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

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 5ZMD entry

There are 12 chains in PDB entry 5ZMD (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	GLU 37	GLN 499
B	T 2	T 4
B	T 6	G 10
C	GLU 37	GLN 499
D	T 2	T 4
D	T 6	G 10
E	GLU 37	GLY 498
F	T 2	T 4
F	T 6	G 10
G	GLU 37	GLN 499
H	T 2	T 4
H	T 6	G 10

There are 57 helices in PDB entry 5ZMD. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	53	57	Right-handed 310
Helix 2	AA2	A	59	76	Right-handed alpha
Helix 3	AA3	A	84	88	Right-handed 310
Helix 4	AA4	A	129	159	Right-handed alpha
Helix 5	AA5	A	191	197	Right-handed alpha
Helix 6	AA6	A	208	212	Right-handed 310
Helix 7	AA7	A	300	304	Right-handed alpha
Helix 8	AA8	A	330	342	Right-handed alpha
Helix 9	AA9	A	360	378	Right-handed alpha
Helix 10	AB1	A	378	386	Right-handed alpha
Helix 11	AB2	A	387	392	Right-handed 310
Helix 12	AB3	A	396	421	Right-handed alpha
Helix 13	AB4	A	434	437	Right-handed 310
Helix 14	AB5	A	438	457	Right-handed alpha
Helix 15	AB6	A	459	463	Right-handed 310
Helix 16	AB7	A	490	498	Right-handed alpha
Helix 17	AB8	C	53	57	Right-handed 310
Helix 18	AB9	C	58	76	Right-handed alpha
Helix 19	AC1	C	129	157	Right-handed alpha
Helix 20	AC2	C	190	197	Right-handed alpha
Helix 21	AC3	C	300	304	Right-handed alpha
Helix 22	AC4	C	330	343	Right-handed alpha
Helix 23	AC5	C	360	378	Right-handed alpha
Helix 24	AC6	C	378	386	Right-handed alpha
Helix 25	AC7	C	387	392	Right-handed 310
Helix 26	AC8	C	396	421	Right-handed alpha
Helix 27	AC9	C	431	435	Right-handed 310
Helix 28	AD1	C	438	457	Right-handed alpha
Helix 29	AD2	C	458	463	Right-handed alpha
Helix 30	AD3	C	491	498	Right-handed alpha
Helix 31	AD4	E	53	57	Right-handed 310
Helix 32	AD5	E	58	75	Right-handed alpha
Helix 33	AD6	E	84	88	Right-handed 310
Helix 34	AD7	E	129	159	Right-handed alpha
Helix 35	AD8	E	192	197	Right-handed alpha
Helix 36	AD9	E	300	304	Right-handed alpha
Helix 37	AE1	E	330	343	Right-handed alpha
Helix 38	AE2	E	360	378	Right-handed alpha
Helix 39	AE3	E	378	386	Right-handed alpha
Helix 40	AE4	E	388	392	Right-handed 310
Helix 41	AE5	E	396	421	Right-handed alpha
Helix 42	AE6	E	438	457	Right-handed alpha
Helix 43	AE7	E	489	496	Right-handed alpha
Helix 44	AE8	G	53	57	Right-handed 310
Helix 45	AE9	G	58	75	Right-handed alpha
Helix 46	AF1	G	129	158	Right-handed alpha
Helix 47	AF2	G	191	197	Right-handed alpha
Helix 48	AF3	G	300	304	Right-handed alpha
Helix 49	AF4	G	330	342	Right-handed alpha
Helix 50	AF5	G	343	345	Right-handed 310
Helix 51	AF6	G	360	378	Right-handed alpha
Helix 52	AF7	G	378	385	Right-handed alpha
Helix 53	AF8	G	388	392	Right-handed 310
Helix 54	AF9	G	396	422	Right-handed alpha
Helix 55	AG1	G	438	457	Right-handed alpha
Helix 56	AG2	G	458	464	Right-handed alpha
Helix 57	AG3	G	490	496	Right-handed alpha

There are 16 sheets in PDB entry 5ZMD. 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,

There are 7 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	49	52	first strand
Strand 2	A	294	297	anti-parallel
Strand 3	A	242	248	anti-parallel
Strand 4	A	316	322	anti-parallel
Strand 5	A	201	207	anti-parallel
Strand 6	A	95	100	anti-parallel
Strand 7	A	116	117	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	82	83	first strand
Strand 2	A	90	91	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	105	108	first strand
Strand 2	A	111	114	anti-parallel

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There are 5 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	216	217	first strand
Strand 2	A	225	231	anti-parallel
Strand 3	A	305	310	anti-parallel
Strand 4	A	271	276	anti-parallel
Strand 5	A	285	288	anti-parallel

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There are 7 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	49	52	first strand
Strand 2	C	294	297	anti-parallel
Strand 3	C	242	248	anti-parallel
Strand 4	C	316	322	anti-parallel
Strand 5	C	201	207	anti-parallel
Strand 6	C	95	100	anti-parallel
Strand 7	C	116	117	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	82	85	first strand
Strand 2	C	88	91	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	105	108	first strand
Strand 2	C	111	114	anti-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	C	226	231	first strand
Strand 2	C	305	310	anti-parallel
Strand 3	C	270	276	anti-parallel
Strand 4	C	285	289	anti-parallel

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There are 7 strands in AA9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	49	52	first strand
Strand 2	E	294	297	anti-parallel
Strand 3	E	242	248	anti-parallel
Strand 4	E	316	322	anti-parallel
Strand 5	E	201	207	anti-parallel
Strand 6	E	95	100	anti-parallel
Strand 7	E	116	117	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	E	82	83	first strand
Strand 2	E	90	91	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	E	105	108	first strand
Strand 2	E	111	114	anti-parallel

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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	226	231	first strand
Strand 2	E	305	310	anti-parallel
Strand 3	E	270	276	anti-parallel
Strand 4	E	285	289	anti-parallel

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There are 7 strands in AB4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	49	52	first strand
Strand 2	G	294	297	anti-parallel
Strand 3	G	242	248	anti-parallel
Strand 4	G	316	322	anti-parallel
Strand 5	G	201	207	anti-parallel
Strand 6	G	95	100	anti-parallel
Strand 7	G	116	117	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	G	82	85	first strand
Strand 2	G	88	91	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	G	105	108	first strand
Strand 2	G	111	114	anti-parallel

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There are 5 strands in AB7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	216	217	first strand
Strand 2	G	225	231	anti-parallel
Strand 3	G	305	310	anti-parallel
Strand 4	G	271	276	anti-parallel
Strand 5	G	285	288	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: 5ZMD

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