Contacts of the strand formed by residues 64 - 79 (chain O) in PDB entry 2AXT
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 TYR 64 (chain O).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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56O TYR* 3.2 43.5 - + - -
57O PRO 3.4 8.0 + - - -
58O ILE* 4.2 5.6 - - + -
59O ASP* 2.8 46.6 + - + +
60O SER 4.0 3.1 - - - -
62O GLN* 2.9 37.0 + - + +
63O THR* 1.3 80.7 - - - +
65O ARG* 1.3 56.9 + - - +
110O GLU* 3.7 4.5 - - - +
111O LEU* 2.7 54.4 + - + +
113O VAL* 4.0 15.8 - - + +
119O LEU* 6.0 0.7 - - + -
269O ILE* 4.5 6.7 - - + -
270O GLU 3.4 10.3 - - - +
271O PRO* 4.2 13.5 - - + -
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Residues in contact with ARG 65 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63O THR* 4.2 1.5 + - + -
64O TYR* 1.3 74.8 - - - +
66O ILE* 1.3 81.8 + - - +
67O ALA* 4.0 3.1 - - - +
108O GLN* 3.7 34.8 + - - +
109O GLY* 3.1 21.8 + - - +
110O GLU* 3.6 23.4 - - + +
111O LEU* 3.4 8.1 - - - +
124O GLU* 4.4 8.5 - - - +
269O ILE* 3.3 7.8 - - - +
270O GLU* 2.8 32.6 + - + +
271O PRO 5.0 7.2 - - - +
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Residues in contact with ILE 66 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65O ARG* 1.3 81.8 + - - +
67O ALA* 1.3 66.7 + - - +
68O ARG 4.0 21.3 - - - +
69O LEU* 4.0 17.5 - - + +
107O ILE 4.7 0.9 - - - +
108O GLN* 3.4 17.3 - - - +
109O GLY 2.9 16.4 + - - +
111O LEU* 4.1 17.9 - - + -
121O PHE* 3.4 42.0 - - + -
168O PHE* 5.5 6.3 - - + -
267O ALA* 4.7 8.5 - - + -
268O SER 3.6 13.0 - - - +
269O ILE* 4.3 14.4 - - + -
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Residues in contact with ALA 67 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65O ARG* 4.0 6.8 + - - +
66O ILE* 1.3 74.4 - - - +
68O ARG* 1.3 61.4 + - + +
106O GLN* 4.7 1.7 - - - +
107O ILE 4.5 0.3 - - - -
108O GLN* 3.3 23.5 - - - +
268O SER* 2.5 26.2 + - - +
269O ILE* 4.5 0.2 - - - +
270O GLU* 3.9 30.1 - - - +
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Residues in contact with ARG 68 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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373C ASN* 4.1 18.2 - - - +
45O CYS* 4.3 0.4 - - - +
46O PRO* 3.3 40.8 - - - +
66O ILE* 4.0 3.4 - - - -
67O ALA* 1.3 82.4 - - + +
69O LEU* 1.3 61.4 + - - +
70O CYS* 4.0 2.2 + - - +
105O ASP* 2.9 42.6 + - - +
106O GLN* 4.3 9.8 - - + +
107O ILE 3.5 3.6 - - - -
266O TYR* 4.3 16.5 - - + -
267O ALA* 3.2 4.9 + - - -
268O SER* 2.9 35.1 + - - +
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Residues in contact with LEU 69 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66O ILE* 4.0 17.9 - - + +
68O ARG* 1.3 72.5 - - - +
70O CYS* 1.3 70.8 + - - +
71O LEU* 4.6 8.1 - - + -
105O ASP* 4.1 2.9 - - - -
107O ILE* 2.7 56.3 + - + +
121O PHE* 3.8 29.8 - - + -
151O LEU* 4.8 9.0 - - + -
225O LEU* 3.9 30.3 - - + -
265O PHE* 4.2 2.7 - - + -
266O TYR 3.3 16.8 - - - +
267O ALA* 4.2 5.8 - - + +
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Residues in contact with CYS 70 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45O CYS* 2.1 51.1 - - + -
68O ARG* 4.0 7.2 + - + +
69O LEU* 1.3 74.8 - - - +
71O LEU* 1.3 72.3 + - - +
72O GLN* 4.5 1.8 - - - -
103O SER* 5.1 3.6 - - - -
104O LEU 3.3 13.2 - - - -
105O ASP* 3.2 20.6 - - - +
265O PHE* 2.9 29.8 - - - +
266O TYR* 3.2 15.9 + - + +
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Residues in contact with LEU 71 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69O LEU* 4.6 11.2 - - + -
70O CYS* 1.3 78.9 - - - +
72O GLN* 1.3 61.2 + - - +
73O PRO* 3.5 5.1 - - - +
104O LEU* 2.8 54.4 + - + +
107O ILE* 4.3 7.4 - - + -
146O PHE* 4.7 1.3 - - + -
148O VAL* 3.4 39.7 - - + -
151O LEU* 5.4 1.1 - - + -
223O ILE* 5.2 4.0 - - + -
225O LEU* 4.3 14.8 - - + -
241O PHE* 3.5 41.7 - - + -
264O VAL 3.5 1.6 - - - -
265O PHE* 3.8 12.8 - - + -
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Residues in contact with GLN 72 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43O ASN* 4.1 3.0 + - - +
44O LYS* 3.1 41.1 + - - +
45O CYS* 2.6 48.2 + - - +
70O CYS* 4.0 1.0 - - - -
71O LEU* 1.3 70.3 - - - +
73O PRO* 1.3 77.0 - - + +
74O THR* 3.8 5.8 + - - +
103O SER* 3.5 14.4 - - - +
241O PHE* 3.8 2.9 - - - -
263O GLY* 3.1 0.7 - - - -
264O VAL* 2.7 51.6 + - + +
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Residues in contact with PRO 73 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43O ASN* 5.6 0.5 + - - -
71O LEU 3.5 9.8 - - - +
72O GLN* 1.3 94.3 - - - +
74O THR* 1.3 61.1 + - - +
76O PHE* 3.5 25.8 - - + -
102O THR* 2.8 45.4 + - + +
103O SER* 3.5 16.4 - - - +
146O PHE* 3.9 15.5 - - + -
241O PHE* 4.2 5.3 - - + -
261O ILE* 4.1 6.3 - - + -
263O GLY* 4.2 4.7 - - - -
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Residues in contact with THR 74 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72O GLN* 3.8 6.2 + - - +
73O PRO* 1.3 77.6 + - - +
75O THR* 1.3 70.3 + - - +
76O PHE* 5.0 4.8 - - - -
262O GLN 3.0 16.7 + - - +
263O GLY* 3.7 12.4 - - - -
264O VAL* 4.3 10.2 - - + +
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Residues in contact with THR 75 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74O THR* 1.3 90.9 + - - +
76O PHE* 1.3 69.2 + - - +
77O LEU* 3.3 24.0 - - + -
93O PRO* 5.6 7.0 - - + -
261O ILE* 3.5 7.4 - - - +
262O GLN* 2.8 49.8 + - - +
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Residues in contact with PHE 76 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73O PRO* 3.5 32.1 - - + -
74O THR 4.9 2.9 - - - -
75O THR* 1.3 81.5 - - - +
77O LEU* 1.3 65.8 + - - +
78O VAL* 5.8 0.2 - - + -
93O PRO* 3.9 1.4 - - - +
94O THR* 3.2 38.4 + - - +
96O LEU* 5.1 10.5 - - + -
102O THR* 4.2 10.5 - - + -
132O VAL* 3.9 34.1 - - + -
134O VAL* 4.2 18.6 - - + -
144O LEU* 4.2 16.2 - - + -
146O PHE* 4.7 5.6 - + + -
259O VAL* 4.7 4.3 - - + -
260O LYS 3.5 3.6 - - - +
261O ILE* 3.6 29.8 - - + -
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Residues in contact with LEU 77 (chain O).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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75O THR* 3.3 28.0 - - + +
76O PHE* 1.3 80.3 - - - +
78O VAL* 1.3 70.3 + - - +
79O LYS 4.2 0.4 - - - -
91O PHE* 3.6 37.6 - - + +
92O VAL 3.1 14.6 - - - +
93O PRO* 4.5 4.3 - - + -
259O VAL* 3.3 3.8 - - - +
260O LYS* 3.0 43.0 + - + +
262O GLN* 4.3 23.3 - - + +
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Residues in contact with VAL 78 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76O PHE* 5.3 0.4 - - + -
77O LEU* 1.3 81.6 - - - +
79O LYS* 1.3 68.7 + - - +
80O GLU* 3.0 5.9 + - - -
92O VAL* 2.9 23.7 + - - +
94O THR* 3.8 23.3 - - + +
134O VAL* 4.6 6.7 - - + -
136O MET* 4.1 15.7 - - - +
142O ILE* 4.4 15.3 - - + -
257O HIS* 3.7 31.2 - - + +
258O GLU 3.3 14.8 - - - +
259O VAL* 4.1 13.9 - - + -
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Residues in contact with LYS 79 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78O VAL* 1.3 77.5 - - - +
80O GLU* 1.3 68.2 + - - +
81O GLU* 3.1 7.1 + - - +
89O ALA* 5.0 8.1 - - + +
90O GLU 3.0 14.4 - - - +
91O PHE* 3.5 34.7 - - + +
257O HIS* 4.9 1.9 + - - -
258O GLU* 3.3 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
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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