Contacts of the helix formed by residues 1262 - 1276 (chain C) in PDB entry 3FK2
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 PRO1262 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1246C TYR* 3.7 12.8 - - - +
1251C LEU* 4.1 8.5 - - + -
1254C VAL* 3.7 13.0 - - + +
1255C VAL* 3.4 20.6 - - + -
1260C PRO 3.6 2.2 - - - +
1261C ILE* 1.3 90.2 - - + +
1263C ILE* 1.3 65.8 + - - +
1264C PHE 4.4 0.2 - - - +
1265C ILE* 2.9 32.1 + - + +
1266C GLU* 3.1 9.9 + - - +
1324C PHE* 4.0 26.5 - - + -
1371C VAL* 3.9 14.8 - - + -
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Residues in contact with ILE1263 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1246C TYR* 3.1 11.8 + - + +
1254C VAL 5.2 3.8 - - - +
1259C LYS* 5.1 14.1 - - + +
1261C ILE 3.9 11.0 - - - +
1262C PRO* 1.3 71.0 - - + +
1264C PHE* 1.3 63.0 + - - +
1266C GLU* 3.2 18.1 + - + +
1267C ARG* 3.0 49.8 + - - +
1299C PHE* 3.8 17.5 - - + -
1303C HIS* 3.9 10.8 - - + +
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Residues in contact with PHE1264 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1246C TYR* 3.3 26.2 + - + +
1247C PHE* 3.7 30.7 - + - -
1262C PRO* 3.2 1.2 - - + -
1263C ILE* 1.3 77.8 - - - +
1265C ILE* 1.3 66.6 + - + +
1267C ARG* 3.4 4.8 + - + +
1268C CYS* 3.1 48.9 + - - -
1295C LEU* 4.4 15.9 - - + -
1296C GLN* 4.9 3.4 - - + -
1299C PHE* 3.7 40.6 - + + -
1320C ALA* 3.2 37.7 - - + -
1321C MET* 4.1 2.2 - - - -
1324C PHE* 4.0 17.3 - + + -
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Residues in contact with ILE1265 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1261C ILE* 4.1 6.3 - - + -
1262C PRO* 2.9 28.5 + - + +
1264C PHE* 1.3 79.4 - - + +
1266C GLU* 1.3 59.0 + - - +
1268C CYS* 3.4 2.0 + - - -
1269C ILE* 2.9 42.6 + - + +
1321C MET* 3.8 23.8 - - + +
1324C PHE* 3.7 22.4 - - + -
1325C PHE* 3.6 35.2 - - + -
1371C VAL* 5.4 0.7 - - + -
1374C TYR* 3.8 25.1 - - + -
1375C VAL* 4.8 1.6 - - + -
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Residues in contact with GLU1266 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1261C ILE* 4.1 28.1 - - + +
1262C PRO 3.1 6.5 + - - +
1263C ILE* 3.2 20.8 + - + +
1265C ILE* 1.3 76.7 - - - +
1267C ARG* 1.3 66.1 + - - +
1270C GLU* 2.9 46.9 + - - +
1374C TYR* 3.4 28.4 - - + +
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Residues in contact with ARG1267 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1263C ILE* 3.0 30.4 + - - +
1264C PHE* 3.6 9.9 - - + +
1265C ILE 3.4 0.2 - - - -
1266C GLU* 1.3 77.9 - - - +
1268C CYS* 1.3 61.5 + - - +
1270C GLU* 3.9 3.4 - - - +
1271C TYR* 2.9 33.2 + - - +
1299C PHE* 4.2 12.1 - - + -
1303C HIS 2.7 28.8 + - - -
1304C ASN* 3.7 19.9 - - - +
1305C LEU 3.2 26.6 + - - +
1306C ASP* 6.0 0.2 - - - +
1307C LEU* 6.0 7.2 - - + +
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Residues in contact with CYS1268 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1264C PHE* 3.1 53.7 + - - +
1265C ILE 3.9 2.5 - - - +
1267C ARG* 1.3 81.8 - - - +
1269C ILE* 1.3 59.4 + - - +
1271C TYR* 3.3 1.2 + - - +
1272C ILE* 2.7 36.7 + - + +
1295C LEU* 4.9 4.3 - - - -
1317C VAL* 3.7 31.4 - - + +
1321C MET* 3.7 20.0 - - + -
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Residues in contact with ILE1269 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1265C ILE* 2.9 18.1 + - + +
1268C CYS* 1.3 76.9 - - - +
1270C GLU* 1.3 59.7 + - + +
1272C ILE* 3.3 5.5 + - - +
1273C GLU* 2.8 39.1 + - - +
1283C TYR* 4.7 0.7 - - - +
1321C MET* 3.5 34.5 - - + -
1374C TYR* 3.4 42.4 - - + +
1375C VAL* 4.4 3.8 - - - -
1378C HIS* 3.3 47.6 - - + +
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Residues in contact with GLU1270 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1266C GLU* 2.9 47.2 + - - +
1267C ARG* 4.1 3.7 - - - +
1269C ILE* 1.3 77.2 - - + +
1271C TYR* 1.3 61.0 + - - +
1273C GLU* 3.6 8.8 + - - +
1274C ALA* 3.2 23.2 + - - +
1374C TYR* 3.8 10.6 + - - +
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Residues in contact with TYR1271 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1267C ARG 2.9 20.5 + - - +
1268C CYS* 3.7 2.5 - - - +
1270C GLU* 1.3 75.1 - - - +
1272C ILE* 1.3 63.5 + - + +
1274C ALA* 3.2 6.0 + - + -
1275C THR* 2.8 54.3 + - - -
1307C LEU* 3.7 41.2 + - + -
1308C ALA* 3.9 13.0 + - + -
1311C ASP* 5.4 1.4 - - - -
1312C PHE 3.4 20.4 + - - -
1314C VAL* 4.9 8.2 + - + -
1317C VAL* 3.7 35.4 - - + -
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Residues in contact with ILE1272 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1268C CYS* 2.7 31.5 + - + +
1269C ILE* 3.8 3.6 - - - +
1271C TYR* 1.3 74.7 - - + +
1273C GLU* 1.3 59.9 + - - +
1276C GLY* 2.7 30.1 + - - +
1277C LEU* 3.4 7.0 + - + +
1282C ILE* 3.4 26.7 - - + -
1283C TYR* 3.5 23.8 - - + +
1314C VAL* 4.4 10.8 - - + +
1317C VAL* 3.8 18.4 - - + +
1318C ALA* 3.5 36.3 - - + +
1321C MET* 4.6 2.0 - - + -
1378C HIS* 4.1 10.3 - - + -
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Residues in contact with GLU1273 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1409A PHE* 4.7 1.9 - - - -
1414A ALA* 3.7 19.4 - - + +
1269C ILE* 2.8 27.7 + - - +
1270C GLU* 3.9 9.3 - - - +
1271C TYR 3.2 0.2 - - - -
1272C ILE* 1.3 76.5 - - - +
1274C ALA* 1.3 59.6 + - - +
1277C LEU* 3.6 25.7 + - + +
1378C HIS* 2.9 37.7 + - + +
1381C LYS* 3.3 41.9 + - + +
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Residues in contact with ALA1274 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1409A PHE* 3.8 41.4 - - + -
1270C GLU 3.2 17.4 + - - +
1271C TYR* 3.2 6.9 + - + +
1273C GLU* 1.3 78.3 - - - +
1275C THR* 1.3 59.3 + - - +
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Residues in contact with THR1275 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1271C TYR* 2.8 44.5 + - - -
1272C ILE* 4.9 0.4 - - - -
1274C ALA* 1.3 80.9 - - - +
1276C GLY* 1.3 56.5 + - - +
1277C LEU 3.9 1.6 - - - -
1278C SER 5.4 0.3 + - - -
1279C THR* 4.2 5.9 - - - +
1314C VAL* 4.5 8.5 - - - +
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Residues in contact with GLY1276 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1272C ILE 2.7 20.0 + - - -
1275C THR* 1.3 75.7 - - - +
1277C LEU* 1.3 56.9 + - - +
1278C SER 3.0 11.6 + - - -
1279C THR* 3.1 33.0 + - - +
1282C ILE* 3.5 15.4 - - - +
1314C VAL* 3.5 14.3 - - - +
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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