Analysis of interatomic Contacts of Structural Units in PDB entry:
1YVL


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).
For CSU analysis of other PDB entry

This page provides analyses of contacts formed by:
For analysis of ligand-protein contacts, use: 3D structure can be seen in additional window with STING software for 1YVL entry

There are 4 chains in PDB entry 1YVL (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 2ARG 683
B
 SER 1002ARG 1683
C
 ASP 441HIS 444
D
 ASP 1441HIS 1444
Residue contacts

1. List of contacts for up to 10 consecutive residues:
Chain ID from residue number to residue number


2. Detailed analyses of contacts for any single residue:
Residue number chain ID
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There are 54 helices in PDB entry 1YVL. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
2 8Right-handed alpha
Helix 2
2
A
14 20Right-handed alpha
Helix 3
3
A
27 34Right-handed alpha
Helix 4
4
A
34 41Right-handed alpha
Helix 5
5
A
42 47Right-handed alpha
Helix 6
6
A
49 75Right-handed alpha
Helix 7
7
A
76 95Right-handed alpha
Helix 8
8
A
97 118Right-handed alpha
Helix 9
9
A
120 126Right-handed 310
Helix 10
10
A
133 178Right-handed alpha
Helix 11
11
A
188 193Right-handed alpha
Helix 12
12
A
195 234Right-handed alpha
Helix 13
13
A
234 249Right-handed alpha
Helix 14
14
A
256 287Right-handed alpha
Helix 15
15
A
292 316Right-handed alpha
Helix 16
16
A
351 355Right-handed 310
Helix 17
17
A
460 462Right-handed 310
Helix 18
18
A
463 478Right-handed alpha
Helix 19
19
A
494 507Right-handed alpha
Helix 20
20
A
515 528Right-handed alpha
Helix 21
21
A
539 544Right-handed alpha
Helix 22
22
A
553 569Right-handed alpha
Helix 23
23
A
569 575Right-handed alpha
Helix 24
24
A
583 592Right-handed alpha
Helix 25
25
A
636 640Right-handed alpha
Helix 26
26
A
643 651Right-handed alpha
Helix 27
27
A
672 678Right-handed alpha
Helix 28
28
A
679 681Right-handed 310
Helix 29
29
B
1002 1009Right-handed alpha
Helix 30
30
B
1014 1020Right-handed alpha
Helix 31
31
B
1027 1034Right-handed alpha
Helix 32
32
B
1034 1041Right-handed alpha
Helix 33
33
B
1042 1047Right-handed alpha
Helix 34
34
B
1049 1075Right-handed alpha
Helix 35
35
B
1076 1095Right-handed alpha
Helix 36
36
B
1097 1118Right-handed alpha
Helix 37
37
B
1135 1178Right-handed alpha
Helix 38
38
B
1200 1234Right-handed alpha
Helix 39
39
B
1234 1249Right-handed alpha
Helix 40
40
B
1256 1287Right-handed alpha
Helix 41
41
B
1292 1316Right-handed alpha
Helix 42
42
B
1351 1355Right-handed 310
Helix 43
43
B
1460 1462Right-handed 310
Helix 44
44
B
1463 1478Right-handed alpha
Helix 45
45
B
1494 1507Right-handed alpha
Helix 46
46
B
1515 1527Right-handed alpha
Helix 47
47
B
1539 1544Right-handed alpha
Helix 48
48
B
1553 1569Right-handed alpha
Helix 49
49
B
1569 1575Right-handed alpha
Helix 50
50
B
1583 1591Right-handed alpha
Helix 51
51
B
1635 1640Right-handed alpha
Helix 52
52
B
1643 1651Right-handed alpha
Helix 53
53
B
1672 1678Right-handed alpha
Helix 54
54
B
1679 1681Right-handed 310
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There are 15 sheets in PDB entry 1YVL. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O,

There are 4 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
317 324first strand
Strand 2
A
340 347anti-parallel
Strand 3
A
403 411anti-parallel
Strand 4
A
380 382anti-parallel
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There are 2 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
334 336first strand
Strand 2
A
456 458parallel
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There are 4 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
387 389first strand
Strand 2
A
359 364anti-parallel
Strand 3
A
433 441anti-parallel
Strand 4
A
444 451anti-parallel
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There are 2 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
391 392first strand
Strand 2
A
400 401anti-parallel
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There are 2 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
492 493first strand
Strand 2
A
537 538anti-parallel
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There are 3 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
599 603first strand
Strand 2
A
611 618anti-parallel
Strand 3
A
627 630anti-parallel
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There are 3 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
599 603first strand
Strand 2
A
611 618anti-parallel
Strand 3
A
634 635anti-parallel
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There are 2 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
653 654first strand
Strand 2
A
660 661anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
1317 1324first strand
Strand 2
B
1341 1347anti-parallel
Strand 3
B
1400 1407anti-parallel
Strand 4
B
1391 1392anti-parallel
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There are 2 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
1334 1336first strand
Strand 2
B
1456 1458parallel
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There are 4 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
1387 1389first strand
Strand 2
B
1359 1364anti-parallel
Strand 3
B
1433 1441anti-parallel
Strand 4
B
1444 1451anti-parallel
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There are 2 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
1380 1382first strand
Strand 2
B
1409 1411anti-parallel
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There are 2 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
1492 1493first strand
Strand 2
B
1537 1538anti-parallel
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There are 3 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
1599 1603first strand
Strand 2
B
1612 1616anti-parallel
Strand 3
B
1629 1630anti-parallel
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There are 2 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
1653 1654first strand
Strand 2
B
1660 1661anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il