Contacts of the strand formed by residues 213 - 228 (chain A) in PDB entry 2IZW
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 213 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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73A ARG* 3.7 35.2 + - + -
74A VAL 3.5 12.1 - - - +
75A THR* 3.0 18.2 + - - +
123A ILE* 3.9 29.7 - - + +
124A VAL* 4.0 6.7 - - - +
212A THR* 1.3 72.5 - - - +
214A LEU* 1.3 63.1 + - - +
215A GLY 4.1 1.3 - - - +
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Residues in contact with LEU 214 (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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74A VAL* 2.8 16.5 + - + +
76A SER* 3.5 25.8 - - - +
84A VAL* 6.5 0.4 - - + -
120A TRP* 3.8 9.7 - - + -
122A PRO* 3.8 3.1 - - - +
123A ILE* 2.9 24.3 + - - +
124A VAL* 3.6 18.8 + - + +
162A ILE* 3.6 41.3 - - + -
205A ALA* 4.6 16.4 - - + -
206A GLN* 4.7 2.9 - - - +
207A SER* 3.7 17.0 - - - +
209A LEU* 5.1 1.6 - - + -
212A THR* 3.0 26.2 - - - +
213A THR* 1.3 73.8 - - - +
215A GLY* 1.3 56.9 + - - +
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Residues in contact with GLY 215 (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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73A ARG* 3.4 4.3 - - - +
74A VAL* 2.7 34.0 + - - +
120A TRP* 3.3 13.3 - - - -
121A GLU 2.9 14.4 - - - -
123A ILE* 3.5 14.1 - - - +
213A THR 3.6 1.8 - - - -
214A LEU* 1.3 82.2 - - - +
216A ARG* 1.3 58.5 + - - -
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Residues in contact with ARG 216 (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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70A SER* 2.7 33.1 + - - +
72A VAL 3.1 12.1 - - - +
73A ARG* 3.6 44.8 - - + +
120A TRP* 3.3 9.1 - - - -
121A GLU* 2.8 49.3 + - + +
123A ILE* 4.4 10.9 - - + +
215A GLY* 1.3 77.5 - - - -
217A ILE* 1.3 59.5 - - - +
218A MET* 3.1 26.9 - - + -
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Residues in contact with ILE 217 (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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71A LEU* 2.8 54.9 + - + +
72A VAL* 2.9 14.7 + - + +
74A VAL* 4.6 7.4 - - + -
88A VAL* 5.9 1.1 - - + -
119A THR 3.4 4.7 - - - +
120A TRP* 4.1 18.8 - - + -
134A MET* 3.6 35.9 - - + -
201A ILE* 4.9 3.1 - - + -
203A TRP* 3.6 46.4 - - + +
216A ARG* 1.3 73.7 - - - +
218A MET* 1.3 66.9 + - - +
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Residues in contact with MET 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A GLY 3.6 14.6 - - - +
70A SER* 3.3 28.0 - - - +
117A HIS 4.4 0.4 - - - -
118A PHE* 3.1 11.6 - - - +
119A THR* 2.8 46.7 + - - +
121A GLU* 3.8 21.5 - - + -
216A ARG* 3.1 44.0 - - + -
217A ILE* 1.3 78.6 - - - +
219A ALA* 1.3 61.5 + - - +
220A GLU* 5.8 2.5 - - + -
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Residues in contact with ALA 219 (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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68A SER* 3.0 26.4 - - - -
69A GLY 3.0 17.1 + - - +
71A LEU* 4.0 18.4 - - + -
90A PHE* 4.9 1.6 - - + -
98A LEU* 5.0 1.6 - - + -
117A HIS 3.4 4.5 - - - -
118A PHE* 3.4 27.6 - - + -
218A MET* 1.3 76.9 - - - +
220A GLU* 1.3 64.0 + - - +
221A TYR* 4.3 14.1 - - + -
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Residues in contact with GLU 220 (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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67A ASN 3.6 6.7 - - - +
68A SER* 4.1 10.5 - - - +
115A TYR* 4.0 8.5 - - + -
116A ALA* 3.2 2.8 - - - +
117A HIS* 2.8 47.0 + - + +
119A THR* 5.5 7.7 - - - +
169A ARG* 3.6 23.5 + - - -
218A MET* 6.0 2.2 - - + -
219A ALA* 1.3 78.7 - - - +
221A TYR* 1.3 61.1 + - - +
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Residues in contact with TYR 221 (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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65A ALA 3.8 9.9 - - - -
66A LYS* 3.4 9.4 - - - +
67A ASN* 2.8 58.3 + - + +
68A SER* 3.7 16.8 + - - -
90A PHE* 4.0 29.2 - + + -
98A LEU* 4.6 16.0 - - + +
100A TRP* 3.3 25.8 - + - +
101A LEU* 3.4 34.4 + - + +
115A TYR* 3.2 20.6 + - - +
116A ALA* 4.2 3.6 - - + -
219A ALA* 4.3 6.7 - - + -
220A GLU* 1.3 81.5 - - - +
222A LEU* 1.3 62.0 + - - +
223A VAL* 3.8 12.8 - - + -
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Residues in contact with LEU 222 (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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64A PRO* 3.8 29.6 - - + -
65A ALA 3.4 4.5 - - - +
66A LYS* 3.3 38.6 - - + -
113A VAL* 3.9 0.3 - - - +
114A ARG* 3.0 41.5 + - + +
115A TYR* 3.0 41.6 + - + +
221A TYR* 1.3 72.1 - - - +
223A VAL* 1.3 73.5 + - - +
224A GLU* 4.3 4.0 - - + -
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Residues in contact with VAL 223 (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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63A THR 3.3 1.6 - - - +
64A PRO* 3.2 1.2 - - - +
65A ALA* 2.6 47.8 + - + +
90A PHE* 4.4 19.5 - - + -
92A VAL* 4.3 6.5 - - + -
101A LEU* 4.5 10.3 - - + -
111A TYR* 3.7 26.0 - - + -
112A ARG 3.5 11.4 - - - +
113A VAL* 4.5 7.0 - - + -
221A TYR* 3.8 20.9 - - + -
222A LEU* 1.3 81.6 - - - +
224A GLU* 1.3 71.5 + - - +
225A LEU* 3.8 8.6 + - + -
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Residues in contact with GLU 224 (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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62A ILE* 3.5 25.5 - - + +
63A THR 3.1 4.9 - - - +
64A PRO* 4.7 5.1 - - + +
111A TYR* 3.1 3.6 - - - +
112A ARG* 2.9 76.5 + - - +
114A ARG* 3.2 48.7 + - + +
181A TRP* 3.5 5.1 - - + -
222A LEU* 4.3 7.0 - - + -
223A VAL* 1.3 75.3 - - - +
225A LEU* 1.3 61.8 + - - +
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Residues in contact with LEU 225 (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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62A ILE* 3.4 4.0 - - - +
63A THR* 2.6 45.9 + - + +
65A ALA* 3.7 29.8 - - + +
92A VAL* 4.2 9.2 - - + -
101A LEU* 5.8 0.7 - - + -
104A GLN* 4.3 12.8 - - + -
105A GLY* 4.2 22.2 - - - +
108A TYR* 3.6 43.7 - - + -
110A LYS 3.5 4.7 - - - -
111A TYR* 4.1 15.3 - - + -
181A TRP* 4.6 0.4 - - - -
184A SER* 6.1 0.7 - - - -
223A VAL* 4.1 6.3 - - + +
224A GLU* 1.3 77.2 - - - +
226A THR* 1.3 64.9 + - - +
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Residues in contact with THR 226 (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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61A ASP 3.0 20.2 + - - -
62A ILE* 4.3 5.2 - - - -
108A TYR* 3.7 8.8 - - - +
109A SER 3.4 2.6 + - - -
110A LYS* 2.9 35.4 + - + +
181A TRP* 3.6 37.0 - - + -
225A LEU* 1.3 77.4 - - - +
227A ASP* 1.3 85.3 + - - +
176C HIS* 3.3 23.3 + - + -
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Residues in contact with ASP 227 (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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61A ASP 4.5 1.8 + - - -
109A SER* 2.7 34.9 + - - -
110A LYS* 3.3 31.2 + - - +
226A THR* 1.3 87.1 + - - +
228A PRO* 1.3 74.0 - - - +
229A VAL* 3.2 3.1 - - - +
138C TYR* 3.8 15.7 - - + -
155C ARG* 2.8 32.6 - - - +
173C ASP* 3.0 21.0 - - - +
176C HIS* 4.0 2.1 + - - +
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Residues in contact with PRO 228 (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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61A ASP 6.0 0.7 - - - +
107A ARG 3.3 12.1 - - - +
108A TYR* 3.6 21.9 - - + -
227A ASP* 1.3 90.1 - - - +
229A VAL* 1.3 62.1 + - - +
138C TYR* 6.1 0.2 - - - -
153C GLN 4.4 7.4 - - - +
154C THR* 3.6 3.2 - - - +
155C ARG* 2.8 46.4 + - + +
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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