Analysis of interatomic Contacts of Structural Units in PDB entry:
9UD4

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 9UD4 entry

There are 6 chains in PDB entry 9UD4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 1	GLY 446
B	TYR 27	GLY 413
C	ASP 6	LEU 256
D	LEU 7	GLU 210
E	MET 1	LEU 198
F	MET 1	GLY 408

There are 79 helices in PDB entry 9UD4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	82	86	Right-handed 310
Helix 2	AA2	A	106	113	Right-handed 310
Helix 3	AA3	A	114	126	Right-handed alpha
Helix 4	AA4	A	127	131	Right-handed 310
Helix 5	AA5	A	162	170	Right-handed alpha
Helix 6	AA6	A	170	186	Right-handed alpha
Helix 7	AA7	A	214	218	Right-handed 310
Helix 8	AA8	A	219	228	Right-handed alpha
Helix 9	AA9	A	240	254	Right-handed alpha
Helix 10	AB1	A	282	287	Right-handed alpha
Helix 11	AB2	A	310	314	Right-handed 310
Helix 12	AB3	A	351	356	Right-handed 310
Helix 13	AB4	A	379	383	Right-handed 310
Helix 14	AB5	A	389	399	Right-handed alpha
Helix 15	AB6	A	402	409	Right-handed alpha
Helix 16	AB7	A	418	424	Right-handed alpha
Helix 17	AB8	A	430	445	Right-handed alpha
Helix 18	AB9	B	28	35	Right-handed alpha
Helix 19	AC1	B	52	64	Right-handed alpha
Helix 20	AC2	B	64	87	Right-handed alpha
Helix 21	AC3	B	89	97	Right-handed alpha
Helix 22	AC4	B	99	108	Right-handed alpha
Helix 23	AC5	B	117	151	Right-handed alpha
Helix 24	AC6	B	158	169	Right-handed alpha
Helix 25	AC7	B	175	189	Right-handed alpha
Helix 26	AC8	B	203	216	Right-handed alpha
Helix 27	AC9	B	240	245	Right-handed alpha
Helix 28	AD1	B	246	249	Right-handed 310
Helix 29	AD2	B	259	266	Right-handed alpha
Helix 30	AD3	B	277	290	Right-handed alpha
Helix 31	AD4	B	294	316	Right-handed alpha
Helix 32	AD5	B	326	333	Right-handed alpha
Helix 33	AD6	B	335	343	Right-handed alpha
Helix 34	AD7	B	353	374	Right-handed alpha
Helix 35	AD8	B	381	409	Right-handed alpha
Helix 36	AD9	C	7	33	Right-handed alpha
Helix 37	AE1	C	35	54	Right-handed alpha
Helix 38	AE2	C	59	70	Right-handed alpha
Helix 39	AE3	C	87	91	Right-handed 310
Helix 40	AE4	C	92	99	Right-handed alpha
Helix 41	AE5	C	178	181	Right-handed 310
Helix 42	AE6	C	182	187	Right-handed alpha
Helix 43	AE7	C	224	239	Right-handed alpha
Helix 44	AE8	C	244	253	Right-handed alpha
Helix 45	AE9	D	8	13	Right-handed alpha
Helix 46	AF1	D	14	16	Right-handed 310
Helix 47	AF2	D	27	35	Right-handed alpha
Helix 48	AF3	D	37	62	Right-handed alpha
Helix 49	AF4	D	70	94	Right-handed alpha
Helix 50	AF5	D	94	102	Right-handed alpha
Helix 51	AF6	D	102	107	Right-handed alpha
Helix 52	AF7	D	111	121	Right-handed alpha
Helix 53	AF8	D	126	158	Right-handed alpha
Helix 54	AF9	D	168	172	Right-handed 310
Helix 55	AG1	D	184	202	Right-handed alpha
Helix 56	AG2	D	203	206	Right-handed 310
Helix 57	AG3	E	2	13	Right-handed alpha
Helix 58	AG4	E	24	29	Right-handed alpha
Helix 59	AG5	E	34	63	Right-handed alpha
Helix 60	AG6	E	78	97	Right-handed alpha
Helix 61	AG7	E	113	117	Right-handed 310
Helix 62	AG8	E	119	133	Right-handed alpha
Helix 63	AG9	E	135	164	Right-handed alpha
Helix 64	AH1	E	165	167	Right-handed 310
Helix 65	AH2	E	175	190	Right-handed alpha
Helix 66	AH3	F	2	30	Right-handed alpha
Helix 67	AH4	F	55	63	Right-handed alpha
Helix 68	AH5	F	99	105	Right-handed alpha
Helix 69	AH6	F	124	130	Right-handed alpha
Helix 70	AH7	F	155	158	Right-handed 310
Helix 71	AH8	F	185	196	Right-handed alpha
Helix 72	AH9	F	217	221	Right-handed 310
Helix 73	AI1	F	244	252	Right-handed alpha
Helix 74	AI2	F	284	298	Right-handed alpha
Helix 75	AI3	F	313	317	Right-handed 310
Helix 76	AI4	F	319	330	Right-handed alpha
Helix 77	AI5	F	354	363	Right-handed alpha
Helix 78	AI6	F	380	395	Right-handed alpha
Helix 79	AI7	F	397	399	Right-handed 310

There are 15 sheets in PDB entry 9UD4. 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,

There are 6 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	2	3	first strand
Strand 2	A	206	212	parallel
Strand 3	A	188	193	parallel
Strand 4	A	148	151	parallel
Strand 5	A	236	239	parallel
Strand 6	A	132	134	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	17	22	first strand
Strand 2	A	273	278	parallel
Strand 3	A	259	265	anti-parallel
Strand 4	A	322	327	parallel
Strand 5	A	296	300	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	A	29	32	first strand
Strand 2	A	89	94	anti-parallel
Strand 3	A	74	78	anti-parallel
Strand 4	A	50	51	anti-parallel

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There are 3 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	41	43	first strand
Strand 2	A	56	60	anti-parallel
Strand 3	A	67	69	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	C	82	84	first strand
Strand 2	C	71	77	anti-parallel
Strand 3	C	121	129	anti-parallel
Strand 4	C	132	143	anti-parallel
Strand 5	C	148	156	anti-parallel
Strand 6	C	162	169	anti-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	C	103	104	first strand
Strand 2	C	118	119	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	C	204	206	first strand
Strand 2	C	217	219	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	D	159	160	first strand
Strand 2	D	163	164	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	F	37	38	first strand
Strand 2	F	119	120	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	F	53	54	first strand
Strand 2	F	114	115	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	F	80	82	first strand
Strand 2	F	107	109	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	F	136	139	first strand
Strand 2	F	147	153	anti-parallel
Strand 3	F	223	229	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	F	208	213	first strand
Strand 2	F	167	172	anti-parallel
Strand 3	F	260	264	anti-parallel

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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	175	178	first strand
Strand 2	F	201	204	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	F	333	339	first strand
Strand 2	F	305	311	parallel
Strand 3	F	276	280	parallel
Strand 4	F	374	378	parallel
Strand 5	F	401	403	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: 9UD4

Analysis of interatomic Contacts of Structural Units in PDB entry:
9UD4