Analysis of interatomic Contacts of Structural Units in PDB entry:
3KDP


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 3KDP entry

There are 2 chains in PDB entry 3KDP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 19TYR 1016
B
 ASN 18PHE 295
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 are115 helices in PDB entry 3KDP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
21 26Right-handed alpha
Helix 2
2
A
27 31Right-handed 310
Helix 3
3
A
40 47Right-handed alpha
Helix 4
4
A
61 69Right-handed alpha
Helix 5
5
A
85 89Right-handed 310
Helix 6
6
A
92 112Right-handed alpha
Helix 7
7
A
120 140Right-handed alpha
Helix 8
8
A
150 155Right-handed alpha
Helix 9
9
A
176 178Right-handed 310
Helix 10
10
A
208 213Right-handed alpha
Helix 11
11
A
254 258Right-handed 310
Helix 12
12
A
260 268Right-handed alpha
Helix 13
13
A
277 302Right-handed alpha
Helix 14
14
A
313 323Right-handed alpha
Helix 15
15
A
329 345Right-handed alpha
Helix 16
16
A
355 360Right-handed alpha
Helix 17
17
A
361 363Right-handed 310
Helix 18
18
A
386 389Right-handed 310
Helix 19
19
A
408 421Right-handed alpha
Helix 20
20
A
434 438Right-handed 310
Helix 21
21
A
443 457Right-handed alpha
Helix 22
22
A
504 508Right-handed 310
Helix 23
23
A
524 540Right-handed alpha
Helix 24
24
A
593 602Right-handed alpha
Helix 25
25
A
613 625Right-handed alpha
Helix 26
26
A
633 639Right-handed alpha
Helix 27
27
A
644 648Right-handed 310
Helix 28
28
A
649 653Right-handed 310
Helix 29
29
A
660 664Right-handed alpha
Helix 30
30
A
667 677Right-handed alpha
Helix 31
31
A
687 701Right-handed alpha
Helix 32
32
A
714 719Right-handed alpha
Helix 33
33
A
732 738Right-handed alpha
Helix 34
34
A
749 775Right-handed alpha
Helix 35
35
A
776 789Right-handed alpha
Helix 36
36
A
796 801Right-handed alpha
Helix 37
37
A
808 814Right-handed alpha
Helix 38
38
A
815 818Right-handed 310
Helix 39
39
A
823 827Right-handed 310
Helix 40
40
A
839 847Right-handed alpha
Helix 41
41
A
849 868Right-handed alpha
Helix 42
42
A
872 878Right-handed 310
Helix 43
43
A
879 884Right-handed alpha
Helix 44
44
A
900 928Right-handed alpha
Helix 45
45
A
936 941Right-handed alpha
Helix 46
46
A
946 964Right-handed alpha
Helix 47
47
A
966 972Right-handed alpha
Helix 48
48
A
977 981Right-handed 310
Helix 49
49
A
984 1005Right-handed alpha
Helix 50
50
A
1008 1015Right-handed alpha
Helix 51
51
B
32 38Right-handed alpha
Helix 52
52
B
39 56Right-handed alpha
Helix 53
53
B
57 59Right-handed 310
Helix 54
54
B
98 110Right-handed alpha
Helix 55
55
B
152 156Right-handed 310
Helix 56
56
G
23 46Right-handed alpha
Helix 57
57
C
21 26Right-handed alpha
Helix 58
58
C
27 31Right-handed 310
Helix 59
59
C
40 47Right-handed alpha
Helix 60
60
C
61 69Right-handed alpha
Helix 61
61
C
80 88Right-handed alpha
Helix 62
62
C
89 91Right-handed 310
Helix 63
63
C
93 114Right-handed alpha
Helix 64
64
C
120 142Right-handed alpha
Helix 65
65
C
143 145Right-handed 310
Helix 66
66
C
150 155Right-handed alpha
Helix 67
67
C
176 178Right-handed 310
Helix 68
68
C
208 213Right-handed alpha
Helix 69
69
C
254 258Right-handed 310
Helix 70
70
C
260 268Right-handed alpha
Helix 71
71
C
277 299Right-handed alpha
Helix 72
72
C
301 306Right-handed alpha
Helix 73
73
C
309 321Right-handed alpha
Helix 74
74
C
326 345Right-handed alpha
Helix 75
75
C
355 360Right-handed alpha
Helix 76
76
C
361 363Right-handed 310
Helix 77
77
C
386 389Right-handed 310
Helix 78
78
C
408 421Right-handed alpha
Helix 79
79
C
434 438Right-handed 310
Helix 80
80
C
443 457Right-handed alpha
Helix 81
81
C
504 508Right-handed 310
Helix 82
82
C
524 540Right-handed alpha
Helix 83
83
C
593 602Right-handed alpha
Helix 84
84
C
613 625Right-handed alpha
Helix 85
85
C
633 639Right-handed alpha
Helix 86
86
C
644 648Right-handed 310
Helix 87
87
C
649 653Right-handed 310
Helix 88
88
C
660 664Right-handed alpha
Helix 89
89
C
667 677Right-handed alpha
Helix 90
90
C
687 701Right-handed alpha
Helix 91
91
C
714 719Right-handed alpha
Helix 92
92
C
732 738Right-handed alpha
Helix 93
93
C
749 775Right-handed alpha
Helix 94
94
C
776 789Right-handed alpha
Helix 95
95
C
796 801Right-handed alpha
Helix 96
96
C
808 814Right-handed alpha
Helix 97
97
C
815 818Right-handed 310
Helix 98
98
C
823 827Right-handed 310
Helix 99
99
C
839 847Right-handed alpha
Helix 100
100
C
849 868Right-handed alpha
Helix 101
101
C
872 878Right-handed 310
Helix 102
102
C
879 884Right-handed alpha
Helix 103
103
C
901 928Right-handed alpha
Helix 104
104
C
936 941Right-handed alpha
Helix 105
105
C
946 964Right-handed alpha
Helix 106
106
C
966 972Right-handed alpha
Helix 107
107
C
977 981Right-handed 310
Helix 108
108
C
984 1005Right-handed alpha
Helix 109
109
C
1008 1015Right-handed alpha
Helix 110
110
D
32 38Right-handed alpha
Helix 111
111
D
39 56Right-handed alpha
Helix 112
112
D
57 59Right-handed 310
Helix 113
113
D
98 110Right-handed alpha
Helix 114
114
D
152 156Right-handed 310
Helix 115
115
H
23 46Right-handed alpha
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There are 18 sheets in PDB entry 3KDP. 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, P, Q, R,

There are 6 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
169 174first strand
Strand 2
A
161 166anti-parallel
Strand 3
A
183 184anti-parallel
Strand 4
A
241 253anti-parallel
Strand 5
A
195 207anti-parallel
Strand 6
A
218 220anti-parallel
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There are 6 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
169 174first strand
Strand 2
A
161 166anti-parallel
Strand 3
A
183 184anti-parallel
Strand 4
A
241 253anti-parallel
Strand 5
A
195 207anti-parallel
Strand 6
A
235 236anti-parallel
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There are 8 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
349 351first strand
Strand 2
A
741 743anti-parallel
Strand 3
A
723 727parallel
Strand 4
A
705 708parallel
Strand 5
A
365 368parallel
Strand 6
A
605 610parallel
Strand 7
A
680 684parallel
Strand 8
A
655 659parallel
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There are 7 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
380 384anti-parallel
Strand 3
A
576 585anti-parallel
Strand 4
A
544 552anti-parallel
Strand 5
A
497 502anti-parallel
Strand 6
A
481 487anti-parallel
Strand 7
A
468 473anti-parallel
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There are 4 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
391 392first strand
Strand 2
A
380 384anti-parallel
Strand 3
A
576 585anti-parallel
Strand 4
A
511 513parallel
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There are 2 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
891 892first strand
Strand 2
A
898 899anti-parallel
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There are 2 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
87 89first strand
Strand 2
B
298 300parallel
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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
B
123 124first strand
Strand 2
B
148 149parallel
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There are 2 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
211 214first strand
Strand 2
B
275 278anti-parallel
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There are 6 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
169 174first strand
Strand 2
C
161 166anti-parallel
Strand 3
C
183 184anti-parallel
Strand 4
C
241 253anti-parallel
Strand 5
C
195 207anti-parallel
Strand 6
C
218 220anti-parallel
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There are 6 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
169 174first strand
Strand 2
C
161 166anti-parallel
Strand 3
C
183 184anti-parallel
Strand 4
C
241 253anti-parallel
Strand 5
C
195 207anti-parallel
Strand 6
C
235 236anti-parallel
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There are 8 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
349 351first strand
Strand 2
C
741 743anti-parallel
Strand 3
C
723 727parallel
Strand 4
C
705 708parallel
Strand 5
C
365 368parallel
Strand 6
C
605 609parallel
Strand 7
C
680 684parallel
Strand 8
C
655 659parallel
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There are 7 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
391 392first strand
Strand 2
C
380 384anti-parallel
Strand 3
C
576 585anti-parallel
Strand 4
C
544 552anti-parallel
Strand 5
C
497 502anti-parallel
Strand 6
C
481 487anti-parallel
Strand 7
C
468 473anti-parallel
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There are 4 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
391 392first strand
Strand 2
C
380 384anti-parallel
Strand 3
C
576 585anti-parallel
Strand 4
C
511 513parallel
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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
C
891 892first strand
Strand 2
C
898 899anti-parallel
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There are 2 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
87 89first strand
Strand 2
D
298 300parallel
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There are 2 strands in Q sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
123 124first strand
Strand 2
D
148 149parallel
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There are 2 strands in R sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
211 214first strand
Strand 2
D
275 278anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il