Table 2

A: Information stored in PDBChainSaw for the G chain of bovine mitochondrial F1-ATPase (1OHHG) as an exemplar. In the field "chainid", the PDB four-letter code is followed by the single character chain identifier. The field "chainid2" is the concatenation of the PDB code and the ASCII value of the chain identifier, in this case, "71" corresponding to "G". B: The two other options to return the sequence from a protein structure stored in PDB file format.

A

Fields

Content

pdb

1OHH

code

G

chainid

1OHHG

chainid2

1OHH71

residues

94

aminoacids

94

heterogens

0

solvent

0

sequence from co-ordinates (inferred)

ATLKDITRRLKSIKNIQKITKSMKMVAAAKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX LCGAIHSSVAKQXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTSEQSAR MTAMDNASKNASEMIDKLTLTFNRTRQAVITKELIEIISGAAAL

organism

BOS TAURUS

compound

ATP SYNTHASE GAMMA CHAIN, MITOCHONDRIAL SYNONYM: BOVINE MITOCHONDRIAL F1-ATPASE GAMMA SUBUNIT

eccode

3.6.1.34

B

sequence from co-ordinates without 'X'

ATLKDITRRLKSIKNIQKITKSMKMVAAAKLCGAIHSSVAKQTTSEQSARMTAMDNASKNASEMIDKLTLT FNRTRQAVITKELIEIISGAAAL

sequence from SEQRES

ATLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKPARVYGVGSLALYEKADIKTPEDKKKHLIIGVSS DRGLCGAIHSSVAKQMKSEAANLAAAGKEVKIIGVGDKIRSILHRTHSDQFLVTFKEVGRRPPTFGDASVIAL ELLNSGYEFDEGSIIFNRFRSVISYKTEEKPIFSLDTISSAESMSIYDDIDADVLRNYQEYSLANIIYYSLKE STTSEQSARMTAMDNASKNASEMIDKLTLTFNRTRQAVITKELIEIISGAAAL

Diemand and Scheib BMC Bioinformatics 2004 5:39   doi:10.1186/1471-2105-5-39