Analysis of interatomic Contacts of Structural Units in PDB entry:
9GD4

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 9GD4 entry

There are 3 chains in PDB entry 9GD4 (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	PHE 31	LEU 303
B	PHE 91	ALA 410
C	PRO 10	PHE 90

There are 42 helices in PDB entry 9GD4. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	44	53	Right-handed alpha
Helix 2	AA2	A	111	131	Right-handed alpha
Helix 3	AA3	A	158	169	Right-handed alpha
Helix 4	AA4	A	180	184	Right-handed 310
Helix 5	AA5	A	185	204	Right-handed alpha
Helix 6	AA6	A	216	229	Right-handed alpha
Helix 7	AA7	A	267	277	Right-handed alpha
Helix 8	AA8	A	279	290	Right-handed alpha
Helix 9	AA9	A	290	303	Right-handed alpha
Helix 10	AB1	B	101	103	Right-handed 310
Helix 11	AB2	B	104	116	Right-handed alpha
Helix 12	AB3	B	131	140	Right-handed alpha
Helix 13	AB4	B	215	238	Right-handed alpha
Helix 14	AB5	B	265	276	Right-handed alpha
Helix 15	AB6	B	287	291	Right-handed 310
Helix 16	AB7	B	292	310	Right-handed alpha
Helix 17	AB8	B	324	337	Right-handed alpha
Helix 18	AB9	B	376	385	Right-handed alpha
Helix 19	AC1	B	388	399	Right-handed alpha
Helix 20	AC2	B	399	410	Right-handed alpha
Helix 21	AC3	C	15	18	Right-handed 310
Helix 22	AC4	C	19	32	Right-handed alpha
Helix 23	AC5	C	46	55	Right-handed alpha
Helix 24	AC6	C	112	131	Right-handed alpha
Helix 25	AC7	C	158	170	Right-handed alpha
Helix 26	AC8	C	180	184	Right-handed 310
Helix 27	AC9	C	185	203	Right-handed alpha
Helix 28	AD1	C	232	240	Right-handed alpha
Helix 29	AD2	C	279	288	Right-handed alpha
Helix 30	AD3	C	291	302	Right-handed alpha
Helix 31	AD4	C	302	313	Right-handed alpha
Helix 32	AD5	D	35	45	Right-handed alpha
Helix 33	AD6	D	93	97	Right-handed 310
Helix 34	AD7	D	145	169	Right-handed alpha
Helix 35	AD8	D	196	208	Right-handed alpha
Helix 36	AD9	D	218	222	Right-handed 310
Helix 37	AE1	D	223	241	Right-handed alpha
Helix 38	AE2	D	256	258	Right-handed 310
Helix 39	AE3	D	259	269	Right-handed alpha
Helix 40	AE4	D	304	314	Right-handed alpha
Helix 41	AE5	D	316	327	Right-handed alpha
Helix 42	AE6	D	327	337	Right-handed alpha

There are 8 sheets in PDB entry 9GD4. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

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	78	84	first strand
Strand 2	A	91	97	anti-parallel
Strand 3	A	32	38	parallel
Strand 4	A	145	150	parallel
Strand 5	A	174	178	parallel
Strand 6	A	232	233	parallel

Back to list of sheets
Back to top of page

There are 3 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	240	243	first strand
Strand 2	A	246	252	anti-parallel
Strand 3	A	257	259	anti-parallel

Back to list of sheets
Back to top of page

There are 7 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	92	93	first strand
Strand 2	C	79	87	parallel
Strand 3	C	90	98	anti-parallel
Strand 4	C	33	40	parallel
Strand 5	C	145	150	parallel
Strand 6	C	174	178	parallel
Strand 7	C	243	244	parallel

Back to list of sheets
Back to top of page

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	B	149	150	first strand
Strand 2	B	183	193	anti-parallel
Strand 3	B	196	206	anti-parallel
Strand 4	B	118	125	parallel
Strand 5	B	252	257	parallel
Strand 6	B	281	285	parallel
Strand 7	B	340	341	parallel

Back to list of sheets
Back to top of page

There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	348	350	first strand
Strand 2	B	356	362	anti-parallel
Strand 3	B	365	368	anti-parallel

Back to list of sheets
Back to top of page

There are 3 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	251	253	first strand
Strand 2	C	259	265	anti-parallel
Strand 3	C	268	271	anti-parallel

Back to list of sheets
Back to top of page

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	D	68	80	first strand
Strand 2	D	103	112	anti-parallel
Strand 3	D	129	137	anti-parallel
Strand 4	D	22	29	parallel
Strand 5	D	183	188	parallel
Strand 6	D	211	216	parallel
Strand 7	D	272	273	parallel

Back to list of sheets
Back to top of page

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	287	290	first strand
Strand 2	D	293	296	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: 9GD4

Analysis of interatomic Contacts of Structural Units in PDB entry:
9GD4