Analysis of interatomic Contacts of Structural Units in PDB entry:
9KDP

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 9KDP entry

There are 4 chains in PDB entry 9KDP (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PRO 2	GLN 238
B	PRO 2	GLN 238
C	PRO 2	ARG 240
D	PRO 2	GLY 235

There are 29 helices in PDB entry 9KDP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	21	39	Right-handed alpha
Helix 2	AA2	A	66	74	Right-handed alpha
Helix 3	AA3	A	83	91	Right-handed alpha
Helix 4	AA4	A	131	133	Right-handed 310
Helix 5	AA5	A	134	143	Right-handed alpha
Helix 6	AA6	A	148	152	Right-handed 310
Helix 7	AA7	A	177	187	Right-handed alpha
Helix 8	AA8	A	193	204	Right-handed alpha
Helix 9	AA9	B	21	38	Right-handed alpha
Helix 10	AB1	B	66	75	Right-handed alpha
Helix 11	AB2	B	82	91	Right-handed alpha
Helix 12	AB3	B	131	143	Right-handed alpha
Helix 13	AB4	B	148	152	Right-handed 310
Helix 14	AB5	B	177	186	Right-handed alpha
Helix 15	AB6	B	193	204	Right-handed alpha
Helix 16	AB7	C	21	39	Right-handed alpha
Helix 17	AB8	C	66	71	Right-handed alpha
Helix 18	AB9	C	134	143	Right-handed alpha
Helix 19	AC1	C	147	152	Right-handed 310
Helix 20	AC2	C	177	186	Right-handed alpha
Helix 21	AC3	C	188	192	Right-handed 310
Helix 22	AC4	C	193	204	Right-handed alpha
Helix 23	AC5	D	21	35	Right-handed alpha
Helix 24	AC6	D	36	39	Right-handed 310
Helix 25	AC7	D	134	143	Right-handed alpha
Helix 26	AC8	D	148	152	Right-handed 310
Helix 27	AC9	D	177	187	Right-handed alpha
Helix 28	AD1	D	188	192	Right-handed 310
Helix 29	AD2	D	193	204	Right-handed alpha

There are 5 sheets in PDB entry 9KDP. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5,

There are 10 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	209	215	first strand
Strand 2	A	122	129	anti-parallel
Strand 3	A	168	175	anti-parallel
Strand 4	A	155	163	anti-parallel
Strand 5	A	93	106	anti-parallel
Strand 6	A	11	18	anti-parallel
Strand 7	A	59	64	anti-parallel
Strand 8	A	44	50	anti-parallel
Strand 9	A	217	222	anti-parallel
Strand 10	A	228	229	anti-parallel

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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	3	4	first strand
Strand 2	B	113	114	anti-parallel

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There are 10 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	228	229	first strand
Strand 2	B	207	222	anti-parallel
Strand 3	B	122	130	anti-parallel
Strand 4	B	168	175	anti-parallel
Strand 5	B	155	163	anti-parallel
Strand 6	B	93	106	anti-parallel
Strand 7	B	11	18	anti-parallel
Strand 8	B	57	64	anti-parallel
Strand 9	B	44	50	anti-parallel
Strand 10	B	207	222	anti-parallel

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There are 10 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	228	229	first strand
Strand 2	C	207	222	anti-parallel
Strand 3	C	122	130	anti-parallel
Strand 4	C	168	175	anti-parallel
Strand 5	C	155	163	anti-parallel
Strand 6	C	93	106	anti-parallel
Strand 7	C	11	18	anti-parallel
Strand 8	C	57	64	anti-parallel
Strand 9	C	44	52	anti-parallel
Strand 10	C	207	222	anti-parallel

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There are 10 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	228	229	first strand
Strand 2	D	207	222	anti-parallel
Strand 3	D	122	130	anti-parallel
Strand 4	D	168	175	anti-parallel
Strand 5	D	155	163	anti-parallel
Strand 6	D	93	106	anti-parallel
Strand 7	D	11	18	anti-parallel
Strand 8	D	57	64	anti-parallel
Strand 9	D	44	52	anti-parallel
Strand 10	D	207	222	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: 9KDP

Analysis of interatomic Contacts of Structural Units in PDB entry:
9KDP