HHsearch alignment for GI: 254780333 and conserved domain: TIGR00044
>TIGR00044 TIGR00044 conserved hypothetical protein TIGR00044; InterPro: IPR011078 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). PLP is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination , , . PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors . Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy . PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalyzed reactions, enzymatic and non-enzymatic . Proteins in this entry occur in archaea, bacteria and eukaryotes. They are encoded by genes which are often co-transcribed with proline biosysnthesis genes , although their function in vivo has not yet been demonstrated. The structure of the yeast protein YBL036C (P38197 from SWISSPROT) has been determined to a resolution of 2.0 A . Similar in structure to the N-terminal domains of alanine racemase and ornithine decarboxylase, it forms a TIM barrel fold which begins with a long N-terminal helix, rather than the classical beta strand found at the beginning of most other TIM barrels. Unlike alanine racemase and ornithine decarboxylase, which are two-domain dimeric proteins, the yeast protein is a single domain monomer. A pyridoxal 5'-phosphate cofactor is covalently bound towards the C-terminal end of the barrel, which is the usual active site in TIM-barrel folds. Some racemase activity was observed for this protein and it was suggested by the authors that it may function as a general racemase ..
Probab=98.40 E-value=5.3e-06 Score=58.62 Aligned_cols=181 Identities=20% Similarity=0.200 Sum_probs=112.2
Q ss_pred CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEE----EECCCCHHHHHHHHHHHHHCCC
Q ss_conf 997599999328665798999999998799899985599999999838985267----3068974698888754210134
Q gi|254780333|r 28 GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIF----VLYGIHPGQEKIIFDTNLIPVI 103 (370)
Q Consensus 28 ~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Il----vl~~~~~~~~~~~~~~~i~~~i 103 (370)
T Consensus 40 ~~v~LlAVSK~Kp----~saI-~~~Y~aG~R~FGEN~VQE~~~Ki~~l~~~~~~G~~w~~ig~~~~~K~~~v~~~f~-~~ 113 (250)
T TIGR00044 40 SKVKLLAVSKTKP----ASAI-QAAYDAGQRAFGENYVQELVEKIKLLEDLGVKGLEWHFIGPLQSNKARLVVENFD-WV 113 (250)
T ss_pred CCEEEEEEECCCC----HHHH-HHHHHCCCCHHCCHHHHHHHHHHHHHHCCCCCEEHHHCCCCCHHHHHHHHCCCHH-HH
T ss_conf 7047888515676----8899-9997458412000035546899986021675611200013002345665215605-78
Q ss_pred CCHHHHHHHHHH---H-HCCC---CCCCEEEECCC--CCCCCCCHHHHHHHHHH--H-HHHHCCCHHHHHCCCCCCCCCC
Q ss_conf 899899998888---7-6088---77616761266--67655698899999988--8-8631000124320124333346
Q gi|254780333|r 104 SSVPQLTFYSKL---M-SCGV---SHPYALQVDTG--FNRLGLSLQEALDFTHN--S-FNKKLGQLSLIISHLACADDPS 171 (370)
Q Consensus 104 ~s~~~l~~l~~~---~-~~~~---~~~vhlkiDTG--M~R~G~~~~e~~~~~~~--~-~~~~~~~i~gi~THfa~ad~~~ 171 (370)
T Consensus 114 ht~D~LkiA~kLn~~r~~~~~DCnpl~~L~QIn~s~Ee~KSG~~~EE~~~~~~~ff~SE~lk~LkL~GLM~I~a~~~~~~ 193 (250)
T TIGR00044 114 HTIDSLKIAKKLNEQREKLQPDCNPLNVLLQINISDEESKSGIQPEELLELASQFFLSEELKHLKLRGLMTIGAPTDSEE 193 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCHHHHHCCCCCCCCCCCCHH
T ss_conf 87898999877988768747775674102453215434655788899998989888876121223103334798888888
Q ss_pred CHHHHHHHHHHHHHHHHHCCCC----------HHHCCCCHHCCCCC---CCCHHHCCCCCCCCC
Q ss_conf 6788999999999975434886----------01116411004773---222020487353067
Q gi|254780333|r 172 SHVNSVQLERFRTLISHYKGIE----------ASLASSSGILLGPN---YHFQLTRPGISLYGG 222 (370)
Q Consensus 172 ~~~~~~Q~~~F~~~~~~~~~~~----------~h~~nS~~~l~~p~---~~~d~vR~Gi~lYG~ 222 (370)
T Consensus 194 ~-----~~~~f~~~~~l~~~~K~~~~~~~~d~LSMGMSd---D~~~AIa~G~t~vRIGT~iFGa 249 (250)
T TIGR00044 194 D-----QEESFREMKKLFEQIKQASPFSLIDTLSMGMSD---DFEEAIAAGATMVRIGTAIFGA 249 (250)
T ss_pred H-----HHHHHHHHHHHHHHHHHHCCCCCCHHCCCCCCH---HHHHHHHHHHHHHHHHHHHHCC
T ss_conf 8-----999999999999986553114531010257754---3799998601577787663147