Contacts of the strand formed by residues 58 - 72 (chain A) in PDB entry 3MWZ
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 THR 58 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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3A LEU* 4.5 0.4 - - - -
52A THR* 4.1 7.6 - - - -
53A GLN 3.2 11.0 - - - +
54A THR* 2.9 25.2 + - - +
56A ALA 4.8 0.5 + - - -
57A GLY* 1.3 76.5 + - - -
59A ASN* 1.3 75.5 + - - +
60A TYR* 3.6 35.9 + - + +
97A ILE 3.6 1.4 - - - +
98A TYR* 3.6 4.5 - - - -
99A ARG* 2.8 36.1 + - - +
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Residues in contact with ASN 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2A GLU* 5.3 0.2 - - - -
3A LEU* 2.9 39.1 + - - +
9A TYR* 3.3 19.8 + - - +
51A GLU 3.8 0.2 - - - +
52A THR* 3.1 10.9 - - - -
53A GLN* 2.9 51.4 + - + -
58A THR* 1.3 71.6 - - - +
60A TYR* 1.3 60.6 - - - +
61A ARG 3.9 0.4 + - - -
96A VAL* 3.7 16.4 - - + +
97A ILE 3.4 2.0 - - - -
98A TYR* 3.5 28.4 - - - +
108A ASN* 5.5 1.0 - - - +
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Residues in contact with TYR 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A GLU* 4.6 0.9 + - - -
20A TYR* 3.9 16.6 - + - -
23A MSE 3.6 31.4 - - + -
51A GLU 3.7 3.1 - - - -
52A THR* 3.4 24.0 - - + -
58A THR* 3.6 29.6 + - + +
59A ASN* 1.3 71.9 - - - +
61A ARG* 1.3 60.2 + - - +
62A LEU* 3.7 16.8 + - + +
95A THR 3.4 2.8 - - - +
96A VAL* 3.3 3.4 - - - -
97A ILE* 2.8 53.3 + - + +
99A ARG* 2.9 43.9 + - + -
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Residues in contact with ARG 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9A TYR* 3.4 42.8 - - + +
49A LYS 3.9 0.9 - - - +
50A VAL* 3.7 2.6 - - - -
51A GLU* 2.8 77.5 + - - +
59A ASN 3.9 1.2 - - - -
60A TYR* 1.3 69.6 - - - +
62A LEU* 1.3 63.2 + - - +
63A THR* 4.1 1.2 + - - +
94A THR* 3.9 24.2 - - + -
95A THR 3.3 6.1 - - - +
96A VAL* 4.0 16.1 - - + +
116A SO4 2.8 42.0 + - - -
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Residues in contact with LEU 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20A TYR* 3.6 29.6 - - + +
23A MSE 4.3 4.0 - - + -
24A ALA* 3.8 20.9 - - + +
47A VAL* 5.0 1.6 - - + -
49A LYS 3.5 3.4 - - - +
50A VAL* 3.9 31.9 - - + -
60A TYR* 4.2 20.0 - - + +
61A ARG* 1.3 80.4 - - - +
63A THR* 1.3 62.4 + - - +
64A LEU* 3.8 14.8 + - + +
93A CYS 3.7 1.0 - - - +
94A THR* 3.4 4.0 - - - +
95A THR* 2.8 40.9 + - + +
97A ILE* 3.9 19.3 - - + -
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Residues in contact with THR 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A VAL 3.7 0.5 - - - -
48A MSE 2.7 42.6 + - + -
49A LYS* 2.9 33.2 + - + +
51A GLU* 4.6 9.2 + - - -
61A ARG* 5.0 1.0 + - - +
62A LEU* 1.3 72.6 - - - +
64A LEU* 1.3 58.0 + - - +
92A THR* 3.8 24.2 - - + -
93A CYS 3.6 2.9 - - - -
94A THR* 4.2 17.7 + - - +
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Residues in contact with LEU 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24A ALA* 3.7 32.1 - - + +
28A THR* 3.4 24.9 - - - +
44A VAL* 4.4 4.9 - - + -
46A GLU 3.4 4.0 - - - +
47A VAL* 3.9 17.3 - - + -
48A MSE 3.6 6.3 - - - +
62A LEU* 3.8 19.7 - - + +
63A THR* 1.3 81.4 - - - +
65A LYS* 1.3 60.8 + - - +
66A VAL* 3.9 14.6 - - + -
92A THR* 3.3 5.7 - - - -
93A CYS 2.8 41.1 + - - +
95A THR* 4.1 19.1 - - + -
110A PHE* 4.5 5.8 - - + -
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Residues in contact with LYS 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44A VAL* 3.7 2.1 - - - +
45A VAL* 2.8 37.0 + - + -
46A GLU* 2.9 24.1 + - + +
48A MSE 3.8 25.2 - - + +
64A LEU* 1.3 73.4 - - - +
66A VAL* 1.3 58.8 + - - +
90A GLN* 3.9 34.0 + - + +
91A ARG* 3.5 23.4 - - - +
92A THR* 2.8 28.5 + - - +
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Residues in contact with VAL 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A THR* 3.9 19.3 - - + +
42A ASP* 3.6 29.4 - - + -
43A THR 3.3 15.7 - - - +
44A VAL* 4.8 1.1 - - - -
45A VAL* 4.4 2.2 - - - +
64A LEU* 3.9 19.7 - - + -
65A LYS* 1.3 78.5 - - - +
67A ALA* 1.3 63.9 + - - +
89A ALA 3.9 0.3 - - - +
90A GLN* 3.4 3.8 - - - -
91A ARG* 2.9 46.5 + - + +
93A CYS* 3.8 27.8 - - + -
110A PHE* 4.7 1.6 - - + -
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Residues in contact with ALA 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42A ASP* 3.5 6.8 - - - -
43A THR* 2.8 31.9 + - - +
45A VAL* 4.0 10.9 - - + +
66A VAL* 1.3 78.1 - - - +
68A GLU* 1.3 63.8 + - - +
84A ALA* 3.7 22.4 - - + -
85A ASN 5.3 0.2 - - - +
88A ALA* 4.2 9.0 - - + -
89A ALA 3.5 16.4 - - - +
90A GLN* 4.2 9.4 - - + +
91A ARG* 4.7 2.9 - - - +
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Residues in contact with GLU 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38A LYS* 3.9 16.6 + - - +
39A THR* 4.1 6.6 + - - -
40A HIS* 3.8 31.0 + - + +
42A ASP* 3.3 13.7 + - - +
67A ALA* 1.3 71.9 - - - +
69A SER* 1.3 74.1 + - - +
70A THR* 5.6 0.2 - - - +
84A ALA* 3.3 18.7 - - - +
85A ASN 4.5 1.0 + - - -
88A ALA* 4.1 14.9 - - + +
89A ALA 4.4 3.4 + - - -
91A ARG* 5.0 2.0 - - - +
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Residues in contact with SER 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A HIS* 3.5 17.0 - - - +
41A PHE* 2.7 31.7 + - - +
43A THR* 3.8 16.6 - - - -
67A ALA 3.4 2.0 + - - -
68A GLU* 1.3 83.9 - - - +
70A THR* 1.3 61.4 + - - +
71A CYS* 2.9 22.8 + - - +
82A CYS* 3.1 26.0 - - - -
83A GLN 4.3 2.7 - - - -
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Residues in contact with THR 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A HIS* 3.9 9.7 + - - -
69A SER* 1.3 77.1 - - - +
71A CYS* 1.3 60.6 + - - +
72A GLU* 4.0 2.1 + - - +
81A THR 4.4 4.2 + - - -
82A CYS* 4.1 9.4 - - - -
83A GLN 3.2 21.2 + - - +
85A ASN* 3.8 33.7 - - - +
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Residues in contact with CYS 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A HIS* 3.3 6.0 - - - -
41A PHE* 2.9 35.6 + - + -
69A SER* 2.9 9.4 + - - +
70A THR* 1.3 81.0 - - - +
72A GLU* 1.3 59.6 + - - +
75A SER* 3.8 13.0 - - - +
76A THR 5.2 1.3 - - - +
81A THR* 4.0 9.6 - - - -
82A CYS* 2.0 55.4 - - - -
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Residues in contact with GLU 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39A THR* 3.5 9.2 - - - +
40A HIS* 3.6 26.7 + - + +
41A PHE* 3.4 5.5 - - - -
70A THR 4.0 2.1 + - - +
71A CYS* 1.3 73.7 - - - +
73A LEU* 1.3 58.5 + - - +
74A THR* 3.1 22.6 + - + +
75A SER* 2.6 36.0 + - - +
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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
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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