Gene

KWMTBOMO10416  Validated by peptides from experiments

Pre Gene Modal

BGIBMGA007079

Annotation

PREDICTED:_serine_hydroxymethyltransferase_isoform_X1_[Bombyx_mori]

Location

Bomo_Chr17(+):10618754-10627108      View in EpiBrowser

Full name

Serine hydroxymethyltransferase      

Location in the cell

Cytoplasmic   Reliability : 1.648 Mitochondrial   Reliability : 1.541

CDS

ATGAGCGCCAAGTTACTAAATAGCAACCTCTGGGAGGCTGATCCTGAACTTTTCGATATTATCGTCAAAGAAAAGGACCGTCAACGAGCTGGACTAGAGATGATAGCATCAGAAAATTTTACATCAGTTCCTGTACTTCAGTGCCTGAGTTCATGTCTTCATAACAAATATTCTGAAGGCATGCCCAATCAACGGTACTATGGGGGGAATGAATATATTGATGAAATAGAGATACTGGCACAGAACAGGTCTCTGGAAGCATACAGATTAAAATCGGAAGAATGGGGCGTCAATGTACAGCCATATTCAGGCTCTCCGGCGAACTTTGCCGTTTATACCGGCATTGTCGAACCCCATGGCAGGATAATGGGGTTAGATTTACCTGACGGTGGACATCTCACCCATGGTTTCTTTACTGCTACTAAAAAAATATCTGCTACGTCAATATTCTTTGAAAGCATGCCATATAAGGTAGATCCTAAAAGCGGATTAATTGATTACGACAAACTAGCAGAAACAGCGAAGTTGTTCAAGCCTCGTTTGATCATCGCTGGCATGAGCTGTTACTCAAGATGTCTCGATTATAAGAGGTTCCGTGAGATCGCAGACGCAAATGGAGCTTATCTGATGGCTGATATGGCTCACGTATCTGGACTGGTTGCTGCAGGTGTAATACCGAGCCCGTTCGAATACTGCGATATTGTGACCACCACCACTCATAAGACGCTGCGTGGTCCTCGTGCCGGTGTCATATTCTTCCGCAAGGGCGTGAGGTCCGTCAAGGCGAACGGACAGAAGGTCATGTACGATTTGGAATCGAAGATAAACCAGGCTGTGTTCCCGGGCCTGCAGGGCGGACCGCACAACCACGCAATAGCGGCCATAGCCACGGCCATGAAACAAGCTACAACTACTGAATTCGTCGAATATCAGAAACAGGTGATAAAGAACGCGCAGCGGTTGTGCGAGGGTTTAATATCGCGCGGGTACTCTATAGCGACGGGCGGCACCGACGTGCACCTCGCGCTCGTGGATCTGCGCGGCGTCGGGCTGCGGGGCGCGCCGGCCGAGCGCGTGCTCGAGCTCTGCAGCGTGGCCTGCAACAAGAACACCGTGCCCGGCGACATTAGCGCGCTCAACCCCAGCGGCATCAGACTCGGTCAGTTCTCATCCTTAACTCTCTAA

Protein

MSAKLLNSNLWEADPELFDIIVKEKDRQRAGLEMIASENFTSVPVLQCLSSCLHNKYSEGMPNQRYYGGNEYIDEIEILAQNRSLEAYRLKSEEWGVNVQPYSGSPANFAVYTGIVEPHGRIMGLDLPDGGHLTHGFFTATKKISATSIFFESMPYKVDPKSGLIDYDKLAETAKLFKPRLIIAGMSCYSRCLDYKRFREIADANGAYLMADMAHVSGLVAAGVIPSPFEYCDIVTTTTHKTLRGPRAGVIFFRKGVRSVKANGQKVMYDLESKINQAVFPGLQGGPHNHAIAAIATAMKQATTTEFVEYQKQVIKNAQRLCEGLISRGYSIATGGTDVHLALVDLRGVGLRGAPAERVLELCSVACNKNTVPGDISALNPSGIRLGQFSSLTL

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.

Uniprot

Q2F5L3   A0A3S5XFE5   I4DJ78   A0A2H1VSV0   A0A194QYV9   S4PW23   + More
A0A1Q3FXD4   A0A1B0CUP8   A0A1Q3FX99   A0A1L8E2R6   B0WYE4   A0A1L8E2L2   A0A023EWI8   A0A182HAJ6   A0A1S4F1Y3   A0A182QIK0   Q17I00   A0A182YH20   A0A182RVQ1   A0A2M4BG58   A0A2M4CH94   A0A182W5X9   A0A1S4F1X0   A0A023EST6   A0A182FM94   A0A182H738   A0A182J4K0   Q17HZ9   A0A023EV48   A0A2M4A557   A0A2M4BLW2   A0A182LSB7   U5EY04   A0A2M4BMT8   A0A2M4BLV6   A0A2M4CHU5   W5JLD6   F5HM13   T1DJ62   A0A2M4A151   A0A2M4A1B9   A0A084VDD9   A0A182X4U7   A0A182MZT2   A0A2M3YXY2   A0A2M3ZFE0   A0A212FDT5   A0A182V385   A0A182KDH5   T1E2Z6   D6WYC6   A0A336L6X1   A0A026WIX7   A0A336MGY4   E9IPM9   A0A067RKD7   A0A195CWJ2   F4W5Y3   A0A151XHB3   A0A195DFP9   E2BIS2   A0A068TMC9   A0A2J7PLT1   A0A158P2W4   E2B1Q8   A0A0L7R542   A0A0J7L1N3   A0A0A9XZH7   A0A0A9Y718   A0A2A3E5G0   A0A146KSG4   B6U5N6   W8AWY9   A0A088AQX9   A0A1A9ZSN5   A0A0K8WA64   D3TN05   A0A1A9V6K8   A0A182LM06   A0A1Y1N7R4   A0A0K8UX97   A0A0A1XRY3   A0A034WV49   A0A0L0C8L3   E0V9D6   A0A1I8MD11   A0A1A9YP22   A0A1B0AXS0   T1PFC6   A0A0C9QD43   A0A034WVG7   A0A1W4WIB1   A0A1W4WUE7   A0A1A9WVD7   A0A1W4WUG3   A0A0Q9WZC2   A0A1I8PUD4   A0A1I8PUF2   B4MTC0   B4L1H0  

EC Number

2.1.2.1

Pubmed

19121390    22651552    26354079    23622113    24945155    26483478    + More
17510324    25244985    20920257    23761445    12364791    14747013    17210077    24438588    22118469    24330624    18362917    19820115    24508170    30249741    21282665    24845553    21719571    20798317    21347285    25401762    26823975    18937034    24495485    20353571    20966253    28004739    25830018    25348373    26108605    20566863    25315136    17994087   

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   

Proteomes

UP000005204    UP000053268    UP000053240    UP000092461    UP000002320    UP000069940    + More
UP000249989    UP000075886    UP000008820    UP000076408    UP000075900    UP000075920    UP000069272    UP000075880    UP000075883    UP000000673    UP000007062    UP000030765    UP000076407    UP000075884    UP000007151    UP000075903    UP000075881    UP000007266    UP000053097    UP000279307    UP000027135    UP000078542    UP000007755    UP000075809    UP000078492    UP000008237    UP000235965    UP000005205    UP000000311    UP000053825    UP000036403    UP000242457    UP000005203    UP000092445    UP000092444    UP000078200    UP000075882    UP000037069    UP000009046    UP000095301    UP000092443    UP000092460    UP000192223    UP000091820    UP000009192    UP000095300    UP000007798   

PRIDE

Q2F5L3   

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

3.40.640.10     3.90.1150.10     1.20.920.10    

CDD

cd00378  SHMT

ProteinModelPortal

Q2F5L3   A0A3S5XFE5   I4DJ78   A0A2H1VSV0   A0A194QYV9   S4PW23   + More
A0A1Q3FXD4   A0A1B0CUP8   A0A1Q3FX99   A0A1L8E2R6   B0WYE4   A0A1L8E2L2   A0A023EWI8   A0A182HAJ6   A0A1S4F1Y3   A0A182QIK0   Q17I00   A0A182YH20   A0A182RVQ1   A0A2M4BG58   A0A2M4CH94   A0A182W5X9   A0A1S4F1X0   A0A023EST6   A0A182FM94   A0A182H738   A0A182J4K0   Q17HZ9   A0A023EV48   A0A2M4A557   A0A2M4BLW2   A0A182LSB7   U5EY04   A0A2M4BMT8   A0A2M4BLV6   A0A2M4CHU5   W5JLD6   F5HM13   T1DJ62   A0A2M4A151   A0A2M4A1B9   A0A084VDD9   A0A182X4U7   A0A182MZT2   A0A2M3YXY2   A0A2M3ZFE0   A0A212FDT5   A0A182V385   A0A182KDH5   T1E2Z6   D6WYC6   A0A336L6X1   A0A026WIX7   A0A336MGY4   E9IPM9   A0A067RKD7   A0A195CWJ2   F4W5Y3   A0A151XHB3   A0A195DFP9   E2BIS2   A0A068TMC9   A0A2J7PLT1   A0A158P2W4   E2B1Q8   A0A0L7R542   A0A0J7L1N3   A0A0A9XZH7   A0A0A9Y718   A0A2A3E5G0   A0A146KSG4   B6U5N6   W8AWY9   A0A088AQX9   A0A1A9ZSN5   A0A0K8WA64   D3TN05   A0A1A9V6K8   A0A182LM06   A0A1Y1N7R4   A0A0K8UX97   A0A0A1XRY3   A0A034WV49   A0A0L0C8L3   E0V9D6   A0A1I8MD11   A0A1A9YP22   A0A1B0AXS0   T1PFC6   A0A0C9QD43   A0A034WVG7   A0A1W4WIB1   A0A1W4WUE7   A0A1A9WVD7   A0A1W4WUG3   A0A0Q9WZC2   A0A1I8PUD4   A0A1I8PUF2   B4MTC0   B4L1H0  

PDB

1BJ4     E-value=3.54426e-148,     Score=1346

KEGG

692975    K00600 glycine hydroxymethyltransferase [EC:2.1.2.1] | (RefSeq) serine hydroxymethyltransferase

PATHWAY

00260    Glycine, serine and threonine metabolism - Bombyx mori (domestic silkworm)
00630    Glyoxylate and dicarboxylate metabolism - Bombyx mori (domestic silkworm)
00670    One carbon pool by folate - Bombyx mori (domestic silkworm)
01100    Metabolic pathways - Bombyx mori (domestic silkworm)
01200    Carbon metabolism - Bombyx mori (domestic silkworm)
01230    Biosynthesis of amino acids - Bombyx mori (domestic silkworm)

GO

GO:0019264   GO:0008168   GO:0030170   GO:0035999   GO:0004372   GO:0005525   GO:0003924   GO:0035556   GO:0003676   GO:0042803   GO:0006544   GO:0070905   GO:1904482   GO:0008270   GO:0016597   GO:0051289   GO:0046655   GO:0009113   GO:0006565   GO:0000900   GO:0048027   GO:0050897   GO:0046653   GO:0005634   GO:0006730   GO:0005829   GO:0042752   GO:0048149   GO:0005737   GO:0003824   GO:0006563   GO:0016740   GO:0006418   GO:0003723   GO:0046872  

PANTHER

PTHR11680  

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

 

 

Pi

52.912318

Theta

151.587535

Tajima's D

-1.636547

CLR

1638.334307

CSRT

0.0430978451077446

Interpretation

Possibly Positive selection