Analysis of interatomic Contacts of Structural Units in PDB entry:
9PD5

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 9PD5 entry

There are 11 chains in PDB entry 9PD5 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	LYS 52	LEU 722
B	MET 1	LEU 738
C	ALA 395	THR 548
D	ARG 17	SER 462
E	THR 8	HIS 387
F	ASP 6	PHE 289
G	VAL 4	THR 69
K	TYR 102	MET 273
L	G 32	G 62
M	A 42	C 63
S	GLU 189	GLN 257

There are115 helices in PDB entry 9PD5. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	93	103	Right-handed alpha
Helix 2	AA2	A	120	128	Right-handed alpha
Helix 3	AA3	A	133	142	Right-handed alpha
Helix 4	AA4	A	150	158	Right-handed alpha
Helix 5	AA5	A	182	190	Right-handed alpha
Helix 6	AA6	A	192	196	Right-handed alpha
Helix 7	AA7	A	277	286	Right-handed alpha
Helix 8	AA8	A	318	327	Right-handed alpha
Helix 9	AA9	A	346	357	Right-handed alpha
Helix 10	AB1	A	368	381	Right-handed alpha
Helix 11	AB2	A	386	388	Right-handed alpha
Helix 12	AB3	A	421	432	Right-handed alpha
Helix 13	AB4	A	443	445	Right-handed 310
Helix 14	AB5	A	452	457	Right-handed alpha
Helix 15	AB6	A	477	483	Right-handed 310
Helix 16	AB7	A	493	499	Right-handed alpha
Helix 17	AB8	A	516	522	Right-handed alpha
Helix 18	AB9	A	531	534	Right-handed alpha
Helix 19	AC1	A	538	552	Right-handed alpha
Helix 20	AC2	A	565	575	Right-handed alpha
Helix 21	AC3	A	586	598	Right-handed alpha
Helix 22	AC4	A	633	641	Right-handed alpha
Helix 23	AC5	A	669	676	Right-handed alpha
Helix 24	AC6	A	678	683	Right-handed alpha
Helix 25	AC7	A	706	718	Right-handed alpha
Helix 26	AC8	B	19	34	Right-handed alpha
Helix 27	AC9	B	48	59	Right-handed alpha
Helix 28	AD1	B	77	98	Right-handed alpha
Helix 29	AD2	B	127	138	Right-handed alpha
Helix 30	AD3	B	142	148	Right-handed alpha
Helix 31	AD4	B	156	162	Right-handed alpha
Helix 32	AD5	B	177	187	Right-handed alpha
Helix 33	AD6	B	191	197	Right-handed alpha
Helix 34	AD7	B	209	211	Right-handed alpha
Helix 35	AD8	B	215	221	Right-handed alpha
Helix 36	AD9	B	240	247	Right-handed alpha
Helix 37	AE1	B	253	283	Right-handed alpha
Helix 38	AE2	B	322	345	Right-handed alpha
Helix 39	AE3	B	357	362	Right-handed alpha
Helix 40	AE4	B	369	373	Right-handed alpha
Helix 41	AE5	B	375	385	Right-handed alpha
Helix 42	AE6	B	395	409	Right-handed alpha
Helix 43	AE7	B	444	450	Right-handed 310
Helix 44	AE8	B	464	470	Right-handed alpha
Helix 45	AE9	B	514	527	Right-handed alpha
Helix 46	AF1	B	542	554	Right-handed alpha
Helix 47	AF2	B	558	564	Right-handed alpha
Helix 48	AF3	B	574	589	Right-handed alpha
Helix 49	AF4	B	604	607	Right-handed alpha
Helix 50	AF5	B	633	642	Right-handed alpha
Helix 51	AF6	B	648	667	Right-handed alpha
Helix 52	AF7	B	682	685	Right-handed 310
Helix 53	AF8	B	687	690	Right-handed alpha
Helix 54	AF9	B	695	701	Right-handed alpha
Helix 55	AG1	B	710	725	Right-handed alpha
Helix 56	AG2	B	730	736	Right-handed alpha
Helix 57	AG3	C	399	412	Right-handed alpha
Helix 58	AG4	C	424	434	Right-handed alpha
Helix 59	AG5	C	455	478	Right-handed alpha
Helix 60	AG6	C	484	515	Right-handed alpha
Helix 61	AG7	C	521	546	Right-handed 310
Helix 62	AG8	D	19	24	Right-handed alpha
Helix 63	AG9	D	28	36	Right-handed alpha
Helix 64	AH1	D	38	47	Right-handed alpha
Helix 65	AH2	D	50	58	Right-handed alpha
Helix 66	AH3	D	68	74	Right-handed alpha
Helix 67	AH4	D	80	93	Right-handed 310
Helix 68	AH5	D	112	122	Right-handed alpha
Helix 69	AH6	D	145	164	Right-handed alpha
Helix 70	AH7	D	173	182	Right-handed alpha
Helix 71	AH8	D	198	205	Right-handed alpha
Helix 72	AH9	D	208	222	Right-handed alpha
Helix 73	AI1	D	224	226	Right-handed alpha
Helix 74	AI2	D	232	241	Right-handed alpha
Helix 75	AI3	D	256	268	Right-handed alpha
Helix 76	AI4	D	285	288	Right-handed alpha
Helix 77	AI5	D	322	329	Right-handed alpha
Helix 78	AI6	D	348	357	Right-handed alpha
Helix 79	AI7	D	361	371	Right-handed alpha
Helix 80	AI8	D	374	376	Right-handed 310
Helix 81	AI9	D	385	397	Right-handed alpha
Helix 82	AJ1	D	415	428	Right-handed alpha
Helix 83	AJ2	D	448	461	Right-handed alpha
Helix 84	AJ3	E	22	24	Right-handed 310
Helix 85	AJ4	E	30	41	Right-handed alpha
Helix 86	AJ5	E	69	72	Right-handed 310
Helix 87	AJ6	E	80	98	Right-handed alpha
Helix 88	AJ7	E	124	136	Right-handed alpha
Helix 89	AJ8	E	145	156	Right-handed alpha
Helix 90	AJ9	E	182	191	Right-handed alpha
Helix 91	AK1	E	206	215	Right-handed alpha
Helix 92	AK2	E	225	234	Right-handed alpha
Helix 93	AK3	E	273	277	Right-handed alpha
Helix 94	AK4	E	315	325	Right-handed alpha
Helix 95	AK5	E	369	378	Right-handed alpha
Helix 96	AK6	E	383	386	Right-handed alpha
Helix 97	AK7	F	19	27	Right-handed alpha
Helix 98	AK8	F	34	51	Right-handed alpha
Helix 99	AK9	F	102	120	Right-handed alpha
Helix 100	AL1	F	133	150	Right-handed alpha
Helix 101	AL2	F	174	186	Right-handed 310
Helix 102	AL3	F	201	210	Right-handed alpha
Helix 103	AL4	F	220	231	Right-handed 310
Helix 104	AL5	F	235	240	Right-handed alpha
Helix 105	AL6	F	284	288	Right-handed 310
Helix 106	AL7	G	14	26	Right-handed alpha
Helix 107	AL8	G	47	63	Right-handed 310
Helix 108	AL9	K	116	120	Right-handed alpha
Helix 109	AM1	K	141	147	Right-handed alpha
Helix 110	AM2	K	153	156	Right-handed alpha
Helix 111	AM3	K	183	194	Right-handed alpha
Helix 112	AM4	K	197	229	Right-handed alpha
Helix 113	AM5	S	192	195	Right-handed alpha
Helix 114	AM6	S	198	214	Right-handed alpha
Helix 115	AM7	S	226	256	Right-handed alpha

There are 25 sheets in PDB entry 9PD5. 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,

There are 5 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	59	61	first strand
Strand 2	D	333	338	parallel
Strand 3	D	341	345	anti-parallel
Strand 4	D	314	317	anti-parallel
Strand 5	D	307	309	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	76	78	first strand
Strand 2	A	84	87	anti-parallel
Strand 3	A	113	117	anti-parallel
Strand 4	A	105	108	anti-parallel

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There are 3 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	167	171	first strand
Strand 2	A	174	179	anti-parallel
Strand 3	A	268	271	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	A	389	392	first strand
Strand 2	A	405	409	parallel
Strand 3	A	361	365	parallel
Strand 4	A	438	441	parallel
Strand 5	A	463	467	parallel
Strand 6	A	336	339	parallel
Strand 7	A	487	490	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	688	690	first strand
Strand 2	A	505	512	parallel
Strand 3	A	657	664	parallel
Strand 4	A	622	626	parallel
Strand 5	A	558	561	parallel
Strand 6	A	604	607	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	2	5	first strand
Strand 2	B	8	11	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	B	479	481	first strand
Strand 2	B	36	41	parallel
Strand 3	B	453	458	parallel
Strand 4	B	229	234	parallel
Strand 5	B	69	73	parallel
Strand 6	B	204	207	parallel
Strand 7	B	106	108	parallel

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There are 4 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	249	252	first strand
Strand 2	B	431	437	anti-parallel
Strand 3	B	414	419	anti-parallel
Strand 4	B	351	353	anti-parallel

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There are 6 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	490	495	first strand
Strand 2	B	675	680	parallel
Strand 3	B	617	621	parallel
Strand 4	B	535	539	parallel
Strand 5	B	594	599	parallel
Strand 6	B	566	569	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	D	96	100	first strand
Strand 2	D	106	110	anti-parallel

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There are 3 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	248	251	first strand
Strand 2	D	279	284	anti-parallel
Strand 3	D	270	272	anti-parallel

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There are 3 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	402	409	first strand
Strand 2	D	440	443	anti-parallel
Strand 3	D	431	435	anti-parallel

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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	184	186	first strand
Strand 2	D	195	197	anti-parallel

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There are 6 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	113	118	first strand
Strand 2	E	103	110	anti-parallel
Strand 3	E	59	66	parallel
Strand 4	E	164	171	parallel
Strand 5	E	195	200	parallel
Strand 6	E	219	221	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	289	291	first strand
Strand 2	E	295	298	anti-parallel

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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	332	335	first strand
Strand 2	E	356	359	anti-parallel
Strand 3	E	364	367	anti-parallel

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There are 2 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	303	305	first strand
Strand 2	E	309	312	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	E	343	345	first strand
Strand 2	E	349	352	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	F	67	69	first strand
Strand 2	F	56	62	anti-parallel
Strand 3	F	7	16	parallel
Strand 4	F	156	165	parallel
Strand 5	F	190	195	parallel
Strand 6	F	214	216	parallel

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There are 2 strands in AC2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	253	255	first strand
Strand 2	F	259	262	anti-parallel

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There are 3 strands in AC3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	273	275	first strand
Strand 2	F	264	268	anti-parallel
Strand 3	E	249	253	anti-parallel

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There are 3 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	5	11	first strand
Strand 2	G	42	45	anti-parallel
Strand 3	G	36	39	anti-parallel

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There are 3 strands in AC5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	138	140	first strand
Strand 2	K	178	182	anti-parallel
Strand 3	K	165	167	anti-parallel

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There are 3 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	248	252	first strand
Strand 2	K	256	260	anti-parallel
Strand 3	K	267	271	anti-parallel

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There are 2 strands in AC7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	K	103	105	first strand
Strand 2	K	109	112	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: 9PD5

Analysis of interatomic Contacts of Structural Units in PDB entry:
9PD5