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

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 5CDW entry

There are 48 chains in PDB entry 5CDW (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 4	GLN 101
E	MET 3	GLN 101
B	GLU 2	GLN 101
C	MET 3	GLN 101
G	GLU 2	GLN 101
H	LYS 4	GLU 100
K	GLU 2	GLN 101
L	MET 3	GLU 100
O	MET 3	GLU 100
P	PRO 5	GLU 100
U	LYS 4	GLN 101
V	LYS 4	GLU 100
Y	MET 3	GLN 101
Z	LYS 4	GLU 100
c	MET 3	GLU 100
d	MET 3	GLU 100
D	SER 1	SER 1
D	VAL 3	VAL 5
M	SER 1	SER 1
M	VAL 3	VAL 5
s	SER 1002	SER 1002
s	VAL 1004	VAL 1006
a	SER 1	SER 1
a	VAL 3	GLN 6
F	SER 1	SER 1
F	VAL 3	VAL 5
J	SER 1	SER 1
J	VAL 3	GLN 6
N	SER 1	SER 1
N	VAL 3	VAL 5
R	SER 1	SER 1
R	VAL 3	GLN 6
T	SER 1	SER 1
T	VAL 3	GLN 6
X	SER 1	SER 1
X	VAL 3	GLN 6
b	SER 1	SER 1
b	VAL 3	VAL 5
f	SER 1	SER 1
f	VAL 3	VAL 5
h	SER 1	SER 1
h	VAL 3	GLN 6
j	SER 1	SER 1
j	VAL 3	VAL 5
I	SER 1	SER 1
I	VAL 3	GLN 6
Q	SER 1	SER 1
Q	VAL 3	VAL 5

There are 32 helices in PDB entry 5CDW. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	14	25	Right-handed alpha
Helix 2	AA2	A	75	83	Right-handed alpha
Helix 3	AA3	E	14	23	Right-handed alpha
Helix 4	AA4	E	75	83	Right-handed alpha
Helix 5	AA5	B	14	23	Right-handed alpha
Helix 6	AA6	B	75	83	Right-handed alpha
Helix 7	AA7	C	14	23	Right-handed alpha
Helix 8	AA8	C	75	83	Right-handed alpha
Helix 9	AA9	G	14	24	Right-handed alpha
Helix 10	AB1	G	75	83	Right-handed alpha
Helix 11	AB2	H	14	24	Right-handed alpha
Helix 12	AB3	H	75	83	Right-handed alpha
Helix 13	AB4	K	14	24	Right-handed alpha
Helix 14	AB5	K	75	83	Right-handed alpha
Helix 15	AB6	L	14	23	Right-handed alpha
Helix 16	AB7	L	75	83	Right-handed alpha
Helix 17	AB8	O	14	24	Right-handed alpha
Helix 18	AB9	O	75	83	Right-handed alpha
Helix 19	AC1	P	14	24	Right-handed alpha
Helix 20	AC2	P	75	86	Right-handed alpha
Helix 21	AC3	U	14	24	Right-handed alpha
Helix 22	AC4	U	75	83	Right-handed alpha
Helix 23	AC5	V	14	23	Right-handed alpha
Helix 24	AC6	V	75	83	Right-handed alpha
Helix 25	AC7	Y	14	24	Right-handed alpha
Helix 26	AC8	Y	75	86	Right-handed alpha
Helix 27	AC9	Z	15	24	Right-handed alpha
Helix 28	AD1	Z	75	83	Right-handed alpha
Helix 29	AD2	c	14	23	Right-handed alpha
Helix 30	AD3	c	75	83	Right-handed alpha
Helix 31	AD4	d	14	23	Right-handed alpha
Helix 32	AD5	d	75	83	Right-handed alpha

There are 22 sheets in PDB entry 5CDW. 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, AC1, AC2, AC3, AC4,

There are 3 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	31	35	first strand
Strand 2	A	43	48	anti-parallel
Strand 3	A	53	57	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	A	59	60	first strand
Strand 2	A	66	67	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	E	31	35	first strand
Strand 2	E	43	49	anti-parallel
Strand 3	E	52	60	anti-parallel
Strand 4	E	66	68	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	B	9	12	first strand
Strand 2	B	31	35	parallel
Strand 3	B	43	49	anti-parallel
Strand 4	B	52	57	anti-parallel

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There are 2 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	59	60	first strand
Strand 2	B	66	67	anti-parallel

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There are 5 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	72	73	first strand
Strand 2	C	66	68	anti-parallel
Strand 3	C	52	60	anti-parallel
Strand 4	C	43	49	anti-parallel
Strand 5	C	31	35	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	G	9	11	first strand
Strand 2	G	31	35	parallel
Strand 3	G	43	48	anti-parallel
Strand 4	G	53	57	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	59	60	first strand
Strand 2	G	66	67	anti-parallel

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There are 5 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	72	73	first strand
Strand 2	H	66	68	anti-parallel
Strand 3	H	52	60	anti-parallel
Strand 4	H	43	49	anti-parallel
Strand 5	H	31	35	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	K	9	11	first strand
Strand 2	K	31	35	parallel
Strand 3	K	43	49	anti-parallel
Strand 4	K	52	57	anti-parallel

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There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	59	60	first strand
Strand 2	K	66	67	anti-parallel

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There are 5 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	72	73	first strand
Strand 2	L	66	68	anti-parallel
Strand 3	L	52	60	anti-parallel
Strand 4	L	43	49	anti-parallel
Strand 5	L	31	35	anti-parallel

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There are 5 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	9	11	first strand
Strand 2	O	31	35	parallel
Strand 3	O	43	49	anti-parallel
Strand 4	O	52	60	anti-parallel
Strand 5	O	66	67	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	O	72	73	first strand
Strand 2	P	66	68	anti-parallel
Strand 3	P	52	60	anti-parallel
Strand 4	P	43	49	anti-parallel
Strand 5	P	31	35	anti-parallel

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There are 5 strands in AB6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	9	11	first strand
Strand 2	U	31	35	parallel
Strand 3	U	43	48	anti-parallel
Strand 4	U	53	60	anti-parallel
Strand 5	U	66	67	anti-parallel

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There are 6 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	U	72	73	first strand
Strand 2	V	66	68	anti-parallel
Strand 3	V	52	60	anti-parallel
Strand 4	V	43	49	anti-parallel
Strand 5	V	31	35	anti-parallel
Strand 6	V	9	11	parallel

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There are 3 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	31	35	first strand
Strand 2	Y	43	49	anti-parallel
Strand 3	Y	52	57	anti-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	Y	59	60	first strand
Strand 2	Y	66	67	anti-parallel

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There are 6 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	Y	72	73	first strand
Strand 2	Z	66	68	anti-parallel
Strand 3	Z	52	60	anti-parallel
Strand 4	Z	43	49	anti-parallel
Strand 5	Z	31	35	anti-parallel
Strand 6	Z	9	11	parallel

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There are 3 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	c	31	35	first strand
Strand 2	c	43	49	anti-parallel
Strand 3	c	52	57	anti-parallel

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There are 2 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	c	59	60	first strand
Strand 2	c	66	67	anti-parallel

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There are 5 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	c	72	73	first strand
Strand 2	d	66	68	anti-parallel
Strand 3	d	52	60	anti-parallel
Strand 4	d	43	49	anti-parallel
Strand 5	d	31	35	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: 5CDW

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