Analysis of interatomic Contacts of Structural Units in PDB entry:
9D98

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 9D98 entry

There are 15 chains in PDB entry 9D98 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ASN 33	ARG 503
B	ASN 33	ARG 503
C	ASN 33	ARG 503
D	ALA 512	ASP 664
E	ALA 512	ASP 664
F	ALA 512	ASP 664
G	GLN 1	THR 110
H	ASP 1	GLU 105
I	GLN 1	THR 110
J	ASP 1	GLU 105
K	GLN 1	THR 110
L	ASP 1	GLU 105
M	LYS 1	VAL 97
N	LYS 1	VAL 97
O	LYS 1	VAL 97

There are 49 helices in PDB entry 9D98. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	66	73	Right-handed alpha
Helix 2	AA2	A	100	113	Right-handed alpha
Helix 3	AA3	A	335	350	Right-handed alpha
Helix 4	AA4	A	368	373	Right-handed alpha
Helix 5	AA5	A	474	479	Right-handed alpha
Helix 6	AA6	B	99	117	Right-handed alpha
Helix 7	AA7	B	335	352	Right-handed alpha
Helix 8	AA8	B	368	373	Right-handed alpha
Helix 9	AA9	B	475	481	Right-handed alpha
Helix 10	AB1	C	65	74	Right-handed alpha
Helix 11	AB2	C	100	113	Right-handed alpha
Helix 12	AB3	C	335	350	Right-handed alpha
Helix 13	AB4	C	474	480	Right-handed alpha
Helix 14	AB5	D	529	534	Right-handed alpha
Helix 15	AB6	D	536	546	Right-handed alpha
Helix 16	AB7	D	571	596	Right-handed alpha
Helix 17	AB8	D	618	623	Right-handed alpha
Helix 18	AB9	D	627	636	Right-handed alpha
Helix 19	AC1	D	638	654	Right-handed alpha
Helix 20	AC2	D	657	662	Right-handed alpha
Helix 21	AC3	E	523	527	Right-handed 310
Helix 22	AC4	E	529	534	Right-handed alpha
Helix 23	AC5	E	536	543	Right-handed alpha
Helix 24	AC6	E	575	596	Right-handed alpha
Helix 25	AC7	E	618	626	Right-handed alpha
Helix 26	AC8	E	627	636	Right-handed alpha
Helix 27	AC9	E	638	654	Right-handed alpha
Helix 28	AD1	E	657	662	Right-handed alpha
Helix 29	AD2	F	529	534	Right-handed alpha
Helix 30	AD3	F	537	542	Right-handed alpha
Helix 31	AD4	F	573	596	Right-handed alpha
Helix 32	AD5	F	618	624	Right-handed alpha
Helix 33	AD6	F	627	636	Right-handed alpha
Helix 34	AD7	F	638	654	Right-handed alpha
Helix 35	AD8	F	657	662	Right-handed alpha
Helix 36	AD9	G	28	32	Right-handed 310
Helix 37	AE1	G	83	87	Right-handed 310
Helix 38	AE2	H	79	83	Right-handed 310
Helix 39	AE3	I	28	32	Right-handed 310
Helix 40	AE4	J	79	83	Right-handed 310
Helix 41	AE5	K	28	32	Right-handed 310
Helix 42	AE6	K	61	64	Right-handed 310
Helix 43	AE7	K	83	87	Right-handed 310
Helix 44	AE8	L	79	83	Right-handed 310
Helix 45	AE9	M	59	65	Right-handed 310
Helix 46	AF1	M	75	79	Right-handed 310
Helix 47	AF2	N	58	65	Right-handed 310
Helix 48	AF3	O	59	64	Right-handed 310
Helix 49	AF4	O	75	79	Right-handed 310

There are 40 sheets in PDB entry 9D98. 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, AC5, AC6, AC7, AC8, AC9, AD1, AD2, AD3, AD4, AD5, AD6, AD7, AD8, AD9, AE1, AE2, AE3, AE4,

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	494	499	first strand
Strand 2	A	35	40	anti-parallel
Strand 3	D	604	605	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	45	47	first strand
Strand 2	A	486	491	anti-parallel
Strand 3	A	223	228	anti-parallel
Strand 4	A	242	245	anti-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	91	93	first strand
Strand 2	A	237	239	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	201	202	first strand
Strand 2	A	120	122	anti-parallel
Strand 3	A	432	434	anti-parallel
Strand 4	A	423	425	anti-parallel

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There are 6 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	259	261	first strand
Strand 2	A	443	457	anti-parallel
Strand 3	A	284	298	anti-parallel
Strand 4	A	466	470	first strand
Strand 5	A	359	361	parallel
Strand 6	A	394	395	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	A	271	273	first strand
Strand 2	A	284	298	anti-parallel
Strand 3	A	443	457	anti-parallel
Strand 4	A	329	334	first strand
Strand 5	A	413	418	anti-parallel

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There are 2 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	374	378	first strand
Strand 2	A	381	385	anti-parallel

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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	83	86	first strand
Strand 2	B	242	245	anti-parallel
Strand 3	B	223	228	anti-parallel
Strand 4	B	486	499	anti-parallel
Strand 5	B	35	47	anti-parallel
Strand 6	E	604	609	anti-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	B	53	55	first strand
Strand 2	B	216	218	anti-parallel

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There are 2 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	91	94	first strand
Strand 2	B	236	239	anti-parallel

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There are 7 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	259	261	first strand
Strand 2	B	443	456	anti-parallel
Strand 3	B	284	298	anti-parallel
Strand 4	B	330	334	anti-parallel
Strand 5	B	413	419	anti-parallel
Strand 6	B	381	385	anti-parallel
Strand 7	B	374	378	anti-parallel

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There are 6 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	271	273	first strand
Strand 2	B	284	298	anti-parallel
Strand 3	B	443	456	anti-parallel
Strand 4	B	465	470	anti-parallel
Strand 5	B	358	361	parallel
Strand 6	B	393	395	anti-parallel

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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	494	499	first strand
Strand 2	C	35	40	anti-parallel
Strand 3	F	604	609	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	C	45	47	first strand
Strand 2	C	486	491	anti-parallel
Strand 3	C	223	228	anti-parallel
Strand 4	C	242	245	anti-parallel
Strand 5	C	83	85	anti-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	C	91	93	first strand
Strand 2	C	237	239	anti-parallel

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There are 4 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	201	202	first strand
Strand 2	C	120	122	anti-parallel
Strand 3	C	432	434	anti-parallel
Strand 4	C	423	425	anti-parallel

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There are 6 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	260	261	first strand
Strand 2	C	443	457	anti-parallel
Strand 3	C	284	298	anti-parallel
Strand 4	C	466	470	first strand
Strand 5	C	359	361	parallel
Strand 6	C	394	395	anti-parallel

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There are 5 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	271	273	first strand
Strand 2	C	284	298	anti-parallel
Strand 3	C	443	457	anti-parallel
Strand 4	C	330	334	first strand
Strand 5	C	413	414	anti-parallel

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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	374	378	first strand
Strand 2	C	381	385	anti-parallel
Strand 3	C	418	420	anti-parallel

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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	3	6	first strand
Strand 2	G	17	25	anti-parallel
Strand 3	G	77	82	anti-parallel
Strand 4	G	67	72	anti-parallel

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There are 6 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	10	11	first strand
Strand 2	G	107	110	parallel
Strand 3	G	88	95	anti-parallel
Strand 4	G	34	39	anti-parallel
Strand 5	G	45	51	anti-parallel
Strand 6	G	57	59	anti-parallel

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There are 4 strands in AC4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	10	11	first strand
Strand 2	G	107	110	parallel
Strand 3	G	88	95	anti-parallel
Strand 4	G	100	103	anti-parallel

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There are 4 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	4	7	first strand
Strand 2	H	19	25	anti-parallel
Strand 3	H	70	75	anti-parallel
Strand 4	H	62	67	anti-parallel

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There are 6 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	10	12	first strand
Strand 2	H	102	105	parallel
Strand 3	H	85	90	anti-parallel
Strand 4	H	33	38	anti-parallel
Strand 5	H	45	49	anti-parallel
Strand 6	H	53	54	anti-parallel

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There are 4 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	3	6	first strand
Strand 2	I	17	25	anti-parallel
Strand 3	I	77	82	anti-parallel
Strand 4	I	67	72	anti-parallel

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There are 6 strands in AC8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	10	11	first strand
Strand 2	I	107	110	parallel
Strand 3	I	88	95	anti-parallel
Strand 4	I	34	39	anti-parallel
Strand 5	I	45	51	anti-parallel
Strand 6	I	57	59	anti-parallel

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There are 4 strands in AC9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	I	10	11	first strand
Strand 2	I	107	110	parallel
Strand 3	I	88	95	anti-parallel
Strand 4	I	100	103	anti-parallel

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There are 4 strands in AD1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	4	7	first strand
Strand 2	J	19	25	anti-parallel
Strand 3	J	70	75	anti-parallel
Strand 4	J	62	67	anti-parallel

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There are 6 strands in AD2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	J	10	12	first strand
Strand 2	J	102	105	parallel
Strand 3	J	85	90	anti-parallel
Strand 4	J	33	38	anti-parallel
Strand 5	J	45	49	anti-parallel
Strand 6	J	53	54	anti-parallel

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There are 4 strands in AD3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	3	6	first strand
Strand 2	K	18	25	anti-parallel
Strand 3	K	77	82	anti-parallel
Strand 4	K	67	72	anti-parallel

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There are 6 strands in AD4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	10	11	first strand
Strand 2	K	107	110	parallel
Strand 3	K	88	95	anti-parallel
Strand 4	K	34	39	anti-parallel
Strand 5	K	45	51	anti-parallel
Strand 6	K	57	59	anti-parallel

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There are 4 strands in AD5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	10	11	first strand
Strand 2	K	107	110	parallel
Strand 3	K	88	95	anti-parallel
Strand 4	K	100	103	anti-parallel

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There are 4 strands in AD6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	4	7	first strand
Strand 2	L	19	25	anti-parallel
Strand 3	L	70	75	anti-parallel
Strand 4	L	62	67	anti-parallel

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There are 6 strands in AD7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	L	10	12	first strand
Strand 2	L	102	105	parallel
Strand 3	L	85	90	anti-parallel
Strand 4	L	33	38	anti-parallel
Strand 5	L	45	49	anti-parallel
Strand 6	L	53	54	anti-parallel

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There are 6 strands in AD8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	2	5	first strand
Strand 2	M	90	96	parallel
Strand 3	M	81	86	anti-parallel
Strand 4	M	26	29	anti-parallel
Strand 5	M	35	39	anti-parallel
Strand 6	M	44	46	anti-parallel

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There are 3 strands in AD9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	M	12	14	first strand
Strand 2	M	69	71	anti-parallel
Strand 3	M	55	56	anti-parallel

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There are 6 strands in AE1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	2	5	first strand
Strand 2	N	93	96	parallel
Strand 3	N	81	85	anti-parallel
Strand 4	N	27	29	anti-parallel
Strand 5	N	35	39	anti-parallel
Strand 6	N	44	46	anti-parallel

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There are 3 strands in AE2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	N	12	14	first strand
Strand 2	N	69	71	anti-parallel
Strand 3	N	55	56	anti-parallel

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There are 6 strands in AE3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	2	5	first strand
Strand 2	O	90	96	parallel
Strand 3	O	80	86	anti-parallel
Strand 4	O	26	30	anti-parallel
Strand 5	O	35	39	anti-parallel
Strand 6	O	44	46	anti-parallel

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There are 3 strands in AE4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	O	11	14	first strand
Strand 2	O	69	72	anti-parallel
Strand 3	O	55	56	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: 9D98

Analysis of interatomic Contacts of Structural Units in PDB entry:
9D98