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

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 5VDH entry

There are 4 chains in PDB entry 5VDH (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	MET 8	TYR 345
B	ALA 6	LEU 348
C	MET 8	TYR 345
D	SER 3	TRP 239

There are 50 helices in PDB entry 5VDH. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	9	18	Right-handed alpha
Helix 2	AA2	A	19	23	Right-handed 310
Helix 3	AA3	A	71	74	Right-handed 310
Helix 4	AA4	A	86	93	Right-handed 310
Helix 5	AA5	A	220	227	Right-handed alpha
Helix 6	AA6	A	227	240	Right-handed alpha
Helix 7	AA7	A	241	244	Right-handed 310
Helix 8	AA8	A	248	271	Right-handed alpha
Helix 9	AA9	A	281	308	Right-handed alpha
Helix 10	AB1	A	312	345	Right-handed alpha
Helix 11	AB2	B	9	18	Right-handed alpha
Helix 12	AB3	B	19	23	Right-handed 310
Helix 13	AB4	B	71	74	Right-handed 310
Helix 14	AB5	B	86	93	Right-handed 310
Helix 15	AB6	B	220	227	Right-handed alpha
Helix 16	AB7	B	227	240	Right-handed alpha
Helix 17	AB8	B	241	244	Right-handed 310
Helix 18	AB9	B	248	271	Right-handed alpha
Helix 19	AC1	B	281	308	Right-handed alpha
Helix 20	AC2	B	312	348	Right-handed alpha
Helix 21	AC3	C	9	18	Right-handed alpha
Helix 22	AC4	C	19	23	Right-handed 310
Helix 23	AC5	C	71	74	Right-handed 310
Helix 24	AC6	C	86	93	Right-handed 310
Helix 25	AC7	C	220	227	Right-handed alpha
Helix 26	AC8	C	227	240	Right-handed alpha
Helix 27	AC9	C	241	244	Right-handed 310
Helix 28	AD1	C	248	271	Right-handed alpha
Helix 29	AD2	C	281	308	Right-handed alpha
Helix 30	AD3	C	312	345	Right-handed alpha
Helix 31	AD4	D	9	18	Right-handed alpha
Helix 32	AD5	D	19	23	Right-handed 310
Helix 33	AD6	D	71	74	Right-handed 310
Helix 34	AD7	D	86	93	Right-handed 310
Helix 35	AD8	D	220	227	Right-handed alpha
Helix 36	AD9	D	227	240	Right-handed alpha
Helix 37	AE1	D	241	244	Right-handed 310
Helix 38	AE2	D	248	271	Right-handed alpha
Helix 39	AE3	D	281	308	Right-handed alpha
Helix 40	AE4	D	312	345	Right-handed alpha
Helix 41	AE5	E	9	18	Right-handed alpha
Helix 42	AE6	E	19	23	Right-handed 310
Helix 43	AE7	E	71	74	Right-handed 310
Helix 44	AE8	E	86	93	Right-handed 310
Helix 45	AE9	E	220	227	Right-handed alpha
Helix 46	AF1	E	227	240	Right-handed alpha
Helix 47	AF2	E	241	244	Right-handed 310
Helix 48	AF3	E	248	271	Right-handed alpha
Helix 49	AF4	E	281	308	Right-handed alpha
Helix 50	AF5	E	312	345	Right-handed alpha

There are 25 sheets in PDB entry 5VDH. 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 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	82	85	first strand
Strand 2	A	116	121	anti-parallel
Strand 3	A	125	137	anti-parallel
Strand 4	A	57	69	anti-parallel
Strand 5	A	37	52	anti-parallel
Strand 6	A	166	170	parallel

Back to list of sheets
Back to top of page

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	103	107	first strand
Strand 2	A	125	137	anti-parallel
Strand 3	A	57	69	anti-parallel
Strand 4	A	37	52	anti-parallel
Strand 5	A	176	178	parallel

Back to list of sheets
Back to top of page

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	98	100	first strand
Strand 2	A	149	158	anti-parallel
Strand 3	A	209	218	anti-parallel
Strand 4	A	187	189	anti-parallel

Back to list of sheets
Back to top of page

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	98	100	first strand
Strand 2	A	149	158	anti-parallel
Strand 3	A	209	218	anti-parallel
Strand 4	A	194	197	anti-parallel

Back to list of sheets
Back to top of page

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	A	200	202	first strand
Strand 2	A	205	207	anti-parallel

Back to list of sheets
Back to top of page

There are 6 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	82	85	first strand
Strand 2	B	116	121	anti-parallel
Strand 3	B	125	137	anti-parallel
Strand 4	B	57	69	anti-parallel
Strand 5	B	37	52	anti-parallel
Strand 6	B	166	170	parallel

Back to list of sheets
Back to top of page

There are 5 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	103	107	first strand
Strand 2	B	125	137	anti-parallel
Strand 3	B	57	69	anti-parallel
Strand 4	B	37	52	anti-parallel
Strand 5	B	176	178	parallel

Back to list of sheets
Back to top of page

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	98	100	first strand
Strand 2	B	149	158	anti-parallel
Strand 3	B	209	218	anti-parallel
Strand 4	B	187	189	anti-parallel

Back to list of sheets
Back to top of page

There are 4 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	98	100	first strand
Strand 2	B	149	158	anti-parallel
Strand 3	B	209	218	anti-parallel
Strand 4	B	194	197	anti-parallel

Back to list of sheets
Back to top of page

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	200	202	first strand
Strand 2	B	205	207	anti-parallel

Back to list of sheets
Back to top of page

There are 6 strands in AB2 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	116	121	anti-parallel
Strand 3	C	125	137	anti-parallel
Strand 4	C	57	69	anti-parallel
Strand 5	C	37	52	anti-parallel
Strand 6	C	166	170	parallel

Back to list of sheets
Back to top of page

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	C	103	107	first strand
Strand 2	C	125	137	anti-parallel
Strand 3	C	57	69	anti-parallel
Strand 4	C	37	52	anti-parallel
Strand 5	C	176	178	parallel

Back to list of sheets
Back to top of page

There are 4 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	98	100	first strand
Strand 2	C	149	158	anti-parallel
Strand 3	C	209	218	anti-parallel
Strand 4	C	187	189	anti-parallel

Back to list of sheets
Back to top of page

There are 4 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	98	100	first strand
Strand 2	C	149	158	anti-parallel
Strand 3	C	209	218	anti-parallel
Strand 4	C	194	197	anti-parallel

Back to list of sheets
Back to top of page

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	200	202	first strand
Strand 2	C	205	207	anti-parallel

Back to list of sheets
Back to top of page

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	D	82	85	first strand
Strand 2	D	116	121	anti-parallel
Strand 3	D	125	137	anti-parallel
Strand 4	D	57	69	anti-parallel
Strand 5	D	37	52	anti-parallel
Strand 6	D	166	170	parallel

Back to list of sheets
Back to top of page

There are 5 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	103	107	first strand
Strand 2	D	125	137	anti-parallel
Strand 3	D	57	69	anti-parallel
Strand 4	D	37	52	anti-parallel
Strand 5	D	176	178	parallel

Back to list of sheets
Back to top of page

There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	98	100	first strand
Strand 2	D	149	158	anti-parallel
Strand 3	D	209	218	anti-parallel
Strand 4	D	187	189	anti-parallel

Back to list of sheets
Back to top of page

There are 4 strands in AC1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	98	100	first strand
Strand 2	D	149	158	anti-parallel
Strand 3	D	209	218	anti-parallel
Strand 4	D	194	197	anti-parallel

Back to list of sheets
Back to top of page

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	D	200	202	first strand
Strand 2	D	205	207	anti-parallel

Back to list of sheets
Back to top of page

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	E	82	85	first strand
Strand 2	E	116	121	anti-parallel
Strand 3	E	125	137	anti-parallel
Strand 4	E	57	69	anti-parallel
Strand 5	E	37	52	anti-parallel
Strand 6	E	166	170	parallel

Back to list of sheets
Back to top of page

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	E	103	107	first strand
Strand 2	E	125	137	anti-parallel
Strand 3	E	57	69	anti-parallel
Strand 4	E	37	52	anti-parallel
Strand 5	E	176	178	parallel

Back to list of sheets
Back to top of page

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	E	98	100	first strand
Strand 2	E	149	158	anti-parallel
Strand 3	E	209	218	anti-parallel
Strand 4	E	187	189	anti-parallel

Back to list of sheets
Back to top of page

There are 4 strands in AC6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	98	100	first strand
Strand 2	E	149	158	anti-parallel
Strand 3	E	209	218	anti-parallel
Strand 4	E	194	197	anti-parallel

Back to list of sheets
Back to top of page

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	E	200	202	first strand
Strand 2	E	205	207	anti-parallel

Back to list of sheets
Back to top of page

Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

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

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