Contacts of the helix formed by residues 247 - 262 (chain A) in PDB entry 2EIN
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 ILE 247 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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243A VAL 3.3 5.9 + - - +
244A TYR* 3.0 24.7 + - + +
246A LEU* 1.3 80.6 - - - +
248A LEU* 1.3 65.3 + - + +
249A PRO 3.5 0.9 - - - -
250A GLY* 2.9 7.0 + - - -
251A PHE* 2.9 60.2 + - + -
344A PHE* 4.1 14.8 - - + -
348A PHE* 3.6 22.7 - - + -
380A VAL 3.9 7.6 - - - +
385A ALA* 3.9 29.4 - - + +
516A HEA 4.0 15.7 - - + -
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Residues in contact with LEU 248 (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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187A SER* 3.5 13.2 - - - +
190A ILE* 3.9 26.2 - - + -
191A THR* 3.1 27.4 - - - +
194A LEU* 4.2 20.0 - - + -
244A TYR* 2.9 23.5 + - + +
247A ILE* 1.3 76.3 - - + +
249A PRO* 1.4 57.1 - - + +
251A PHE* 2.8 45.4 + - + +
252A GLY 2.9 9.4 + - - -
277A MET* 4.5 23.6 - - + +
280A ILE* 4.3 13.9 - - + -
281A GLY* 4.9 2.9 - - - -
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Residues in contact with PRO 249 (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 MET* 3.6 29.4 - - + +
75A ILE* 4.1 21.5 - - + -
184A PHE* 3.7 13.4 - - + -
187A SER* 3.6 12.3 - - - +
188A VAL* 5.0 4.9 - - + -
191A THR* 3.2 21.7 - - - +
245A ILE 3.5 15.3 - - - +
247A ILE 3.7 1.8 - - - +
248A LEU* 1.4 89.3 - - + +
250A GLY* 1.3 57.3 + - - +
252A GLY* 3.0 2.4 + - - -
253A MET* 2.9 34.6 + - + +
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Residues in contact with GLY 250 (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 MET* 3.9 12.9 - - - -
247A ILE* 2.9 11.5 + - - -
249A PRO* 1.3 78.3 - - - +
251A PHE* 1.3 60.5 + - - +
253A MET* 3.3 4.8 + - - +
254A ILE* 2.9 38.3 + - - +
344A PHE* 4.7 2.9 - - - -
388A ALA* 3.8 21.5 - - - -
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Residues in contact with PHE 251 (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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244A TYR* 6.0 0.9 - + - -
247A ILE* 2.9 39.4 + - + -
248A LEU* 2.8 32.0 + - + +
250A GLY* 1.3 75.5 - - - +
252A GLY* 1.3 60.3 + - - +
254A ILE* 3.4 0.4 + - - -
255A SER* 3.1 27.3 + - - -
277A MET* 4.6 6.7 - - + -
280A ILE* 4.0 23.6 - - + -
316A THR* 4.6 9.0 - - + -
319A LYS* 3.9 29.6 - - + -
323A TRP* 3.6 26.0 - + - -
344A PHE* 3.9 13.5 - + - -
348A PHE* 3.6 32.5 - + - -
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Residues in contact with GLY 252 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A LEU* 4.5 2.9 - - - -
184A PHE* 3.9 20.2 - - - -
187A SER* 3.8 18.3 - - - -
248A LEU 2.9 10.3 + - - -
249A PRO 3.0 4.7 + - - -
251A PHE* 1.3 74.2 - - - +
253A MET* 1.3 65.2 + - - +
255A SER* 3.0 17.2 + - - -
256A HIS* 3.2 14.4 + - - -
277A MET* 5.3 1.3 - - - -
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Residues in contact with MET 253 (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 MET* 3.9 32.8 - - + -
78A PHE* 3.5 46.0 - - + -
184A PHE* 3.5 17.7 - - + -
249A PRO 2.9 18.7 + - - +
250A GLY* 3.9 5.2 - - - +
252A GLY* 1.3 70.8 - - - -
254A ILE* 1.3 64.6 + - - +
256A HIS* 3.1 3.2 + - - +
257A ILE* 2.9 35.7 + - + +
388A ALA* 4.4 13.7 - - + +
389A ILE* 4.7 2.5 - - - -
392A GLY* 4.1 10.1 - - - -
396A TRP* 4.0 27.4 - - + -
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Residues in contact with ILE 254 (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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250A GLY 2.9 21.8 + - - +
251A PHE 3.7 4.5 - - - +
253A MET* 1.3 77.3 - - - +
255A SER* 1.3 57.9 + - - +
257A ILE* 4.5 6.5 - - + -
258A VAL* 2.8 43.8 + - + +
323A TRP* 3.7 30.3 - - + -
340A TRP 4.9 0.4 - - - +
341A ALA* 3.7 30.3 - - + +
344A PHE* 3.9 39.0 - - + -
345A ILE* 4.6 4.3 - - + -
388A ALA* 4.2 15.0 - - + -
391A GLY* 6.3 0.7 - - - -
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Residues in contact with SER 255 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A LEU* 3.9 29.1 - - - +
251A PHE 3.1 11.1 + - - -
252A GLY* 3.0 10.3 + - - -
254A ILE* 1.3 77.6 - - - +
256A HIS* 1.3 60.4 + - - +
258A VAL* 4.3 0.7 - - - +
259A THR* 2.6 33.8 + - - -
267A PRO* 4.6 2.9 - - - +
273A MET* 3.5 13.9 - - - +
319A LYS* 4.4 2.6 + - - -
323A TRP* 2.8 29.1 + - - +
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Residues in contact with HIS 256 (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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86A MET* 3.3 45.3 - - + +
182A PRO* 3.7 16.2 - - + +
183A LEU* 3.8 8.5 + - + -
184A PHE* 3.2 26.2 + - + +
252A GLY 3.2 12.7 + - - +
253A MET 3.1 7.6 + - - +
255A SER* 1.3 77.8 - - - +
257A ILE* 1.3 59.1 + - - +
259A THR* 3.0 7.0 + - - -
260A TYR* 2.8 31.7 + - - +
395A HIS* 5.8 1.6 - - - +
396A TRP* 4.0 20.2 - + + -
491A ASN* 5.1 10.1 + - - +
493A GLU* 4.7 4.9 + - - -
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Residues in contact with ILE 257 (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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253A MET* 2.9 23.2 + - + +
254A ILE* 3.9 9.4 - - + +
256A HIS* 1.3 75.0 - - - +
258A VAL* 1.3 61.5 + - - +
260A TYR* 4.4 2.2 - - - -
261A TYR* 3.0 49.0 + - + +
337A ALA* 3.4 28.5 - - + +
338A MET* 4.2 1.1 - - - +
341A ALA* 4.1 10.3 - - + -
388A ALA 4.8 1.3 - - - +
391A GLY* 3.4 12.6 - - - +
392A GLY* 3.4 36.3 - - - +
395A HIS* 4.5 8.3 - - + -
396A TRP* 4.6 10.1 - - + -
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Residues in contact with VAL 258 (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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254A ILE* 2.8 39.2 + - + +
255A SER 4.3 2.2 - - - +
257A ILE* 1.3 72.1 - - - +
259A THR* 1.3 58.8 + - - +
261A TYR 3.9 0.3 - - - -
262A SER* 2.4 34.5 + - - -
323A TRP* 3.6 25.8 - - + +
326A THR* 3.7 12.8 - - + -
327A LEU* 3.4 27.1 - - + +
338A MET* 4.5 8.3 - - - -
341A ALA* 4.0 15.7 - - + -
342A LEU* 6.2 0.7 - - + -
345A ILE* 4.4 13.5 - - + -
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Residues in contact with THR 259 (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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255A SER 2.6 22.2 + - - -
256A HIS* 3.0 6.0 + - - -
258A VAL* 1.3 75.6 - - - +
260A TYR* 1.3 69.4 + - - +
262A SER* 3.1 6.2 + - - -
264A LYS* 3.0 43.0 + - + +
265A LYS 4.3 1.8 - - - +
266A GLU* 3.6 26.2 - - - +
267A PRO* 3.4 24.9 - - + +
326A THR* 3.6 11.2 - - - +
491A ASN* 6.3 0.9 - - - +
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Residues in contact with TYR 260 (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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256A HIS 2.8 19.9 + - - +
257A ILE 3.7 3.4 - - - +
259A THR* 1.3 74.3 - - - +
261A TYR* 1.3 94.7 + + + +
263A GLY* 2.9 21.5 + - - -
264A LYS 4.8 3.1 - - - -
333A LYS* 6.3 0.4 - - + -
395A HIS* 3.7 23.6 - + + +
485A VAL* 3.5 16.1 - - + +
486A ASP* 3.1 36.3 + - + +
487A LEU* 3.9 17.9 - - + +
491A ASN* 3.6 36.3 - - + +
494A TRP* 4.5 10.1 - + - -
1M ILE* 5.3 5.7 + - - +
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Residues in contact with TYR 261 (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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257A ILE* 3.0 47.5 + - + +
258A VAL 3.9 0.7 - - - -
260A TYR* 1.3 83.5 - + + +
262A SER* 1.3 57.1 + - - +
263A GLY 3.1 5.6 - - - -
331A ASN 3.5 0.7 - - - +
332A ILE* 3.5 2.6 - - - -
333A LYS* 2.9 56.4 + - + +
335A SER* 2.9 37.7 + - - -
337A ALA* 3.8 7.4 - - + +
338A MET* 3.8 20.1 - - + +
395A HIS* 2.5 53.2 + + - -
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Residues in contact with SER 262 (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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258A VAL 2.4 25.6 + - - -
259A THR 3.1 6.0 + - - -
261A TYR* 1.3 77.0 - - - +
263A GLY* 1.3 57.7 + - - +
264A LYS* 3.9 6.5 - - - -
326A THR* 3.2 27.1 + - - +
327A LEU* 3.2 23.9 - - - +
330A GLY* 2.9 11.0 - - - -
331A ASN 2.7 31.8 + - - -
332A ILE* 4.0 11.2 - - - -
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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