SGID Silkworm Genome Informatics Database
Gene
KWMTBOMO10416  Validated by peptides from experiments
Pre Gene Modal
BGIBMGA007079
Annotation
PREDICTED:_serine_hydroxymethyltransferase_isoform_X1_[Bombyx_mori]
Full name
Serine hydroxymethyltransferase      
Location in the cell
Cytoplasmic   Reliability : 1.648 Mitochondrial   Reliability : 1.541
 

Sequence

CDS
ATGAGCGCCAAGTTACTAAATAGCAACCTCTGGGAGGCTGATCCTGAACTTTTCGATATTATCGTCAAAGAAAAGGACCGTCAACGAGCTGGACTAGAGATGATAGCATCAGAAAATTTTACATCAGTTCCTGTACTTCAGTGCCTGAGTTCATGTCTTCATAACAAATATTCTGAAGGCATGCCCAATCAACGGTACTATGGGGGGAATGAATATATTGATGAAATAGAGATACTGGCACAGAACAGGTCTCTGGAAGCATACAGATTAAAATCGGAAGAATGGGGCGTCAATGTACAGCCATATTCAGGCTCTCCGGCGAACTTTGCCGTTTATACCGGCATTGTCGAACCCCATGGCAGGATAATGGGGTTAGATTTACCTGACGGTGGACATCTCACCCATGGTTTCTTTACTGCTACTAAAAAAATATCTGCTACGTCAATATTCTTTGAAAGCATGCCATATAAGGTAGATCCTAAAAGCGGATTAATTGATTACGACAAACTAGCAGAAACAGCGAAGTTGTTCAAGCCTCGTTTGATCATCGCTGGCATGAGCTGTTACTCAAGATGTCTCGATTATAAGAGGTTCCGTGAGATCGCAGACGCAAATGGAGCTTATCTGATGGCTGATATGGCTCACGTATCTGGACTGGTTGCTGCAGGTGTAATACCGAGCCCGTTCGAATACTGCGATATTGTGACCACCACCACTCATAAGACGCTGCGTGGTCCTCGTGCCGGTGTCATATTCTTCCGCAAGGGCGTGAGGTCCGTCAAGGCGAACGGACAGAAGGTCATGTACGATTTGGAATCGAAGATAAACCAGGCTGTGTTCCCGGGCCTGCAGGGCGGACCGCACAACCACGCAATAGCGGCCATAGCCACGGCCATGAAACAAGCTACAACTACTGAATTCGTCGAATATCAGAAACAGGTGATAAAGAACGCGCAGCGGTTGTGCGAGGGTTTAATATCGCGCGGGTACTCTATAGCGACGGGCGGCACCGACGTGCACCTCGCGCTCGTGGATCTGCGCGGCGTCGGGCTGCGGGGCGCGCCGGCCGAGCGCGTGCTCGAGCTCTGCAGCGTGGCCTGCAACAAGAACACCGTGCCCGGCGACATTAGCGCGCTCAACCCCAGCGGCATCAGACTCGGTCAGTTCTCATCCTTAACTCTCTAA
Protein
MSAKLLNSNLWEADPELFDIIVKEKDRQRAGLEMIASENFTSVPVLQCLSSCLHNKYSEGMPNQRYYGGNEYIDEIEILAQNRSLEAYRLKSEEWGVNVQPYSGSPANFAVYTGIVEPHGRIMGLDLPDGGHLTHGFFTATKKISATSIFFESMPYKVDPKSGLIDYDKLAETAKLFKPRLIIAGMSCYSRCLDYKRFREIADANGAYLMADMAHVSGLVAAGVIPSPFEYCDIVTTTTHKTLRGPRAGVIFFRKGVRSVKANGQKVMYDLESKINQAVFPGLQGGPHNHAIAAIATAMKQATTTEFVEYQKQVIKNAQRLCEGLISRGYSIATGGTDVHLALVDLRGVGLRGAPAERVLELCSVACNKNTVPGDISALNPSGIRLGQFSSLTL

Summary

Description
Interconversion of serine and glycine.
Catalytic Activity
(6R)-5,10-methylene-5,6,7,8-tetrahydrofolate + glycine + H2O = (6S)-5,6,7,8-tetrahydrofolate + L-serine
Cofactor
pyridoxal 5'-phosphate
Similarity
Belongs to the SHMT family.
EC Number
2.1.2.1
EMBL
BABH01014817    DQ311410    ABD36354.1    LC422686    BBG28363.1    AK401346    + More
KQ459603    BAM17968.1    KPI93030.1    ODYU01004246    SOQ43915.1    KQ461137    KPJ08781.1    GAIX01007538    JAA85022.1    GFDL01002820    JAV32225.1    AJWK01029522    AJWK01029523    AJWK01029524    AJWK01029525    AJWK01029526    AJWK01029527    AJWK01029528    AJWK01029529    AJWK01029530    GFDL01002821    JAV32224.1    GFDF01001222    JAV12862.1    DS232187    EDS37021.1    GFDF01001133    JAV12951.1    GAPW01000729    JAC12869.1    JXUM01122826    JXUM01122827    KQ566648    KXJ69944.1    AXCN02001406    CH477244    EAT46277.1    GGFJ01002905    MBW52046.1    GGFL01000417    MBW64595.1    GAPW01001245    JAC12353.1    JXUM01115481    JXUM01115482    EAT46276.1    GAPW01001244    JAC12354.1    GGFK01002623    MBW35944.1    GGFJ01004929    MBW54070.1    AXCM01002370    GANO01002262    JAB57609.1    GGFJ01004947    MBW54088.1    GGFJ01004928    MBW54069.1    GGFL01000742    MBW64920.1    ADMH02000742    ETN65192.1    AAAB01008975    EGK97324.1    GAMD01001621    JAA99969.1    GGFK01001223    MBW34544.1    GGFK01001230    MBW34551.1    ATLV01011269    KE524660    KFB35983.1    GGFM01000378    MBW21129.1    GGFM01006460    MBW27211.1    AGBW02009020    OWR51847.1    GALA01000264    JAA94588.1    KQ971356    EFA09131.1    UFQS01001175    UFQT01001175    SSX09417.1    SSX29319.1    KK107231    QOIP01000009    EZA55054.1    RLU18476.1    UFQS01001201    UFQT01001201    SSX09701.1    SSX29476.1    GL764554    EFZ17477.1    KK852421    KDR24282.1    KQ977185    KYN05051.1    GL887695    EGI70459.1    KQ982130    KYQ59747.1    KQ980903    KYN11667.1    GL448530    EFN84412.1    HG965791    CDO39387.1    NEVH01024423    PNF17300.1    ADTU01007522    GL444953    EFN60414.1    KQ414657    KOC65871.1    LBMM01001293    KMQ96566.1    GBHO01018275    JAG25329.1    GBHO01018274    JAG25330.1    KZ288387    PBC26409.1    GDHC01020034    JAP98594.1    EU972551    ACG44669.1    GAMC01017224    GAMC01017222    GAMC01017219    GAMC01017217    JAB89333.1    GDHF01004380    JAI47934.1    CCAG010019180    EZ422807    ADD19083.1    GEZM01010694    JAV93903.1    GDHF01027764    GDHF01021324    JAI24550.1    JAI30990.1    GBXI01000218    JAD14074.1    GAKP01000770    JAC58182.1    JRES01000755    KNC28616.1    DS234992    EEB09992.1    JXJN01005363    JXJN01005364    KA647446    AFP62075.1    GBYB01012288    JAG82055.1    GAKP01000772    GAKP01000771    JAC58180.1    CH933810    KRF93781.1    CH963851    EDW75359.2    EDW06691.1   
Pfam
PF00464   SHMT        + More
PF00071   Ras
PF07525   SOCS_box
PF00439   Bromodomain
PF00651   BTB
PF12024   DUF3512
Interpro
IPR039429   SHMT-like_dom        + More
IPR015422   PyrdxlP-dep_Trfase_dom1       
IPR019798   Ser_HO-MeTrfase_PLP_BS       
IPR001085   Ser_HO-MeTrfase       
IPR015424   PyrdxlP-dep_Trfase       
IPR015421   PyrdxlP-dep_Trfase_major       
IPR005225   Small_GTP-bd_dom       
IPR001496   SOCS_box       
IPR027417   P-loop_NTPase       
IPR001806   Small_GTPase       
IPR036036   SOCS_box-like_dom_sf       
IPR000210   BTB/POZ_dom       
IPR036427   Bromodomain-like_sf       
IPR011333   SKP1/BTB/POZ_sf       
IPR036236   Znf_C2H2_sf       
IPR021900   DUF3512       
IPR013087   Znf_C2H2_type       
IPR001487   Bromodomain       
SUPFAM
SSF53383   SSF53383        + More
SSF52540   SSF52540       
SSF158235   SSF158235       
SSF54695   SSF54695       
SSF47370   SSF47370       
SSF57667   SSF57667       
Gene 3D
PDB
1BJ4     E-value=3.54426e-148,     Score=1346

Ontologies

Topology

Length:
394
Number of predicted TMHs:
0
Exp number of AAs in TMHs:
0.0745500000000002
Exp number, first 60 AAs:
0.00037
Total prob of N-in:
0.00631
outside
1  -  394
 
 

Population Genetic Test Statistics

Pi
52.912318
Theta
151.587535
Tajima's D
-1.636547
CLR
1638.334307
CSRT
0.0430978451077446
Interpretation
Possibly Positive selection
Peptides ×
Source Sequence Identity Evalue
26280517 IKDIAHFDATFFGVHAK 96.88 1e-16
26280517 SEAFFDEYDYYNFDHDKHIFTGHGGK 100.00 1e-15
25044914 SEDNAISFK 100.00 1e-15
26280517 KIQIDKDETDFVVIR 100.00 3e-07
26280517 IRDEMAAQIR 100.00 1e-06
28556443 QLIVLK 100.00 9e-05
31250652 AVENHGVT 100.00 4e-04
26280517 KIIQMAGVQDCYTSAR 100.00 4e-04
26822097 IENIKEEVENYSK 100.00 0.002
26280517 IQEFEDFVQSVDIAAFNK 100.00 0.002
25044914 ISASDYQAWEK 100.00 0.002
28467696 ISATAISNIIEIISDVSDK 100.00 0.002
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