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

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 5GAP entry

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

Chain ID	Initial residue	Terminal residue
V	A 1	A 67
W	A 26	U 88
U	U 88	C 107
x	UNK 1	UNK 120
A	ASP 751	ALA 2104
H	PHE 109	ASN 465
J	GLY 155	ASP 898
D	ALA 2	ARG 141
F	PRO 43	ILE 457
G	LEU 150	VAL 467
K	ALA 3	ILE 126
B	ALA 363	LYS 433

There are153 helices in PDB entry 5GAP. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	x	21	46	Right-handed alpha
Helix 2	AA2	x	53	62	Right-handed alpha
Helix 3	AA3	x	102	120	Right-handed alpha
Helix 4	AA4	A	752	770	Right-handed alpha
Helix 5	AA5	A	774	796	Right-handed alpha
Helix 6	AA6	A	805	837	Right-handed alpha
Helix 7	AA7	A	843	871	Right-handed alpha
Helix 8	AA8	A	875	894	Right-handed alpha
Helix 9	AA9	A	908	926	Right-handed alpha
Helix 10	AB1	A	930	946	Right-handed alpha
Helix 11	AB2	A	946	961	Right-handed alpha
Helix 12	AB3	A	985	1007	Right-handed alpha
Helix 13	AB4	A	1020	1034	Right-handed alpha
Helix 14	AB5	A	1057	1061	Right-handed 310
Helix 15	AB6	A	1062	1074	Right-handed alpha
Helix 16	AB7	A	1075	1087	Right-handed alpha
Helix 17	AB8	A	1109	1127	Right-handed alpha
Helix 18	AB9	A	1127	1136	Right-handed alpha
Helix 19	AC1	A	1149	1156	Right-handed alpha
Helix 20	AC2	A	1175	1190	Right-handed alpha
Helix 21	AC3	A	1216	1234	Right-handed alpha
Helix 22	AC4	A	1273	1275	Right-handed 310
Helix 23	AC5	A	1305	1321	Right-handed alpha
Helix 24	AC6	A	1327	1347	Right-handed alpha
Helix 25	AC7	A	1348	1351	Right-handed 310
Helix 26	AC8	A	1353	1376	Right-handed alpha
Helix 27	AC9	A	1385	1390	Right-handed alpha
Helix 28	AD1	A	1408	1413	Right-handed 310
Helix 29	AD2	A	1439	1444	Right-handed 310
Helix 30	AD3	A	1446	1471	Right-handed alpha
Helix 31	AD4	A	1490	1495	Right-handed alpha
Helix 32	AD5	A	1498	1503	Right-handed alpha
Helix 33	AD6	A	1507	1515	Right-handed alpha
Helix 34	AD7	A	1516	1518	Right-handed 310
Helix 35	AD8	A	1529	1534	Right-handed alpha
Helix 36	AD9	A	1539	1550	Right-handed alpha
Helix 37	AE1	A	1551	1560	Right-handed alpha
Helix 38	AE2	A	1562	1566	Right-handed 310
Helix 39	AE3	A	1577	1586	Right-handed alpha
Helix 40	AE4	A	1591	1615	Right-handed alpha
Helix 41	AE5	A	1638	1649	Right-handed alpha
Helix 42	AE6	A	1652	1672	Right-handed alpha
Helix 43	AE7	A	1672	1677	Right-handed alpha
Helix 44	AE8	A	1687	1693	Right-handed 310
Helix 45	AE9	A	1747	1762	Right-handed alpha
Helix 46	AF1	A	1793	1809	Right-handed alpha
Helix 47	AF2	A	1809	1824	Right-handed alpha
Helix 48	AF3	A	1840	1845	Right-handed 310
Helix 49	AF4	A	1895	1900	Right-handed 310
Helix 50	AF5	A	1904	1924	Right-handed alpha
Helix 51	AF6	A	1937	1939	Right-handed 310
Helix 52	AF7	A	1940	1948	Right-handed alpha
Helix 53	AF8	A	1963	1969	Right-handed 310
Helix 54	AF9	A	1971	1981	Right-handed alpha
Helix 55	AG1	A	1994	1998	Right-handed 310
Helix 56	AG2	A	2000	2018	Right-handed alpha
Helix 57	AG3	A	2018	2027	Right-handed alpha
Helix 58	AG4	A	2044	2068	Right-handed alpha
Helix 59	AG5	A	2074	2084	Right-handed alpha
Helix 60	AG6	A	2092	2104	Right-handed alpha
Helix 61	AG7	H	114	145	Right-handed alpha
Helix 62	AG8	H	147	164	Right-handed alpha
Helix 63	AG9	J	159	170	Right-handed alpha
Helix 64	AH1	J	171	177	Right-handed alpha
Helix 65	AH2	J	186	198	Right-handed alpha
Helix 66	AH3	J	206	210	Right-handed 310
Helix 67	AH4	J	219	236	Right-handed alpha
Helix 68	AH5	J	241	255	Right-handed alpha
Helix 69	AH6	J	258	271	Right-handed alpha
Helix 70	AH7	J	274	285	Right-handed alpha
Helix 71	AH8	J	289	303	Right-handed alpha
Helix 72	AH9	J	306	317	Right-handed alpha
Helix 73	AI1	J	319	334	Right-handed alpha
Helix 74	AI2	J	337	348	Right-handed alpha
Helix 75	AI3	J	351	365	Right-handed alpha
Helix 76	AI4	J	368	380	Right-handed alpha
Helix 77	AI5	J	381	395	Right-handed alpha
Helix 78	AI6	J	401	410	Right-handed alpha
Helix 79	AI7	J	422	435	Right-handed alpha
Helix 80	AI8	J	442	454	Right-handed alpha
Helix 81	AI9	J	457	476	Right-handed alpha
Helix 82	AJ1	J	479	491	Right-handed alpha
Helix 83	AJ2	J	495	509	Right-handed alpha
Helix 84	AJ3	J	511	526	Right-handed alpha
Helix 85	AJ4	J	531	543	Right-handed alpha
Helix 86	AJ5	J	548	557	Right-handed alpha
Helix 87	AJ6	J	559	572	Right-handed alpha
Helix 88	AJ7	J	576	589	Right-handed alpha
Helix 89	AJ8	J	594	608	Right-handed alpha
Helix 90	AJ9	J	609	624	Right-handed alpha
Helix 91	AK1	J	625	627	Right-handed 310
Helix 92	AK2	J	633	649	Right-handed alpha
Helix 93	AK3	J	652	664	Right-handed alpha
Helix 94	AK4	J	667	681	Right-handed alpha
Helix 95	AK5	J	683	698	Right-handed alpha
Helix 96	AK6	J	701	715	Right-handed alpha
Helix 97	AK7	J	718	733	Right-handed alpha
Helix 98	AK8	J	737	750	Right-handed alpha
Helix 99	AK9	J	753	767	Right-handed alpha
Helix 100	AL1	J	770	784	Right-handed alpha
Helix 101	AL2	J	789	802	Right-handed alpha
Helix 102	AL3	J	804	819	Right-handed alpha
Helix 103	AL4	J	820	835	Right-handed alpha
Helix 104	AL5	J	839	852	Right-handed alpha
Helix 105	AL6	J	856	863	Right-handed alpha
Helix 106	AL7	J	871	880	Right-handed alpha
Helix 107	AL8	J	889	898	Right-handed alpha
Helix 108	AL9	D	11	22	Right-handed alpha
Helix 109	AM1	D	36	53	Right-handed alpha
Helix 110	AM2	D	109	127	Right-handed alpha
Helix 111	AM3	F	43	45	Right-handed 310
Helix 112	AM4	F	46	58	Right-handed alpha
Helix 113	AM5	F	64	78	Right-handed alpha
Helix 114	AM6	F	79	87	Right-handed alpha
Helix 115	AM7	F	96	121	Right-handed alpha
Helix 116	AM8	F	125	131	Right-handed alpha
Helix 117	AM9	F	133	146	Right-handed alpha
Helix 118	AN1	F	155	164	Right-handed alpha
Helix 119	AN2	F	168	182	Right-handed alpha
Helix 120	AN3	F	190	226	Right-handed alpha
Helix 121	AN4	F	226	233	Right-handed alpha
Helix 122	AN5	F	234	246	Right-handed alpha
Helix 123	AN6	F	247	254	Right-handed alpha
Helix 124	AN7	F	255	260	Right-handed alpha
Helix 125	AN8	F	282	287	Right-handed alpha
Helix 126	AN9	F	288	293	Right-handed alpha
Helix 127	AO1	F	298	320	Right-handed alpha
Helix 128	AO2	F	328	346	Right-handed alpha
Helix 129	AO3	F	369	380	Right-handed alpha
Helix 130	AO4	F	382	389	Right-handed alpha
Helix 131	AO5	F	410	414	Right-handed 310
Helix 132	AO6	F	415	422	Right-handed alpha
Helix 133	AO7	F	438	457	Right-handed alpha
Helix 134	AO8	G	151	164	Right-handed alpha
Helix 135	AO9	G	177	189	Right-handed alpha
Helix 136	AP1	G	195	200	Right-handed 310
Helix 137	AP2	G	237	262	Right-handed alpha
Helix 138	AP3	G	289	330	Right-handed alpha
Helix 139	AP4	G	349	363	Right-handed alpha
Helix 140	AP5	G	385	398	Right-handed alpha
Helix 141	AP6	G	447	456	Right-handed alpha
Helix 142	AP7	G	457	459	Right-handed 310
Helix 143	AP8	K	13	30	Right-handed alpha
Helix 144	AP9	K	36	47	Right-handed alpha
Helix 145	AQ1	K	60	64	Right-handed 310
Helix 146	AQ2	K	65	75	Right-handed alpha
Helix 147	AQ3	K	83	92	Right-handed alpha
Helix 148	AQ4	K	110	126	Right-handed alpha
Helix 149	AQ5	B	364	370	Right-handed alpha
Helix 150	AQ6	B	373	389	Right-handed alpha
Helix 151	AQ7	B	399	407	Right-handed alpha
Helix 152	AQ8	B	412	423	Right-handed alpha
Helix 153	AQ9	B	425	433	Right-handed alpha

There are 19 sheets in PDB entry 5GAP. 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,

There are 4 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	981	983	first strand
Strand 2	A	967	970	anti-parallel
Strand 3	A	1089	1091	parallel
Strand 4	A	1097	1098	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	1013	1014	first strand
Strand 2	A	1158	1164	parallel
Strand 3	A	1167	1174	anti-parallel
Strand 4	A	1046	1053	anti-parallel
Strand 5	A	1246	1251	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	1258	1262	first strand
Strand 2	A	1265	1271	anti-parallel
Strand 3	A	1296	1304	anti-parallel
Strand 4	A	1285	1289	anti-parallel

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There are 2 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	1414	1417	first strand
Strand 2	A	1422	1425	anti-parallel

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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	A	1825	1827	first strand
Strand 2	A	1573	1576	anti-parallel
Strand 3	F	390	392	anti-parallel

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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	A	1678	1683	first strand
Strand 2	A	1701	1711	anti-parallel
Strand 3	A	1727	1739	anti-parallel
Strand 4	A	1773	1778	parallel
Strand 5	A	1783	1788	anti-parallel
Strand 6	A	1715	1716	anti-parallel

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There are 6 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	1955	1957	first strand
Strand 2	A	1932	1935	parallel
Strand 3	A	1849	1853	parallel
Strand 4	A	1877	1882	anti-parallel
Strand 5	A	1888	1894	anti-parallel
Strand 6	A	1985	1990	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	H	166	172	first strand
Strand 2	H	460	465	anti-parallel
Strand 3	H	452	456	anti-parallel
Strand 4	H	440	445	anti-parallel

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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	H	180	183	first strand
Strand 2	H	189	193	anti-parallel
Strand 3	H	199	203	anti-parallel
Strand 4	H	208	211	anti-parallel

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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	H	221	225	first strand
Strand 2	H	233	238	anti-parallel
Strand 3	H	243	248	anti-parallel
Strand 4	H	255	261	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	H	268	273	first strand
Strand 2	H	279	284	anti-parallel
Strand 3	H	289	293	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	H	310	315	first strand
Strand 2	H	321	326	anti-parallel
Strand 3	H	331	335	anti-parallel
Strand 4	H	340	341	anti-parallel

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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	H	354	357	first strand
Strand 2	H	364	367	anti-parallel
Strand 3	H	372	376	anti-parallel
Strand 4	H	387	390	anti-parallel

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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	H	396	400	first strand
Strand 2	H	409	414	anti-parallel
Strand 3	H	418	423	anti-parallel
Strand 4	H	429	434	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	D	8	9	first strand
Strand 2	D	57	62	parallel
Strand 3	D	26	31	parallel
Strand 4	D	81	86	anti-parallel
Strand 5	D	89	90	anti-parallel

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There are 4 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	366	371	first strand
Strand 2	G	378	384	anti-parallel
Strand 3	G	337	344	anti-parallel
Strand 4	G	424	426	anti-parallel

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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	G	366	371	first strand
Strand 2	G	378	384	anti-parallel
Strand 3	G	337	344	anti-parallel
Strand 4	G	431	432	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	G	406	408	first strand
Strand 2	G	415	417	anti-parallel

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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	K	33	35	first strand
Strand 2	K	100	103	anti-parallel
Strand 3	K	49	55	anti-parallel
Strand 4	K	78	81	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: 5GAP

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