 chains in PDB entry 5T88 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	SER 616
B	MET 1	SER 616

There are 37 helices in PDB entry 5T88. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	5	10	Right-handed 310
Helix 2	AA2	A	13	47	Right-handed alpha
Helix 3	AA3	A	84	92	Right-handed alpha
Helix 4	AA4	A	226	230	Right-handed 310
Helix 5	AA5	A	413	415	Right-handed 310
Helix 6	AA6	A	416	422	Right-handed alpha
Helix 7	AA7	A	438	444	Right-handed alpha
Helix 8	AA8	A	445	448	Right-handed 310
Helix 9	AA9	A	449	467	Right-handed alpha
Helix 10	AB1	A	477	490	Right-handed alpha
Helix 11	AB2	A	491	494	Right-handed 310
Helix 12	AB3	A	508	512	Right-handed 310
Helix 13	AB4	A	514	517	Right-handed 310
Helix 14	AB5	A	518	523	Right-handed alpha
Helix 15	AB6	A	527	538	Right-handed alpha
Helix 16	AB7	A	539	542	Right-handed 310
Helix 17	AB8	A	565	578	Right-handed alpha
Helix 18	AB9	A	596	615	Right-handed alpha
Helix 19	AC1	B	5	10	Right-handed 310
Helix 20	AC2	B	13	47	Right-handed alpha
Helix 21	AC3	B	84	92	Right-handed alpha
Helix 22	AC4	B	226	230	Right-handed 310
Helix 23	AC5	B	255	259	Right-handed 310
Helix 24	AC6	B	415	422	Right-handed alpha
Helix 25	AC7	B	438	444	Right-handed alpha
Helix 26	AC8	B	445	448	Right-handed 310
Helix 27	AC9	B	449	467	Right-handed alpha
Helix 28	AD1	B	477	490	Right-handed alpha
Helix 29	AD2	B	491	494	Right-handed 310
Helix 30	AD3	B	508	512	Right-handed 310
Helix 31	AD4	B	514	517	Right-handed 310
Helix 32	AD5	B	518	523	Right-handed alpha
Helix 33	AD6	B	527	538	Right-handed alpha
Helix 34	AD7	B	539	542	Right-handed 310
Helix 35	AD8	B	565	577	Right-handed alpha
Helix 36	AD9	B	592	595	Right-handed 310
Helix 37	AE1	B	596	615	Right-handed alpha

There are 16 sheets in PDB entry 5T88. 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,

There are 4 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	50	57	first strand
Strand 2	A	60	67	anti-parallel
Strand 3	A	70	75	anti-parallel
Strand 4	A	80	83	anti-parallel

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There are 4 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	95	102	first strand
Strand 2	A	108	115	anti-parallel
Strand 3	A	122	127	anti-parallel
Strand 4	A	133	137	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	A	142	147	first strand
Strand 2	A	150	157	anti-parallel
Strand 3	A	170	177	anti-parallel
Strand 4	A	180	185	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	A	193	199	first strand
Strand 2	A	205	212	anti-parallel
Strand 3	A	216	223	anti-parallel
Strand 4	A	231	236	anti-parallel

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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	241	246	first strand
Strand 2	A	249	254	anti-parallel
Strand 3	A	262	267	anti-parallel
Strand 4	A	270	275	anti-parallel

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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	282	288	first strand
Strand 2	A	291	298	anti-parallel
Strand 3	A	301	308	anti-parallel
Strand 4	A	313	317	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	A	324	330	first strand
Strand 2	A	335	341	anti-parallel
Strand 3	A	344	351	anti-parallel
Strand 4	A	355	361	anti-parallel

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There are 8 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	368	375	first strand
Strand 2	A	381	388	anti-parallel
Strand 3	A	424	429	anti-parallel
Strand 4	A	395	399	parallel
Strand 5	A	470	476	parallel
Strand 6	A	496	500	parallel
Strand 7	A	552	557	parallel
Strand 8	A	582	587	parallel

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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	50	57	first strand
Strand 2	B	60	67	anti-parallel
Strand 3	B	70	75	anti-parallel
Strand 4	B	80	83	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	95	102	first strand
Strand 2	B	108	115	anti-parallel
Strand 3	B	122	127	anti-parallel
Strand 4	B	133	137	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	B	142	146	first strand
Strand 2	B	150	157	anti-parallel
Strand 3	B	170	177	anti-parallel
Strand 4	B	180	185	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	B	193	199	first strand
Strand 2	B	205	212	anti-parallel
Strand 3	B	216	223	anti-parallel
Strand 4	B	231	236	anti-parallel

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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	241	246	first strand
Strand 2	B	249	254	anti-parallel
Strand 3	B	262	267	anti-parallel
Strand 4	B	270	275	anti-parallel

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There are 4 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	282	288	first strand
Strand 2	B	291	298	anti-parallel
Strand 3	B	301	308	anti-parallel
Strand 4	B	313	317	anti-parallel

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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	324	330	first strand
Strand 2	B	335	341	anti-parallel
Strand 3	B	344	351	anti-parallel
Strand 4	B	355	361	anti-parallel

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There are 8 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	368	375	first strand
Strand 2	B	381	388	anti-parallel
Strand 3	B	424	429	anti-parallel
Strand 4	B	395	399	parallel
Strand 5	B	470	476	parallel
Strand 6	B	496	500	parallel
Strand 7	B	552	557	parallel
Strand 8	B	582	587	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: 5T88

Analysis of interatomic Contacts of Structural Units in PDB entry:
5T88