Contacts of the helix formed by residues 1344 - 1360 (chain A) in PDB entry 6A5T
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 ILE1344 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1339A LEU* 3.6 13.2 - - + -
1343A GLY* 1.3 72.6 - - - -
1345A GLU* 1.3 93.2 + - + +
1346A ALA 3.3 1.8 - - - -
1347A THR* 3.0 6.0 + - - -
1348A ARG* 2.9 19.4 + - - +
1379A THR* 4.1 15.9 - - + -
1382A GLY* 3.1 37.0 - - - +
152E HIS* 5.6 1.8 - - - +
177E ILE* 4.5 13.0 - - + -
181E ASP* 2.9 18.3 + - - +
183E VAL* 5.5 1.4 - - - +
197E ILE* 5.2 1.3 - - + -
211E ARG* 3.5 35.0 - - - +
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Residues in contact with GLU1345 (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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1342A LEU 4.6 0.2 + - - -
1343A GLY 3.8 0.2 - - - -
1344A ILE* 1.3 82.6 - - + +
1346A ALA* 1.3 59.0 + - - +
1348A ARG* 3.1 11.4 + - - +
1349A SER* 2.9 29.5 + - - -
148E LEU 4.7 2.0 - - - -
149E VAL* 5.2 2.6 - - + +
150E PRO* 3.5 28.7 - - + -
152E HIS* 4.7 4.7 - - + +
197E ILE* 3.5 27.8 - - + -
199E ARG* 4.1 26.5 + - - -
209E SER* 6.4 0.9 - - - -
211E ARG* 2.3 48.3 + - - -
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Residues in contact with ALA1346 (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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1338A ILE* 3.8 14.8 - - + -
1342A LEU* 3.5 24.2 + - + +
1344A ILE 3.3 0.2 - - - -
1345A GLU* 1.3 76.3 - - - +
1347A THR* 1.3 67.3 + - - +
1349A SER* 4.4 2.2 - - - +
1350A SER* 2.8 28.6 + - - -
148E LEU* 3.7 34.9 + - + +
149E VAL* 3.8 10.6 - - + +
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Residues in contact with THR1347 (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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1335A PHE* 3.9 25.6 - - + +
1338A ILE* 3.4 8.3 - - - +
1339A LEU* 2.9 40.6 + - + +
1343A GLY 2.9 7.9 + - - -
1344A ILE* 3.0 11.7 + - - -
1346A ALA* 1.3 78.6 - - - +
1348A ARG* 1.3 64.2 + - - +
1350A SER* 3.7 2.7 - - - -
1351A LEU* 2.9 23.0 + - + +
1379A THR* 4.6 3.6 - - + -
1384A LEU* 4.0 26.2 - - + -
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Residues in contact with ARG1348 (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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871A GLU* 3.4 12.3 + - - -
1344A ILE 2.9 12.5 + - - +
1345A GLU* 3.1 19.0 + - - +
1347A THR* 1.3 77.4 - - - +
1349A SER* 1.3 77.1 + - - +
1351A LEU* 3.1 12.2 + - - +
1352A TYR* 3.0 27.7 + - - +
1368A TYR* 3.3 26.7 + - - -
1372A ALA* 5.2 2.2 - - - +
1375A VAL* 4.2 21.5 - - + +
1376A ASP* 3.8 22.3 + - - +
1379A THR* 4.0 25.6 - - - +
199E ARG* 3.1 40.5 - - - +
200E ARG* 5.9 2.4 + - - +
211E ARG* 5.1 3.1 - - - +
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Residues in contact with SER1349 (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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1345A GLU 2.9 13.0 + - - -
1346A ALA* 4.3 2.7 - - - -
1348A ARG* 1.3 101.2 + - - +
1350A SER* 1.3 58.1 + - - +
1352A TYR* 3.2 9.5 + - - +
1353A LYS* 2.9 27.9 + - - +
148E LEU* 4.7 21.2 + - - -
199E ARG* 5.4 2.3 - - - -
200E ARG* 5.4 7.3 + - - -
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Residues in contact with SER1350 (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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1331A TYR* 3.0 42.2 + - - -
1332A SER 4.6 1.1 - - - -
1335A PHE* 3.9 20.9 - - - -
1338A ILE* 4.2 11.1 - - - +
1346A ALA 2.8 20.8 + - - -
1347A THR* 3.7 4.3 - - - -
1349A SER* 1.3 73.4 - - - +
1351A LEU* 1.3 67.9 + - - +
1353A LYS* 3.2 1.4 + - - +
1354A GLU* 3.0 25.1 + - - +
148E LEU* 4.4 5.8 - - - +
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Residues in contact with LEU1351 (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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1106A ILE* 4.0 19.7 - - + -
1335A PHE* 3.6 35.7 - - + -
1347A THR* 2.9 14.0 + - + +
1348A ARG* 3.1 11.7 - - - +
1350A SER* 1.3 77.4 - - - +
1352A TYR* 1.3 62.4 + - - +
1354A GLU* 3.2 4.0 + - + +
1355A ILE* 3.0 26.6 + - + +
1375A VAL* 3.5 38.8 - - + +
1378A MET* 3.8 31.0 - - + -
1379A THR* 5.7 3.4 - - + -
1384A LEU* 5.7 1.3 - - + -
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Residues in contact with TYR1352 (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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1348A ARG* 3.0 17.3 + - - +
1349A SER* 3.5 13.0 - - - +
1350A SER 3.2 0.2 - - - -
1351A LEU* 1.3 77.1 - - - +
1353A LYS* 1.3 68.2 + - + +
1355A ILE* 3.9 1.5 - - - +
1356A LEU* 2.9 38.6 + - + +
1368A TYR* 2.8 44.7 - + - -
1371A MET* 3.5 55.1 - - + +
1375A VAL* 4.0 22.0 - - + -
202E GLU* 3.4 17.5 + - - -
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Residues in contact with LYS1353 (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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1331A TYR* 3.4 46.0 - - + +
1349A SER 2.9 16.1 + - - +
1350A SER 3.6 4.9 - - - +
1352A TYR* 1.3 82.3 - - + +
1354A GLU* 1.3 59.1 + - - +
1356A LEU* 3.8 3.6 - - - +
1357A ASN* 2.9 31.2 + - + +
148E LEU* 6.4 1.6 - - + -
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Residues in contact with GLU1354 (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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1102A ARG* 3.3 30.8 + - - +
1106A ILE* 3.8 20.0 - - + -
1331A TYR* 3.6 15.6 + - - +
1333A ASN* 3.3 33.6 - - - +
1335A PHE* 4.9 6.3 - - + -
1350A SER 3.0 21.6 + - - +
1351A LEU* 3.7 4.7 - - - +
1353A LYS* 1.3 77.6 - - - +
1355A ILE* 1.3 66.6 + - - +
1357A ASN* 3.2 16.8 + - - +
1358A VAL* 3.0 27.4 + - - +
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Residues in contact with ILE1355 (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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1074A ILE* 5.6 3.6 - - + -
1103A LEU* 4.9 15.7 - - + -
1106A ILE* 4.4 21.3 - - + -
1107A LEU* 5.2 4.3 - - + -
1351A LEU* 3.0 24.2 + - + +
1352A TYR* 4.1 3.4 - - - +
1354A GLU* 1.3 77.0 - - - +
1356A LEU* 1.3 63.5 + - - +
1358A VAL* 3.2 4.2 + - - +
1359A ILE* 2.9 35.1 + - + +
1371A MET* 3.3 34.8 - - + -
1374A LEU* 3.8 29.2 - - + -
1375A VAL* 4.4 15.9 - - + -
1378A MET* 5.6 0.4 - - - -
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Residues in contact with LEU1356 (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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1352A TYR* 2.9 39.5 + - + +
1353A LYS* 3.9 4.0 - - - +
1355A ILE* 1.3 76.8 - - - +
1357A ASN* 1.3 64.7 + - - +
1359A ILE* 5.6 0.7 - - + -
1360A ALA* 2.9 42.5 + - + +
1365A TYR* 6.6 0.2 - - + -
1366A VAL 5.3 3.4 - - - +
1371A MET* 3.5 31.4 - - + -
202E GLU* 5.2 2.9 - - - +
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Residues in contact with ASN1357 (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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1096A VAL* 6.3 1.2 - - - +
1098A LEU* 4.5 11.2 - - - +
1353A LYS* 2.9 20.2 + - + +
1354A GLU* 3.2 19.2 + - - +
1356A LEU* 1.3 76.8 - - - +
1358A VAL* 1.3 64.3 + - + +
1360A ALA 3.3 1.3 - - - -
1361A PHE* 2.9 33.8 + - - +
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Residues in contact with VAL1358 (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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1081A MET* 4.8 13.0 - - + +
1097A THR 4.8 0.2 - - - +
1098A LEU* 3.7 19.7 - - + -
1099A GLY* 3.8 35.0 - - - +
1102A ARG* 3.6 30.1 - - + +
1103A LEU* 5.0 13.2 - - + +
1106A ILE* 5.2 1.8 - - + -
1354A GLU* 3.0 17.5 + - - +
1355A ILE* 4.1 3.1 - - - +
1357A ASN* 1.3 81.4 - - + +
1359A ILE* 1.3 64.6 + - + +
1361A PHE* 3.2 15.2 + - - +
1362A ASP* 4.7 1.6 + - - +
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Residues in contact with ILE1359 (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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1074A ILE* 3.5 42.4 - - + +
1077A PRO* 5.0 9.4 - - + +
1078A ALA* 6.0 1.3 - - + +
1081A MET* 5.6 9.3 - - + +
1103A LEU* 5.2 12.3 - - + -
1355A ILE* 2.9 30.2 + - + +
1356A LEU* 4.5 0.4 - - + +
1358A VAL* 1.3 77.8 - - + +
1360A ALA* 1.3 63.1 + - + +
1361A PHE 3.2 3.5 + - - -
1362A ASP* 3.7 4.9 - - - +
1364A SER* 3.4 24.7 - - - +
1366A VAL* 3.6 33.2 - - + +
1371A MET* 4.5 13.5 - - + -
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Residues in contact with ALA1360 (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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1356A LEU* 2.9 35.3 + - + +
1357A ASN* 3.3 5.5 - - - +
1359A ILE* 1.3 78.4 - - + +
1361A PHE* 1.3 62.4 + - - +
1362A ASP 3.6 0.2 - - - -
1363A GLY* 4.4 3.1 + - - -
1364A SER 3.3 22.2 - - - +
1365A TYR* 5.0 4.5 - - + -
1366A VAL 5.7 0.9 - - - +
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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