Contacts of the strand formed by residues 81 - 97 (chain B) in PDB entry 4OWW
Residue contacts within the protein 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). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with CYS 81 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51B ASN* 5.0 6.5 - - - +
77B VAL* 3.8 2.8 - - - +
78B PHE 2.8 28.0 + - - +
79B LYS* 3.8 9.6 - - - -
80B GLY* 1.3 82.8 - - - +
82B LEU* 1.3 58.9 + - - +
83B THR* 2.8 23.1 + - - +
109B SER* 3.2 30.1 - - - +
110B GLU 5.2 0.2 - - - -
111B PRO* 4.1 17.0 - - - -
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Residues in contact with LEU 82 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B ILE* 3.4 25.1 - - + +
11B LYS* 4.6 2.0 - - - -
12B PRO* 3.7 38.1 - - + -
50B ILE* 4.0 19.8 - - + +
75B ALA* 3.9 11.9 - - + -
76B SER 3.7 11.2 - - - +
77B VAL* 4.4 7.6 - - + +
80B GLY 4.2 1.2 + - - -
81B CYS* 1.3 69.2 - - - +
83B THR* 1.3 60.6 + - - +
108B PHE* 3.5 28.2 + - + +
109B SER* 2.5 35.5 + - - +
110B GLU 5.2 1.8 + - - +
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Residues in contact with THR 83 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B THR* 4.7 2.6 - - + +
50B ILE* 4.9 2.0 - - - -
51B ASN* 3.6 18.5 - - + +
52B ILE 4.5 0.2 - - - -
53B SER* 3.3 27.6 - - - +
75B ALA* 3.3 7.8 - - - -
76B SER 2.8 34.3 + - - -
78B PHE* 3.8 13.8 + - + +
81B CYS* 2.8 19.1 + - - +
82B LEU* 1.3 74.9 + - - +
84B LEU* 1.3 70.6 + - - +
85B TYR* 3.4 24.8 - - + +
109B SER* 4.6 0.2 - - - -
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Residues in contact with LEU 84 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B ILE* 4.0 26.5 - - + -
17B LEU* 3.7 24.0 - - + -
19B LEU* 4.5 2.9 - - + -
21B PHE* 3.9 21.3 - - + -
43B VAL* 4.9 0.2 - - + -
50B ILE* 4.1 18.7 - - + +
51B ASN 2.7 18.2 + - - +
52B ILE* 3.3 13.0 - - + -
53B SER 3.0 26.2 + - - -
70B LEU* 3.8 30.1 - - + -
74B TYR 3.7 9.6 - - - +
75B ALA* 4.7 0.7 - - - +
83B THR* 1.3 74.5 - - - +
85B TYR* 1.3 70.0 + - - +
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Residues in contact with TYR 85 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ILE* 4.4 8.5 - - - -
53B SER* 3.6 12.8 - - - -
55B TRP* 3.6 20.2 - + - -
70B LEU* 4.2 3.3 - - - +
73B GLY* 3.1 6.6 - - - -
74B TYR* 2.8 59.9 + + + +
76B SER* 3.2 28.3 - - - -
78B PHE* 3.3 22.5 - - - +
83B THR* 3.4 30.7 - - + +
84B LEU* 1.3 75.5 - - - +
86B THR* 1.3 61.9 + - - +
6L T 3.7 8.5 - - + -
7L T 2.7 49.0 + - + +
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Residues in contact with THR 86 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ILE* 4.6 2.5 - - - +
53B SER 4.9 4.8 + - - -
70B LEU* 3.7 11.6 - - + +
74B TYR* 3.4 5.0 - - - -
85B TYR* 1.3 73.7 - - - +
87B GLY* 1.3 61.7 + - - +
90B GLY* 3.7 3.1 - - - -
91B ASP* 3.6 33.4 - - - +
92B LEU* 3.5 29.0 - - - +
4L T 3.1 50.6 + - + -
6L T 3.5 8.1 - - - +
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Residues in contact with GLY 87 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72B LYS 3.0 24.0 + - - -
74B TYR* 3.5 19.9 - - - -
85B TYR 3.7 1.8 + - - -
86B THR* 1.3 77.7 - - - +
88B ARG* 1.3 67.0 + - - -
89B GLY 3.4 0.3 + - - -
90B GLY* 3.1 14.4 + - - -
4L T 3.5 15.0 + - - -
5L T 5.4 0.2 - - - -
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Residues in contact with ARG 88 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72B LYS* 3.8 15.6 - - - +
87B GLY* 1.3 70.9 - - - -
89B GLY* 1.3 63.3 + - - +
90B GLY 3.1 1.1 + - - -
3L T 4.5 16.8 + - - +
4L T 2.9 55.0 + - + +
5L T 2.9 46.8 + - - +
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Residues in contact with GLY 89 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B THR* 5.1 1.2 + - - -
72B LYS* 3.3 19.3 - - - +
87B GLY 3.4 0.6 + - - -
88B ARG* 1.3 76.6 - - - +
90B GLY* 1.3 59.2 + - - +
91B ASP* 5.7 0.3 - - - -
3L T 5.2 1.8 + - - -
4L T 4.2 5.7 + - - +
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Residues in contact with GLY 90 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B THR* 3.1 21.8 - - - -
72B LYS* 3.7 6.1 - - - -
86B THR* 3.7 7.7 - - - +
87B GLY 3.1 11.3 + - - -
88B ARG 3.1 2.2 + - - -
89B GLY* 1.3 82.8 - - - +
91B ASP* 1.3 67.4 + - - +
4L T 3.7 17.0 - - - +
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Residues in contact with ASP 91 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69B ARG 3.6 1.9 - - - +
70B LEU* 3.6 4.9 - - - +
71B THR* 2.7 44.6 + - - +
86B THR* 3.6 11.6 - - - +
89B GLY 5.7 0.4 - - - -
90B GLY* 1.3 76.6 - - - +
92B LEU* 1.3 65.4 + - - +
93B GLN* 4.0 26.2 + - - +
4L T 5.4 1.6 - - + -
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Residues in contact with LEU 92 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A SER 4.8 2.9 - - - +
42A LEU* 3.7 26.3 - - + +
21B PHE* 4.2 2.2 - - + -
52B ILE* 4.1 14.4 - - + -
54B VAL* 4.0 24.2 - - + -
58B VAL* 3.6 30.0 - - + +
62B ILE* 4.2 7.4 - - + -
68B ILE* 3.7 20.9 - - + -
69B ARG 3.7 0.7 - - - -
70B LEU* 3.6 30.5 - - + -
86B THR* 3.5 18.8 - - - +
91B ASP* 1.3 75.9 - - - +
93B GLN* 1.3 66.6 + - - +
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Residues in contact with GLN 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A SER 5.9 1.7 + - - +
42A LEU* 3.3 7.4 - - - +
43A ASP 4.2 5.0 + - - +
44A ALA* 3.7 28.0 - - + +
45A LYS* 4.4 4.9 + - - +
68B ILE* 3.3 5.5 - - - +
69B ARG* 2.8 70.6 + - + +
91B ASP* 4.0 22.6 + - - +
92B LEU* 1.3 79.9 - - - +
94B LYS* 1.3 62.8 + - - +
95B ILE* 3.5 2.0 + - + +
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Residues in contact with LYS 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42A LEU* 2.8 31.6 + - + +
43A ASP* 3.7 20.7 + - - +
44A ALA* 3.0 23.9 + - - +
63B GLN* 5.8 1.0 - - - +
66B ASP* 2.8 37.8 + - + +
67B ILE 3.5 6.5 - - - +
68B ILE* 4.1 6.5 - - + -
93B GLN* 1.3 71.0 - - - +
95B ILE* 1.3 60.9 + - - +
96B GLY* 3.4 24.9 - - - +
97B GLU* 2.9 27.5 + - - -
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Residues in contact with ILE 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44A ALA* 4.2 8.7 - - + -
20B ILE* 4.1 27.4 - - + -
67B ILE* 2.9 34.4 + - + +
68B ILE 4.6 0.4 - - - +
69B ARG* 3.4 45.8 - - + +
93B GLN 3.5 8.7 + - - +
94B LYS* 1.3 76.0 - - - +
96B GLY* 1.3 59.6 + - - +
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Residues in contact with GLY 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67B ILE* 2.8 36.3 + - - +
94B LYS* 3.4 21.1 - - - +
95B ILE* 1.3 82.0 - - - +
97B GLU* 1.3 59.2 + - - +
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Residues in contact with GLU 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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308A ASP* 4.6 3.2 - - - +
312A LYS* 3.3 26.2 + - - -
335A GLN* 4.2 5.5 + - - +
65B GLY 3.3 8.7 - - - +
66B ASP* 3.9 7.9 - - - +
67B ILE* 3.7 8.3 - - - +
94B LYS* 2.9 30.1 + - - +
96B GLY* 1.3 77.5 - - - +
98B PHE* 1.3 59.7 + - + +
99B CYS* 2.5 27.9 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il