Alignments for a candidate for metH in Algiphilus aromaticivorans DG1253

GapMind for Amino acid biosynthesis

Alignments for a candidate for metH in Algiphilus aromaticivorans DG1253

Align methionine synthase; EC 2.1.1.13 (characterized)
to candidate WP_052368278.1 U743_RS15540 methionine synthase

Query= CharProtDB::CH_090726
         (1227 letters)



>NCBI__GCF_000733765.1:WP_052368278.1
          Length = 1255

 Score = 1499 bits (3880), Expect = 0.0
 Identities = 755/1246 (60%), Positives = 937/1246 (75%), Gaps = 30/1246 (2%)

Query: 6    EQLRAQLNERILVLDGGMGTMIQSYRLNEADFRGERFADWPCDLKGNNDLLVLSKPEVIA 65
            E++R  L+ERILVLDG MGT IQSY+L EAD+RGERF DW  DL GNNDLLVL++PE+I 
Sbjct: 15   EEIRKHLSERILVLDGAMGTRIQSYKLGEADYRGERFKDWESDLAGNNDLLVLTQPELIK 74

Query: 66   AIHNAYFEAGADIIETNTFNSTTIAMADYQMESLSAEINFAAAKLARACADEWTARTPEK 125
             +H AY +AGAD+I TNTFN   I+MADY ME L+ E+N  AAKLA   AD  +  T E+
Sbjct: 75   EVHGAYLDAGADVIGTNTFNCQFISMADYHMEELAYELNVEAAKLACEAAD--SRATAER 132

Query: 126  PRYVAGVLGPTNRTASISPDVNDPAFRNITFDGLVAAYRESTKALVEGGADLILIETVFD 185
            PR+VAG +GPTNRTASISPDVNDP  RN +FD LV AY E    L++GG DLILIET+FD
Sbjct: 133  PRFVAGAVGPTNRTASISPDVNDPGKRNTSFDELVRAYSEQIHGLIDGGVDLILIETIFD 192

Query: 186  TLNAKAAVFAVKTEFEALGVELPIMISGTITDASGRTLSGQTTEAFYNSLRHAEALTFGL 245
            TLNAKAA+FA  T F    ++LPI+ISGTITDASGRTLSGQ TEAF+NS+RHAE L  GL
Sbjct: 193  TLNAKAAIFAAHTVFAEKEIKLPIIISGTITDASGRTLSGQVTEAFWNSIRHAEPLAVGL 252

Query: 246  NCALGPDELRQYVQELSRIAECYVTAHPNAGLPNAFGEYDLDADTMAKQIREWAQAGFLN 305
            NCALG  ++R Y++ELS++A+C V+ +PNAGLPN FGEYD + +  A+ + E+AQAGF+N
Sbjct: 253  NCALGGRDMRPYIEELSKLADCNVSCYPNAGLPNTFGEYDEEPEETAEIVAEFAQAGFIN 312

Query: 306  IVGGCCGTTPQHIAAMSRAVEGLAPRKLPEIPVACRLSGLEPLNIGEDSLFVNVGERTNV 365
             VGGCCGT P HI A++ AV  + PR  P      RLSGLEPLN+ +D  F+N+GERTN+
Sbjct: 313  FVGGCCGTQPSHIEAIANAVREIKPRVPPAHEPITRLSGLEPLNVTKDKGFINIGERTNI 372

Query: 366  TGSAKFKRLIKEEKYSEALDVARQQVENGAQIIDINMDEGMLDAEAAMVRFLNLIAGEPD 425
            TGS KF+ LIK+  Y+ ALDVAR QVENGA I+DINMDEGM+D   AM  F  L+A EPD
Sbjct: 373  TGSTKFRNLIKDGDYATALDVARSQVENGAAIMDINMDEGMIDGVEAMRTFCQLVASEPD 432

Query: 426  IARVPIMIDSSKWDVIEKGLKCIQGKGIVNSISMKEGVDAFIHHAKLLRRYGAAVVVMAF 485
            I+ +P+M+DSSKW+VIE GLKC+QGK +VNSISMKEG + F+  A L R YGAAVVVMAF
Sbjct: 433  ISCIPMMVDSSKWEVIETGLKCLQGKCVVNSISMKEGEEKFLREANLCRHYGAAVVVMAF 492

Query: 486  DEQGQADTRARKIEICRRAYKILTEEVGFPPEDIIFDPNIFAVATGIEEHNNYAQDFIGA 545
            DE GQAD   R+ EIC RAYK+LTE++ FPPEDIIFDPNIFAVATGIEEH  Y  DFI A
Sbjct: 493  DEDGQADNLERRKEICGRAYKLLTEKLDFPPEDIIFDPNIFAVATGIEEHARYGLDFIEA 552

Query: 546  CEDIKRELPHALISGGVSNVSFSFRGNDPVREAIHAVFLYYAIRNGMDMGIVNAGQLAIY 605
            C  IK   PH  ISGGVSN+SFSFRGN+ VREAIH+VFLY+A + GMDMGIVNAGQL +Y
Sbjct: 553  CAWIKENCPHVHISGGVSNISFSFRGNNKVREAIHSVFLYHATKAGMDMGIVNAGQLTVY 612

Query: 606  DDLPAELRDAVEDVILNRRDD---GTERLLELAEKYRGSKTDDTANAQQAE---WRSWEV 659
            +D+  ELRDA+EDVILNR++D    TE+LLELAEKY+G    D + A Q +   WR  + 
Sbjct: 613  EDVEQELRDAIEDVILNRKEDPQEATEKLLELAEKYKG----DASEADQGDRLAWRENDA 668

Query: 660  NKRLEYSLVKGITEFIEQDTEEARQQAT----RPIEVIEGPLMDGMNVVGDLFGEGKMFL 715
             +R++++L+KGI ++ E+DTEE R + +    +PIEVIEGPLMDGM VVGDLFG GKMFL
Sbjct: 669  RERIKHALIKGIDQYAEEDTEELRAEISANGGKPIEVIEGPLMDGMGVVGDLFGAGKMFL 728

Query: 716  PQVVKSARVMKQAVAYLEPFIEASKEQGK---TNGKMVIATVKGDVHDIGKNIVGVVLQC 772
            PQVVKSARVMK+AVAYL PFIEA KE+G+    NG +++ATVKGDVHDIGKNIVGVVLQC
Sbjct: 729  PQVVKSARVMKKAVAYLIPFIEAEKEEGEDPSDNGTVIMATVKGDVHDIGKNIVGVVLQC 788

Query: 773  NNYEIVDLGVMVPAEKILRTAKEVNADLIGLSGLITPSLDEMVNVAKEMERQGFTIPLLI 832
            NNYE++DLGVM PA+KIL  AKE +AD+IGLSGLITPSLDEMV+ AKEMERQG  IPLLI
Sbjct: 789  NNYEVIDLGVMCPAQKILDAAKEHDADIIGLSGLITPSLDEMVHFAKEMERQGLDIPLLI 848

Query: 833  GGATTSKAHTAVKIEQNYSGPTVYVQNASRTVGVVAALLSDTQRDDFVARTRKEYETVRI 892
            GGATTS+AHTAVKIE  Y GP V+V++ASR+V  VA LL   +R   +   + +YE +R 
Sbjct: 849  GGATTSRAHTAVKIEPKYHGPVVWVKDASRSVPTVAKLLDKNERGAMLEELKADYEKLRE 908

Query: 893  QHGRKKPRTPPVTLEAARDNDFAFDWQAYTPPVAHRLGVQEVEAS---------IETLRN 943
            +H  K+     + ++ AR N    DW+ Y PPV   +     +A          +  LR 
Sbjct: 909  RHAGKEKADKLLPIDKARANRDVPDWEGYEPPVPQLISEAGDKAEYVKVFKDYPLTELRE 968

Query: 944  YIDWTPFFMTWSLAGKYPRILEDEVVGVEAQRLFKDANDMLDKLSAEKTLNPRGVVGLFP 1003
             IDW PFF  W + G++P +L +   G  A++L+++AN MLD++  EK L   G++GLFP
Sbjct: 969  CIDWGPFFNAWEIKGRFPDVLNNPASGETARKLYEEANAMLDQIIEEKWLTANGIIGLFP 1028

Query: 1004 ANRV-GDDIEIYRDETRTHVINVSHHLRQQTE-KTGFANYCLADFVAPKLSGKADYIGAF 1061
            AN+V  +DI +Y DE+R+  +   H LRQQ+E + G  N  L+D+VAP  +G  DY+GAF
Sbjct: 1029 ANQVDNEDIAVYTDESRSDELLRLHCLRQQSEHREGVPNRALSDYVAPAETGLKDYVGAF 1088

Query: 1062 AVTGGLEEDALADAFEAQHDDYNKIMVKALADRLAEAFAEYLHERVRKVYWGYAPNENLS 1121
            AVT GL      + F   +DDYN I++++LADRLAEAFAE LH+RVRK +WGY P+E L 
Sbjct: 1089 AVTAGLGSSEKCEEFRKANDDYNAILLESLADRLAEAFAERLHQRVRKEFWGYVPDEKLD 1148

Query: 1122 NEELIRENYQGIRPAPGYPACPEHTEKATIWELLEVEKHTGMKLTESFAMWPGASVSGWY 1181
            N+ LI+E YQGIRPAPGYPACPEHTEK  IW+LL+VE +TGM+LTES AMWPGASVSG +
Sbjct: 1149 NDALIQEKYQGIRPAPGYPACPEHTEKQAIWDLLDVENNTGMQLTESMAMWPGASVSGLF 1208

Query: 1182 FSHPDSKYYAVAQIQRDQVEDYARRKGMSVTEVERWLAPNLGYDAD 1227
            F+HPDS+Y+ + ++ RDQ+ DYA+RKG    E ERWL+PNL Y+ +
Sbjct: 1209 FAHPDSRYFVLGRVNRDQIADYAKRKGWGQREAERWLSPNLAYEPE 1254


Lambda     K      H
   0.318    0.134    0.391 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 3818
Number of extensions: 163
Number of successful extensions: 10
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 1227
Length of database: 1255
Length adjustment: 48
Effective length of query: 1179
Effective length of database: 1207
Effective search space:  1423053
Effective search space used:  1423053
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (27.3 bits)

Align candidate WP_052368278.1 U743_RS15540 (methionine synthase)
to HMM TIGR02082 (metH: methionine synthase (EC 2.1.1.13))

# hmmsearch :: search profile(s) against a sequence database
# HMMER 3.3.1 (Jul 2020); http://hmmer.org/
# Copyright (C) 2020 Howard Hughes Medical Institute.
# Freely distributed under the BSD open source license.
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# query HMM file:                  ../tmp/path.aa/TIGR02082.hmm
# target sequence database:        /tmp/gapView.362841.genome.faa
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query:       TIGR02082  [M=1182]
Accession:   TIGR02082
Description: metH: methionine synthase
Scores for complete sequences (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Sequence                             Description
    ------- ------ -----    ------- ------ -----   ---- --  --------                             -----------
          0 1721.2   0.0          0 1721.0   0.0    1.0  1  NCBI__GCF_000733765.1:WP_052368278.1  


Domain annotation for each sequence (and alignments):
>> NCBI__GCF_000733765.1:WP_052368278.1  
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ! 1721.0   0.0         0         0       2    1180 ..      22    1217 ..      21    1219 .. 0.97

  Alignments for each domain:
  == domain 1  score: 1721.0 bits;  conditional E-value: 0
                             TIGR02082    2 nkrilvlDGamGtqlqsanLteadFrge.eadlarelkGnndlLnltkPeviaaihrayfeaGaDivetnt 71  
                                            ++rilvlDGamGt +qs++L ead+rge ++d++++l GnndlL+lt+Pe+i+++h ay++aGaD++ tnt
  NCBI__GCF_000733765.1:WP_052368278.1   22 SERILVLDGAMGTRIQSYKLGEADYRGErFKDWESDLAGNNDLLVLTQPELIKEVHGAYLDAGADVIGTNT 92  
                                            79********************************************************************* PP

                             TIGR02082   72 FnsteialadYdledkayelnkkaaklarevadeftltpekkRfvaGslGPtnklatlspdverpefrnvt 142 
                                            Fn+  i++adY++e++ayeln +aakla e+ad    t+e++RfvaG++GPtn++a++spdv++p+ rn+ 
  NCBI__GCF_000733765.1:WP_052368278.1   93 FNCQFISMADYHMEELAYELNVEAAKLACEAADSRA-TAERPRFVAGAVGPTNRTASISPDVNDPGKRNTS 162 
                                            *********************************999.********************************** PP

                             TIGR02082  143 ydelvdaYkeqvkglldGGvDllLietvfDtlnakaalfaveevfeekgrelPilisgvivdksGrtLsGq 213 
                                            +delv aY+eq++gl+dGGvDl+Liet+fDtlnakaa+fa+++vf+ek+++lPi+isg+i+d+sGrtLsGq
  NCBI__GCF_000733765.1:WP_052368278.1  163 FDELVRAYSEQIHGLIDGGVDLILIETIFDTLNAKAAIFAAHTVFAEKEIKLPIIISGTITDASGRTLSGQ 233 
                                            *********************************************************************** PP

                             TIGR02082  214 tleaflaslehaeililGLnCalGadelrefvkelsetaealvsviPnaGLPnalgeYdltpeelakalke 284 
                                             +eaf +s++hae l++GLnCalG  ++r++++els+ a++ vs++PnaGLPn++geYd++pee+a++++e
  NCBI__GCF_000733765.1:WP_052368278.1  234 VTEAFWNSIRHAEPLAVGLNCALGGRDMRPYIEELSKLADCNVSCYPNAGLPNTFGEYDEEPEETAEIVAE 304 
                                            *********************************************************************** PP

                             TIGR02082  285 faeegllnivGGCCGttPehiraiaeavkdikprkrqeleeksvlsglealkiaqessfvniGeRtnvaGs 355 
                                            fa++g++n vGGCCGt+P hi aia+av++ikpr  +++e+ ++lsgle+l++++++ f+niGeRtn++Gs
  NCBI__GCF_000733765.1:WP_052368278.1  305 FAQAGFINFVGGCCGTQPSHIEAIANAVREIKPRVPPAHEPITRLSGLEPLNVTKDKGFINIGERTNITGS 375 
                                            *********************************************************************** PP

                             TIGR02082  356 kkfrklikaedyeealkiakqqveeGaqilDinvDevllDgeadmkkllsllasepdiakvPlmlDssefe 426 
                                             kfr+lik++dy  al++a++qve+Ga i+Din+De++ Dg+++m+++++l+asepdi+ +P+m+Dss++e
  NCBI__GCF_000733765.1:WP_052368278.1  376 TKFRNLIKDGDYATALDVARSQVENGAAIMDINMDEGMIDGVEAMRTFCQLVASEPDISCIPMMVDSSKWE 446 
                                            *********************************************************************** PP

                             TIGR02082  427 vleaGLkviqGkaivnsislkdGeerFlekaklikeyGaavvvmafDeeGqartadkkieiakRaykllte 497 
                                            v+e+GLk++qGk++vnsis+k+Gee+Fl++a+l ++yGaavvvmafDe+Gqa++ +++ ei+ Raykllte
  NCBI__GCF_000733765.1:WP_052368278.1  447 VIETGLKCLQGKCVVNSISMKEGEEKFLREANLCRHYGAAVVVMAFDEDGQADNLERRKEICGRAYKLLTE 517 
                                            *********************************************************************** PP

                             TIGR02082  498 kvgfppediifDpniltiatGieehdryaidfieaireikeelPdakisgGvsnvsFslrgndavRealhs 568 
                                            k++fppediifDpni+++atGieeh ry++dfiea+ +ike+ P+++isgGvsn+sFs+rgn++vRea+hs
  NCBI__GCF_000733765.1:WP_052368278.1  518 KLDFPPEDIIFDPNIFAVATGIEEHARYGLDFIEACAWIKENCPHVHISGGVSNISFSFRGNNKVREAIHS 588 
                                            *********************************************************************** PP

                             TIGR02082  569 vFLyeaikaGlDmgivnagklavyddidkelrevvedlildrr...reatekLlelaelykgtkeksskea 636 
                                            vFLy+a kaG+Dmgivnag+l+vy+d+++elr+++ed+il+r+   +eatekLlelae+ykg  ++ ++  
  NCBI__GCF_000733765.1:WP_052368278.1  589 VFLYHATKAGMDMGIVNAGQLTVYEDVEQELRDAIEDVILNRKedpQEATEKLLELAEKYKGDASEADQ-G 658 
                                            ******************************************988889***************999777.5 PP

                             TIGR02082  637 qeaewrnlpveeRLeralvkGeregieedleear....kklkapleiiegpLldGmkvvGdLFGsGkmfLP 703 
                                             + +wr+ + +eR+++al+kG+ ++ eed+ee r     +  +p+e+iegpL+dGm vvGdLFG+GkmfLP
  NCBI__GCF_000733765.1:WP_052368278.1  659 DRLAWRENDARERIKHALIKGIDQYAEEDTEELRaeisANGGKPIEVIEGPLMDGMGVVGDLFGAGKMFLP 729 
                                            5668****************************99444445568**************************** PP

                             TIGR02082  704 qvvksarvmkkavayLePylekekeed...kskGkivlatvkGDvhDiGknivdvvLscngyevvdlGvkv 771 
                                            qvvksarvmkkavayL+P++e+ekee    + +G++++atvkGDvhDiGkniv+vvL+cn+yev+dlGv+ 
  NCBI__GCF_000733765.1:WP_052368278.1  730 QVVKSARVMKKAVAYLIPFIEAEKEEGedpSDNGTVIMATVKGDVHDIGKNIVGVVLQCNNYEVIDLGVMC 800 
                                            ************************98878899*************************************** PP

                             TIGR02082  772 PvekileaakkkkaDviglsGLivksldemvevaeemerrgvkiPlllGGaalskahvavkiaekYkgevv 842 
                                            P++kil+aak+++aD+iglsGLi++sldemv+ a+emer+g++iPll+GGa++s+ah+avki++kY+g+vv
  NCBI__GCF_000733765.1:WP_052368278.1  801 PAQKILDAAKEHDADIIGLSGLITPSLDEMVHFAKEMERQGLDIPLLIGGATTSRAHTAVKIEPKYHGPVV 871 
                                            *********************************************************************** PP

                             TIGR02082  843 yvkdaseavkvvdkllsekkkaeelekikeeyeeirekfgekkeklialsekaarkevfaldrsedlevpa 913 
                                            +vkdas++v  v+kll+++++ ++le++k++ye++re++  k++  + l++++ar ++ ++d++  +e+p+
  NCBI__GCF_000733765.1:WP_052368278.1  872 WVKDASRSVPTVAKLLDKNERGAMLEELKADYEKLRERHAGKEKADKLLPIDKARANRDVPDWE-GYEPPV 941 
                                            ****************************************************************.999999 PP

                             TIGR02082  914 pkfl...G.....tkvleas.ieellkyiDwkalFvqWelrgkypkilkdeleglearklfkdakelldkl 975 
                                            p+ +   G     +kv++++ + el++ iDw ++F +We++g++p +l+++  g+ arkl+++a+++ld++
  NCBI__GCF_000733765.1:WP_052368278.1  942 PQLIseaGdkaeyVKVFKDYpLTELRECIDWGPFFNAWEIKGRFPDVLNNPASGETARKLYEEANAMLDQI 1012
                                            99773333444445899999*************************************************** PP

                             TIGR02082  976 saekllrargvvGlfPaqsv.gddieiytdetvsqetkpiatvrekleqlrqqsdr.....ylclaDfias 1040
                                            ++ek l+a+g++GlfPa++v ++di++ytde++s e   +  +       rqqs++     + +l+D++a+
  NCBI__GCF_000733765.1:WP_052368278.1 1013 IEEKWLTANGIIGLFPANQVdNEDIAVYTDESRSDELLRLHCL-------RQQSEHregvpNRALSDYVAP 1076
                                            *****************9762579******9996665555555.......444444444569********* PP

                             TIGR02082 1041 kesGikDylgallvtaglgaeelakkleakeddydsilvkaladrlaealaellhervRkelwgyaeeenl 1111
                                             e+G kDy+ga++vtaglg +e  +++ + +ddy++il+++ladrlaea+ae lh+rvRke+wgy  +e+l
  NCBI__GCF_000733765.1:WP_052368278.1 1077 AETGLKDYVGAFAVTAGLGSSEKCEEFRKANDDYNAILLESLADRLAEAFAERLHQRVRKEFWGYVPDEKL 1147
                                            *********************************************************************** PP

                             TIGR02082 1112 dkedllkerYrGirpafGYpacPdhtekatlleLleaer.iGlklteslalaPeasvsglyfahpeakYf 1180
                                            d++ l++e+Y+Girpa+GYpacP+htek+ +++Ll++e+ +G++ltes+a++P asvsgl+fahp+++Yf
  NCBI__GCF_000733765.1:WP_052368278.1 1148 DNDALIQEKYQGIRPAPGYPACPEHTEKQAIWDLLDVENnTGMQLTESMAMWPGASVSGLFFAHPDSRYF 1217
                                            ***************************************9****************************** PP



Internal pipeline statistics summary:
-------------------------------------
Query model(s):                            1  (1182 nodes)
Target sequences:                          1  (1255 residues searched)
Passed MSV filter:                         1  (1); expected 0.0 (0.02)
Passed bias filter:                        1  (1); expected 0.0 (0.02)
Passed Vit filter:                         1  (1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (1); expected 0.0 (1e-05)
Initial search space (Z):                  1  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.02u 0.01s 00:00:00.03 Elapsed: 00:00:00.02
# Mc/sec: 53.29
//
[ok]

This GapMind analysis is from Jul 25 2024. The underlying query database was built on Jul 25 2024.

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About GapMind

Each pathway is defined by a set of rules based on individual steps or genes. Candidates for each step are identified by using ublast (a fast alternative to protein BLAST) against a database of manually-curated proteins (most of which are experimentally characterized) or by using HMMer with enzyme models (usually from TIGRFam). Ublast hits may be split across two different proteins.

A candidate for a step is "high confidence" if either:

ublast finds a hit to a characterized protein at above 40% identity and 80% coverage, and bits >= other bits+10.
- (Hits to curated proteins without experimental data as to their function are never considered high confidence.)
HMMer finds a hit with 80% coverage of the model, and either other identity < 40 or other coverage < 0.75.

where "other" refers to the best ublast hit to a sequence that is not annotated as performing this step (and is not "ignored").

Otherwise, a candidate is "medium confidence" if either:

ublast finds a hit at above 40% identity and 70% coverage (ignoring otherBits).
ublast finds a hit at above 30% identity and 80% coverage, and bits >= other bits.
HMMer finds a hit (regardless of coverage or other bits).

Other blast hits with at least 50% coverage are "low confidence."

Steps with no high- or medium-confidence candidates may be considered "gaps." For the typical bacterium that can make all 20 amino acids, there are 1-2 gaps in amino acid biosynthesis pathways. For diverse bacteria and archaea that can utilize a carbon source, there is a complete high-confidence catabolic pathway (including a transporter) just 38% of the time, and there is a complete medium-confidence pathway 63% of the time. Gaps may be due to:

our ignorance of proteins' functions,
omissions in the gene models,
frame-shift errors in the genome sequence, or
the organism lacks the pathway.

GapMind relies on the predicted proteins in the genome and does not search the six-frame translation. In most cases, you can search the six-frame translation by clicking on links to Curated BLAST for each step definition (in the per-step page).

For more information, see:

the paper from 2019 on GapMind for amino acid biosynthesis
the paper from 2022 on GapMind for carbon sources
the source code
instructions for running GapMind on your computer
changes to Amino acid biosynthesis since the publication.

If you notice any errors or omissions in the step descriptions, or any questionable results, please let us know

by Morgan Price, Arkin group, Lawrence Berkeley National Laboratory

GapMind for Amino acid biosynthesis