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

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 5WDK entry

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

Chain ID	Initial residue	Terminal residue
A	GLY 33	LYS 405
B	GLY 33	LYS 405
C	GLY 33	ILE 404
D	GLY 33	VAL 255

There are 93 helices in PDB entry 5WDK. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	55	72	Right-handed alpha
Helix 2	AA2	A	80	99	Right-handed alpha
Helix 3	AA3	A	110	121	Right-handed alpha
Helix 4	AA4	A	125	129	Right-handed 310
Helix 5	AA5	A	132	136	Right-handed 310
Helix 6	AA6	A	142	158	Right-handed alpha
Helix 7	AA7	A	172	187	Right-handed alpha
Helix 8	AA8	A	201	208	Right-handed alpha
Helix 9	AA9	A	212	214	Right-handed 310
Helix 10	AB1	A	248	262	Right-handed alpha
Helix 11	AB2	A	287	292	Right-handed alpha
Helix 12	AB3	A	323	333	Right-handed alpha
Helix 13	AB4	A	377	383	Right-handed alpha
Helix 14	AB5	A	392	394	Right-handed 310
Helix 15	AB6	A	395	402	Right-handed alpha
Helix 16	AB7	B	55	72	Right-handed alpha
Helix 17	AB8	B	80	99	Right-handed alpha
Helix 18	AB9	B	110	121	Right-handed alpha
Helix 19	AC1	B	125	129	Right-handed 310
Helix 20	AC2	B	132	136	Right-handed 310
Helix 21	AC3	B	142	158	Right-handed alpha
Helix 22	AC4	B	172	187	Right-handed alpha
Helix 23	AC5	B	201	210	Right-handed alpha
Helix 24	AC6	B	212	214	Right-handed 310
Helix 25	AC7	B	235	239	Right-handed 310
Helix 26	AC8	B	248	262	Right-handed alpha
Helix 27	AC9	B	276	281	Right-handed alpha
Helix 28	AD1	B	323	333	Right-handed alpha
Helix 29	AD2	B	377	383	Right-handed alpha
Helix 30	AD3	B	392	394	Right-handed 310
Helix 31	AD4	B	395	402	Right-handed alpha
Helix 32	AD5	C	55	73	Right-handed alpha
Helix 33	AD6	C	80	99	Right-handed alpha
Helix 34	AD7	C	110	121	Right-handed alpha
Helix 35	AD8	C	125	129	Right-handed 310
Helix 36	AD9	C	142	158	Right-handed alpha
Helix 37	AE1	C	172	187	Right-handed alpha
Helix 38	AE2	C	201	210	Right-handed alpha
Helix 39	AE3	C	212	214	Right-handed 310
Helix 40	AE4	C	235	239	Right-handed 310
Helix 41	AE5	C	248	262	Right-handed alpha
Helix 42	AE6	C	323	333	Right-handed alpha
Helix 43	AE7	C	377	383	Right-handed alpha
Helix 44	AE8	C	392	394	Right-handed 310
Helix 45	AE9	C	395	401	Right-handed alpha
Helix 46	AF1	D	55	72	Right-handed alpha
Helix 47	AF2	D	80	99	Right-handed alpha
Helix 48	AF3	D	110	121	Right-handed alpha
Helix 49	AF4	D	125	129	Right-handed 310
Helix 50	AF5	D	132	136	Right-handed 310
Helix 51	AF6	D	142	158	Right-handed alpha
Helix 52	AF7	D	172	187	Right-handed alpha
Helix 53	AF8	D	201	210	Right-handed alpha
Helix 54	AF9	D	212	214	Right-handed 310
Helix 55	AG1	D	235	239	Right-handed 310
Helix 56	AG2	D	248	262	Right-handed alpha
Helix 57	AG3	D	287	296	Right-handed alpha
Helix 58	AG4	D	323	333	Right-handed alpha
Helix 59	AG5	D	377	383	Right-handed alpha
Helix 60	AG6	D	392	394	Right-handed 310
Helix 61	AG7	D	395	403	Right-handed alpha
Helix 62	AG8	E	55	72	Right-handed alpha
Helix 63	AG9	E	80	99	Right-handed alpha
Helix 64	AH1	E	110	121	Right-handed alpha
Helix 65	AH2	E	125	129	Right-handed 310
Helix 66	AH3	E	132	136	Right-handed 310
Helix 67	AH4	E	142	158	Right-handed alpha
Helix 68	AH5	E	172	187	Right-handed alpha
Helix 69	AH6	E	201	210	Right-handed alpha
Helix 70	AH7	E	212	214	Right-handed 310
Helix 71	AH8	E	248	262	Right-handed alpha
Helix 72	AH9	E	276	281	Right-handed alpha
Helix 73	AI1	E	323	333	Right-handed alpha
Helix 74	AI2	E	377	383	Right-handed alpha
Helix 75	AI3	E	392	394	Right-handed 310
Helix 76	AI4	E	395	402	Right-handed alpha
Helix 77	AI5	F	55	72	Right-handed alpha
Helix 78	AI6	F	80	99	Right-handed alpha
Helix 79	AI7	F	110	121	Right-handed alpha
Helix 80	AI8	F	125	129	Right-handed 310
Helix 81	AI9	F	132	136	Right-handed 310
Helix 82	AJ1	F	142	158	Right-handed alpha
Helix 83	AJ2	F	172	187	Right-handed alpha
Helix 84	AJ3	F	201	210	Right-handed alpha
Helix 85	AJ4	F	212	214	Right-handed 310
Helix 86	AJ5	F	248	262	Right-handed alpha
Helix 87	AJ6	F	287	295	Right-handed alpha
Helix 88	AJ7	F	298	304	Right-handed alpha
Helix 89	AJ8	F	306	311	Right-handed alpha
Helix 90	AJ9	F	323	333	Right-handed alpha
Helix 91	AK1	F	377	383	Right-handed alpha
Helix 92	AK2	F	392	394	Right-handed 310
Helix 93	AK3	F	395	402	Right-handed alpha

There are 18 sheets in PDB entry 5WDK. 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, AB8, AB9,

There are 7 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	37	41	first strand
Strand 2	A	340	349	anti-parallel
Strand 3	A	266	270	anti-parallel
Strand 4	A	384	390	anti-parallel
Strand 5	A	216	220	anti-parallel
Strand 6	A	243	246	parallel
Strand 7	A	230	232	anti-parallel

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There are 5 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	37	41	first strand
Strand 2	A	340	349	anti-parallel
Strand 3	A	355	360	anti-parallel
Strand 4	A	372	376	anti-parallel
Strand 5	A	282	283	parallel

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There are 2 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	193	195	first strand
Strand 2	A	198	200	anti-parallel

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There are 7 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	36	41	first strand
Strand 2	B	339	350	anti-parallel
Strand 3	B	266	271	anti-parallel
Strand 4	B	384	390	anti-parallel
Strand 5	B	216	220	anti-parallel
Strand 6	B	243	246	parallel
Strand 7	B	230	232	anti-parallel

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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	36	41	first strand
Strand 2	B	339	350	anti-parallel
Strand 3	B	355	360	anti-parallel
Strand 4	B	372	376	anti-parallel
Strand 5	B	282	283	parallel

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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	193	195	first strand
Strand 2	B	198	200	anti-parallel

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There are 7 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	36	40	first strand
Strand 2	C	340	350	anti-parallel
Strand 3	C	266	270	anti-parallel
Strand 4	C	384	390	anti-parallel
Strand 5	C	216	220	anti-parallel
Strand 6	C	243	246	parallel
Strand 7	C	230	232	anti-parallel

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There are 5 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	36	40	first strand
Strand 2	C	340	350	anti-parallel
Strand 3	C	355	360	anti-parallel
Strand 4	C	372	376	anti-parallel
Strand 5	C	282	283	parallel

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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	193	195	first strand
Strand 2	C	198	200	anti-parallel

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There are 7 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	36	41	first strand
Strand 2	D	340	350	anti-parallel
Strand 3	D	266	270	anti-parallel
Strand 4	D	384	390	anti-parallel
Strand 5	D	216	220	anti-parallel
Strand 6	D	243	246	parallel
Strand 7	D	229	232	anti-parallel

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There are 5 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	36	41	first strand
Strand 2	D	340	350	anti-parallel
Strand 3	D	355	360	anti-parallel
Strand 4	D	372	376	anti-parallel
Strand 5	D	282	283	parallel

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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	193	195	first strand
Strand 2	D	198	200	anti-parallel

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There are 7 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	36	41	first strand
Strand 2	E	340	350	anti-parallel
Strand 3	E	266	270	anti-parallel
Strand 4	E	384	390	anti-parallel
Strand 5	E	216	220	anti-parallel
Strand 6	E	243	246	parallel
Strand 7	E	230	232	anti-parallel

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There are 5 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	36	41	first strand
Strand 2	E	340	350	anti-parallel
Strand 3	E	355	360	anti-parallel
Strand 4	E	372	376	anti-parallel
Strand 5	E	282	283	parallel

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There are 2 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	193	195	first strand
Strand 2	E	198	200	anti-parallel

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There are 7 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	37	41	first strand
Strand 2	F	340	349	anti-parallel
Strand 3	F	266	270	anti-parallel
Strand 4	F	384	390	anti-parallel
Strand 5	F	216	220	anti-parallel
Strand 6	F	243	246	parallel
Strand 7	F	230	232	anti-parallel

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There are 5 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	37	41	first strand
Strand 2	F	340	349	anti-parallel
Strand 3	F	355	360	anti-parallel
Strand 4	F	372	376	anti-parallel
Strand 5	F	282	283	parallel

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There are 2 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	193	195	first strand
Strand 2	F	198	200	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: 5WDK

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