RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15244
(1427 letters)
>gnl|CDD|237263 PRK12999, PRK12999, pyruvate carboxylase; Reviewed.
Length = 1146
Score = 1327 bits (3437), Expect = 0.0
Identities = 515/1130 (45%), Positives = 700/1130 (61%), Gaps = 138/1130 (12%)
Query: 55 KTMEKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVA 114
K ++K+L+ANR E+AIR+ RA E+GI++V IYSE+DK S HR K D+A+L+G+G PV
Sbjct: 3 KKIKKVLVANRGEIAIRIFRAATELGIRTVAIYSEEDKLSLHRFKADEAYLIGEGKHPVR 62
Query: 115 AYLNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVL 174
AYL+I EII +AK VDAIHPGYGFLSE +FA+A AG+ FIGP VL+ LGDKV
Sbjct: 63 AYLDIDEIIRVAKQAGVDAIHPGYGFLSENPEFARACAEAGITFIGPTAEVLRLLGDKVA 122
Query: 175 ARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIE 234
AR+AA+KA VP+IPG+ P+ D+++ EF +E+ +P++LKA+ GGGGRGMR+V +++ +E
Sbjct: 123 ARNAAIKAGVPVIPGSEGPIDDIEEALEFAEEIGYPIMLKASAGGGGRGMRIVRSEEELE 182
Query: 235 ENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKV 294
E F+RA+ EA A+FG D++ +EKY++ PRHIEVQILGDK+G+VVHLYERDCS+QRR+QKV
Sbjct: 183 EAFERAKREAKAAFGNDEVYLEKYVENPRHIEVQILGDKHGNVVHLYERDCSVQRRHQKV 242
Query: 295 IQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHT 354
++IAPA +S +R+ I E +V+LA+++GY NAGTVEFL+D D NFYFIEVNPR+QVEHT
Sbjct: 243 VEIAPAPGLSEELRERICEAAVKLARAVGYVNAGTVEFLVDADGNFYFIEVNPRIQVEHT 302
Query: 355 LSEEITGIDVVQSQIKIAQGKSLTELGLC---QEKITPQGCAIQCHLRTEDPKRNFQPST 411
++EE+TGID+VQSQI IA+G +L +L + QE I +G AIQC + TEDP NF P T
Sbjct: 303 VTEEVTGIDIVQSQILIAEGATLHDLEIGIPSQEDIRLRGYAIQCRITTEDPANNFMPDT 362
Query: 412 GRLDVFTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQ 471
GR+ + P G+R+D + G +I+P YDSLL K+ T++ + +MRRAL E +
Sbjct: 363 GRITAYRSPGGFGVRLDGGNAFAGAEITPYYDSLLVKLTAWGRTFEQAVARMRRALREFR 422
Query: 472 VSGVTTNLPFLLNVFDDKKFLSGEALETNFIDDNPQLLERNSYQTCRD--MKILRFIGET 529
+ GV TN+PFL NV F +G+ T+FID+ P+L + + RD K+L +I +
Sbjct: 423 IRGVKTNIPFLENVLKHPDFRAGDY-TTSFIDETPELFD---FPKRRDRGTKLLTYIADV 478
Query: 530 LVNGPMTPLYVNVKPVNVDPVIDRTVSKFETSCADFVSDMNERSKIRTDTDEKYLIKKPQ 589
VNG P PV DP + K + P
Sbjct: 479 TVNGF--PGVKKKPPVFPDPRLP-----------------------------KVDLSAPP 507
Query: 590 ANGYRKLLQVMGAGEFVTTVRKLKHVLLTDTTFRDAHQSLLATRVRTYDLKKVMMGAGEF 649
G +++L +G F +R K V
Sbjct: 508 PAGTKQILDELGPEGFADWLRDQKRV---------------------------------- 533
Query: 650 VNSVRKLKHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNLYSLEMWGGAVSH 709
LLTDTTFRDAHQSLLATRVRT DL +++P A NL+SLEMWGGA
Sbjct: 534 ----------LLTDTTFRDAHQSLLATRVRTKDLLRIAPATARLLPNLFSLEMWGGATFD 583
Query: 710 TCLKFLKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDI 769
+FLKE PWERLAELRE PN+ FQM+LRG++ VGY+NY V AF R A+ AGID+
Sbjct: 584 VAYRFLKEDPWERLAELREAAPNVLFQMLLRGSNAVGYTNYPDNVVRAFVREAAAAGIDV 643
Query: 770 FRVFDPLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQL 829
FR+FD LN V N+ +DAV++ TG I EA ICY GD+ +P + KY L+YY DLAK+L
Sbjct: 644 FRIFDSLNWVENMRVAIDAVRE-TGK--IAEAAICYTGDILDPARAKYDLDYYVDLAKEL 700
Query: 830 VESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAG 889
++GA +L +KDMAGLLKP AA L+ + +E+ ++ IH+HTHD +G G+AT LA +AG
Sbjct: 701 EKAGAHILAIKDMAGLLKPAAAYELVSALKEEV-DLPIHLHTHDTSGNGLATYLAAAEAG 759
Query: 890 ADIVDVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAPAHN 949
DIVDVA SMSG+ SQP++ +IV+ LE T+
Sbjct: 760 VDIVDVAVASMSGLTSQPSLNSIVAALEGTE----------------------------- 790
Query: 950 LLWRCGIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTNLKFRTMS 1009
G+DL + S YW VR YAPFE + LK+ ++E YL+E+PGGQY+NLK + +
Sbjct: 791 --RDTGLDLDAIRKLSPYWEAVRPYYAPFE-SGLKSPTTEVYLHEMPGGQYSNLKQQARA 847
Query: 1010 FGLD--FEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIFMTQEKLSYRDVMENADKIIF 1067
GL FE+VK Y N + GDI+K TPSSKVV D+A+FM Q L+ DV E + + F
Sbjct: 848 LGLGDRFEEVKEMYAAVNRMFGDIVKVTPSSKVVGDMALFMVQNGLTPEDVYEPGEDLDF 907
Query: 1068 PKSVTEFFQGSIGEPYQGFPKKLQEKVL-----------DSLKDHALE--RKAEFDPIMA 1114
P SV F +G +G+P GFP+ LQ+KVL + L+ E R + +
Sbjct: 908 PDSVVSFLKGELGQPPGGFPEPLQKKVLKGEEPITVRPGELLEPVDFEAERAELEEKLGR 967
Query: 1115 CDYREDEPFKMNKLIFPKATKKFMKFRDEFGPVDKLPTRIFFHALERKAE 1164
D ++ L++PK + ++K R+E+G V LPT FF+ L E
Sbjct: 968 EVTDRD---VLSYLLYPKVFEDYIKHREEYGDVSVLPTPTFFYGLRPGEE 1014
Score = 632 bits (1633), Expect = 0.0
Identities = 264/616 (42%), Positives = 350/616 (56%), Gaps = 89/616 (14%)
Query: 645 GAGEFVNSVRKLKHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNLYSLEMWG 704
G F + +R K +LLTDTTFRDAHQSLLATRVRT DL +++P A NL+SLEMWG
Sbjct: 519 GPEGFADWLRDQKRVLLTDTTFRDAHQSLLATRVRTKDLLRIAPATARLLPNLFSLEMWG 578
Query: 705 GAVSHTCLKFLKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQ 764
GA +FLKE PWERLAELRE PN+ FQM+LRG++ VGY+NY V AF R A+
Sbjct: 579 GATFDVAYRFLKEDPWERLAELREAAPNVLFQMLLRGSNAVGYTNYPDNVVRAFVREAAA 638
Query: 765 AGIDIFRVFDPLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYED 824
AGID+FR+FD LN V N+ +DAV++ TG I EA ICY GD+ +P + KY L+YY D
Sbjct: 639 AGIDVFRIFDSLNWVENMRVAIDAVRE-TGK--IAEAAICYTGDILDPARAKYDLDYYVD 695
Query: 825 LAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLA 884
LAK+L ++GA +L +KDMAGLLKP AA L+ + +E+ ++ IH+HTHD +G G+AT LA
Sbjct: 696 LAKELEKAGAHILAIKDMAGLLKPAAAYELVSALKEEV-DLPIHLHTHDTSGNGLATYLA 754
Query: 885 CVKAGADIVDVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELY 944
+AG DIVDVA SMSG+ SQP++ +IV+ LE T+
Sbjct: 755 AAEAGVDIVDVAVASMSGLTSQPSLNSIVAALEGTE------------------------ 790
Query: 945 APAHNLLWRCGIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTNLK 1004
G+DL + S YW VR YAPFE + LK+ ++E YL+E+PGGQY+NLK
Sbjct: 791 -------RDTGLDLDAIRKLSPYWEAVRPYYAPFE-SGLKSPTTEVYLHEMPGGQYSNLK 842
Query: 1005 FRTMSFGLD--FEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIFMTQEKLSYRDVMENA 1062
+ + GL FE+VK Y N + GDI+K TPSSKVV D+A+FM Q L+ DV E
Sbjct: 843 QQARALGLGDRFEEVKEMYAAVNRMFGDIVKVTPSSKVVGDMALFMVQNGLTPEDVYEPG 902
Query: 1063 DKIIFPKSVTEFFQGSIGEPYQGFPKKLQEKVLDSLKDHA--LERKAEFDPIMACDYRED 1120
+ + FP SV F +G +G+P GFP+ LQ+KV LK R E
Sbjct: 903 EDLDFPDSVVSFLKGELGQPPGGFPEPLQKKV---LKGEEPITVRPGELLE--------- 950
Query: 1121 EPFKMNKLIFPKATKKFMKFRDEFGPVDKLPTRIFFHALERKAEFDPIMACDCRENEPVK 1180
PVD F A + E R+
Sbjct: 951 -------------------------PVD-------FEAERAELEEKLGREVTDRD----V 974
Query: 1181 MNELIFPKATKKFMKFRDEFGPVDKLPTRIFLNGPNIGEEFSCEFKTGDTAYVTTLSISE 1240
++ L++PK + ++K R+E+G V LPT F G GEE E + G T + +I E
Sbjct: 975 LSYLLYPKVFEDYIKHREEYGDVSVLPTPTFFYGLRPGEEIEVEIEPGKTLIIKLEAIGE 1034
Query: 1241 HLNDHGERTVFFLYNG 1256
++ G RTV+F NG
Sbjct: 1035 -PDEDGMRTVYFELNG 1049
Score = 144 bits (365), Expect = 2e-34
Identities = 58/143 (40%), Positives = 77/143 (53%), Gaps = 4/143 (2%)
Query: 1286 RIFLNGPNIGEEFSCEFKTGDTAYVTTLSISEHLNDHGERTVFFLYNGQLRSL---DKNK 1342
F G GEE E + G T + +I E ++ G RTV+F NGQ R + D++
Sbjct: 1003 PTFFYGLRPGEEIEVEIEPGKTLIIKLEAIGE-PDEDGMRTVYFELNGQPREVQVRDRSV 1061
Query: 1343 AKKLKLRSKADSDTAGEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASAD 1402
+ R KAD G +GAPMPG+++ V VK G +VK D L V+ MK ET I A D
Sbjct: 1062 KSTVAAREKADPGNPGHVGAPMPGSVVTVLVKEGDEVKAGDPLAVIEAMKMETTITAPVD 1121
Query: 1403 GVVKEIFVEVGGQVAQNDLVVVL 1425
G VK + V+ G QV DL+V L
Sbjct: 1122 GTVKRVLVKAGDQVEAGDLLVEL 1144
>gnl|CDD|223968 COG1038, PycA, Pyruvate carboxylase [Energy production and
conversion].
Length = 1149
Score = 1249 bits (3234), Expect = 0.0
Identities = 508/1122 (45%), Positives = 690/1122 (61%), Gaps = 127/1122 (11%)
Query: 54 PKTMEKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPV 113
+ ++K+L+ANR E+AIRV RA NE+GIK+V IYSE+D+ S HR K D+++L+G+G PV
Sbjct: 4 GEKIKKVLVANRGEIAIRVFRAANELGIKTVAIYSEEDRLSLHRFKADESYLIGEGKGPV 63
Query: 114 AAYLNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKV 173
AYL+I EII IAK + DAIHPGYGFLSE +FA+A AG+ FIGP P VL LGDKV
Sbjct: 64 EAYLSIDEIIRIAKRSGADAIHPGYGFLSENPEFARACAEAGITFIGPKPEVLDMLGDKV 123
Query: 174 LARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAI 233
AR+AA+KA VP+IPGT P+ +++ EF +E +PV++KAA GGGGRGMR+V ++ +
Sbjct: 124 KARNAAIKAGVPVIPGTDGPIETIEEALEFAEEYGYPVMIKAAAGGGGRGMRVVRSEADL 183
Query: 234 EENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQK 293
E F+RA+SEA A+FG D++ VEK ++ P+HIEVQILGD +G+VVHL+ERDCS+QRR+QK
Sbjct: 184 AEAFERAKSEAKAAFGNDEVYVEKLVENPKHIEVQILGDTHGNVVHLFERDCSVQRRHQK 243
Query: 294 VIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEH 353
V+++APA +S +RD I + +V+LA+++GY NAGTVEFL+D+D FYFIEVNPR+QVEH
Sbjct: 244 VVEVAPAPYLSPELRDEICDDAVKLARNIGYINAGTVEFLVDEDGKFYFIEVNPRIQVEH 303
Query: 354 TLSEEITGIDVVQSQIKIAQGKSLT--ELGLCQEK-ITPQGCAIQCHLRTEDPKRNFQPS 410
T++EEITGID+V++QI IA G +L ELGL Q+K I G AIQC + TEDP+ F P
Sbjct: 304 TITEEITGIDIVKAQIHIAAGATLHTPELGLPQQKDIRTHGYAIQCRITTEDPENGFIPD 363
Query: 411 TGRLDVFTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEET 470
TGR+ + G+R+D Y G I+P YDSLL K+ +T++ + KM RAL E
Sbjct: 364 TGRITAYRSAGGFGVRLDGGNAYAGAVITPYYDSLLVKVTCWGSTFEEAIRKMIRALREF 423
Query: 471 QVSGVTTNLPFLLNVFDDKKFLSGEALETNFIDDNPQLLERNSYQTCRDMKILRFIGETL 530
++ GV TN+PFL V + F SG T+FID P+L + Q R K+L ++ +
Sbjct: 424 RIRGVKTNIPFLEAVLNHPDFRSGRY-TTSFIDTTPELFQFPKSQD-RGTKLLTYLADVT 481
Query: 531 VNGPMTPLYVNVKPVNVDPVIDRTVSKFETSCADFVSDMNERSKIRTDTDEKYLIKKPQA 590
VNG L KP D + + KP
Sbjct: 482 VNG-FPGLKSRPKPAYDDAKLP-----------------------------VINVSKPPP 511
Query: 591 NGYRKLLQVMGAGEFVTTVRKLKHVLLTDTTFRDAHQSLLATRVRTYDLKKVMMGAGEFV 650
G +++L +G F VR+ K V
Sbjct: 512 RGTKQILDELGPEGFARWVREQKAV----------------------------------- 536
Query: 651 NSVRKLKHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNLYSLEMWGGAVSHT 710
LLTDTTFRDAHQSLLATRVRT+DL +++P A L+SLEMWGGA
Sbjct: 537 ---------LLTDTTFRDAHQSLLATRVRTHDLARIAPATARALPQLFSLEMWGGATFDV 587
Query: 711 CLKFLKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIF 770
++FLKE PWERL LR+ +PN+ FQM+LRG + VGY NY + F + A+++GID+F
Sbjct: 588 AMRFLKEDPWERLERLRKAVPNVLFQMLLRGANGVGYKNYPDNVIREFVKQAAKSGIDVF 647
Query: 771 RVFDPLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLV 830
R+FD LN V + +DAV++ G + EATICY GD+ +P +KKY+L+YY LAK+L
Sbjct: 648 RIFDSLNWVEQMRVAIDAVRE-AGK--VAEATICYTGDILDPGRKKYTLDYYVKLAKELE 704
Query: 831 ESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGA 890
++GA +L +KDMAGLLKP AA LI + RE ++ IH+HTHD +G GVAT LA V+AG
Sbjct: 705 KAGAHILAIKDMAGLLKPAAAYRLISALRETV-DLPIHLHTHDTSGNGVATYLAAVEAGV 763
Query: 891 DIVDVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAPAHNL 950
DIVDVA SMSG+ SQP++ +IV+ L T++
Sbjct: 764 DIVDVAMASMSGLTSQPSLNSIVAALAGTER----------------------------- 794
Query: 951 LWRCGIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTNLKFRTMSF 1010
G+D+ V + S YW VR+LYAPFE + LK ++E YL+E+PGGQ TNLK + S
Sbjct: 795 --DTGLDIEAVRELSFYWEAVRKLYAPFE-SGLKGPATEVYLHEMPGGQLTNLKQQARSL 851
Query: 1011 GLD--FEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIFMTQEKLSYRDVMENADKIIFP 1068
GL +E+VK AYR N + GDI+K TPSSKVV DLA+FM Q L+ DV +A+ + FP
Sbjct: 852 GLGDRWEEVKEAYREVNRMFGDIVKVTPSSKVVGDLALFMVQNDLTEEDVENDANDLDFP 911
Query: 1069 KSVTEFFQGSIGEPYQGFPKKLQEKVLDSLKDH-----ALERKAEFDPIMA-----CDYR 1118
SV FF+G +G+P GFP+ LQ+KVL + L A+F+ I
Sbjct: 912 DSVVSFFRGELGQPPGGFPEPLQKKVLKGREPLTDRPGELLEPADFEAIRKELEEKLGRE 971
Query: 1119 EDEPFKMNKLIFPKATKKFMKFRDEFGPVDKLPTRIFFHALE 1160
+ + L++PK + + K R+ +G V LPT FF+ L
Sbjct: 972 VSDQDVASYLLYPKVFEDYQKHRETYGDVSVLPTPTFFYGLR 1013
Score = 615 bits (1588), Expect = 0.0
Identities = 263/614 (42%), Positives = 351/614 (57%), Gaps = 85/614 (13%)
Query: 645 GAGEFVNSVRKLKHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNLYSLEMWG 704
G F VR+ K +LLTDTTFRDAHQSLLATRVRT+DL +++P A L+SLEMWG
Sbjct: 522 GPEGFARWVREQKAVLLTDTTFRDAHQSLLATRVRTHDLARIAPATARALPQLFSLEMWG 581
Query: 705 GAVSHTCLKFLKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQ 764
GA ++FLKE PWERL LR+ +PN+ FQM+LRG + VGY NY + F + A++
Sbjct: 582 GATFDVAMRFLKEDPWERLERLRKAVPNVLFQMLLRGANGVGYKNYPDNVIREFVKQAAK 641
Query: 765 AGIDIFRVFDPLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYED 824
+GID+FR+FD LN V + +DAV++ G + EATICY GD+ +P +KKY+L+YY
Sbjct: 642 SGIDVFRIFDSLNWVEQMRVAIDAVRE-AGK--VAEATICYTGDILDPGRKKYTLDYYVK 698
Query: 825 LAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLA 884
LAK+L ++GA +L +KDMAGLLKP AA LI + RE ++ IH+HTHD +G GVAT LA
Sbjct: 699 LAKELEKAGAHILAIKDMAGLLKPAAAYRLISALRETV-DLPIHLHTHDTSGNGVATYLA 757
Query: 885 CVKAGADIVDVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELY 944
V+AG DIVDVA SMSG+ SQP++ +IV+ L T++ G+D+ V + S YW VR+LY
Sbjct: 758 AVEAGVDIVDVAMASMSGLTSQPSLNSIVAALAGTERDTGLDIEAVRELSFYWEAVRKLY 817
Query: 945 APAHNLLWRCGIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTNLK 1004
AP FE + LK ++E YL+E+PGGQ TNLK
Sbjct: 818 AP-------------------------------FE-SGLKGPATEVYLHEMPGGQLTNLK 845
Query: 1005 FRTMSFGLD--FEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIFMTQEKLSYRDVMENA 1062
+ S GL +E+VK AYR N + GDI+K TPSSKVV DLA+FM Q L+ DV +A
Sbjct: 846 QQARSLGLGDRWEEVKEAYREVNRMFGDIVKVTPSSKVVGDLALFMVQNDLTEEDVENDA 905
Query: 1063 DKIIFPKSVTEFFQGSIGEPYQGFPKKLQEKVLDSLKDHALERKAEFDPIMACDYREDEP 1122
+ + FP SV FF+G +G+P GFP+ LQ+KV LK P+ EP
Sbjct: 906 NDLDFPDSVVSFFRGELGQPPGGFPEPLQKKV---LKGRE--------PLTDRPGELLEP 954
Query: 1123 FKMNKLIFPKATKKFMKFRDEFGPVDKLPTRIFFHALERKAEFDPIMACDCRENEPVKMN 1182
F R E LE K + D +
Sbjct: 955 AD------------FEAIRKE---------------LEEKLGREV-SDQDV-------AS 979
Query: 1183 ELIFPKATKKFMKFRDEFGPVDKLPTRIFLNGPNIGEEFSCEFKTGDTAYVTTLSISEHL 1242
L++PK + + K R+ +G V LPT F G GEE E + G T + +I E
Sbjct: 980 YLLYPKVFEDYQKHRETYGDVSVLPTPTFFYGLRPGEEIEVEIEKGKTLIIKLQAIGE-P 1038
Query: 1243 NDHGERTVFFLYNG 1256
++ G RTV+F NG
Sbjct: 1039 DEKGMRTVYFELNG 1052
Score = 141 bits (357), Expect = 1e-33
Identities = 63/144 (43%), Positives = 83/144 (57%), Gaps = 4/144 (2%)
Query: 1286 RIFLNGPNIGEEFSCEFKTGDTAYVTTLSISEHLNDHGERTVFFLYNGQLRSL---DKNK 1342
F G GEE E + G T + +I E ++ G RTV+F NGQ R + D++
Sbjct: 1006 PTFFYGLRPGEEIEVEIEKGKTLIIKLQAIGE-PDEKGMRTVYFELNGQPREIKVKDRSV 1064
Query: 1343 AKKLKLRSKADSDTAGEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASAD 1402
+ R KAD G IGAPMPG ++EVKVK G +VKK DVL V+ MK ET I A D
Sbjct: 1065 GSSVVARRKADPGNPGHIGAPMPGVVVEVKVKKGDKVKKGDVLAVIEAMKMETTISAPFD 1124
Query: 1403 GVVKEIFVEVGGQVAQNDLVVVLD 1426
G VKE+ V+ G Q+ DL+VV++
Sbjct: 1125 GTVKEVLVKDGDQIDGGDLLVVVE 1148
>gnl|CDD|130302 TIGR01235, pyruv_carbox, pyruvate carboxylase. This enzyme plays a
role in gluconeogensis but not glycolysis [Energy
metabolism, Glycolysis/gluconeogenesis].
Length = 1143
Score = 1220 bits (3157), Expect = 0.0
Identities = 536/1205 (44%), Positives = 714/1205 (59%), Gaps = 165/1205 (13%)
Query: 59 KILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKG--MPPVAAY 116
KIL+ANR E+AIRV RA NE+GI++V IYSE+DK S HR K D+++ VG+G + P+ AY
Sbjct: 1 KILVANRGEIAIRVFRAANELGIRTVAIYSEEDKLSLHRQKADESYQVGEGPDLGPIEAY 60
Query: 117 LNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLAR 176
L+I EII +AK N VDAIHPGYGFLSE +FA A AG+ FIGP V+ LGDKV AR
Sbjct: 61 LSIDEIIRVAKLNGVDAIHPGYGFLSENSEFADACNKAGIIFIGPKAEVMDQLGDKVAAR 120
Query: 177 DAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEEN 236
+ A+KA VP++PGT P +++V +F + +PVI+KA++GGGGRGMR+V ++ + +
Sbjct: 121 NLAIKAGVPVVPGTDGPPETMEEVLDFAAAIGYPVIIKASWGGGGRGMRVVRSEADVADA 180
Query: 237 FKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQ 296
F+RA+SEA A+FG D++ VEK I+RPRHIEVQ+LGDK+G+VVHL+ERDCS+QRR+QKV++
Sbjct: 181 FQRAKSEAKAAFGNDEVYVEKLIERPRHIEVQLLGDKHGNVVHLFERDCSVQRRHQKVVE 240
Query: 297 IAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLS 356
+APA +S VRD I E +V+LAK++ Y NAGTVEFL+D D FYFIEVNPR+QVEHT++
Sbjct: 241 VAPAPYLSREVRDEIAEYAVKLAKAVNYINAGTVEFLVDNDGKFYFIEVNPRIQVEHTVT 300
Query: 357 EEITGIDVVQSQIKIAQGKSL--TELGL-CQEKITPQGCAIQCHLRTEDPKRNFQPSTGR 413
EEITGID+VQ+QI IA G SL +LG+ QE I G AIQC + TEDP NFQP TGR
Sbjct: 301 EEITGIDIVQAQIHIADGASLPTPQLGVPNQEDIRTNGYAIQCRVTTEDPANNFQPDTGR 360
Query: 414 LDVFTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVS 473
++ + GIR+D Y G I+P YDSLL K+ +T + + KM RAL E ++
Sbjct: 361 IEAYRSAGGFGIRLDGGNSYAGAIITPYYDSLLVKVSAWASTPEEAAAKMDRALREFRIR 420
Query: 474 GVTTNLPFLLNVFDDKKFLSGEALETNFIDDNPQLLERNSYQTCRDMKILRFIGETLVNG 533
GV TN+PFL NV KFL G + +T FID P+L + Q R K+L ++ + VNG
Sbjct: 421 GVKTNIPFLENVLGHPKFLDG-SYDTRFIDTTPELFQFVKSQD-RATKLLTYLADVTVNG 478
Query: 534 PMTPLYVNVKPVNVDPVIDRTVSKFETSCADFVSDMNERSKIRTDTDEKYLIKKPQANGY 593
+KP+ P + Y + P G
Sbjct: 479 -HPEAKDKLKPLENAPRVVVL----------------------------YADQNPVPRGT 509
Query: 594 RKLLQVMGAGEFVTTVRKLKHVLLTDTTFRDAHQSLLATRVRTYDLKKVMMGAGEFVNSV 653
+++L G F V
Sbjct: 510 KQILDEKGPEGF--------------------------------------------AEWV 525
Query: 654 RKLKHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNLYSLEMWGGAVSHTCLK 713
R K +LLTDTTFRDAHQSLLATRVRT+DL K++P ++ NL+SLE WGGA ++
Sbjct: 526 RNQKRVLLTDTTFRDAHQSLLATRVRTHDLAKIAPTTSHALPNLFSLECWGGATFDVAMR 585
Query: 714 FLKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVF 773
FL E PWERL +LR+ +PNI FQM+LRG + VGY+NY V F + A+Q GIDIFRVF
Sbjct: 586 FLHEDPWERLEDLRKGVPNILFQMLLRGANGVGYTNYPDNVVKYFVKQAAQGGIDIFRVF 645
Query: 774 DPLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESG 833
D LN V N+ GMDAV + G +VEA ICY GD+ +P + KY L YY +LA +L ++G
Sbjct: 646 DSLNWVENMRVGMDAVAE-AGK--VVEAAICYTGDILDPARPKYDLKYYTNLAVELEKAG 702
Query: 834 AQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIV 893
A +L +KDMAGLLKP AAKLLI + REK ++ IH HTHD +G VA+ LA V+AG D+V
Sbjct: 703 AHILGIKDMAGLLKPAAAKLLIKALREKT-DLPIHFHTHDTSGIAVASMLAAVEAGVDVV 761
Query: 894 DVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAPAHNLLWR 953
DVA DSMSG+ SQP++G IV+ LE +++ G+++ +RE
Sbjct: 762 DVAVDSMSGLTSQPSLGAIVAALEGSERDPGLNVAW----------IRE----------- 800
Query: 954 CGIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTNLKFRTMSFGLD 1013
S+YW VR LYA FE DLK +SE YL+E+PGGQYTNL+F+ S GL
Sbjct: 801 ----------LSAYWEAVRNLYAAFES-DLKGPASEVYLHEMPGGQYTNLQFQARSLGLG 849
Query: 1014 --FEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIFMTQEKLSYRDVMENADKIIFPKSV 1071
+ +VK+AYR AN + GDI+K TPSSKVV D+A+FM L+ DV+E A+++ FP SV
Sbjct: 850 DRWHEVKQAYREANQMFGDIVKVTPSSKVVGDMALFMVSNDLTVDDVVEPAEELSFPDSV 909
Query: 1072 TEFFQGSIGEPYQGFPKKLQEKVLDSLKDHALERKAEFDPIMACDYREDEPFKMNKLIFP 1131
EF +G IG+P+ GFP+ LQ+KVL K + + +P
Sbjct: 910 VEFLKGDIGQPHGGFPEPLQKKVLKGEKPITVRPGSLLEPA------------------- 950
Query: 1132 KATKKFMKFRDEFGPVDKLPTRIFFHALERKAEFDPIMACDCRENEPVKMNELIFPKATK 1191
R + + K E + + D + ++PK
Sbjct: 951 ----DLDAIRKDL---------------QEKHERE-VSDFDV-------ASYAMYPKVFT 983
Query: 1192 KFMKFRDEFGPVDKLPTRIFLNGPNIGEEFSCEFKTGDTAYVTTLSISEHLNDHGERTVF 1251
F K RD +GPV LPT F G GEE + + G T + ++ + GER VF
Sbjct: 984 DFAKARDTYGPVSVLPTPAFFYGLADGEEIEVDIEKGKTLIIKLQAVGA-TDSQGEREVF 1042
Query: 1252 FLYNG 1256
F NG
Sbjct: 1043 FELNG 1047
Score = 135 bits (342), Expect = 5e-32
Identities = 59/156 (37%), Positives = 83/156 (53%), Gaps = 4/156 (2%)
Query: 1274 SDVFAFLRLKSERIFLNGPNIGEEFSCEFKTGDTAYVTTLSISEHLNDHGERTVFFLYNG 1333
D + + + F G GEE + + G T + ++ + GER VFF NG
Sbjct: 989 RDTYGPVSVLPTPAFFYGLADGEEIEVDIEKGKTLIIKLQAVGA-TDSQGEREVFFELNG 1047
Query: 1334 QLRSL---DKNKAKKLKLRSKADSDTAGEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSV 1390
Q R + D++ + +R KAD +GAPMPG IIEVKV GQ V K D L+V+
Sbjct: 1048 QPRRIKVPDRSHKAEAAVRRKADPGNPAHVGAPMPGVIIEVKVSSGQAVNKGDPLVVLEA 1107
Query: 1391 MKTETLIHASADGVVKEIFVEVGGQVAQNDLVVVLD 1426
MK ET I A DG +KE+ V+ G Q+ DL++VL+
Sbjct: 1108 MKMETAIQAPKDGTIKEVLVKAGEQIDAKDLLLVLE 1143
>gnl|CDD|236307 PRK08591, PRK08591, acetyl-CoA carboxylase biotin carboxylase
subunit; Validated.
Length = 451
Score = 565 bits (1460), Expect = 0.0
Identities = 200/450 (44%), Positives = 297/450 (66%), Gaps = 10/450 (2%)
Query: 56 TMEKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAA 115
+KILIANR E+A+R+ RAC E+GIK+V ++S D+ + H D+A +G P +
Sbjct: 1 MFDKILIANRGEIALRIIRACKELGIKTVAVHSTADRDALHVQLADEAVCIG---PAPSK 57
Query: 116 --YLNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKV 173
YLNIP II A+ DAIHPGYGFLSE DFA+ +G FIGP+ ++ +GDKV
Sbjct: 58 KSYLNIPAIISAAEITGADAIHPGYGFLSENADFAEICEDSGFTFIGPSAETIRLMGDKV 117
Query: 174 LARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAI 233
A+ KA VP++PG+ PV D ++ E+ +PVI+KA GGGGRGMR+V + +
Sbjct: 118 TAKATMKKAGVPVVPGSDGPVDDEEEALAIAKEIGYPVIIKATAGGGGRGMRVVRTEAEL 177
Query: 234 EENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQK 293
E+ F A++EA A+FG + +EKY++ PRHIE+Q+L D +G+ +HL ERDCS+QRR+QK
Sbjct: 178 EKAFSMARAEAKAAFGNPGVYMEKYLENPRHIEIQVLADGHGNAIHLGERDCSLQRRHQK 237
Query: 294 VIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEH 353
V++ AP+ ++ +R I E +V+ AK++GY AGT+EFL +K+ FYFIE+N R+QVEH
Sbjct: 238 VLEEAPSPAITEELRRKIGEAAVKAAKAIGYRGAGTIEFLYEKNGEFYFIEMNTRIQVEH 297
Query: 354 TLSEEITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGR 413
++E ITG+D+V+ QI+IA G+ L + QE I +G AI+C + EDP +NF PS G+
Sbjct: 298 PVTEMITGVDLVKEQIRIAAGE---PLSIKQEDIVFRGHAIECRINAEDPAKNFMPSPGK 354
Query: 414 LDVFTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVS 473
+ + P G+RVDS+ Y G I P YDS++ K+IVH T + + +M+RAL E +
Sbjct: 355 ITRYHPPGGPGVRVDSAV-YTGYTIPPYYDSMIGKLIVHGETREEAIARMKRALSEFVID 413
Query: 474 GVTTNLPFLLNVFDDKKFLSGEALETNFID 503
G+ T +P L + +D F +G+ ++++
Sbjct: 414 GIKTTIPLHLRLLNDPNFQAGDY-NIHYLE 442
>gnl|CDD|227111 COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit
[Lipid metabolism].
Length = 645
Score = 557 bits (1437), Expect = 0.0
Identities = 211/449 (46%), Positives = 299/449 (66%), Gaps = 6/449 (1%)
Query: 57 MEKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAAY 116
KILIANR E+A RV R ++GI++V +YS+ D + H D+A +G P +Y
Sbjct: 2 FSKILIANRGEIACRVIRTARDLGIRTVAVYSDADADALHVRMADEAVHIG-PAPAAESY 60
Query: 117 LNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLAR 176
L+I +II A+ AIHPGYGFLSE DFA+AV AGL FIGP+ ++ +GDK+ A+
Sbjct: 61 LDIDKIIDAARRTGAQAIHPGYGFLSENADFAQAVEDAGLVFIGPSAGAIRAMGDKIAAK 120
Query: 177 DAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEEN 236
A +A VP +PG P+ D ++ +E+ +PV++KA+ GGGG+GMR+V + E
Sbjct: 121 KLAAEAGVPTVPGYHGPIQDAAELVAIAEEIGYPVLIKASAGGGGKGMRVVETPEEFAEA 180
Query: 237 FKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQ 296
+ A+ EA ASFG D + +EKY+D+PRHIE+Q+ D++G+VVHL ERDCS+QRR+QKVI+
Sbjct: 181 LESARREAKASFGDDRVFIEKYLDKPRHIEIQVFADQHGNVVHLGERDCSLQRRHQKVIE 240
Query: 297 IAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLS 356
APA ++ R+A+ E +V AK++GY AGTVEF++D D NFYF+E+N RLQVEH ++
Sbjct: 241 EAPAPFLTEETREAMGEAAVAAAKAVGYVGAGTVEFIVDADGNFYFLEMNTRLQVEHPVT 300
Query: 357 EEITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRLDV 416
E ITGID+V+ QI++A G+ +L Q+ I G AI+ + EDP R F PSTGRL
Sbjct: 301 ELITGIDLVEWQIRVASGE---KLPFTQDDIPLNGHAIEARIYAEDPARGFLPSTGRLTR 357
Query: 417 FTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSGVT 476
+ PA G+RVDS G +ISP YD ++AK+IVH A + + +++RRAL E +V G+
Sbjct: 358 YRPPAGPGVRVDSGV-REGDEISPFYDPMIAKLIVHGADREEALDRLRRALAEFEVEGIA 416
Query: 477 TNLPFLLNVFDDKKFLSGEALETNFIDDN 505
TN+PFL + D +F G L+T FI
Sbjct: 417 TNIPFLRALMADPRFRGG-DLDTGFIARE 444
Score = 86.2 bits (214), Expect = 5e-17
Identities = 31/77 (40%), Positives = 48/77 (62%)
Query: 1350 SKADSDTAGEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIF 1409
+K + ++GE+ APMPG ++ V VK GQ+V D+L+V+ MK E + A DGVV ++
Sbjct: 568 AKVAAASSGELLAPMPGTVVSVAVKEGQEVSAGDLLVVLEAMKMENTLRAPRDGVVAKLA 627
Query: 1410 VEVGGQVAQNDLVVVLD 1426
V G QVA ++V +
Sbjct: 628 VAEGDQVAVGTVLVEFE 644
>gnl|CDD|236325 PRK08654, PRK08654, pyruvate carboxylase subunit A; Validated.
Length = 499
Score = 526 bits (1356), Expect = e-173
Identities = 215/454 (47%), Positives = 315/454 (69%), Gaps = 7/454 (1%)
Query: 58 EKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAAYL 117
+KILIANR E+AIRV RAC E+GIK+V +YSE DK + D+A+ +G PP +YL
Sbjct: 3 KKILIANRGEIAIRVMRACRELGIKTVAVYSEADKNALFVKYADEAYPIGPA-PPSKSYL 61
Query: 118 NIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLARD 177
NI II +AK DAIHPGYGFL+E +FAKA AG+ FIGP+ +V++ +G K+ A+
Sbjct: 62 NIERIIDVAKKAGADAIHPGYGFLAENPEFAKACEKAGIVFIGPSSDVIEAMGSKINAKK 121
Query: 178 AALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENF 237
KA VP++PGT E + D+++ KE +E+ +PVI+KA+ GGGG GMR+V +++ +E+
Sbjct: 122 LMKKAGVPVLPGTEEGIEDIEEAKEIAEEIGYPVIIKASAGGGGIGMRVVYSEEELEDAI 181
Query: 238 KRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQI 297
+ QS A ++FG + +EKY+++PRHIE+QIL DK+G+V+HL +R+CS+QRR+QK+I+
Sbjct: 182 ESTQSIAQSAFGDSTVFIEKYLEKPRHIEIQILADKHGNVIHLGDRECSIQRRHQKLIEE 241
Query: 298 APAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLSE 357
AP+ M+ +R+ + E +V+ AK++ Y NAGTVEFL NFYF+E+N RLQVEH ++E
Sbjct: 242 APSPIMTPELRERMGEAAVKAAKAINYENAGTVEFLYSN-GNFYFLEMNTRLQVEHPITE 300
Query: 358 EITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRLDVF 417
+TGID+V+ QIKIA G+ EL QE IT +G AI+C + EDP +F PS G++ +
Sbjct: 301 MVTGIDIVKEQIKIAAGE---ELSFKQEDITIRGHAIECRINAEDPLNDFAPSPGKIKRY 357
Query: 418 TDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSGVTT 477
P G+RVD S + G +I P YDS+++K+IV T + + +MRRAL E + GV T
Sbjct: 358 RSPGGPGVRVD-SGVHMGYEIPPYYDSMISKLIVWGRTREEAIARMRRALYEYVIVGVKT 416
Query: 478 NLPFLLNVFDDKKFLSGEALETNFIDDNPQLLER 511
N+PF V +++ F+ G L T+FI++ +LE
Sbjct: 417 NIPFHKAVMENENFVRGN-LHTHFIEEETTILEE 449
>gnl|CDD|223516 COG0439, AccC, Biotin carboxylase [Lipid metabolism].
Length = 449
Score = 519 bits (1340), Expect = e-171
Identities = 216/447 (48%), Positives = 304/447 (68%), Gaps = 6/447 (1%)
Query: 57 MEKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAAY 116
+KILIANR E+A+R+ RAC E+GI++V +YSE D + H D+A +G P +Y
Sbjct: 2 FKKILIANRGEIAVRIIRACRELGIETVAVYSEADADALHVALADEAVCIGPA-PSADSY 60
Query: 117 LNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLAR 176
LNI II A+ DAIHPGYGFLSE FA+A AGL FIGP+ ++ +GDK+ AR
Sbjct: 61 LNIDAIIAAAEETGADAIHPGYGFLSENAAFAEACAEAGLTFIGPSAEAIRRMGDKITAR 120
Query: 177 DAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEEN 236
KA VP++PG+ V D ++ +E+ +PVI+KAA GGGGRGMR+V N++ +E
Sbjct: 121 RLMAKAGVPVVPGSDGAVADNEEALAIAEEIGYPVIVKAAAGGGGRGMRVVRNEEELEAA 180
Query: 237 FKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQ 296
F+ A+ EA A+FG + +EK+I+ PRHIEVQ+LGD +G+V+HL ERDCS+QRR+QKVI+
Sbjct: 181 FEAARGEAEAAFGNPRVYLEKFIEGPRHIEVQVLGDGHGNVIHLGERDCSIQRRHQKVIE 240
Query: 297 IAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLS 356
AP+ ++ +R+ I E +VR AK +GY AGTVEFL D + FYFIE+N RLQVEH ++
Sbjct: 241 EAPSPLLTEELREKIGEAAVRAAKLIGYRGAGTVEFLYDSNGEFYFIEMNTRLQVEHPVT 300
Query: 357 EEITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRLDV 416
E +TGID+V+ QI+IA G+ L+ L QE I +G AI+C + EDP NF PS G++
Sbjct: 301 EMVTGIDLVKEQIRIAAGEPLS---LKQEDIKFRGHAIECRINAEDPLGNFLPSPGKITR 357
Query: 417 FTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSGVT 476
+ P G+RVDS Y G ++ P YDS++ K+IVH T + +MRRAL+E + G+
Sbjct: 358 YAPPGGPGVRVDSGV-YDGYRVPPYYDSMIGKVIVHGRTRDEAIARMRRALDELVIDGIK 416
Query: 477 TNLPFLLNVFDDKKFLSGEALETNFID 503
TN+P L + D FL+G+ L+T+F++
Sbjct: 417 TNIPLLQEILRDPDFLAGD-LDTHFLE 442
>gnl|CDD|180406 PRK06111, PRK06111, acetyl-CoA carboxylase biotin carboxylase
subunit; Validated.
Length = 450
Score = 511 bits (1318), Expect = e-168
Identities = 193/447 (43%), Positives = 292/447 (65%), Gaps = 9/447 (2%)
Query: 59 KILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVA-AYL 117
K+LIANR E+A+R+ R C ++GI++V IYSE D+ + H D+A+L+G P V +YL
Sbjct: 4 KVLIANRGEIAVRIIRTCQKLGIRTVAIYSEADRDALHVKMADEAYLIGG--PRVQESYL 61
Query: 118 NIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLARD 177
N+ +II IAK +AIHPGYG LSE FA+ G+ FIGP+ +++ +G K+ AR
Sbjct: 62 NLEKIIEIAKKTGAEAIHPGYGLLSENASFAERCKEEGIVFIGPSADIIAKMGSKIEARR 121
Query: 178 AALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENF 237
A A VP++PG T + D ++ ++ +PV+LKA+ GGGG GM++V + + + F
Sbjct: 122 AMQAAGVPVVPGITTNLEDAEEAIAIARQIGYPVMLKASAGGGGIGMQLVETEQELTKAF 181
Query: 238 KRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQI 297
+ + A FG +M +EKYI+ PRHIE+Q+L D +G+ V+L+ER+CS+QRR+QKVI+
Sbjct: 182 ESNKKRAANFFGNGEMYIEKYIEDPRHIEIQLLADTHGNTVYLWERECSVQRRHQKVIEE 241
Query: 298 APAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLSE 357
AP+ + R A+ E +V+ AK++GY+NAGT+EFL+D+ NFYF+E+N RLQVEH ++E
Sbjct: 242 APSPFLDEETRKAMGERAVQAAKAIGYTNAGTIEFLVDEQKNFYFLEMNTRLQVEHPVTE 301
Query: 358 EITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRLDVF 417
EITGID+V+ Q++IA G+ L+ Q+ I G AI+ + EDPK F PS G++
Sbjct: 302 EITGIDLVEQQLRIAAGEKLS---FTQDDIKRSGHAIEVRIYAEDPKT-FFPSPGKITDL 357
Query: 418 TDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSGVTT 477
T P G+R D + G+ ++P YD ++AK+I H T + + ++ ALEE +V G+ T
Sbjct: 358 TLPGGEGVRHDHAVE-NGVTVTPFYDPMIAKLIAHGETREEAISRLHDALEELKVEGIKT 416
Query: 478 NLPFLLNVFDDKKFLSGEALETNFIDD 504
N+P LL V +D F +G T F+
Sbjct: 417 NIPLLLQVLEDPVFKAGGY-TTGFLTK 442
>gnl|CDD|180865 PRK07178, PRK07178, pyruvate carboxylase subunit A; Validated.
Length = 472
Score = 502 bits (1295), Expect = e-165
Identities = 207/452 (45%), Positives = 304/452 (67%), Gaps = 7/452 (1%)
Query: 59 KILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAAYLN 118
KILIANR E+A+R+ RAC EMGI+SV IYSE D+ + H + D+A+ +G P+A YLN
Sbjct: 4 KILIANRGEIAVRIVRACAEMGIRSVAIYSEADRHALHVKRADEAYSIGAD--PLAGYLN 61
Query: 119 IPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLARDA 178
++ +A DA+HPGYGFLSE + A+ G++FIGP+ V++ +GDK AR A
Sbjct: 62 PRRLVNLAVETGCDALHPGYGFLSENAELAEICAERGIKFIGPSAEVIRRMGDKTEARRA 121
Query: 179 ALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENFK 238
+KA VP+ PG+ + D+D+ + + +PV+LKA GGGGRG+R +++ +E+NF
Sbjct: 122 MIKAGVPVTPGSEGNLADLDEALAEAERIGYPVMLKATSGGGGRGIRRCNSREELEQNFP 181
Query: 239 RAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQIA 298
R SEA +FG ++ +EK I P+HIEVQIL D +G+VVHL+ERDCS+QRR QK+I+IA
Sbjct: 182 RVISEATKAFGSAEVFLEKCIVNPKHIEVQILADSHGNVVHLFERDCSIQRRNQKLIEIA 241
Query: 299 PAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLSEE 358
P+ ++ R I + +VR AK++GY NAGTVEFLLD D YF+E+N R+QVEHT++EE
Sbjct: 242 PSPQLTPEQRAYIGDLAVRAAKAVGYENAGTVEFLLDADGEVYFMEMNTRVQVEHTITEE 301
Query: 359 ITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRLDVFT 418
ITGID+V+ QI+IA G L+ QE I +G A+Q + EDPK +F PS G++ +
Sbjct: 302 ITGIDIVREQIRIASGLPLS---YKQEDIQHRGFALQFRINAEDPKNDFLPSFGKITRYY 358
Query: 419 DPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSGVTTN 478
P G+R D++ Y G I P YDS+ AK+IV T++ + ++ RRAL++ +V GV T
Sbjct: 359 APGGPGVRTDTAI-YTGYTIPPYYDSMCAKLIVWALTWEEALDRGRRALDDMRVQGVKTT 417
Query: 479 LPFLLNVFDDKKFLSGEALETNFIDDNPQLLE 510
+P+ + + +F SG+ T+F++ +P+L
Sbjct: 418 IPYYQEILRNPEFRSGQ-FNTSFVESHPELTN 448
>gnl|CDD|129605 TIGR00514, accC, acetyl-CoA carboxylase, biotin carboxylase
subunit. This model represents the biotin carboxylase
subunit found usually as a component of acetyl-CoA
carboxylase. Acetyl-CoA carboxylase is designated EC
6.4.1.2 and this component, biotin carboxylase, has its
own designation, EC 6.3.4.14. Homologous domains are
found in eukaryotic forms of acetyl-CoA carboxylase and
in a number of other carboxylases (e.g. pyruvate
carboxylase), but seed members and trusted cutoff are
selected so as to exclude these. In some systems, the
biotin carboxyl carrier protein and this protein (biotin
carboxylase) may be shared by different
carboxyltransferases. However, this model is not
intended to identify the biotin carboxylase domain of
propionyl-coA carboxylase. The model should hit the full
length of proteins, except for chloroplast transit
peptides in plants. If it hits a domain only of a longer
protein, there may be a problem with the identification
[Fatty acid and phospholipid metabolism, Biosynthesis].
Length = 449
Score = 497 bits (1281), Expect = e-163
Identities = 191/447 (42%), Positives = 290/447 (64%), Gaps = 6/447 (1%)
Query: 57 MEKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAAY 116
++KILIANR E+A+R+ RAC E+GIK+V ++S D+ + H D+A +G P +Y
Sbjct: 2 LDKILIANRGEIALRILRACKELGIKTVAVHSTADRDALHVLLADEAVCIGPA-PSAKSY 60
Query: 117 LNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLAR 176
LNIP II A+ DAIHPGYGFLSE +FA+ +G FIGP+ ++ +GDKV A
Sbjct: 61 LNIPNIISAAEITGADAIHPGYGFLSENANFAEQCERSGFTFIGPSAESIRLMGDKVSAI 120
Query: 177 DAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEEN 236
+ KA VP +PG+ V D ++ + +PVI+KA GGGGRGMR+V D + ++
Sbjct: 121 ETMKKAGVPCVPGSDGLVEDEEENVRIAKRIGYPVIIKATAGGGGRGMRVVREPDELVKS 180
Query: 237 FKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQ 296
++EA A+FG D + +EKYI+ PRH+E+Q+L DKYG+ ++L ERDCS+QRR+QK+++
Sbjct: 181 ISMTRAEAKAAFGNDGVYIEKYIENPRHVEIQVLADKYGNAIYLGERDCSIQRRHQKLLE 240
Query: 297 IAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLS 356
AP+ ++ +R + + +V+ A S+GY AGTVEFLLDK+ FYF+E+N R+QVEH ++
Sbjct: 241 EAPSPALTPELRRKMGDAAVKAAVSIGYRGAGTVEFLLDKNGEFYFMEMNTRIQVEHPVT 300
Query: 357 EEITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRLDV 416
E ITG+D+++ QI+IA G+ L L QE + +G AI+C + EDP + F PS GR+
Sbjct: 301 EMITGVDLIKEQIRIAAGE---PLSLKQEDVVVRGHAIECRINAEDPIKTFLPSPGRITR 357
Query: 417 FTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSGVT 476
+ P G+R DS Y G + P YDS++ K+I + T + + +M+RAL E + G+
Sbjct: 358 YLPPGGPGVRWDSHV-YSGYTVPPYYDSMIGKLITYGKTREVAIARMKRALSEFIIDGIK 416
Query: 477 TNLPFLLNVFDDKKFLSGEALETNFID 503
T +PF + +D+ F G ++++
Sbjct: 417 TTIPFHQRILEDENFQHGG-TNIHYLE 442
>gnl|CDD|180150 PRK05586, PRK05586, biotin carboxylase; Validated.
Length = 447
Score = 484 bits (1247), Expect = e-158
Identities = 203/447 (45%), Positives = 297/447 (66%), Gaps = 6/447 (1%)
Query: 59 KILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAAYLN 118
KILIANR E+A+R+ RAC EMGI++V +YSE DK + H D+A +G +YLN
Sbjct: 4 KILIANRGEIAVRIIRACREMGIETVAVYSEADKDALHVQLADEAVCIGPASSK-DSYLN 62
Query: 119 IPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLARDA 178
I II AIHPG+GFLSE FAK + FIGP ++ +G+K AR+
Sbjct: 63 IQNIISATVLTGAQAIHPGFGFLSENSKFAKMCKECNIVFIGPDSETIELMGNKSNAREI 122
Query: 179 ALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENFK 238
+KA VP++PG+ + + ++ E E+ +PV++KA+ GGGGRG+R+V +++ + + F
Sbjct: 123 MIKAGVPVVPGSEGEIENEEEALEIAKEIGYPVMVKASAGGGGRGIRIVRSEEELIKAFN 182
Query: 239 RAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQIA 298
A+SEA A+FG D M +EK+I+ P+HIE QILGD YG+VVHL ERDCS+QRR QKV++ A
Sbjct: 183 TAKSEAKAAFGDDSMYIEKFIENPKHIEFQILGDNYGNVVHLGERDCSLQRRNQKVLEEA 242
Query: 299 PAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLSEE 358
P+ M+ +R + E +V+ AK++ Y NAGT+EFLLDKD NFYF+E+N R+QVEH ++E
Sbjct: 243 PSPVMTEELRKKMGEIAVKAAKAVNYKNAGTIEFLLDKDGNFYFMEMNTRIQVEHPITEM 302
Query: 359 ITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRLDVFT 418
ITG+D+V+ QIKIA G+ +L + QE I G +I+C + EDPK F P G+++
Sbjct: 303 ITGVDLVKEQIKIAYGE---KLSIKQEDIKINGHSIECRINAEDPKNGFMPCPGKIEELY 359
Query: 419 DPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSGVTTN 478
P +G+RVDS+ Y G I P YDS++ K+IV+ + + +KM+RAL E + GV TN
Sbjct: 360 IPGGLGVRVDSAV-YSGYTIPPYYDSMIGKLIVYGKDREEAIQKMKRALGEFIIEGVNTN 418
Query: 479 LPFLLNVFDDKKFLSGEALETNFIDDN 505
+ F + +D++F+ G +T+FI+
Sbjct: 419 IDFQFIILEDEEFIKGT-YDTSFIEKK 444
>gnl|CDD|183781 PRK12833, PRK12833, acetyl-CoA carboxylase biotin carboxylase
subunit; Provisional.
Length = 467
Score = 464 bits (1195), Expect = e-150
Identities = 195/453 (43%), Positives = 280/453 (61%), Gaps = 12/453 (2%)
Query: 54 PKTMEKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPV 113
P + K+L+ANR E+A+R+ RA E+G+++V S+ D+ S D+A +G P
Sbjct: 2 PSRIRKVLVANRGEIAVRIIRAARELGMRTVAACSDADRDSLAARMADEAVHIG---PSH 58
Query: 114 AA--YLNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGD 171
AA YLN I+ A+ DAIHPGYGFLSE FA+AV AGL F+GP ++T+GD
Sbjct: 59 AAKSYLNPAAILAAARQCGADAIHPGYGFLSENAAFAEAVEAAGLIFVGPDAQTIRTMGD 118
Query: 172 KVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKD 231
K AR A +A VP +PG+ V +D E + +P+++KAA GGGGRG+R+ +
Sbjct: 119 KARARRTARRAGVPTVPGSDGVVASLDAALEVAARIGYPLMIKAAAGGGGRGIRVAHDAA 178
Query: 232 AIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRY 291
+ AQ EA A+FG + +E++I R RHIEVQILGD VVHL+ER+CS+QRR
Sbjct: 179 QLAAELPLAQREAQAAFGDGGVYLERFIARARHIEVQILGDGE-RVVHLFERECSLQRRR 237
Query: 292 QKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKD-DNFYFIEVNPRLQ 350
QK+++ AP+ ++ + RDA+ ++VRLA+ +GY AGT+E+L D FYFIE+N R+Q
Sbjct: 238 QKILEEAPSPSLTPAQRDALCASAVRLARQVGYRGAGTLEYLFDDARGEFYFIEMNTRIQ 297
Query: 351 VEHTLSEEITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPS 410
VEH ++E ITGID+VQ ++IA G+ L Q I +G A++C + EDP R+F P+
Sbjct: 298 VEHPVTEAITGIDLVQEMLRIADGEP---LRFAQGDIALRGAALECRINAEDPLRDFFPN 354
Query: 411 TGRLDVFTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEET 470
GR+D P G+RVDS YPG ++ P YDSLLAK+IVH ++ + RAL E
Sbjct: 355 PGRIDALVWPQGPGVRVDSLL-YPGYRVPPFYDSLLAKLIVHGEDRAAALARAARALREL 413
Query: 471 QVSGVTTNLPFLLNVFDDKKFLSGEALETNFID 503
++ G+ T P + D +G TNF++
Sbjct: 414 RIDGMKTTAPLHRALLADADVRAGR-FHTNFLE 445
>gnl|CDD|169452 PRK08463, PRK08463, acetyl-CoA carboxylase subunit A; Validated.
Length = 478
Score = 459 bits (1182), Expect = e-148
Identities = 209/460 (45%), Positives = 305/460 (66%), Gaps = 10/460 (2%)
Query: 57 MEKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAAY 116
+ KILIANR E+A+RV RAC ++ IKSV IY+E D+ H D+A+ +G P+ Y
Sbjct: 2 IHKILIANRGEIAVRVIRACRDLHIKSVAIYTEPDRECLHVKIADEAYRIGTD--PIKGY 59
Query: 117 LNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLAR 176
L++ I+ IAK DAIHPGYGFLSE +FAKAV AG+ FIGP V++ +G+K +AR
Sbjct: 60 LDVKRIVEIAKACGADAIHPGYGFLSENYEFAKAVEDAGIIFIGPKSEVIRKMGNKNIAR 119
Query: 177 DAALKADVPIIPGTTEPVTD--VDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIE 234
K +PI+PGT E + ++++K F ++ +PVILKA+ GGGGRG+R+V ++ +E
Sbjct: 120 YLMKKNGIPIVPGT-EKLNSESMEEIKIFARKIGYPVILKASGGGGGRGIRVVHKEEDLE 178
Query: 235 ENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKV 294
F+ + EALA F D++ +EKY+ PRHIE QILGD YG+++HL ERDCS+QRR+QKV
Sbjct: 179 NAFESCKREALAYFNNDEVFMEKYVVNPRHIEFQILGDNYGNIIHLCERDCSIQRRHQKV 238
Query: 295 IQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHT 354
I+IAP +S ++R + T+V AK++GY+NAGT+EFLLD + FYF+E+N R+QVEH
Sbjct: 239 IEIAPCPSISDNLRKTMGVTAVAAAKAVGYTNAGTIEFLLDDYNRFYFMEMNTRIQVEHG 298
Query: 355 LSEEITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRL 414
++EEITGID++ QI+IA G+ L L Q I P+G AI+ + E+ +NF PS G++
Sbjct: 299 VTEEITGIDLIVRQIRIAAGEILD---LEQSDIKPRGFAIEARITAENVWKNFIPSPGKI 355
Query: 415 DVFTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSG 474
+ +RVD S Y I P YDS+LAK+IV +Y + K+ RAL+E + G
Sbjct: 356 TEYYPALGPSVRVD-SHIYKDYTIPPYYDSMLAKLIVKATSYDLAVNKLERALKEFVIDG 414
Query: 475 VTTNLPFLLNVFDDKKFLSGEALETNFIDDNPQLLERNSY 514
+ T +PFL+ + ++F G +T++I+ + Q L +
Sbjct: 415 IRTTIPFLIAITKTREFRRG-YFDTSYIETHMQELLEKTE 453
>gnl|CDD|236269 PRK08462, PRK08462, biotin carboxylase; Validated.
Length = 445
Score = 453 bits (1168), Expect = e-146
Identities = 193/451 (42%), Positives = 297/451 (65%), Gaps = 8/451 (1%)
Query: 55 KTMEKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVA 114
K +++ILIANR E+A+R R EMG +++ IYS DK + + D +G G
Sbjct: 2 KEIKRILIANRGEIALRAIRTIQEMGKEAIAIYSTADKDALYLKYADAKICIG-GAKSSE 60
Query: 115 AYLNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVL 174
+YLNIP II A+ DAI PGYGFLSE ++F + ++FIGP+ V+ + DK
Sbjct: 61 SYLNIPAIISAAEIFEADAIFPGYGFLSENQNFVEICSHHNIKFIGPSVEVMALMSDKSK 120
Query: 175 ARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIE 234
A++ +A VP+IPG+ + ++ K+ E+ +PVILKAA GGGGRGMR+V ++ +E
Sbjct: 121 AKEVMKRAGVPVIPGSDGALKSYEEAKKIAKEIGYPVILKAAAGGGGRGMRVVEDESDLE 180
Query: 235 ENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKV 294
+ A+SEAL++FG M +EK+I+ PRHIEVQILGDK+G+V+H+ ERDCS+QRR+QK+
Sbjct: 181 NLYLAAESEALSAFGDGTMYMEKFINNPRHIEVQILGDKHGNVIHVGERDCSLQRRHQKL 240
Query: 295 IQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHT 354
I+ +PA + R+ + ET+++ AK++GY AGT EFLLD + +FYF+E+N RLQVEHT
Sbjct: 241 IEESPAVVLDEKTRERLHETAIKAAKAIGYEGAGTFEFLLDSNLDFYFMEMNTRLQVEHT 300
Query: 355 LSEEITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRL 414
+SE ++G+D+++ IKIA+G+ L QE I +G AI+C + EDPK+ F PS G++
Sbjct: 301 VSEMVSGLDLIEWMIKIAEGEELPS----QESIKLKGHAIECRITAEDPKK-FYPSPGKI 355
Query: 415 DVFTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSG 474
+ P +R+DS Y G + P YDS++ K+IV + KM+RAL+E +V G
Sbjct: 356 TKWIAPGGRNVRMDSHA-YAGYVVPPYYDSMIGKLIVWGEDRNRAIAKMKRALKEFKVEG 414
Query: 475 VTTNLPFLLNVFDDKKFLSGEALETNFIDDN 505
+ T +PF L + ++ F++ + +T +++++
Sbjct: 415 IKTTIPFHLEMMENADFINNK-YDTKYLEEH 444
>gnl|CDD|233980 TIGR02712, urea_carbox, urea carboxylase. Members of this family
are ATP-dependent urea carboxylase, including
characterized members from Oleomonas sagaranensis (alpha
class Proteobacterium) and yeasts such as Saccharomyces
cerevisiae. The allophanate hydrolase domain of the
yeast enzyme is not included in this model and is
represented by an adjacent gene in Oleomonas
sagaranensis. The fusion of urea carboxylase and
allophanate hydrolase is designated urea amidolyase. The
enzyme from Oleomonas sagaranensis was shown to be
highly active on acetamide and formamide as well as urea
[Central intermediary metabolism, Nitrogen metabolism].
Length = 1201
Score = 446 bits (1148), Expect = e-135
Identities = 186/450 (41%), Positives = 276/450 (61%), Gaps = 12/450 (2%)
Query: 58 EKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAAYL 117
+ +LIANR E+A+R+ R MGI+SV +YS+ D S H D+A +G G P +YL
Sbjct: 2 DTVLIANRGEIAVRIIRTLRRMGIRSVAVYSDADAASQHVLDADEAVCLG-GAPAAESYL 60
Query: 118 NIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLGDKVLARD 177
+I +I+ AK AIHPGYGFLSE FA+A AG+ F+GP P ++ G K AR+
Sbjct: 61 DIDKILAAAKKTGAQAIHPGYGFLSENAAFAEACEAAGIVFVGPTPEQIRKFGLKHTARE 120
Query: 178 AALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENF 237
A A VP++PGT ++ +D+ E E+ +PV+LK+ GGGG GM+ + + E F
Sbjct: 121 LAEAAGVPLLPGT-GLLSSLDEALEAAKEIGYPVMLKSTAGGGGIGMQKCDSAAELAEAF 179
Query: 238 KRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQI 297
+ + + FG + +E++++ RH+EVQI GD G VV L ERDCS+QRR QKV++
Sbjct: 180 ETVKRLGESFFGDAGVFLERFVENARHVEVQIFGDGKGKVVALGERDCSLQRRNQKVVEE 239
Query: 298 APAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLD-KDDNFYFIEVNPRLQVEHTLS 356
PA ++ R A+ + RL +++ Y +AGTVEF+ D D FYF+EVN RLQVEH ++
Sbjct: 240 TPAPNLPPETRQALLAAAERLGEAVNYRSAGTVEFIYDEARDEFYFLEVNTRLQVEHPVT 299
Query: 357 EEITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAIQCHLRTEDPKRNFQPSTGRL-D 415
E +TG+D+V+ I+IA G+ L +TP+G AI+ + E+P +NFQPS G L D
Sbjct: 300 EMVTGLDLVEWMIRIAAGELPDFASLNIS-LTPRGAAIEARVYAENPAKNFQPSPGLLTD 358
Query: 416 V-FTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTATYKSSCEKMRRALEETQVSG 474
V F D +RVD+ G ++SP+YD +LAKIIVH + + + K+ +AL ET+V G
Sbjct: 359 VQFPD----DVRVDTWVE-TGTEVSPEYDPMLAKIIVHGSDREDAILKLHQALAETRVYG 413
Query: 475 VTTNLPFLLNVFDDKKFLSGEALETNFIDD 504
+ TNL +L ++ + F S + T ++
Sbjct: 414 IETNLDYLRSILSSETFRSA-QVSTRTLNS 442
Score = 63.5 bits (155), Expect = 7e-10
Identities = 22/73 (30%), Positives = 38/73 (52%)
Query: 1354 SDTAGEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVG 1413
+ A ++ + GN +V V+VG +V+ L+++ MK E + A G V +I + G
Sbjct: 1129 PEGAEQVESEYAGNFWKVLVEVGDRVEAGQPLVILEAMKMEMPVSAPVAGKVTKILCQPG 1188
Query: 1414 GQVAQNDLVVVLD 1426
V D+V VL+
Sbjct: 1189 DMVDAGDIVAVLE 1201
>gnl|CDD|163675 cd07937, DRE_TIM_PC_TC_5S, Pyruvate carboxylase and
Transcarboxylase 5S, carboxyltransferase domain. This
family includes the carboxyltransferase domains of
pyruvate carboxylase (PC) and the transcarboxylase (TC)
5S subunit. Transcarboxylase 5S is a cobalt-dependent
metalloenzyme subunit of the biotin-dependent
transcarboxylase multienzyme complex. Transcarboxylase
5S transfers carbon dioxide from the 1.3S biotin to
pyruvate in the second of two carboxylation reactions
catalyzed by TC. The first reaction involves the
transfer of carbon dioxide from methylmalonyl-CoA to the
1.3S biotin, and is catalyzed by the 12S subunit. These
two steps allow a carboxylate group to be transferred
from oxaloacetate to propionyl-CoA to yield pyruvate and
methylmalonyl-CoA. The catalytic domain of
transcarboxylase 5S has a canonical TIM-barrel fold with
a large C-terminal extension that forms a funnel leading
to the active site. Transcarboxylase 5S forms a
homodimer and there are six dimers per complex. In
addition to the catalytic domain, transcarboxylase 5S
has several other domains including a
carbamoyl-phosphate synthase domain, a biotin
carboxylase domain, a carboxyltransferase domain, and an
ATP-grasp domain. Pyruvate carboxylase, like TC, is a
biotin-dependent enzyme that catalyzes the carboxylation
of pyruvate to produce oxaloacetate. In mammals, PC has
critical roles in gluconeogenesis, lipogenesis,
glyceroneogenesis, and insulin secretion. Inherited PC
deficiencies are linked to serious diseases in humans
such as lactic acidemia, hypoglycemia, psychomotor
retardation, and death. PC is a single-chain enzyme and
is active only in its homotetrameric form. PC has three
domains, an N-terminal biotin carboxylase domain, a
carboxyltransferase domain (this alignment model), and a
C-terminal biotin-carboxyl carrier protein domain. This
family belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 275
Score = 392 bits (1010), Expect = e-126
Identities = 133/286 (46%), Positives = 181/286 (63%), Gaps = 12/286 (4%)
Query: 661 LTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNLYSLEMWGGAVSHTCLKFLKECPW 720
+TDTT RDAHQSLLATR+RT D+ ++ + +SLE+WGGA C++FL E PW
Sbjct: 1 ITDTTLRDAHQSLLATRMRTEDMLPIAEALDEAG--FFSLEVWGGATFDVCMRFLNEDPW 58
Query: 721 ERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVFDPLNSVP 780
ERL ELR+ +PN P QM+LRG +LVGY +Y V F A++ GIDIFR+FD LN V
Sbjct: 59 ERLRELRKAMPNTPLQMLLRGQNLVGYRHYPDDVVELFVEKAAKNGIDIFRIFDALNDVR 118
Query: 781 NLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESGAQVLCLK 840
NL + AV++ G VE ICY G ++L YY LAK+L + GA +C+K
Sbjct: 119 NLEVAIKAVKK-AGK--HVEGAICYTGS------PVHTLEYYVKLAKELEDMGADSICIK 169
Query: 841 DMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIVDVAADSM 900
DMAGLL P AA L+ + +++ + IH+HTHD +G VAT LA +AG DIVD A +
Sbjct: 170 DMAGLLTPYAAYELVKALKKEVG-LPIHLHTHDTSGLAVATYLAAAEAGVDIVDTAISPL 228
Query: 901 SGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAP 946
SG SQP+ ++V+ L T + G+DL + + S Y+ +VR+ YAP
Sbjct: 229 SGGTSQPSTESMVAALRGTGRDTGLDLEKLEEISEYFEEVRKKYAP 274
>gnl|CDD|236449 PRK09282, PRK09282, pyruvate carboxylase subunit B; Validated.
Length = 592
Score = 292 bits (750), Expect = 8e-86
Identities = 118/291 (40%), Positives = 179/291 (61%), Gaps = 16/291 (5%)
Query: 657 KHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNL--YSLEMWGGAVSHTCLKF 714
K + +TDTT RDAHQSLLATR+RT D+ + A + + + +SLE+WGGA C+++
Sbjct: 2 KKVKITDTTLRDAHQSLLATRMRTEDMLPI----AEKLDKVGFWSLEVWGGATFDVCIRY 57
Query: 715 LKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVFD 774
L E PWERL +L++ +PN P QM+LRG +LVGY +Y V F A++ GIDIFR+FD
Sbjct: 58 LNEDPWERLRKLKKALPNTPLQMLLRGQNLVGYRHYPDDVVEKFVEKAAENGIDIFRIFD 117
Query: 775 PLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESGA 834
LN V N+ + A ++ G V+ TI Y T+P +++ Y +LAK+L E G
Sbjct: 118 ALNDVRNMEVAIKAAKKA-GA--HVQGTISYT---TSP---VHTIEKYVELAKELEEMGC 168
Query: 835 QVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIVD 894
+C+KDMAGLL P AA L+ + +E+ ++ + +H+H +G T L V+AG DI+D
Sbjct: 169 DSICIKDMAGLLTPYAAYELVKALKEEV-DLPVQLHSHCTSGLAPMTYLKAVEAGVDIID 227
Query: 895 VAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYA 945
A ++ SQP ++V+ L+ T G+DL + + + Y+R+VR+ Y
Sbjct: 228 TAISPLAFGTSQPPTESMVAALKGTPYDTGLDLELLFEIAEYFREVRKKYK 278
Score = 87.2 bits (217), Expect = 2e-17
Identities = 33/104 (31%), Positives = 57/104 (54%)
Query: 1322 HGERTVFFLYNGQLRSLDKNKAKKLKLRSKADSDTAGEIGAPMPGNIIEVKVKVGQQVKK 1381
G+R + +G + K++ + + + G + +PMPG +++VKVK G +VK
Sbjct: 487 EGKRPFYLRVDGMPEEVVVEPLKEIVVGGRPRASAPGAVTSPMPGTVVKVKVKEGDKVKA 546
Query: 1382 NDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQNDLVVVL 1425
D ++V+ MK E I A DG VKEI V+ G +V D+++ +
Sbjct: 547 GDTVLVLEAMKMENEIQAPVDGTVKEILVKEGDRVNPGDVLMEI 590
Score = 57.9 bits (141), Expect = 3e-08
Identities = 20/27 (74%), Positives = 23/27 (85%)
Query: 613 KHVLLTDTTFRDAHQSLLATRVRTYDL 639
K V +TDTT RDAHQSLLATR+RT D+
Sbjct: 2 KKVKITDTTLRDAHQSLLATRMRTEDM 28
>gnl|CDD|190425 pfam02786, CPSase_L_D2, Carbamoyl-phosphate synthase L chain, ATP
binding domain. Carbamoyl-phosphate synthase catalyzes
the ATP-dependent synthesis of carbamyl-phosphate from
glutamine or ammonia and bicarbonate. This important
enzyme initiates both the urea cycle and the
biosynthesis of arginine and/or pyrimidines. The
carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes
is a heterodimer of a small and large chain. The small
chain promotes the hydrolysis of glutamine to ammonia,
which is used by the large chain to synthesise carbamoyl
phosphate. See pfam00988. The small chain has a GATase
domain in the carboxyl terminus. See pfam00117. The ATP
binding domain (this one) has an ATP-grasp fold.
Length = 211
Score = 267 bits (685), Expect = 5e-82
Identities = 98/211 (46%), Positives = 137/211 (64%), Gaps = 1/211 (0%)
Query: 171 DKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANK 230
DKVL + A +A VP +PGT PV ++ E+ +PVI+KAAFGGGG GM + N+
Sbjct: 1 DKVLFKAAMKEAGVPTVPGTAGPVETEEEALAAAKEIGYPVIIKAAFGGGGLGMGIARNE 60
Query: 231 DAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRR 290
+ + E F A +EA A+FG +LVEK + P+HIE Q+L D +G+ + + R+CS QRR
Sbjct: 61 EELAELFALALAEAPAAFGNPQVLVEKSLKGPKHIEYQVLRDAHGNCITVCNRECSDQRR 120
Query: 291 YQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLD-KDDNFYFIEVNPRL 349
QK I++AP+Q ++ R + E +V++A+ LGY AGTVEF LD +YFIE+N RL
Sbjct: 121 TQKSIEVAPSQTLTDEERQMLREAAVKIARHLGYVGAGTVEFALDPFSGEYYFIEMNTRL 180
Query: 350 QVEHTLSEEITGIDVVQSQIKIAQGKSLTEL 380
QVEH L+E+ TG D+ + KIA G L EL
Sbjct: 181 QVEHALAEKATGYDLAKEAAKIALGYPLPEL 211
>gnl|CDD|227349 COG5016, COG5016, Pyruvate/oxaloacetate carboxyltransferase [Energy
production and conversion].
Length = 472
Score = 276 bits (709), Expect = 9e-82
Identities = 165/508 (32%), Positives = 243/508 (47%), Gaps = 83/508 (16%)
Query: 657 KHILLTDTTFRDAHQSLLATRVRTYD-------LKKVSPFVANRFNNLYSLEMWGGAVSH 709
K I +TDT RD HQSLLATR+RT D L KV +SLE+WGGA
Sbjct: 4 KKIKITDTVLRDGHQSLLATRMRTEDMLPIAEALDKV---------GYWSLEVWGGATFD 54
Query: 710 TCLKFLKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDI 769
C++FL E PWERL EL++ +PN QM+LRG +LVGY +Y+ V F A++ GID+
Sbjct: 55 ACIRFLNEDPWERLRELKKAVPNTKLQMLLRGQNLVGYRHYADDVVEKFVEKAAENGIDV 114
Query: 770 FRVFDPLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQL 829
FR+FD LN V NL + A ++ V+ TI Y T+P ++L YY +LAK+L
Sbjct: 115 FRIFDALNDVRNLKTAIKAAKKHGA---HVQGTISYT---TSP---VHTLEYYVELAKEL 165
Query: 830 VESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAG 889
+E G +C+KDMAGLL P A L+ + +++ P + + +HTH +G T L V+AG
Sbjct: 166 LEMGVDSICIKDMAGLLTPYEAYELVKAIKKELP-VPVELHTHATSGMAEMTYLKAVEAG 224
Query: 890 ADIVDVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAPAHN 949
D +D A +SG SQPA T+V+ L T G+DL + E+
Sbjct: 225 VDGIDTAISPLSGGTSQPATETMVAALRGTGYDTGLDLE----------LLEEIAE---- 270
Query: 950 LLWRCGIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTNLKFRTMS 1009
Y+R+VR+ Y K +Y++PGG +NL+ +
Sbjct: 271 -----------------YFREVRKKYKGLLEPQAKGVDPRILIYQVPGGMLSNLESQLKE 313
Query: 1010 FG-LD-FEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIF--MTQEKLSYRDVMENADKI 1065
LD E+V LG TP+S++V A+ +T E Y K+
Sbjct: 314 QNALDKLEEVLEEVPRVREDLGYPPLVTPTSQIVGTQAVLNVLTGE--RY--------KV 363
Query: 1066 IFPKSVTEFFQGSIGEPYQGFPKKLQEKVLDSLKDHALERKAEFDPIMACDYREDEPFKM 1125
I K ++ +G G +L EK+L + R A+ D + E ++
Sbjct: 364 I-TKETKDYVKGLYGRTPAPINAELIEKILGDEEKPITCRPADLLEPEL-DKLKKELEEL 421
Query: 1126 NKL----------IFPKATKKFMKFRDE 1143
+FP+ KKF++ R++
Sbjct: 422 AIEEEEEDVLTYALFPQVAKKFLEGREK 449
>gnl|CDD|233273 TIGR01108, oadA, oxaloacetate decarboxylase alpha subunit. This
model describes the bacterial oxaloacetate decarboxylase
alpha subunit and its equivalents in archaea. The
oxaloacetate decarboxylase Na+ pump is the paradigm of
the family of Na+ transport decarboxylases that present
in bacteria and archaea. It a multi subunit enzyme
consisting of a peripheral alpha-subunit and integral
membrane subunits beta and gamma. The energy released by
the decarboxylation reaction of oxaloacetate is coupled
to Na+ ion pumping across the membrane [Transport and
binding proteins, Cations and iron carrying compounds,
Energy metabolism, Other].
Length = 582
Score = 268 bits (688), Expect = 1e-77
Identities = 160/512 (31%), Positives = 244/512 (47%), Gaps = 81/512 (15%)
Query: 661 LTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFN--NLYSLEMWGGAVSHTCLKFLKEC 718
+TD RDAHQSL ATR+RT D+ + A + + +SLE+WGGA C++FL E
Sbjct: 1 ITDVVLRDAHQSLFATRMRTEDMLPI----AEKLDDVGYWSLEVWGGATFDACIRFLNED 56
Query: 719 PWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVFDPLNS 778
PWERL EL++ +PN P QM+LRG +L+GY +Y+ V F + A + G+D+FR+FD LN
Sbjct: 57 PWERLRELKKALPNTPLQMLLRGQNLLGYRHYADDVVERFVKKAVENGMDVFRIFDALND 116
Query: 779 VPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESGAQVLC 838
NL + A ++ G + TI Y T+P ++L Y DLA++L+E G +C
Sbjct: 117 PRNLQAAIQAAKK-HGA--HAQGTISYT---TSP---VHTLETYLDLAEELLEMGVDSIC 167
Query: 839 LKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIVDVAAD 898
+KDMAG+L P AA L+ + ++++ + +H+H+H G L ++AGAD +D A
Sbjct: 168 IKDMAGILTPKAAYELVSALKKRFG-LPVHLHSHATTGMAEMALLKAIEAGADGIDTAIS 226
Query: 899 SMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAPAHNLLWRCGIDL 958
SMSG S P T+V+ L T G+D+ + E+ A
Sbjct: 227 SMSGGTSHPPTETMVAALRGTGYDTGLDIE----------LLLEIAA------------- 263
Query: 959 HDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTN----LKFRTMSFGLD- 1013
Y+R+VR+ Y+ FE LK S + ++PGG +N LK + LD
Sbjct: 264 --------YFREVRKKYSQFE-GQLKGPDSRILVAQVPGGMLSNLESQLKEQNALDKLDE 314
Query: 1014 -FEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIFMTQEKLSYRDVMENADKIIFPKSVT 1072
E++ R LG TP+S++V A+ Y+ + K
Sbjct: 315 VLEEIPRVRED----LGYPPLVTPTSQIVGTQAVLNVLTGERYKTIT---------KETK 361
Query: 1073 EFFQGSIGEPYQGFPKKLQEKVLDSLKDHALERKA-----EFDPIMACDYRE-------D 1120
+ +G G +LQ K+L K R A E D + A + RE
Sbjct: 362 GYLKGEYGRTPAPINAELQRKILGDEKPIVDCRPADLLEPELDKLRA-EVREAGAEKNSI 420
Query: 1121 EPFKMNKLIFPKATKKFMKFRDEFGPVDKLPT 1152
E + +FP+ KF++ R + P
Sbjct: 421 EDV-LTYALFPQVGLKFLENRHNPAAFEPKPE 451
Score = 61.0 bits (148), Expect = 4e-09
Identities = 27/63 (42%), Positives = 41/63 (65%)
Query: 1358 GEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVA 1417
+ AP+ G+I++VKV GQ V + +VL+++ MK ET I A+A G V+EI V+VG V+
Sbjct: 518 TPVTAPIAGSIVKVKVSEGQTVAEGEVLLILEAMKMETEIKAAAAGTVREILVKVGDAVS 577
Query: 1418 QND 1420
Sbjct: 578 VGQ 580
>gnl|CDD|237592 PRK14040, PRK14040, oxaloacetate decarboxylase; Provisional.
Length = 593
Score = 242 bits (620), Expect = 1e-68
Identities = 120/296 (40%), Positives = 173/296 (58%), Gaps = 26/296 (8%)
Query: 657 KHILLTDTTFRDAHQSLLATRVRTYD-------LKKVSPFVANRFNNLYSLEMWGGAVSH 709
K + +TD RDAHQSL ATR+R D L KV +SLE WGGA
Sbjct: 3 KPLAITDVVLRDAHQSLFATRLRLDDMLPIAAKLDKVG---------YWSLESWGGATFD 53
Query: 710 TCLKFLKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDI 769
C++FL E PWERL EL++ +PN P QM+LRG +L+GY +Y+ V F A + G+D+
Sbjct: 54 ACIRFLGEDPWERLRELKKAMPNTPQQMLLRGQNLLGYRHYADDVVERFVERAVKNGMDV 113
Query: 770 FRVFDPLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQL 829
FRVFD +N NL + AV++V + + T+ Y T+P ++L + DLAKQL
Sbjct: 114 FRVFDAMNDPRNLETALKAVRKVGAHA---QGTLSYT---TSP---VHTLQTWVDLAKQL 164
Query: 830 VESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAG 889
+ G LC+KDMAGLLKP AA L+ +++ ++ +H+H H G AT L ++AG
Sbjct: 165 EDMGVDSLCIKDMAGLLKPYAAYELVSRIKKRV-DVPLHLHCHATTGLSTATLLKAIEAG 223
Query: 890 ADIVDVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYA 945
D VD A SMS A T+V+ LE T++ G+D+ + + ++Y+R+VR+ YA
Sbjct: 224 IDGVDTAISSMSMTYGHSATETLVATLEGTERDTGLDILKLEEIAAYFREVRKKYA 279
Score = 76.5 bits (189), Expect = 6e-14
Identities = 32/77 (41%), Positives = 46/77 (59%), Gaps = 1/77 (1%)
Query: 1350 SKADSDTAGE-IGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEI 1408
+ A + AGE + AP+ GNI +V V GQ V + DVL+++ MK ET I A+ G V+ I
Sbjct: 516 AAAPAAAAGEPVTAPLAGNIFKVIVTEGQTVAEGDVLLILEAMKMETEIRAAQAGTVRGI 575
Query: 1409 FVEVGGQVAQNDLVVVL 1425
V+ G VA D ++ L
Sbjct: 576 AVKEGDAVAVGDTLLTL 592
Score = 43.8 bits (104), Expect = 6e-04
Identities = 15/27 (55%), Positives = 19/27 (70%)
Query: 613 KHVLLTDTTFRDAHQSLLATRVRTYDL 639
K + +TD RDAHQSL ATR+R D+
Sbjct: 3 KPLAITDVVLRDAHQSLFATRLRLDDM 29
>gnl|CDD|183446 PRK12331, PRK12331, oxaloacetate decarboxylase; Provisional.
Length = 448
Score = 234 bits (600), Expect = 2e-67
Identities = 145/500 (29%), Positives = 247/500 (49%), Gaps = 76/500 (15%)
Query: 659 ILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNL--YSLEMWGGAVSHTCLKFLK 716
I +T+T RD QSL+ATR+ T ++ + + +N +SLEMWGGA CL+FL
Sbjct: 4 IKITETVLRDGQQSLIATRMTTEEMLPI----LEKLDNAGYHSLEMWGGATFDACLRFLN 59
Query: 717 ECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVFDPL 776
E PWERL ++R+ + QM+LRG +L+GY NY+ V +F + + + GIDI R+FD L
Sbjct: 60 EDPWERLRKIRKAVKKTKLQMLLRGQNLLGYRNYADDVVESFVQKSVENGIDIIRIFDAL 119
Query: 777 NSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESGAQV 836
N V NL + A ++ G + + I Y T+P ++++Y+ LAK++ E GA
Sbjct: 120 NDVRNLETAVKATKKAGGHA---QVAISYT---TSP---VHTIDYFVKLAKEMQEMGADS 170
Query: 837 LCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIVDVA 896
+C+KDMAG+L P A L+ +E + + VHTH +G T L ++AGADI+D A
Sbjct: 171 ICIKDMAGILTPYVAYELVKRIKEAV-TVPLEVHTHATSGIAEMTYLKAIEAGADIIDTA 229
Query: 897 ADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAPAHNLLWRCGI 956
+G SQPA ++V+ L++ G+DL ++ + + Y+ +R+ Y R
Sbjct: 230 ISPFAGGTSQPATESMVAALQDLGYDTGLDLEELSEIAEYFNPIRDHY--------REEG 281
Query: 957 DLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTNLKFRTMSFGLD--F 1014
L+ KV K + +Y++PGG +NL + G + +
Sbjct: 282 ILNP---------KV------------KDVEPKTLIYQVPGGMLSNLLSQLKEQGAEDKY 320
Query: 1015 EDVKRAYRTANFLLGDIIKCTPSSKVVADLAIF--MTQEKLSYRDVMENADKIIFPKSVT 1072
E+V + LG TP S++V A+ ++ E+ K++ P +
Sbjct: 321 EEVLKEVPKVRADLGYPPLVTPLSQMVGTQALMNVISGERY----------KMV-PNEIK 369
Query: 1073 EFFQGSIGEPYQGFPKKLQEKVL-----------DSLKDHALERKAEFDPIMACDYREDE 1121
++ +G G P +++++K++ D ++ + + E +Y E E
Sbjct: 370 DYVRGLYGRPPAPIAEEIKKKIIGDEEVITCRPADLIEPQLEKLREEIA-----EYAESE 424
Query: 1122 PFKMNKLIFPKATKKFMKFR 1141
++ +FP+ K F+ R
Sbjct: 425 EDVLSYALFPQQAKDFLGRR 444
>gnl|CDD|237593 PRK14041, PRK14041, oxaloacetate decarboxylase; Provisional.
Length = 467
Score = 220 bits (562), Expect = 3e-62
Identities = 152/508 (29%), Positives = 234/508 (46%), Gaps = 95/508 (18%)
Query: 657 KHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFN--NLYSLEMWGGAVSHTCLKF 714
++ DTT RD HQSL+ATR+RT D+ F+ YS+E+WGGA C++F
Sbjct: 1 MKVMFVDTTLRDGHQSLIATRMRTEDMLPA----LEAFDRMGFYSMEVWGGATFDVCVRF 56
Query: 715 LKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVFD 774
L E PWERL E+R+ + N QM+LRG +LVGY +Y+ V F + ++ G+DI R+FD
Sbjct: 57 LNENPWERLKEIRKRLKNTKIQMLLRGQNLVGYRHYADDVVELFVKKVAEYGLDIIRIFD 116
Query: 775 PLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESGA 834
LN + NL K ++ ++ V+ I Y +P ++L YY + A++LV+ G
Sbjct: 117 ALNDIRNLEKSIEVAKKH---GAHVQGAISYT---VSP---VHTLEYYLEFARELVDMGV 167
Query: 835 QVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIVD 894
+C+KDMAGLL P A L+ + ++K+ + + VH+H G LA V+AGAD+ D
Sbjct: 168 DSICIKDMAGLLTPKRAYELVKALKKKF-GVPVEVHSHCTTGLASLAYLAAVEAGADMFD 226
Query: 895 VAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAPAHNLLWRC 954
A S SQP ++ K D + ++ L
Sbjct: 227 TAISPFSMGTSQPPFESMYYAFRENGKETDFD----------RKALKFL----------- 265
Query: 955 GIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTN----LKFRTMSF 1010
Y+ KVRE Y+ ++ +K+ S + +IPGG Y+N LK + M
Sbjct: 266 ----------VEYFTKVREKYSEYD-VGMKSPDSRILVSQIPGGMYSNLVKQLKEQKMLH 314
Query: 1011 GLD--FEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIF--MTQEKLSYRDVMENADKII 1066
LD E+V R + LG TP+S++V A+ +T E+ Y+ V
Sbjct: 315 KLDKVLEEVPRVRKD----LGYPPLVTPTSQIVGVQAVLNVLTGER--YKRVT------- 361
Query: 1067 FPKSVTEFFQGSIGEPYQGFPKKLQEKVLDSLKDHALERKAEFDPIMACDYREDEPFKMN 1126
+ +G G P ++L +K+L E+ + P D E E K
Sbjct: 362 --NETKNYVKGLYGRPPAPIDEELMKKILGD------EKPIDCRP---ADLLEPELEKAR 410
Query: 1127 K---------------LIFPKATKKFMK 1139
K +I + KKF+K
Sbjct: 411 KELGILAETDEDLLIYVILGEVGKKFLK 438
>gnl|CDD|183445 PRK12330, PRK12330, oxaloacetate decarboxylase; Provisional.
Length = 499
Score = 217 bits (555), Expect = 5e-61
Identities = 155/511 (30%), Positives = 239/511 (46%), Gaps = 82/511 (16%)
Query: 657 KHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNLYSLEMWGGAVSHTCLKFLK 716
+ I +T+ RDAHQSL+ATR+ D+ + N +S+E WGGA C++FL
Sbjct: 3 RKIGVTELALRDAHQSLMATRMAMEDMVGACEDIDNA--GYWSVECWGGATFDACIRFLN 60
Query: 717 ECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVFDPL 776
E PWERL R+L+PN QM+LRG +L+GY +Y V F +++ G+D+FRVFD L
Sbjct: 61 EDPWERLRTFRKLMPNSRLQMLLRGQNLLGYRHYEDEVVDRFVEKSAENGMDVFRVFDAL 120
Query: 777 NSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESGAQV 836
N NL M AV++V + + TICY +P +++ + + AK+L++ GA
Sbjct: 121 NDPRNLEHAMKAVKKVGKHA---QGTICYT---VSP---IHTVEGFVEQAKRLLDMGADS 171
Query: 837 LCLKDMAGLLKPTAAKLLIGSFREKY-PNILIHVHTHDMAGTGVATTLACVKAGADIVDV 895
+C+KDMA LLKP A ++ +E + I++H H G + + + ++AG D+VD
Sbjct: 172 ICIKDMAALLKPQPAYDIVKGIKEACGEDTRINLHCHSTTGVTLVSLMKAIEAGVDVVDT 231
Query: 896 AADSMS-GICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAPAHNLLWRC 954
A SMS G P ++V LE T +D+ + K+R+
Sbjct: 232 AISSMSLGPGHNPTE-SLVEMLEGTGYTTKLDMDRLL-------KIRD------------ 271
Query: 955 GIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTNLKFRTMSFG--- 1011
+++KVR Y FE + +E + +IPGG +N++ + G
Sbjct: 272 ------------HFKKVRPKYKEFE-SKTTGVETEIFKSQIPGGMLSNMESQLKQQGAGD 318
Query: 1012 -LD--FEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIF---------MTQEKLSYRDVM 1059
+D E+V R + A + TPSS++V A+F +T E + D+M
Sbjct: 319 RMDEVLEEVPRVRKDAGY----PPLVTPSSQIVGTQAVFNVLMGRYKVLTGE---FADLM 371
Query: 1060 EN-ADKIIFPKS--VTEFFQGSIG-EPYQGFPKKLQEKVLDSLKDHALERKAEFDPIMAC 1115
+ ++ V E + EP P L E D L+ AL + C
Sbjct: 372 LGYYGETPGERNPEVVEQAKKQAKKEPITCRPADLLEPEWDKLRAEAL-------ALEGC 424
Query: 1116 DYREDEPFKMNKLIFPKATKKFMKFRDEFGP 1146
D DE L FP+ KF R E GP
Sbjct: 425 D-GSDEDVLTYAL-FPQVAPKFFATRAE-GP 452
>gnl|CDD|163674 cd03174, DRE_TIM_metallolyase, DRE-TIM metallolyase superfamily.
The DRE-TIM metallolyase superfamily includes
2-isopropylmalate synthase (IPMS), alpha-isopropylmalate
synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase,
homocitrate synthase, citramalate synthase,
4-hydroxy-2-oxovalerate aldolase, re-citrate synthase,
transcarboxylase 5S, pyruvate carboxylase, AksA, and
FrbC. These members all share a conserved
triose-phosphate isomerase (TIM) barrel domain
consisting of a core beta(8)-alpha(8) motif with the
eight parallel beta strands forming an enclosed barrel
surrounded by eight alpha helices. The domain has a
catalytic center containing a divalent cation-binding
site formed by a cluster of invariant residues that cap
the core of the barrel. In addition, the catalytic site
includes three invariant residues - an aspartate (D), an
arginine (R), and a glutamate (E) - which is the basis
for the domain name "DRE-TIM".
Length = 265
Score = 208 bits (532), Expect = 1e-60
Identities = 80/291 (27%), Positives = 123/291 (42%), Gaps = 39/291 (13%)
Query: 662 TDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNL--YSLEMWGGAVSHTCLKFLKECP 719
TDTT RD QS AT T D ++ A + S+E+ GA E
Sbjct: 1 TDTTLRDGLQSEGATF-STEDKLEI----AEALDEAGVDSIEVGSGASPKAV--PQMEDD 53
Query: 720 WERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVFDPLNSV 779
WE L +R+L+PN+ Q ++R A +AG+D R+FD +
Sbjct: 54 WEVLRAIRKLVPNVKLQALVRNRE-------------KGIERALEAGVDEVRIFDSASET 100
Query: 780 PNLVKG-----------MDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQ 828
+ +A++ VE ++ A K Y ++AK
Sbjct: 101 HSRKNLNKSREEDLENAEEAIEAAKEAGLEVEGSLEDAFG------CKTDPEYVLEVAKA 154
Query: 829 LVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKA 888
L E+GA + LKD GL P L+ + RE P++ + +HTH+ G VA +LA ++A
Sbjct: 155 LEEAGADEISLKDTVGLATPEEVAELVKALREALPDVPLGLHTHNTLGLAVANSLAALEA 214
Query: 889 GADIVDVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRK 939
GAD VD + + + A +V+ LE GIDL + + S Y +
Sbjct: 215 GADRVDGSVNGLGERAGNAATEDLVAALEGLGIDTGIDLEKLLEISRYVEE 265
>gnl|CDD|172536 PRK14042, PRK14042, pyruvate carboxylase subunit B; Provisional.
Length = 596
Score = 200 bits (510), Expect = 2e-54
Identities = 132/444 (29%), Positives = 212/444 (47%), Gaps = 59/444 (13%)
Query: 656 LKHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNL--YSLEMWGGAVSHTCLK 713
+ +TD T RDAHQ L+ATR+RT D+ + N+ +++ +++E+WGGA CL+
Sbjct: 1 MSKTFITDVTLRDAHQCLIATRMRTEDMLPI----CNKMDDVGFWAMEVWGGATFDACLR 56
Query: 714 FLKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVF 773
FLKE PW RL +LR+ +PN M+LRG +L+GY NY+ V AF +LA G+D+FRVF
Sbjct: 57 FLKEDPWSRLRQLRQALPNTQLSMLLRGQNLLGYRNYADDVVRAFVKLAVNNGVDVFRVF 116
Query: 774 DPLNSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESG 833
D LN NL +DA++ + + ICY T+P ++L+ + +L K+L E G
Sbjct: 117 DALNDARNLKVAIDAIKSHKKHA---QGAICYT---TSP---VHTLDNFLELGKKLAEMG 167
Query: 834 AQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIV 893
+ +KDMAGLL PT L ++ + +H+H+H +G V AG + +
Sbjct: 168 CDSIAIKDMAGLLTPTVTVELYAGLKQA-TGLPVHLHSHSTSGLASICHYEAVLAGCNHI 226
Query: 894 DVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELYAPAHNLLWR 953
D A S SG S P +V+ L +T +
Sbjct: 227 DTAISSFSGGASHPPTEALVAALTDTP-------------------------------YD 255
Query: 954 CGIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYEIPGGQYTNL--KFRTMSFG 1011
+DL+ + + Y++ VR+ Y+ FE ++ + LY++PGG +NL + + +
Sbjct: 256 TELDLNILLEIDDYFKAVRKKYSQFE-SEAQNIDPRVQLYQVPGGMISNLYNQLKEQNAL 314
Query: 1012 LDFEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIFMTQEKLSYRDVMENADKIIFPKSV 1071
+ V + LG TP+S+VV A+ Y+ + V
Sbjct: 315 DKMDAVHKEIPRVRKDLGYPPLVTPTSQVVGTQAVINVLTGERYKTIT---------NEV 365
Query: 1072 TEFFQGSIGEPYQGFPKKLQEKVL 1095
+ QG G P L++K +
Sbjct: 366 KLYCQGKYGTPPGKISSALRKKAI 389
Score = 57.8 bits (139), Expect = 3e-08
Identities = 32/110 (29%), Positives = 59/110 (53%), Gaps = 3/110 (2%)
Query: 1321 DHGERTVFFLYNGQLRSLDKNKAK---KLKLRSKADSDTAGEIGAPMPGNIIEVKVKVGQ 1377
+HG+++ F +G + ++ K++ S + G+I +PG+II + V G
Sbjct: 486 EHGQQSCFLWVDGVPEEVVVQHSELHDKIERSSVNNKIGPGDITVAIPGSIIAIHVSAGD 545
Query: 1378 QVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQNDLVVVLDV 1427
+VK ++V+ MK ET I A A+GVV EI + G +V +++ ++V
Sbjct: 546 EVKAGQAVLVIEAMKMETEIKAPANGVVAEILCQKGDKVTPGQVLIRVEV 595
>gnl|CDD|79056 PRK12581, PRK12581, oxaloacetate decarboxylase; Provisional.
Length = 468
Score = 194 bits (494), Expect = 3e-53
Identities = 114/288 (39%), Positives = 166/288 (57%), Gaps = 12/288 (4%)
Query: 657 KHILLTDTTFRDAHQSLLATRVRTYDLKKVSPFVANRFNNLYSLEMWGGAVSHTCLKFLK 716
+ + +T+T RD HQSL+ATR+ D+ V + YSLE WGGA C++FL
Sbjct: 11 QQVAITETVLRDGHQSLMATRLSIEDMLPVLTILDKI--GYYSLECWGGATFDACIRFLN 68
Query: 717 ECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAFCRLASQAGIDIFRVFDPL 776
E PWERL L++ +PN QM+LRG +L+GY +Y+ V F L++Q GID+FR+FD L
Sbjct: 69 EDPWERLRTLKKGLPNTRLQMLLRGQNLLGYRHYADDIVDKFISLSAQNGIDVFRIFDAL 128
Query: 777 NSVPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESGAQV 836
N N+ + + AV++ T EA +C A T+P ++LNYY L K+LVE GA
Sbjct: 129 NDPRNIQQALRAVKK-----TGKEAQLCIAYT-TSP---VHTLNYYLSLVKELVEMGADS 179
Query: 837 LCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIVDVA 896
+C+KDMAG+L P AAK L+ + N+ + VHTH +G T LA V+AGAD +D A
Sbjct: 180 ICIKDMAGILTPKAAKELVSGIK-AMTNLPLIVHTHATSGISQMTYLAAVEAGADRIDTA 238
Query: 897 ADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYSSYWRKVRELY 944
S SQPA ++ L+ +D + +++ R+ R+ Y
Sbjct: 239 LSPFSEGTSQPATESMYLALKEAGYDITLDETLLEQAANHLRQARQKY 286
>gnl|CDD|217032 pfam02436, PYC_OADA, Conserved carboxylase domain. This domain
represents a conserved region in pyruvate carboxylase
(PYC), oxaloacetate decarboxylase alpha chain (OADA), and
transcarboxylase 5s subunit. The domain is found adjacent
to the HMGL-like domain (pfam00682) and often close to
the biotin_lipoyl domain (pfam00364) of biotin requiring
enzymes.
Length = 198
Score = 171 bits (436), Expect = 1e-48
Identities = 66/189 (34%), Positives = 102/189 (53%), Gaps = 19/189 (10%)
Query: 991 YLYEIPGGQYTNLKFRTMSFGL--DFEDVKRAYRTANFLLGDIIKCTPSSKVVADLAIFM 1048
YL++IPGGQ +NLK + GL +E+V Y LGDI TPSS++V D A+F
Sbjct: 2 YLHQIPGGQLSNLKSQLKEQGLGDRWEEVLEEYPRVRKDLGDIPLVTPSSQIVGDQAVFN 61
Query: 1049 TQEKLSYRDVMENADKIIFPKSVTEFFQGSIGEPYQGFPKKLQEKVL-----------DS 1097
L + FPKSV ++ +G G+P GFP++LQ+KVL D
Sbjct: 62 VLNGL---TPVGEGRYKDFPKSVVDYLKGEYGQPPGGFPEELQKKVLKGEEPITCRPADL 118
Query: 1098 LKDHALER-KAEFDPIMACDYREDEPFKMNKLIFPKATKKFMKFRDEFGPVDKLPTRIFF 1156
L+ LE+ +AE + +++ ++ +FPK +KF++ R+E+G V LPT +FF
Sbjct: 119 LEPVDLEKLRAELEEKAGRKLSDED--VLSYALFPKVAEKFLEHREEYGDVSVLPTPVFF 176
Query: 1157 HALERKAEF 1165
+ +E E+
Sbjct: 177 YGMEVGEEY 185
>gnl|CDD|201133 pfam00289, CPSase_L_chain, Carbamoyl-phosphate synthase L chain,
N-terminal domain. Carbamoyl-phosphate synthase
catalyzes the ATP-dependent synthesis of
carbamyl-phosphate from glutamine or ammonia and
bicarbonate. This important enzyme initiates both the
urea cycle and the biosynthesis of arginine and/or
pyrimidines. The carbamoyl-phosphate synthase (CPS)
enzyme in prokaryotes is a heterodimer of a small and
large chain. The small chain promotes the hydrolysis of
glutamine to ammonia, which is used by the large chain
to synthesise carbamoyl phosphate. See pfam00988. The
small chain has a GATase domain in the carboxyl
terminus. See pfam00117.
Length = 108
Score = 147 bits (373), Expect = 2e-41
Identities = 52/108 (48%), Positives = 72/108 (66%), Gaps = 1/108 (0%)
Query: 58 EKILIANRSEVAIRVARACNEMGIKSVGIYSEQDKFSAHRTKVDQAFLVGKGMPPVAAYL 117
+K+L+ANR E+A+R+ RA E+GI++V + S D S H D+A+ +G G P +YL
Sbjct: 2 KKVLVANRGEIAVRIIRALRELGIETVAVNSNPDTVSTHVRLADEAYFLGPG-PASESYL 60
Query: 118 NIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNV 165
NI I+ IA+ DAIHPGYGFLSE +FA+A AG+ FIGP+P
Sbjct: 61 NIERILDIAEKEGADAIHPGYGFLSENAEFAEACEEAGITFIGPSPEA 108
>gnl|CDD|214878 smart00878, Biotin_carb_C, Biotin carboxylase C-terminal domain.
Biotin carboxylase is a component of the acetyl-CoA
carboxylase multi-component enzyme which catalyses the
first committed step in fatty acid synthesis in animals,
plants and bacteria. Most of the active site residues
reported in reference are in this C-terminal domain.
Length = 107
Score = 134 bits (340), Expect = 6e-37
Identities = 41/109 (37%), Positives = 66/109 (60%), Gaps = 2/109 (1%)
Query: 395 QCHLRTEDPKRNFQPSTGRLDVFTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTA 454
+C + EDP F PS GR+ + P G+RVDS Y G ++ P YDS++AK+IV
Sbjct: 1 ECRINAEDPANGFLPSPGRITRYRFPGGPGVRVDSGV-YEGYEVPPYYDSMIAKLIVWGE 59
Query: 455 TYKSSCEKMRRALEETQVSGVTTNLPFLLNVFDDKKFLSGEALETNFID 503
+ + ++RRAL+E ++ GV TN+PFL + F +G+ ++T F++
Sbjct: 60 DREEAIARLRRALDEFRIRGVKTNIPFLRALLRHPDFRAGD-VDTGFLE 107
>gnl|CDD|202395 pfam02785, Biotin_carb_C, Biotin carboxylase C-terminal domain.
Biotin carboxylase is a component of the acetyl-CoA
carboxylase multi-component enzyme which catalyzes the
first committed step in fatty acid synthesis in animals,
plants and bacteria. Most of the active site residues
reported in reference are in this C-terminal domain.
Length = 107
Score = 134 bits (339), Expect = 8e-37
Identities = 43/109 (39%), Positives = 68/109 (62%), Gaps = 2/109 (1%)
Query: 395 QCHLRTEDPKRNFQPSTGRLDVFTDPASIGIRVDSSCPYPGLQISPDYDSLLAKIIVHTA 454
+ + EDP F PS G++ + P G+RVDS Y G ++SP YDS++AK+IVH
Sbjct: 1 EARIYAEDPANGFLPSPGKITRYRFPGGPGVRVDSGV-YEGDEVSPYYDSMIAKLIVHGP 59
Query: 455 TYKSSCEKMRRALEETQVSGVTTNLPFLLNVFDDKKFLSGEALETNFID 503
+ + ++RRAL ET++ GV TN+PFL + + F +GE ++T F++
Sbjct: 60 DREEAIARLRRALAETRIEGVKTNIPFLRAILEHPDFRAGE-VDTGFLE 107
>gnl|CDD|133459 cd06850, biotinyl_domain, The biotinyl-domain or biotin carboxyl
carrier protein (BCCP) domain is present in all
biotin-dependent enzymes, such as acetyl-CoA carboxylase,
pyruvate carboxylase, propionyl-CoA carboxylase,
methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase,
oxaloacetate decarboxylase, methylmalonyl-CoA
decarboxylase, transcarboxylase and urea amidolyase. This
domain functions in transferring CO2 from one subsite to
another, allowing carboxylation, decarboxylation, or
transcarboxylation. During this process, biotin is
covalently attached to a specific lysine.
Length = 67
Score = 97.1 bits (243), Expect = 2e-24
Identities = 30/67 (44%), Positives = 41/67 (61%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQ 1418
E+ APMPG +++V VK G +V+ L V+ MK E + A GVVKEI V+ G QV
Sbjct: 1 EVTAPMPGTVVKVLVKEGDKVEAGQPLAVLEAMKMENEVTAPVAGVVKEILVKEGDQVEA 60
Query: 1419 NDLVVVL 1425
L+VV+
Sbjct: 61 GQLLVVI 67
>gnl|CDD|222206 pfam13535, ATP-grasp_4, ATP-grasp domain. This family includes a
diverse set of enzymes that possess ATP-dependent
carboxylate-amine ligase activity.
Length = 183
Score = 86.2 bits (214), Expect = 4e-19
Identities = 47/187 (25%), Positives = 80/187 (42%), Gaps = 16/187 (8%)
Query: 169 LGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVA 228
DK L R+ A +P+ P V D + + +E+ FPV+LK G G G+ V
Sbjct: 2 FRDKALMRELLRAAGLPVPP--FFLVDDEEDLDAAAEEIGFPVVLKPRDGAGSLGVFRVD 59
Query: 229 NKDAIEENFKRAQSEALASFGKDDMLVEKYIDRP-RHIEVQILGDKYGDVVHL----YER 283
+ +E +E + LVE+YID H++ + G++V L Y
Sbjct: 60 SAAELEAALAALAAE---VEDTREYLVEEYIDGDEYHVDGLVDD---GELVFLGVSRYLG 113
Query: 284 DCSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGT-VEFLLDKDDNFYF 342
+ + +++ + +A+ E + R+ K+LG N +EF L D
Sbjct: 114 PPPP--DFSEGVELGSVSPGEDPLPEALRELAERVLKALGLRNGVFHLEFFLTPDGRPVL 171
Query: 343 IEVNPRL 349
+E+NPR
Sbjct: 172 LEINPRP 178
>gnl|CDD|201390 pfam00682, HMGL-like, HMGL-like. This family contains a diverse
set of enzymes. These include various aldolases and a
region of pyruvate carboxylase.
Length = 236
Score = 86.6 bits (215), Expect = 1e-18
Identities = 55/232 (23%), Positives = 88/232 (37%), Gaps = 36/232 (15%)
Query: 699 SLEMWGGAVSHTCLKFLKECPWERLAELRELIPNIPFQMILRGNSLVGYSNYSPAEVGAF 758
+E+ +S T +E + + E++ Q +LR +
Sbjct: 29 EIEVGFPFMSPT--------DFESVRAIAEVLKKAKIQALLR-------PVEHDIDAAV- 72
Query: 759 CRLASQAGIDIFRVFDP---------LNSVPNLVKGM--DAVQQVTGGSTIVEATICYAG 807
A AG D VF LN V AV+ VE AG
Sbjct: 73 -EAAKGAGADRVHVFIATSDLHRKYKLNKDREEVADRAVAAVEAARSAGIDVELGCEDAG 131
Query: 808 DLTNPNKKKYSLNYYEDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILI 867
L + ++ + E+GA + + D G+L P A LI + +++ P ++I
Sbjct: 132 RT--------DLAFLIEVVEVAQEAGATRINIADTVGVLTPNEAADLISALKDRVPPVII 183
Query: 868 HVHTHDMAGTGVATTLACVKAGADIVDVAADSMSGICSQPAMGTIVSCLENT 919
VH H+ G VA +LA V+AGAD VD + + A+ +V+ LE
Sbjct: 184 EVHCHNDLGMAVANSLAAVEAGADRVDGTVNGLGERAGNAALEELVAALEVL 235
>gnl|CDD|233379 TIGR01369, CPSaseII_lrg, carbamoyl-phosphate synthase, large
subunit. Carbamoyl-phosphate synthase (CPSase)
catalyzes the first committed step in pyrimidine,
arginine, and urea biosynthesis. In general, it is a
glutamine-dependent enzyme, EC 6.3.5.5, termed CPSase II
in eukaryotes. An exception is the mammalian
mitochondrial urea-cycle form, CPSase I, in which the
glutamine amidotransferase domain active site Cys on the
small subunit has been lost, and the enzyme is
ammonia-dependent. In both CPSase I and the closely
related, glutamine-dependent CPSase III (allosterically
activated by acetyl-glutamate) demonstrated in some
other vertebrates, the small and large chain regions are
fused in a single polypeptide chain. This model
represents the large chain of glutamine-hydrolysing
carbamoyl-phosphate synthases, or the corresponding
regions of larger, multifunctional proteins, as found in
all domains of life, and CPSase I forms are considered
exceptions within the family. In several thermophilic
species (Methanobacterium thermoautotrophicum,
Methanococcus jannaschii, Aquifex aeolicus), the large
subunit appears split, at different points, into two
separate genes [Purines, pyrimidines, nucleosides, and
nucleotides, Pyrimidine ribonucleotide biosynthesis].
Length = 1050
Score = 88.1 bits (219), Expect = 2e-17
Identities = 62/253 (24%), Positives = 116/253 (45%), Gaps = 28/253 (11%)
Query: 148 AKAVIGAGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEV 207
AKA+ AG+ +G +P + D+ + + +P T T V++ EF E+
Sbjct: 646 AKALEEAGVPILGTSPESIDRAEDREKFSELLDELGIPQPKWKT--ATSVEEAVEFASEI 703
Query: 208 EFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEV 267
+PV+++ ++ GGR M +V N++ + + EA+ + +L++KY++ ++V
Sbjct: 704 GYPVLVRPSYVLGGRAMEIVYNEEELRRYLE----EAVEVSPEHPVLIDKYLEDAVEVDV 759
Query: 268 QILGDK-----YGDVVHLYER------DCSMQRRYQKVIQIAPAQDMSVSVRDAITETSV 316
+ D G + H+ E D + + P Q +S + D I +
Sbjct: 760 DAVSDGEEVLIPGIMEHI-EEAGVHSGDSTC---------VLPPQTLSAEIVDRIKDIVR 809
Query: 317 RLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLSEEITGIDVVQSQIKIAQGKS 376
++AK L ++F + KD Y IEVNPR + TG+ +++ ++ GK
Sbjct: 810 KIAKELNVKGLMNIQFAV-KDGEVYVIEVNPRASRTVPFVSKATGVPLIKLATRVMLGKK 868
Query: 377 LTELGLCQEKITP 389
L ELG+ +EK
Sbjct: 869 LEELGVGKEKEPK 881
Score = 80.4 bits (199), Expect = 5e-15
Identities = 66/263 (25%), Positives = 122/263 (46%), Gaps = 32/263 (12%)
Query: 155 GLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILK 214
G+E +G +K D+ L R+A + P+ E V++ E+ +PVI++
Sbjct: 111 GVEVLGTPVEAIKKAEDRELFREAMKEIGEPVPES--EIAHSVEEALAAAKEIGYPVIVR 168
Query: 215 AAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKY 274
AF GG G + N++ ++E +R AL++ + +LVEK + + IE +++ D
Sbjct: 169 PAFTLGGTGGGIAYNREELKEIAER----ALSASPINQVLVEKSLAGWKEIEYEVMRDSN 224
Query: 275 GDVVHLYERDCSMQR------RYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAG 328
+ + + C+M+ I +AP+Q ++ + + S+++ + LG
Sbjct: 225 DNCITV----CNMENFDPMGVHTGDSIVVAPSQTLTDKEYQMLRDASIKIIRELGIEGGC 280
Query: 329 TVEFLLDKDDN-FYFIEVNPRLQVEHTLSEEITGIDVVQSQIKIAQGKSLTELGLCQEKI 387
V+F L+ D +Y IEVNPR+ L+ + TG + + K+A G L EL + +
Sbjct: 281 NVQFALNPDSGRYYVIEVNPRVSRSSALASKATGYPIAKVAAKLAVGYGLDEL---KNPV 337
Query: 388 TPQGCAIQCHLRTEDPKRNFQPS 410
T A +F+PS
Sbjct: 338 TGTTPA------------SFEPS 348
>gnl|CDD|223534 COG0458, CarB, Carbamoylphosphate synthase large subunit (split
gene in MJ) [Amino acid transport and metabolism /
Nucleotide transport and metabolism].
Length = 400
Score = 84.7 bits (210), Expect = 5e-17
Identities = 69/293 (23%), Positives = 128/293 (43%), Gaps = 35/293 (11%)
Query: 119 IPEIIC-IAKNNNVDAIHPGYG---------FLSEREDFAKAVIGAGLEFIGPAPNVLKT 168
E + I + DAI P G L E+ K G+E +G P ++
Sbjct: 58 TKEPVEKIIEKERPDAILPTLGGQTALNAALELKEKGVLEKY----GVEVVGSDPEAIEI 113
Query: 169 LGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVA 228
DK L ++A + +P+ V++ E DE+ +PVI+K +FG GG G +
Sbjct: 114 AEDKKLFKEAMREIGIPVPS---RIAHSVEEADEIADEIGYPVIVKPSFGLGGSGGGIAY 170
Query: 229 NKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQ 288
N EE + E L + +++L+E+ I + E +++ D + + C+M+
Sbjct: 171 N----EEELEEIIEEGLRASPVEEVLIEESIIGWKEFEYEVVRDGKDNCIV----VCNME 222
Query: 289 R------RYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDN-FY 341
I +APAQ ++ + + ++++ + +G ++F +D Y
Sbjct: 223 NLDPMGVHTGDSITVAPAQTLTDKEYQMLRDAAIKVIREIGIEGGCNIQFAVDPGGGELY 282
Query: 342 FIEVNPRLQVEHTLSEEITGIDVVQSQIKIAQGKSLTELGLCQEKITPQGCAI 394
IE+NPR+ L+ + TG + + K+A G +L E+ + IT + A
Sbjct: 283 VIEINPRVSRSSALASKATGYPIAKVAAKLAVGYTLDEI---RNDITGRTPAS 332
>gnl|CDD|201182 pfam00364, Biotin_lipoyl, Biotin-requiring enzyme. This family
covers two Prosite entries, the conserved lysine residue
binds biotin in one group and lipoic acid in the other.
Note that the HMM does not currently recognise the
Glycine cleavage system H proteins.
Length = 73
Score = 74.2 bits (183), Expect = 3e-16
Identities = 29/72 (40%), Positives = 36/72 (50%), Gaps = 5/72 (6%)
Query: 1359 EIGAPMPGNII-----EVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVG 1413
EI +PM G + E VKVG +VK VL + MK E I A GVVKEI V+ G
Sbjct: 2 EIKSPMIGESVKEGTAEWLVKVGDKVKAGQVLCEVEAMKMEMEIPAPVAGVVKEILVKEG 61
Query: 1414 GQVAQNDLVVVL 1425
V D + +
Sbjct: 62 DTVEVGDPLAKI 73
>gnl|CDD|237215 PRK12815, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1068
Score = 83.5 bits (207), Expect = 6e-16
Identities = 65/248 (26%), Positives = 118/248 (47%), Gaps = 35/248 (14%)
Query: 148 AKAVIGAGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEV 207
AK + AGL +G +P+ + L D+ + +P +PG T TD ++ F +
Sbjct: 647 AKGLEEAGLTILGTSPDTIDRLEDRDRFYQLLDELGLPHVPGLT--ATDEEEAFAFAKRI 704
Query: 208 EFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEV 267
+PV+++ ++ GG+GM +V ++ A+E S +L++++ID + EV
Sbjct: 705 GYPVLIRPSYVIGGQGMAVVYDEPALEAYLAENAS------QLYPILIDQFID-GKEYEV 757
Query: 268 QILGDKYGDVV------HLYER-----DCSMQRRYQKVIQIAPAQDMSVSVRDAITETSV 316
+ D DV H+ + D I + P Q +S ++ I + ++
Sbjct: 758 DAISDGE-DVTIPGIIEHIEQAGVHSGDS---------IAVLPPQSLSEEQQEKIRDYAI 807
Query: 317 RLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLS--EEITGIDVVQSQIKIAQG 374
++AK LG+ ++F+L +D Y +EVNPR T+ + TG+ + + K+ G
Sbjct: 808 KIAKKLGFRGIMNIQFVL-ANDEIYVLEVNPR--ASRTVPFVSKATGVPLAKLATKVLLG 864
Query: 375 KSLTELGL 382
KSL ELG
Sbjct: 865 KSLAELGY 872
Score = 64.2 bits (157), Expect = 5e-10
Identities = 56/210 (26%), Positives = 103/210 (49%), Gaps = 21/210 (10%)
Query: 179 ALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENFK 238
L VP +E VT V++ F +++ FP+I++ A+ GG G + N + +E+ FK
Sbjct: 138 ELGEPVP----ESEIVTSVEEALAFAEKIGFPIIVRPAYTLGGTGGGIAENLEELEQLFK 193
Query: 239 RAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKV---- 294
+ + L+E+ I + IE +++ D+ G+ + + C+M+ V
Sbjct: 194 QG--LQASPI--HQCLLEESIAGWKEIEYEVMRDRNGNCITV----CNME-NIDPVGIHT 244
Query: 295 ---IQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLD-KDDNFYFIEVNPRLQ 350
I +AP+Q ++ + S+++ +LG ++F LD K +Y IEVNPR+
Sbjct: 245 GDSIVVAPSQTLTDDEYQMLRSASLKIISALGVVGGCNIQFALDPKSKQYYLIEVNPRVS 304
Query: 351 VEHTLSEEITGIDVVQSQIKIAQGKSLTEL 380
L+ + TG + + K+A G +L EL
Sbjct: 305 RSSALASKATGYPIAKIAAKLAVGYTLNEL 334
>gnl|CDD|223585 COG0511, AccB, Biotin carboxyl carrier protein [Lipid metabolism].
Length = 140
Score = 75.1 bits (185), Expect = 1e-15
Identities = 27/69 (39%), Positives = 38/69 (55%)
Query: 1357 AGEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQV 1416
++ +PM G + + V+VG VK L ++ MK E I A ADGVVKEI V+ G V
Sbjct: 70 GTQVTSPMVGTVYKPFVEVGDTVKAGQTLAIIEAMKMENEIEAPADGVVKEILVKNGDPV 129
Query: 1417 AQNDLVVVL 1425
D + V+
Sbjct: 130 EYGDPLAVI 138
Score = 33.1 bits (76), Expect = 0.43
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVMS 1389
EI AP G + E+ VK G V+ D L V+
Sbjct: 109 EIEAPADGVVKEILVKNGDPVEYGDPLAVIE 139
>gnl|CDD|233121 TIGR00768, rimK_fam, alpha-L-glutamate ligases, RimK family. This
family, related to bacterial glutathione synthetases,
contains at least two different alpha-L-glutamate
ligases. One is RimK, as in E. coli, which adds
additional Glu residues to the native Glu-Glu C-terminus
of ribosomal protein S6, but not to Lys-Glu mutants.
Most species with a member of this subfamily lack an S6
homolog ending in Glu-Glu, however. Members in
Methanococcus jannaschii act instead as a
tetrahydromethanopterin:alpha-l-glutamate ligase
(MJ0620) and a gamma-F420-2:alpha-l-glutamate ligase
(MJ1001).
Length = 277
Score = 69.3 bits (170), Expect = 1e-12
Identities = 54/224 (24%), Positives = 93/224 (41%), Gaps = 27/224 (12%)
Query: 148 AKAVIGAGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEV 207
A+ + G+ I + + GDK L KA +P P T ++ + +E+
Sbjct: 66 ARYLESLGVPVINS-SDAILNAGDKFLTSQLLAKAGLPQ-PRTGL-AGSPEEALKLIEEI 122
Query: 208 EFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDD--MLVEKYIDRP--R 263
FPV+LK FG GR + + +K A E E V++YI +P R
Sbjct: 123 GFPVVLKPVFGSWGRLVSLARDKQAAE-----TLLEHFEQLNGPQNLFYVQEYIKKPGGR 177
Query: 264 HIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQI---APAQDMSVSVRDAITETSVRLAK 320
I V ++GD+ V+ ++ R + + + + I E +++ AK
Sbjct: 178 DIRVFVVGDE---VI------AAIYRITSGHWRTNLARGGKAEPCPLTEEIEELAIKAAK 228
Query: 321 SLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLSEEITGIDV 364
+LG G ++ L +D EVNP E S + TG+++
Sbjct: 229 ALGLDVVG-IDLLESEDRGLLVNEVNP--NPEFKNSVKTTGVNI 269
>gnl|CDD|237195 PRK12767, PRK12767, carbamoyl phosphate synthase-like protein;
Provisional.
Length = 326
Score = 69.9 bits (172), Expect = 2e-12
Identities = 52/259 (20%), Positives = 108/259 (41%), Gaps = 42/259 (16%)
Query: 100 VDQAFLVGKGMPPVAAYLNIPEIICIAKNNNVDAIHPGY----GFLSE-REDFAKAVIGA 154
D+ ++V P V I ++ I K +D + P L++ R+ F + +
Sbjct: 43 ADKFYVV----PKVTDPNYIDRLLDICKKEKIDLLIPLIDPELPLLAQNRDRFEEIGVKV 98
Query: 155 GLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKE--FCDEVEFPVI 212
+ + V++ DK L + + +P P + P ++ K E++FP+
Sbjct: 99 ----LVSSKEVIEICNDKWLTYEFLKENGIPT-PKSYLP-ESLEDFKAALAKGELQFPLF 152
Query: 213 LKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIE--VQIL 270
+K G G+ V +K+ +E +++++++I+ E V +L
Sbjct: 153 VKPRDGSASIGVFKVNDKEELE----FLLEYV------PNLIIQEFIE---GQEYTVDVL 199
Query: 271 GDKYGDVVHLYERDCSMQRRYQKVIQIAPAQDMSVSVRDA-ITETSVRLAKSLGYSNAGT 329
D G+V+ + R +++ A V+V+D + + + RLA++LG
Sbjct: 200 CDLNGEVISIVPR--------KRIEVRAGETSKGVTVKDPELFKLAERLAEALGARGPLN 251
Query: 330 VEFLLDKDDNFYFIEVNPR 348
++ + D Y E+NPR
Sbjct: 252 IQCFVT-DGEPYLFEINPR 269
>gnl|CDD|233310 TIGR01205, D_ala_D_alaTIGR, D-alanine--D-alanine ligase. This
model describes D-Ala--D-Ala ligase, an enzyme that
makes a required precursor of the bacterial cell wall.
It also describes some closely related proteins
responsible for resistance to glycopeptide antibiotics
such as vancomycin. The mechanism of glyopeptide
antibiotic resistance involves the production of
D-alanine-D-lactate (VanA and VanB families) or
D-alanine-D-serine (VanC). The seed alignment contains
only chromosomally encoded D-ala--D-ala ligases, but a
number of antibiotic resistance proteins score above the
trusted cutoff of this model [Cell envelope,
Biosynthesis and degradation of murein sacculus and
peptidoglycan].
Length = 315
Score = 63.1 bits (154), Expect = 3e-10
Identities = 51/215 (23%), Positives = 86/215 (40%), Gaps = 40/215 (18%)
Query: 154 AGLEFIGPAPNVLKT-LG-DKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVE--- 208
G+ + G VL + L DK+L + +P + C++V
Sbjct: 88 MGIPYTGS--GVLASALSMDKLLTKLLWKALGLPTPDYIVLTQNRASADELECEQVAEPL 145
Query: 209 -FPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKD-DMLVEKYIDRPRHIE 266
FPVI+K A G G+ V +++ ++ A F D ++LVE++I R +E
Sbjct: 146 GFPVIVKPAREGSSVGVSKVKSEEELQAALDEA-------FEYDEEVLVEQFIK-GRELE 197
Query: 267 VQILGDKYG--------------DVVHLYERDCSMQRRYQKVIQIAPAQDMSVSVRDAIT 312
V ILG++ D Y + VI PA + + + I
Sbjct: 198 VSILGNEEALPIIEIVPEIEGFYDYEAKYLDG-----STEYVI---PA-PLDEELEEKIK 248
Query: 313 ETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNP 347
E +++ K+LG V+F LD++ Y E+N
Sbjct: 249 ELALKAYKALGCRGLARVDFFLDEEGEIYLNEINT 283
>gnl|CDD|235540 PRK05641, PRK05641, putative acetyl-CoA carboxylase biotin carboxyl
carrier protein subunit; Validated.
Length = 153
Score = 59.5 bits (144), Expect = 3e-10
Identities = 31/71 (43%), Positives = 42/71 (59%), Gaps = 2/71 (2%)
Query: 1357 AGE--IGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGG 1414
AGE + APMPG I+ + V+ GQQVK L+++ MK E I A DGVVK+I V+ G
Sbjct: 82 AGENVVTAPMPGKILRILVREGQQVKVGQGLLILEAMKMENEIPAPKDGVVKKILVKEGD 141
Query: 1415 QVAQNDLVVVL 1425
V ++ L
Sbjct: 142 TVDTGQPLIEL 152
>gnl|CDD|203643 pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-terminus. This
family represents the C-terminal, catalytic domain of
the D-alanine--D-alanine ligase enzyme EC:6.3.2.4.
D-Alanine is one of the central molecules of the
cross-linking step of peptidoglycan assembly. There are
three enzymes involved in the D-alanine branch of
peptidoglycan biosynthesis: the pyridoxal
phosphate-dependent D-alanine racemase (Alr), the
ATP-dependent D-alanine:D-alanine ligase (Ddl), and the
ATP-dependent D-alanine:D-alanine-adding enzyme (MurF).
Length = 201
Score = 60.3 bits (147), Expect = 4e-10
Identities = 47/178 (26%), Positives = 80/178 (44%), Gaps = 23/178 (12%)
Query: 182 ADVPIIPGTTEPVTDVDKVKEFCDEVE----FPVILKAAFGGGGRGMRMVANKDAIEENF 237
A +P+ P +T D V ++VE +PV +K A G G+ V +++ ++
Sbjct: 5 AGIPVAP--FIVLTREDWVLATKEKVEEKLGYPVFVKPANLGSSVGISKVTSREELQSAI 62
Query: 238 KRAQSEALASFGKD-DMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCS-----MQRRY 291
+ A F D +L+E+ I R IE +LG++ +V + E S + +Y
Sbjct: 63 EEA-------FQYDNKVLIEEAI-EGREIECAVLGNEDLEVSPVGEIRLSGGFYDYEAKY 114
Query: 292 Q--KVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNP 347
I PA D+ V + I E +++ K+LG ++F L +D Y EVN
Sbjct: 115 IDSSAQIIVPA-DLPEEVEEQIQELALKAYKALGCRGLARIDFFLTEDGEIYLNEVNT 171
>gnl|CDD|215391 PLN02735, PLN02735, carbamoyl-phosphate synthase.
Length = 1102
Score = 63.3 bits (154), Expect = 8e-10
Identities = 46/197 (23%), Positives = 79/197 (40%), Gaps = 28/197 (14%)
Query: 206 EVEFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHI 265
+ +PV+++ ++ GGR M +V + ++ K A+ + +LV+KY+ I
Sbjct: 735 RIGYPVVVRPSYVLGGRAMEIVYS----DDKLKTYLETAVEVDPERPVLVDKYLSDATEI 790
Query: 266 EVQILGDKYGDVV-------------HLYERDCSMQRRYQKVIQIAPAQDMSVSVRDAIT 312
+V L D G+VV H + CS+ P Q + S I
Sbjct: 791 DVDALADSEGNVVIGGIMEHIEQAGVHSGDSACSL-----------PTQTIPSSCLATIR 839
Query: 313 ETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLSEEITGIDVVQSQIKIA 372
+ + +LAK L ++ + Y IE NPR + G + + +
Sbjct: 840 DWTTKLAKRLNVCGLMNCQYAITPSGEVYIIEANPRASRTVPFVSKAIGHPLAKYASLVM 899
Query: 373 QGKSLTELGLCQEKITP 389
GKSL +LG +E I
Sbjct: 900 SGKSLKDLGFTEEVIPA 916
Score = 55.9 bits (135), Expect = 2e-07
Identities = 61/232 (26%), Positives = 110/232 (47%), Gaps = 19/232 (8%)
Query: 155 GLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEV-EFPVIL 213
G+E IG + +K D+ L + A K + P T +D+ E +++ EFP+I+
Sbjct: 128 GVELIGAKLDAIKKAEDRELFKQAMEKIGLKTPPSGI--ATTLDECFEIAEDIGEFPLII 185
Query: 214 KAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDK 273
+ AF GG G + NK+ E K + ++ S +LVEK + + E++++ D
Sbjct: 186 RPAFTLGGTGGGIAYNKEEFETICKAGLAASITS----QVLVEKSLLGWKEYELEVMRDL 241
Query: 274 YGDVVHLYERDCS------MQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNA 327
+VV + CS M I +APAQ ++ + + SV + + +G
Sbjct: 242 ADNVVII----CSIENIDPMGVHTGDSITVAPAQTLTDKEYQRLRDYSVAIIREIGVECG 297
Query: 328 GT-VEFLLD-KDDNFYFIEVNPRLQVEHTLSEEITGIDVVQSQIKIAQGKSL 377
G+ V+F ++ D IE+NPR+ L+ + TG + + K++ G +L
Sbjct: 298 GSNVQFAVNPVDGEVMIIEMNPRVSRSSALASKATGFPIAKMAAKLSVGYTL 349
>gnl|CDD|224102 COG1181, DdlA, D-alanine-D-alanine ligase and related ATP-grasp
enzymes [Cell envelope biogenesis, outer membrane].
Length = 317
Score = 61.5 bits (150), Expect = 1e-09
Identities = 49/213 (23%), Positives = 83/213 (38%), Gaps = 31/213 (14%)
Query: 154 AGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDK--VKEFCDEVEFPV 211
G+ ++G DK++ + +P+ P + V+E + + FP+
Sbjct: 86 LGIPYVGKGVLASAGAMDKIVTKRLFKAEGLPVAPYVALTRDEYSSVIVEEVEEGLGFPL 145
Query: 212 ILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKD-DMLVEKYIDRPRHIEVQIL 270
+K A G G V E + + A A F D D+L E+ I R IEV +L
Sbjct: 146 FVKPAREGSSVGRSPVNV----EGDLQSALELA---FKYDRDVLREQGI-TGREIEVGVL 197
Query: 271 GDKYGDVV-----------HLYERDCSMQRRYQ---KVIQIAPAQDMSVSVRDAITETSV 316
G+ Y + Y+ + Y PA ++ + + I E ++
Sbjct: 198 GNDYEEQALPLGEIPPKGEEFYDYEAK----YLSTGGAQYDIPA-GLTDEIHEEIKELAL 252
Query: 317 RLAKSLGYSNAGTVEFLLDKDD-NFYFIEVNPR 348
R K+LG V+F +D D+ F +EVN
Sbjct: 253 RAYKALGCLGLARVDFFVDDDEGEFVLLEVNTN 285
>gnl|CDD|131199 TIGR02144, LysX_arch, Lysine biosynthesis enzyme LysX. The family
of proteins found in this equivalog include the
characterized LysX from Thermus thermophilus which is
part of a well-organized lysine biosynthesis gene
cluster. LysX is believed to carry out an ATP-dependent
acylation of the amino group of alpha-aminoadipate in
the prokaryotic version of the fungal AAA lysine
biosynthesis pathway. No species having a sequence in
this equivalog contains the elements of the more common
diaminopimelate lysine biosythesis pathway, and none has
been shown to be a lysine auxotroph. These sequences
have mainly recieved the name of the related enzyme,
"ribosomal protein S6 modification protein RimK". RimK
has been characterized in E. coli, and acts by
ATP-dependent condensation of S6 with glutamate
residues.
Length = 280
Score = 59.7 bits (145), Expect = 2e-09
Identities = 47/218 (21%), Positives = 98/218 (44%), Gaps = 16/218 (7%)
Query: 148 AKAVIGAGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEV 207
A+ + G+ I +V++ GDK+ KA VP P T D + + + +
Sbjct: 65 ARLLEALGVPVINS-SHVIEACGDKIFTYLKLAKAGVPT-P-RTYLAFDREAALKLAEAL 121
Query: 208 EFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRP-RHIE 266
+PV+LK G GR + ++ +KD +E + E L +++YI++P R I
Sbjct: 122 GYPVVLKPVIGSWGRLVALIRDKDELESLLE--HKEVLGGSQHKLFYIQEYINKPGRDIR 179
Query: 267 VQILGDKYGDVVHLYERDCSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSN 326
V ++GD+ + +Y + + + P + + + E +V+ A+++G
Sbjct: 180 VFVIGDEA--IAAIYRYSNHWRTNTARGGKAEPCP-----LDEEVEELAVKAAEAVG-GG 231
Query: 327 AGTVEFLLDKDDNFYFIEVNPRLQVEHTLSEEITGIDV 364
++ K+ EVN + ++++ +TG++V
Sbjct: 232 VVAIDIFESKERGLLVNEVNHVPEFKNSVR--VTGVNV 267
>gnl|CDD|235826 PRK06549, PRK06549, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 130
Score = 56.0 bits (135), Expect = 4e-09
Identities = 27/64 (42%), Positives = 36/64 (56%)
Query: 1357 AGEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQV 1416
A + +PMPG I++V V VG QV +N L+++ MK E I AS+ G V I V G V
Sbjct: 61 ADAMPSPMPGTILKVLVAVGDQVTENQPLLILEAMKMENEIVASSAGTVTAIHVTPGQVV 120
Query: 1417 AQND 1420
D
Sbjct: 121 NPGD 124
>gnl|CDD|235674 PRK06019, PRK06019, phosphoribosylaminoimidazole carboxylase ATPase
subunit; Reviewed.
Length = 372
Score = 59.4 bits (145), Expect = 7e-09
Identities = 44/200 (22%), Positives = 81/200 (40%), Gaps = 35/200 (17%)
Query: 161 PAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGG- 219
P P+ L D++ + K +P+ P V + ++ ++ P +LK GG
Sbjct: 90 PGPDALAIAQDRLTEKQFLDKLGIPVAP--FAVVDSAEDLEAALADLGLPAVLKTRRGGY 147
Query: 220 GGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILG--DKYG-- 275
G+G ++ + + +E A A G ++E+++ R EV ++ + G
Sbjct: 148 DGKGQWVIRSAEDLE--------AAWALLGSVPCILEEFVPFER--EVSVIVARGRDGEV 197
Query: 276 ---DVVHLYERD--CSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGT- 329
+V R+ IAPA+ +S ++ E + R+A+ L Y G
Sbjct: 198 VFYPLVENVHRNGILRT--------SIAPAR-ISAELQAQAEEIASRIAEELDYV--GVL 246
Query: 330 -VEFLLDKDDNFYFIEVNPR 348
VEF + D E+ PR
Sbjct: 247 AVEFFVTGDGELLVNEIAPR 266
>gnl|CDD|234948 PRK01372, ddl, D-alanine--D-alanine ligase; Reviewed.
Length = 304
Score = 58.6 bits (143), Expect = 7e-09
Identities = 46/188 (24%), Positives = 84/188 (44%), Gaps = 30/188 (15%)
Query: 171 DKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANK 230
DK+ + A +P P +T + + D++ P+++K A G G+ V +
Sbjct: 98 DKLRTKLVWQAAGLPTPPWIV--LTREEDLLAAIDKLGLPLVVKPAREGSSVGVSKVKEE 155
Query: 231 DAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHL---------- 280
D ++ + A + D++LVEKYI + R + V +LG K V+ +
Sbjct: 156 DELQAALELA-----FKYD-DEVLVEKYI-KGRELTVAVLGGKALPVIEIVPAGEFYDYE 208
Query: 281 --YERDCSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDD 338
Y + +Y I PA + + + E +++ ++LG G V+F+LD+D
Sbjct: 209 AKYLAGGT---QY-----ICPA-GLPAEIEAELQELALKAYRALGCRGWGRVDFMLDEDG 259
Query: 339 NFYFIEVN 346
Y +EVN
Sbjct: 260 KPYLLEVN 267
>gnl|CDD|133458 cd06849, lipoyl_domain, Lipoyl domain of the dihydrolipoyl
acyltransferase component (E2) of 2-oxo acid
dehydrogenases. 2-oxo acid dehydrogenase multienzyme
complexes, like pyruvate dehydrogenase (PDH),
2-oxoglutarate dehydrogenase (OGDH) and branched-chain
2-oxo acid dehydrogenase (BCDH), contain at least three
different enzymes, 2-oxo acid dehydrogenase (E1),
dihydrolipoyl acyltransferase (E2) and dihydrolipoamide
dehydrogenase (E3) and play a key role in redox
regulation. E2, the central component of the complex,
catalyzes the transfer of the acyl group of CoA from E1
to E3 via reductive acetylation of a lipoyl group
covalently attached to a lysine residue.
Length = 74
Score = 53.2 bits (129), Expect = 9e-09
Identities = 21/60 (35%), Positives = 31/60 (51%)
Query: 1366 GNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQNDLVVVL 1425
G I+E VK G V++ DVL + K + A A GV+ +I VE G V ++ V+
Sbjct: 15 GTIVEWLVKEGDSVEEGDVLAEVETDKATVEVEAPAAGVLAKILVEEGDTVPVGQVIAVI 74
>gnl|CDD|235393 PRK05294, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1066
Score = 59.3 bits (145), Expect = 1e-08
Identities = 58/215 (26%), Positives = 102/215 (47%), Gaps = 46/215 (21%)
Query: 194 VTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDM 253
T V++ E +E+ +PV+++ ++ GGR M +V +++ +E + EA+ +
Sbjct: 690 ATSVEEALEVAEEIGYPVLVRPSYVLGGRAMEIVYDEEELERYMR----EAVKVSPDHPV 745
Query: 254 LVEKYIDRPRHIEVQILGDKYGDVV-------HLYER------D--CSMQRRYQKVIQIA 298
L++K+++ ++V + D G+ V H+ E D CS+
Sbjct: 746 LIDKFLEGAIEVDVDAICD--GEDVLIGGIMEHI-EEAGVHSGDSACSL----------- 791
Query: 299 PAQDMSVSVRDAITETSVRLAKSL---GYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHT- 354
P Q +S + + I E + +LA L G N V+F + KDD Y IEVNPR T
Sbjct: 792 PPQTLSEEIIEEIREYTKKLALELNVVGLMN---VQFAV-KDDEVYVIEVNPR--ASRTV 845
Query: 355 --LSEEITGIDVVQSQIKIAQGKSLTELGLCQEKI 387
+S + TG+ + + ++ GK L ELG + I
Sbjct: 846 PFVS-KATGVPLAKIAARVMLGKKLAELGYTKGLI 879
Score = 52.0 bits (126), Expect = 3e-06
Identities = 54/220 (24%), Positives = 99/220 (45%), Gaps = 53/220 (24%)
Query: 151 VIGAGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFP 210
+IGA LE I K D+ L ++A K +P+ +++ E +E+ +P
Sbjct: 115 LIGAKLEAID------KAE-DRELFKEAMKKIGLPVPRSGI--AHSMEEALEVAEEIGYP 165
Query: 211 VILKAAFGGGGRGMRMVANKDAIEENFKR--AQSEALASFGKDDMLVEKYIDRPRHIEVQ 268
VI++ +F GG G + N++ +EE +R S ++L+E+ + + E +
Sbjct: 166 VIIRPSFTLGGTGGGIAYNEEELEEIVERGLDLSPV------TEVLIEESLLGWKEYEYE 219
Query: 269 ILGDKYGDVVHLYERDCSMQRRYQKV----------IQIAPA--------QDMSVSVRDA 310
++ DK + + + CS+ + + I +APA Q + RDA
Sbjct: 220 VMRDKNDNCIIV----CSI----ENIDPMGVHTGDSITVAPAQTLTDKEYQML----RDA 267
Query: 311 ITETSVRLAKSLGYSNAGT-VEFLLD-KDDNFYFIEVNPR 348
S+ + + +G G V+F L+ KD + IE+NPR
Sbjct: 268 ----SIAIIREIGVETGGCNVQFALNPKDGRYIVIEMNPR 303
>gnl|CDD|216935 pfam02222, ATP-grasp, ATP-grasp domain. This family does not
contain all known ATP-grasp domain members. This family
includes a diverse set of enzymes that possess
ATP-dependent carboxylate-amine ligase activity.
Length = 171
Score = 55.3 bits (134), Expect = 2e-08
Identities = 34/165 (20%), Positives = 66/165 (40%), Gaps = 25/165 (15%)
Query: 192 EPVTDVDKVKEFCDEVEFPVILKAAFGG-GGRGMRMVANKDAIEENFKRAQSEALASFGK 250
++++ E E+ +P +LKA GG G+G +V ++ I + A G
Sbjct: 12 AAAESLEELIEAGQELGYPCVLKARRGGYDGKGQYVVRSEADIPQ--------AWEELGG 63
Query: 251 DDMLVEKYIDRPRHIEVQILGDKYG-----DVVHLYERD--CSMQRRYQKVIQIAPAQDM 303
++VE+++ + + V ++ G V + D C +APA+ +
Sbjct: 64 GPVIVEEFVPFDKELSVLVVRSVDGETAFYPPVETIQEDGIC--------RESVAPAR-V 114
Query: 304 SVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPR 348
S + E + ++ LG VE + D + E+ PR
Sbjct: 115 PDSQQAKAQEIAKKIVDELGGVGIFGVELFVLPDGDLLVNELAPR 159
>gnl|CDD|223582 COG0508, AceF, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide acyltransferase (E2) component, and
related enzymes [Energy production and conversion].
Length = 404
Score = 57.8 bits (140), Expect = 2e-08
Identities = 20/62 (32%), Positives = 32/62 (51%)
Query: 1366 GNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQNDLVVVL 1425
G I+E KVG +VK+ DVL+ + K + A GV+ +I VE G V ++ +
Sbjct: 17 GTIVEWLKKVGDKVKEGDVLVEVETDKATMEVPAPDAGVLAKILVEEGDTVPVGAVIARI 76
Query: 1426 DV 1427
+
Sbjct: 77 EE 78
>gnl|CDD|223105 COG0026, PurK, Phosphoribosylaminoimidazole carboxylase (NCAIR
synthetase) [Nucleotide transport and metabolism].
Length = 375
Score = 57.2 bits (139), Expect = 3e-08
Identities = 43/196 (21%), Positives = 79/196 (40%), Gaps = 26/196 (13%)
Query: 161 PAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGG- 219
P+P+ L+ D+++ + KA +P+ P V +++ ++ FP +LK GG
Sbjct: 89 PSPDALRIAQDRLVEKQFLDKAGLPVAPFQ--VVDSAEELDAAAADLGFPAVLKTRRGGY 146
Query: 220 GGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYG---- 275
G+G + + +E RA A ++E+++ R I V + G
Sbjct: 147 DGKGQWRIRSDADLEL---RAAGLAE----GGVPVLEEFVPFEREISVIVARSNDGEVAF 199
Query: 276 -DVVHLYERD--CSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEF 332
V R+ IAPA+ + ++ E + ++A+ L Y VEF
Sbjct: 200 YPVAENVHRNGILRT--------SIAPAR-IPDDLQAQAEEMAKKIAEELDYVGVLAVEF 250
Query: 333 LLDKDDNFYFIEVNPR 348
+ D E+ PR
Sbjct: 251 FVTPDGELLVNEIAPR 266
>gnl|CDD|133456 cd06663, Biotinyl_lipoyl_domains, Biotinyl_lipoyl_domains are present
in biotin-dependent carboxylases/decarboxylases, the
dihydrolipoyl acyltransferase component (E2) of 2-oxo
acid dehydrogenases, and the H-protein of the glycine
cleavage system (GCS). These domains transport CO2, acyl,
or methylamine, respectively, between components of the
complex/protein via a biotinyl or lipoyl group, which is
covalently attached to a highly conserved lysine residue.
Length = 73
Score = 51.3 bits (123), Expect = 4e-08
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 6/64 (9%)
Query: 1359 EIGAPMP------GNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEV 1412
I P G +++ KVG +VKK DVL + MK + + A G VK++ V+
Sbjct: 1 TILIPDLAQHLGDGTVVKWLKKVGDKVKKGDVLAEIEAMKATSDVEAPKSGTVKKVLVKE 60
Query: 1413 GGQV 1416
G +V
Sbjct: 61 GTKV 64
>gnl|CDD|117020 pfam08443, RimK, RimK-like ATP-grasp domain. This ATP-grasp domain
is found in the ribosomal S6 modification enzyme RimK.
Length = 190
Score = 54.4 bits (131), Expect = 5e-08
Identities = 40/205 (19%), Positives = 84/205 (40%), Gaps = 34/205 (16%)
Query: 170 GDKVLARDAALKADVPIIPGTTEPVTDV----DKVKEFCDEVE-FPVILKAAFGGGGRGM 224
DK + K +P+ P T + + ++F ++++ FPV++K+ FG G G+
Sbjct: 2 RDKAKSHQLLAKHGIPV------PNTGLAWSPEDAEKFIEQIKGFPVVVKSVFGSQGIGV 55
Query: 225 RMVANKDAIE---ENFKRAQSEALASFGKDDMLVEKYIDRP--RHIEVQILGDKYGDVVH 279
+ ++ ++E E FK K+ +LV+++I R I ++G + +H
Sbjct: 56 FLAEDEQSLEQLLEAFKWL---------KNQILVQEFIAEAGNRDIRCLVVGGEVVGAIH 106
Query: 280 LYERDCSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKDDN 339
+ + + P Q + E +++ A+++G G +
Sbjct: 107 RQSNEGDFRTNLHRGGVAEPYQ-----LSQEEEEIAIKAAQAMGLDVLGVD--IFRSKRG 159
Query: 340 FYFIEVNPRLQVEHTLSEEITGIDV 364
EVN ++ E TGI++
Sbjct: 160 LLVCEVNSSPGLKG--IERTTGINI 182
>gnl|CDD|180306 PRK05889, PRK05889, putative acetyl-CoA carboxylase biotin carboxyl
carrier protein subunit; Provisional.
Length = 71
Score = 50.6 bits (121), Expect = 6e-08
Identities = 22/70 (31%), Positives = 38/70 (54%)
Query: 1357 AGEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQV 1416
A ++ A + +++EV V G Q+ K D L+++ MK E + A G V ++ V VG +
Sbjct: 2 AEDVRAEIVASVLEVVVNEGDQIGKGDTLVLLESMKMEIPVLAEVAGTVSKVSVSVGDVI 61
Query: 1417 AQNDLVVVLD 1426
DL+ V+
Sbjct: 62 QAGDLIAVIS 71
>gnl|CDD|223267 COG0189, RimK, Glutathione synthase/Ribosomal protein S6
modification enzyme (glutaminyl transferase) [Coenzyme
metabolism / Translation, ribosomal structure and
biogenesis].
Length = 318
Score = 55.1 bits (133), Expect = 1e-07
Identities = 53/213 (24%), Positives = 89/213 (41%), Gaps = 33/213 (15%)
Query: 147 FAKAVIGAGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVT----DVDKVKE 202
F + G+ I P ++ +K+ KA +P+ P T D D+ E
Sbjct: 96 FLRLAERKGVPVIND-PQSIRRCRNKLYTTQLLAKAGIPV------PPTLITRDPDEAAE 148
Query: 203 FCDEV-EFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDR 261
F E FPV+LK G GGRG+ +V + D E L G+ ++V++YI +
Sbjct: 149 FVAEHLGFPVVLKPLDGSGGRGVFLVEDAD---PELLSLL-ETLTQEGRKLIIVQEYIPK 204
Query: 262 PRH-IEVQILGDKYGDVVHLYERDCSMQRRYQK------VIQIAPAQDMSVSVRDAITET 314
+ ++G G+VV +Y ++ R + + A+ + + E
Sbjct: 205 AKRDDRRVLVGG--GEVVAIY----ALARIPASGDFRSNLARGGRAE--PCELTEEEEEL 256
Query: 315 SVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNP 347
+V+ A +LG G V+ + D D Y EVN
Sbjct: 257 AVKAAPALGLGLVG-VDIIED-KDGLYVTEVNV 287
>gnl|CDD|237001 PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase
subunit E2; Reviewed.
Length = 411
Score = 55.2 bits (134), Expect = 1e-07
Identities = 19/62 (30%), Positives = 29/62 (46%)
Query: 1366 GNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQNDLVVVL 1425
G I+E VKVG VK+ L + K I + G V ++ VE G V ++ V+
Sbjct: 17 GEIVEWLVKVGDTVKEGQPLAEVETDKATVEIPSPVAGTVAKLLVEEGDVVPVGSVIAVI 76
Query: 1426 DV 1427
+
Sbjct: 77 EE 78
>gnl|CDD|233295 TIGR01161, purK, phosphoribosylaminoimidazole carboxylase, PurK
protein. Phosphoribosylaminoimidazole carboxylase is a
fusion protein in plants and fungi, but consists of two
non-interacting proteins in bacteria, PurK and PurE.
This model represents PurK, N5-carboxyaminoimidazole
ribonucleotide synthetase, which hydrolyzes ATP and
converts AIR to N5-CAIR. PurE converts N5-CAIR to CAIR.
In the presence of high concentrations of bicarbonate,
PurE is reported able to convert AIR to CAIR directly
and without ATP [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 352
Score = 54.3 bits (131), Expect = 3e-07
Identities = 46/196 (23%), Positives = 82/196 (41%), Gaps = 27/196 (13%)
Query: 161 PAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGG- 219
P+P+ L + D++ + K +P+ P + D +++ E+ FPV+LKA GG
Sbjct: 88 PSPDALAIIQDRLTQKQFLQKLGLPVPP--FLVIKDEEELDAALQELGFPVVLKARTGGY 145
Query: 220 GGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGD--- 276
GRG + N+ + +A G + +VE+++ R + V + G+
Sbjct: 146 DGRGQYRIRNEADLP--------QAAKELGDRECIVEEFVPFERELSVIVARSADGETAF 197
Query: 277 --VVHLYERD--CSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEF 332
VV +D +APA + +++ E + RL + LGY VE
Sbjct: 198 YPVVENIHQDGIL--------RYVVAPAA-VPDAIQARAEEIARRLMEELGYVGVLAVEM 248
Query: 333 LLDKDDNFYFIEVNPR 348
+ D E+ PR
Sbjct: 249 FVLPDGRLLINELAPR 264
>gnl|CDD|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase
A/UDP-N-acetylmuramate--L-alanine ligase; Provisional.
Length = 809
Score = 54.8 bits (132), Expect = 3e-07
Identities = 54/217 (24%), Positives = 89/217 (41%), Gaps = 36/217 (16%)
Query: 154 AGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVT------DVDK-VKEFCDE 206
G + GP+ DKVL + A VP++P +P+T + + + +
Sbjct: 551 IGKPYTGPSLAFSAIAMDKVLTKRFASDVGVPVVP--YQPLTLAGWKREPELCLAHIVEA 608
Query: 207 VEFPVILKAAFGGGGRGMRMVAN----KDAIEENFKRAQSEALASFGKDDMLVEKYIDRP 262
FP+ +K A G G+ V N +D I E F D+ VE+
Sbjct: 609 FSFPMFVKTAHLGSSIGVFEVHNVEELRDKISEAFLY----------DTDVFVEESRLGS 658
Query: 263 RHIEVQILGDKYGD--VVHLYERDC------SMQRRY----QKVIQIAPAQDMSVSVRDA 310
R IEV LGD + +ER Q +Y + QI D+S ++
Sbjct: 659 REIEVSCLGDGSSAYVIAGPHER-RGSGGFIDYQEKYGLSGKSSAQIVFDLDLSKESQEQ 717
Query: 311 ITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNP 347
+ E + R+ + L + ++F LD++ NF+ E+NP
Sbjct: 718 VLELAERIYRLLQGKGSCRIDFFLDEEGNFWLSEMNP 754
>gnl|CDD|236493 PRK09389, PRK09389, (R)-citramalate synthase; Provisional.
Length = 488
Score = 53.8 bits (130), Expect = 4e-07
Identities = 27/77 (35%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 819 LNYYEDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTG 878
L++ ++L K +E+GA +C D G+L P L E + +H H+ G
Sbjct: 142 LDFLKELYKAGIEAGADRICFCDTVGILTPEKTYELFKRLSE-LVKGPVSIHCHNDFGLA 200
Query: 879 VATTLACVKAGADIVDV 895
VA TLA + AGAD V V
Sbjct: 201 VANTLAALAAGADQVHV 217
>gnl|CDD|163678 cd07940, DRE_TIM_IPMS, 2-isopropylmalate synthase (IPMS),
N-terminal catalytic TIM barrel domain.
2-isopropylmalate synthase (IPMS) catalyzes an
aldol-type condensation of acetyl-CoA and
2-oxoisovalerate yielding 2-isopropylmalate and CoA, the
first committed step in leucine biosynthesis. This
family includes the Arabidopsis thaliana IPMS1 and IPMS2
proteins, the Glycine max GmN56 protein, and the
Brassica insularis BatIMS protein. This family also
includes a group of archeal IPMS-like proteins
represented by the Methanocaldococcus jannaschii AksA
protein. AksA catalyzes the condensation of
alpha-ketoglutarate and acetyl-CoA to form
trans-homoaconitate, one of 13 steps in the conversion
of alpha-ketoglutarate and acetylCoA to
alpha-ketosuberate, a precursor to coenzyme B and
biotin. AksA also catalyzes the condensation of
alpha-ketoadipate or alpha-ketopimelate with acetylCoA
to form, respectively, the (R)-homocitrate homologs
(R)-2-hydroxy-1,2,5-pentanetricarboxylic acid and
(R)-2-hydroxy-1,2,6- hexanetricarboxylic acid. This
family belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 268
Score = 52.5 bits (127), Expect = 6e-07
Identities = 28/79 (35%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 819 LNYYEDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNIL--IHVHTHDMAG 876
L++ ++ + +E+GA + + D G L P LI +E PNI I VH H+ G
Sbjct: 142 LDFLIEVVEAAIEAGATTINIPDTVGYLTPEEFGELIKKLKENVPNIKVPISVHCHNDLG 201
Query: 877 TGVATTLACVKAGADIVDV 895
VA +LA V+AGA V+
Sbjct: 202 LAVANSLAAVEAGARQVEC 220
>gnl|CDD|235010 PRK02186, PRK02186, argininosuccinate lyase; Provisional.
Length = 887
Score = 54.1 bits (130), Expect = 6e-07
Identities = 61/268 (22%), Positives = 105/268 (39%), Gaps = 31/268 (11%)
Query: 126 AKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGPAPNVLKTLG-------------DK 172
A ++ D IH F+S + A ++ + FI A V + LG DK
Sbjct: 53 ADTSDPDRIH---RFVSSLDGVA-GIMSSSEYFIEVASEVARRLGLPAANTEAIRTCRDK 108
Query: 173 VLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDA 232
+ + P T + D + +PV++K G G G+R+ A+
Sbjct: 109 KRLARTLRDHGIDV-PRTHALALRAV-ALDALDGLTYPVVVKPRMGSGSVGVRLCASVAE 166
Query: 233 IEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYG-DVVHLYERDCSMQRRY 291
A AL G LV+ Y++ + V+ L G V+ + + +
Sbjct: 167 AA-----AHCAALRRAGTRAALVQAYVEGDEY-SVETLTVARGHQVLGITRKHLGPPPHF 220
Query: 292 QKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYS-NAGTVEFLLDKDDNFYFIEVNPRLQ 350
++ PA +S R+ I T +R ++GY+ E + + D IE+NPRL
Sbjct: 221 VEIGHDFPA-PLSAPQRERIVRTVLRALDAVGYAFGPAHTELRV-RGDTVVIIEINPRLA 278
Query: 351 --VEHTLSEEITGIDVVQSQIKIAQGKS 376
+ L EE G+D++ I + G +
Sbjct: 279 GGMIPVLLEEAFGVDLLDHVIDLHLGVA 306
>gnl|CDD|235777 PRK06302, PRK06302, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 155
Score = 50.2 bits (121), Expect = 6e-07
Identities = 21/54 (38%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 1373 VKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQND--LVVV 1424
V+VG VK+ L ++ MK I A GVV EI VE GQ + L V+
Sbjct: 102 VEVGDTVKEGQTLCIIEAMKVMNEIEADKSGVVTEILVE-NGQPVEFGQPLFVI 154
>gnl|CDD|237000 PRK11855, PRK11855, dihydrolipoamide acetyltransferase; Reviewed.
Length = 547
Score = 52.9 bits (128), Expect = 1e-06
Identities = 29/71 (40%), Positives = 41/71 (57%), Gaps = 5/71 (7%)
Query: 1358 GEIGAPMPGNIIEVKVKVGQQVKKNDVLI-VMSVMKTETLIHASADGVVKEIFVEVGGQV 1416
GEI +IE VKVG V+++ LI V + K I + GVVKEI V+VG +V
Sbjct: 128 GEITE---VEVIEWLVKVGDTVEEDQSLITVET-DKATMEIPSPVAGVVKEIKVKVGDKV 183
Query: 1417 AQNDLVVVLDV 1427
+ L+VV++V
Sbjct: 184 SVGSLLVVIEV 194
Score = 47.5 bits (114), Expect = 4e-05
Identities = 25/70 (35%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLI-VMSVMKTETLIHASADGVVKEIFVEVGGQVA 1417
+IG + +IE VK G V+++ L+ V + K I + A GVVKEI V+VG V+
Sbjct: 9 DIGEVVEVEVIEWLVKEGDTVEEDQPLVTVET-DKATMEIPSPAAGVVKEIKVKVGDTVS 67
Query: 1418 QNDLVVVLDV 1427
L+ V++
Sbjct: 68 VGGLLAVIEA 77
>gnl|CDD|233366 TIGR01348, PDHac_trf_long, pyruvate dehydrogenase complex
dihydrolipoamide acetyltransferase, long form. This
model describes a subset of pyruvate dehydrogenase
complex dihydrolipoamide acetyltransferase specifically
close by both phylogenetic and per cent identity (UPGMA)
trees. Members of this set include two or three copies of
the lipoyl-binding domain. E. coli AceF is a member of
this model, while mitochondrial and some other bacterial
forms belong to a separate model [Energy metabolism,
Pyruvate dehydrogenase].
Length = 546
Score = 52.2 bits (125), Expect = 2e-06
Identities = 27/69 (39%), Positives = 36/69 (52%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQ 1418
+IG +IEV VKVG V + LI + K + A A GVVK + V+VG V
Sbjct: 123 DIGDIEKVTVIEVLVKVGDTVSADQSLITLESDKASMEVPAPASGVVKSVKVKVGDSVPT 182
Query: 1419 NDLVVVLDV 1427
DL++ L V
Sbjct: 183 GDLILTLSV 191
Score = 48.3 bits (115), Expect = 3e-05
Identities = 24/69 (34%), Positives = 38/69 (55%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQ 1418
+IG G +IEV VK G +V+ LI + K + +SA G++KEI V+VG +
Sbjct: 7 DIGDNEEGEVIEVLVKPGDKVEAGQSLITLESDKASMEVPSSAAGIIKEIKVKVGDTLPV 66
Query: 1419 NDLVVVLDV 1427
++ L+V
Sbjct: 67 GGVIATLEV 75
>gnl|CDD|181304 PRK08225, PRK08225, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 70
Score = 46.3 bits (110), Expect = 2e-06
Identities = 22/68 (32%), Positives = 41/68 (60%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQ 1418
++ A M GN+ ++ VKVG V++ ++++ MK E I A G VK+I V+ G V +
Sbjct: 3 KVYASMAGNVWKIVVKVGDTVEEGQDVVILESMKMEIPIVAEEAGTVKKINVQEGDFVNE 62
Query: 1419 NDLVVVLD 1426
D+++ ++
Sbjct: 63 GDVLLEIE 70
>gnl|CDD|223197 COG0119, LeuA, Isopropylmalate/homocitrate/citramalate synthases
[Amino acid transport and metabolism].
Length = 409
Score = 51.1 bits (123), Expect = 3e-06
Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 824 DLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPN-ILIHVHTHDMAGTGVATT 882
++ K +E+GA + L D G+ P +I + + PN +++ VH H+ G VA +
Sbjct: 150 EVVKAAIEAGADRINLPDTVGVATPNEVADIIEALKANVPNKVILSVHCHNDLGMAVANS 209
Query: 883 LACVKAGADIVDVA 896
LA V+AGAD V+
Sbjct: 210 LAAVEAGADQVEGT 223
>gnl|CDD|163681 cd07943, DRE_TIM_HOA, 4-hydroxy-2-oxovalerate aldolase, N-terminal
catalytic TIM barrel domain. 4-hydroxy 2-ketovalerate
aldolase (Also known as 4-hydroxy-2-ketovalerate
aldolase and 4-hydroxy-2-oxopentanoate aldolase (HOA))
converts 4-hydroxy-2-oxopentanoate to acetaldehyde and
pyruvate, the penultimate step in the meta-cleavage
pathway for the degradation of phenols, cresols and
catechol. This family includes the Escherichia coli
MhpE aldolase, the Pseudomonas DmpG aldolase, and the
Burkholderia xenovorans BphI pyruvate aldolase. In
Pseudomonas, the DmpG aldolase tightly associates with a
dehydrogenase (DmpF ) and is inactive without it. HOA
has a canonical TIM-barrel fold with a C-terminal
extension that forms a funnel leading to the active
site. This family belongs to the DRE-TIM metallolyase
superfamily. DRE-TIM metallolyases include
2-isopropylmalate synthase (IPMS), alpha-isopropylmalate
synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase,
homocitrate synthase, citramalate synthase,
4-hydroxy-2-oxovalerate aldolase, re-citrate synthase,
transcarboxylase 5S, pyruvate carboxylase, AksA, and
FrbC. These members all share a conserved
triose-phosphate isomerase (TIM) barrel domain
consisting of a core beta(8)-alpha(8) motif with the
eight parallel beta strands forming an enclosed barrel
surrounded by eight alpha helices. The domain has a
catalytic center containing a divalent cation-binding
site formed by a cluster of invariant residues that cap
the core of the barrel. In addition, the catalytic site
includes three invariant residues - an aspartate (D), an
arginine (R), and a glutamate (E) - which is the basis
for the domain name "DRE-TIM".
Length = 263
Score = 50.2 bits (121), Expect = 3e-06
Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 823 EDLAKQ--LVES-GAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGV 879
E+LA+Q L+ES GA + + D AG + P + + + RE + H H+ G V
Sbjct: 141 EELAEQAKLMESYGADCVYVTDSAGAMLPDDVRERVRALREALDPTPVGFHGHNNLGLAV 200
Query: 880 ATTLACVKAGADIVDVAA 897
A +LA V+AGA +D +
Sbjct: 201 ANSLAAVEAGATRIDGSL 218
>gnl|CDD|163676 cd07938, DRE_TIM_HMGL, 3-hydroxy-3-methylglutaryl-CoA lyase,
catalytic TIM barrel domain.
3-hydroxy-3-methylglutaryl-CoA lyase (HMGL) catalyzes
the cleavage of HMG-CoA to acetyl-CoA and acetoacetate,
one of the terminal steps in ketone body generation and
leucine degradation, and is a key enzyme in the pathway
that supplies metabolic fuel to extrahepatic tissues.
Mutations in HMGL cause a human autosomal recessive
disorder called primary metabolic aciduria that affects
ketogenesis and leucine catabolism and can be fatal due
to an inability to tolerate hypoglycemia. HMGL has a
TIM barrel domain with a catalytic center containing a
divalent cation-binding site formed by a cluster of
invariant residues that cap the core of the barrel. The
cleavage of HMG-CoA requires the presence of a divalent
cation like Mg2+ or Mn2+, and the reaction is thought to
involve general acid/base catalysis. This family
belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 274
Score = 49.7 bits (120), Expect = 5e-06
Identities = 20/71 (28%), Positives = 39/71 (54%)
Query: 824 DLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTL 883
++A++L++ G + L D G+ P + L+ + E++P+ + +H HD G +A L
Sbjct: 153 EVAERLLDLGCDEISLGDTIGVATPAQVRRLLEAVLERFPDEKLALHFHDTRGQALANIL 212
Query: 884 ACVKAGADIVD 894
A ++AG D
Sbjct: 213 AALEAGVRRFD 223
>gnl|CDD|130046 TIGR00973, leuA_bact, 2-isopropylmalate synthase, bacterial type.
This is the first enzyme of leucine biosynthesis. A
larger family of homologous proteins includes
homocitrate synthase, distinct lineages of
2-isopropylmalate synthase, several distinct,
uncharacterized, orthologous sets in the Archaea, and
other related enzymes. This model describes a family of
2-isopropylmalate synthases found primarily in Bacteria.
The homologous families in the Archaea may represent
isozymes and/or related enzymes [Amino acid
biosynthesis, Pyruvate family].
Length = 494
Score = 49.4 bits (118), Expect = 1e-05
Identities = 26/77 (33%), Positives = 38/77 (49%), Gaps = 6/77 (7%)
Query: 830 VESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNI---LIHVHTHDMAGTGVATTLACV 886
+ +GA + + D G P LI RE PNI ++ VH H+ G VA +LA V
Sbjct: 156 INAGATTINIPDTVGYALPAEYGNLIKGLRENVPNIDKAILSVHCHNDLGLAVANSLAAV 215
Query: 887 KAGADIVDVAADSMSGI 903
+ GA V+ ++GI
Sbjct: 216 QNGARQVECT---INGI 229
>gnl|CDD|132261 TIGR03217, 4OH_2_O_val_ald, 4-hydroxy-2-oxovalerate aldolase.
Members of this protein family are
4-hydroxy-2-oxovalerate aldolase, also called
4-hydroxy-2-ketovalerate aldolase and
2-oxo-4-hydroxypentanoate aldolase. This enzyme, part of
the pathway for the meta-cleavage of catechol, produces
pyruvate and acetaldehyde. Acetaldehyde is then
converted by acetaldehyde dehydrogenase (acylating)
(DmpF; EC 1.2.1.10) to acetyl-CoA. The two enzymes are
tightly associated [Energy metabolism, Other].
Length = 333
Score = 48.5 bits (116), Expect = 2e-05
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 823 EDLAKQ--LVES-GAQVLCLKDMAGLLKPTAAKLLIGSFREKY-PNILIHVHTHDMAGTG 878
E LA+Q L+ES GA + + D AG + P + + + + P + H H
Sbjct: 143 EKLAEQAKLMESYGADCVYIVDSAGAMLPDDVRDRVRALKAVLKPETQVGFHAHHNLSLA 202
Query: 879 VATTLACVKAGADIVDVAADSM 900
VA ++A ++AGA +D + +
Sbjct: 203 VANSIAAIEAGATRIDASLRGL 224
>gnl|CDD|236999 PRK11854, aceF, pyruvate dehydrogenase dihydrolipoyltransacetylase;
Validated.
Length = 633
Score = 48.8 bits (117), Expect = 2e-05
Identities = 22/62 (35%), Positives = 32/62 (51%)
Query: 1366 GNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQNDLVVVL 1425
+ E+ VKVG V+ LI + K + A G VKEI V VG +V+ L++V
Sbjct: 118 VEVTEILVKVGDTVEAEQSLITVEGDKASMEVPAPFAGTVKEIKVNVGDKVSTGSLIMVF 177
Query: 1426 DV 1427
+V
Sbjct: 178 EV 179
Score = 47.7 bits (114), Expect = 4e-05
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQ 1418
+IGA + E+ VKVG +V+ LI + K + + GVVKEI V+VG +V
Sbjct: 9 DIGAD-EVEVTEILVKVGDKVEAEQSLITVEGDKASMEVPSPQAGVVKEIKVKVGDKVET 67
Query: 1419 NDLVVVLDV 1427
L+++ +
Sbjct: 68 GALIMIFES 76
Score = 47.3 bits (113), Expect = 6e-05
Identities = 24/69 (34%), Positives = 34/69 (49%), Gaps = 1/69 (1%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQ 1418
+IG + EV VKVG +V+ LI + K + A G VKEI V VG +V
Sbjct: 213 DIGGD-EVEVTEVMVKVGDKVEAEQSLITVEGDKASMEVPAPFAGTVKEIKVNVGDKVKT 271
Query: 1419 NDLVVVLDV 1427
L++ +V
Sbjct: 272 GSLIMRFEV 280
>gnl|CDD|181282 PRK08195, PRK08195, 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic
acid aldolase,; Validated.
Length = 337
Score = 47.1 bits (113), Expect = 4e-05
Identities = 30/76 (39%), Positives = 43/76 (56%), Gaps = 4/76 (5%)
Query: 823 EDLAKQ--LVES-GAQVLCLKDMAGLLKPTAAKLLIGSFREK-YPNILIHVHTHDMAGTG 878
E LA+Q L+ES GAQ + + D AG L P + + + R P+ + H H+ G G
Sbjct: 144 EKLAEQAKLMESYGAQCVYVVDSAGALLPEDVRDRVRALRAALKPDTQVGFHGHNNLGLG 203
Query: 879 VATTLACVKAGADIVD 894
VA +LA V+AGA +D
Sbjct: 204 VANSLAAVEAGATRID 219
>gnl|CDD|234993 PRK01966, ddl, D-alanyl-alanine synthetase A; Reviewed.
Length = 333
Score = 47.0 bits (113), Expect = 4e-05
Identities = 51/203 (25%), Positives = 76/203 (37%), Gaps = 52/203 (25%)
Query: 171 DKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVE----FPVILKAAFGGGGRGMRM 226
DK+L + A +P+ P +T D + E+E PV +K A G G+
Sbjct: 123 DKILTKRLLAAAGIPVAPYVV--LTRGDWEEASLAEIEAKLGLPVFVKPANLGSSVGISK 180
Query: 227 VANKDAIEENFKRAQSEALASFGKDD-MLVEKYIDRPRHIEVQILG-------------- 271
V N++ + A F D +LVE+ I R IE +LG
Sbjct: 181 VKNEEELAAALDLA-------FEYDRKVLVEQGIK-GREIECAVLGNDPKASVPGEIVKP 232
Query: 272 -------DKYGDVVHLYERDCSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGY 324
KY D I PA D+S + + I E +++ K+LG
Sbjct: 233 DDFYDYEAKYLD---------------GSAELIIPA-DLSEELTEKIRELAIKAFKALGC 276
Query: 325 SNAGTVEFLLDKDDNFYFIEVNP 347
S V+F L +D Y E+N
Sbjct: 277 SGLARVDFFLTEDGEIYLNEINT 299
>gnl|CDD|205711 pfam13533, Biotin_lipoyl_2, Biotin-lipoyl like.
Length = 50
Score = 40.2 bits (95), Expect = 2e-04
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVMS 1389
I P+ G ++ V VK GQ VKK DVL +
Sbjct: 4 NIAPPVSGRVVAVNVKEGQSVKKGDVLFTLD 34
Score = 31.3 bits (72), Expect = 0.22
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 1397 IHASADGVVKEIFVEVGGQVAQNDLVVVLD 1426
I G V + V+ G V + D++ LD
Sbjct: 5 IAPPVSGRVVAVNVKEGQSVKKGDVLFTLD 34
>gnl|CDD|233719 TIGR02090, LEU1_arch, isopropylmalate/citramalate/homocitrate
synthases. Methanogenic archaea contain three closely
related homologs of the 2-isopropylmalate synthases
(LeuA) represented by TIGR00973. Two of these in
Methanococcus janaschii (MJ1392 - CimA ; MJ0503 - AksA )
have been characterized as catalyzing alternative
reactions leaving the third (MJ1195) as the presumptive
LeuA enzyme. CimA is citramalate (2-methylmalate)
synthase which condenses acetyl-CoA with pyruvate. This
enzyme is believed to be involved in the biosynthesis of
isoleucine in methanogens and possibly other species
lacking threonine dehydratase. AksA is a homocitrate
synthase which also produces (homo)2-citrate and
(homo)3-citrate in the biosynthesis of Coenzyme B which
is restricted solely to methanogenic archaea.
Methanogens, then should and aparrently do contain all
three of these enzymes. Unfortunately, phylogenetic
trees do not resolve into three unambiguous clades,
making assignment of function to particular genes
problematic. Other archaea which lack a threonine
dehydratase (mainly Euryarchaeota) should contain both a
CimA and a LeuA gene. This is true of, for example,
archaeoglobus fulgidis, but not for the Pyrococci which
have none in this clade, but one in TIGR00973 and one in
TIGRT00977 which may fulfill these roles. Other species
which have only one hit to this model and lack threonine
dehydratase are very likely LeuA enzymes.
Length = 363
Score = 44.8 bits (106), Expect = 2e-04
Identities = 42/159 (26%), Positives = 69/159 (43%), Gaps = 23/159 (14%)
Query: 753 AEVGAFCRL-------ASQAGIDIFRVF---DPLNSVPNLVKGMDAVQQVTGGSTIVEAT 802
AE+ + R A G+D F P++ L K D V + VEA
Sbjct: 64 AEICSLARALKKDIDKAIDCGVDSIHTFIATSPIHLKYKLKKSRDEVLE-----KAVEA- 117
Query: 803 ICYAGD------LTNPNKKKYSLNYYEDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIG 856
+ YA + + + + +++ + K+ E+GA + + D G+L P + LI
Sbjct: 118 VEYAKEHGLIVEFSAEDATRTDIDFLIKVFKRAEEAGADRINIADTVGVLTPQKMEELIK 177
Query: 857 SFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIVDV 895
+E + I VH H+ G A ++A VKAGA+ V V
Sbjct: 178 KLKENV-KLPISVHCHNDFGLATANSIAGVKAGAEQVHV 215
>gnl|CDD|183341 PRK11858, aksA, trans-homoaconitate synthase; Reviewed.
Length = 378
Score = 44.8 bits (107), Expect = 3e-04
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 819 LNYYEDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTG 878
L++ + AK E+GA + D G+L P L+ E +I I VH H+ G
Sbjct: 144 LDFLIEFAKAAEEAGADRVRFCDTVGILDPFTMYELVKELVEAV-DIPIEVHCHNDFGMA 202
Query: 879 VATTLACVKAGADIVDV 895
A LA ++AGA V
Sbjct: 203 TANALAGIEAGAKQVHT 219
>gnl|CDD|223106 COG0027, PurT, Formate-dependent phosphoribosylglycinamide
formyltransferase (GAR transformylase) [Nucleotide
transport and metabolism].
Length = 394
Score = 44.6 bits (106), Expect = 3e-04
Identities = 32/159 (20%), Positives = 70/159 (44%), Gaps = 13/159 (8%)
Query: 194 VTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDM 253
+++++ +++ FP ++K G+G +V + + +E+ ++ AQ G+ +
Sbjct: 135 ADSLEELRAAVEKIGFPCVVKPVMSSSGKGQSVVRSPEDVEKAWEYAQQGGRGGSGR--V 192
Query: 254 LVEKYIDRPRHIEVQILGDKYGDVVHLYERDCS----MQRRYQKVIQIAPAQDMSVSVRD 309
+VE+++ E+ +L + D + C+ Q P Q+MS + +
Sbjct: 193 IVEEFVK--FDFEITLLTVRAVDGTGSF---CAPIGHRQEDGDYRESWQP-QEMSEAALE 246
Query: 310 AITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVNPR 348
+ R+ +LG VE + D+ F EV+PR
Sbjct: 247 EAQSIAKRVTDALGGRGLFGVELFVKGDE-VIFSEVSPR 284
>gnl|CDD|163682 cd07944, DRE_TIM_HOA_like, 4-hydroxy-2-oxovalerate aldolase-like,
N-terminal catalytic TIM barrel domain. This family of
bacterial enzymes is sequence-similar to
4-hydroxy-2-oxovalerate aldolase (HOA) but its exact
function is unknown. This family includes the
Bacteroides vulgatus Bvu_2661 protein and belongs to the
DRE-TIM metallolyase superfamily. DRE-TIM metallolyases
include 2-isopropylmalate synthase (IPMS),
alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 266
Score = 43.3 bits (103), Expect = 5e-04
Identities = 23/96 (23%), Positives = 39/96 (40%), Gaps = 10/96 (10%)
Query: 816 KYSLNYYEDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKY-PNILIHVHTHDM 874
YS +L + + E V + D G + P K +I R +I + H H+
Sbjct: 134 GYSDEELLELLELVNEIKPDVFYIVDSFGSMYPEDIKRIISLLRSNLDKDIKLGFHAHNN 193
Query: 875 AGTGVATTLACVKAGADIVDVAADSMSGICSQPAMG 910
+A TL ++ G +I+D ++ G MG
Sbjct: 194 LQLALANTLEAIELGVEIIDA---TVYG------MG 220
>gnl|CDD|163683 cd07945, DRE_TIM_CMS, Leptospira interrogans citramalate synthase
(CMS) and related proteins, N-terminal catalytic TIM
barrel domain. Citramalate synthase (CMS) catalyzes the
conversion of pyruvate and acetyl-CoA to (R)-citramalate
in the first dedicated step of the citramalate pathway.
Citramalate is only found in Leptospira interrogans and
a few other microorganisms. This family belongs to the
DRE-TIM metallolyase superfamily. DRE-TIM metallolyases
include 2-isopropylmalate synthase (IPMS),
alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 280
Score = 42.7 bits (101), Expect = 0.001
Identities = 24/78 (30%), Positives = 34/78 (43%)
Query: 813 NKKKYSLNYYEDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTH 872
N + S +Y L L + + + L D G+L P I ++YPN+ H H
Sbjct: 140 NGMRDSPDYVFQLVDFLSDLPIKRIMLPDTLGILSPFETYTYISDMVKRYPNLHFDFHAH 199
Query: 873 DMAGTGVATTLACVKAGA 890
+ VA LA VKAG
Sbjct: 200 NDYDLAVANVLAAVKAGI 217
>gnl|CDD|224734 COG1821, COG1821, Predicted ATP-utilizing enzyme (ATP-grasp
superfamily) [General function prediction only].
Length = 307
Score = 42.1 bits (99), Expect = 0.001
Identities = 36/194 (18%), Positives = 64/194 (32%), Gaps = 38/194 (19%)
Query: 157 EFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAA 216
E +G +P ++ DK L A L+ V P T + K ++K A
Sbjct: 100 ENLGCSPRAIRVAADKRLTYKA-LRDAVKQPP--TREWAEEPKK----------YVIKPA 146
Query: 217 FGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGD 276
G GG G+ + D + +++I+ H+ V + +
Sbjct: 147 DGCGGEGILFGRDFP-------------------DIEIAQEFIE-GEHLSVSLSVGEKVL 186
Query: 277 VVHLYERDCSMQ-RRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLD 335
+ + + P ++ E ++R + + N G V L
Sbjct: 187 PLSVNRQFIIFAGSELVYNGGRTPIDH---ELKREAFEEAIRAVECIPGLN-GYVGVDLV 242
Query: 336 KDDNFYFIEVNPRL 349
D Y IE+NPR
Sbjct: 243 LSDEPYVIEINPRP 256
>gnl|CDD|217166 pfam02655, ATP-grasp_3, ATP-grasp domain. No functional
information or experimental verification of function is
known in this family. This family appears to be an
ATP-grasp domain (Pers. obs. A Bateman).
Length = 159
Score = 40.4 bits (95), Expect = 0.001
Identities = 48/193 (24%), Positives = 74/193 (38%), Gaps = 48/193 (24%)
Query: 170 GDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVAN 229
DK+ A A VP+ P T E E E I+K G GG G+R V N
Sbjct: 1 SDKLKTYKALKNAGVPV-PTTLSA--------EEPTEEEKKYIVKPRDGCGGEGVRFVEN 51
Query: 230 KDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQR 289
EE ++++++++I+ + V +L D V+ L S+ R
Sbjct: 52 GREDEEFI-------------ENVIIQEFIE-GEPLSVSVLSDG-EKVLPL-----SVNR 91
Query: 290 RYQKVIQIAPAQDM----SVSVRDAITETSVRLAKSL--------GYSNAGTVEFLLDKD 337
+ I A + + R + E LA+ + GY V+ +L D
Sbjct: 92 QL---IDNAGSGFVYAGNVTPSRTELKEELEELAEEVVEALPGLNGYVG---VDLVL-TD 144
Query: 338 DNFYFIEVNPRLQ 350
Y IEVNPR+
Sbjct: 145 GGPYVIEVNPRIT 157
>gnl|CDD|233965 TIGR02660, nifV_homocitr, homocitrate synthase NifV. This family
consists of the NifV clade of homocitrate synthases,
most of which are found in operons for nitrogen
fixation. Members are closely homologous to enzymes that
include 2-isopropylmalate synthase, (R)-citramalate
synthase, and homocitrate synthases associated with
other processes. The homocitrate made by this enzyme
becomes a part of the iron-molybdenum cofactor of
nitrogenase [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other, Central intermediary
metabolism, Nitrogen fixation].
Length = 365
Score = 42.3 bits (100), Expect = 0.001
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 818 SLNYYEDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGT 877
++ +LA+ E+GA D G+L P + L+ + R+ + + +H H+ G
Sbjct: 140 DPDFLVELAEVAAEAGADRFRFADTVGILDPFSTYELVRALRQAVD-LPLEMHAHNDLGM 198
Query: 878 GVATTLACVKAGADIVDV 895
A TLA V+AGA V+
Sbjct: 199 ATANTLAAVRAGATHVNT 216
>gnl|CDD|188060 TIGR00531, BCCP, acetyl-CoA carboxylase, biotin carboxyl carrier
protein. This model is designed to identify biotin
carboxyl carrier protein as a peptide of acetyl-CoA
carboxylase. Scoring below the trusted cutoff is a
related protein encoded in a region associated with
polyketide synthesis in the prokaryote Saccharopolyspora
hirsuta, and a reported chloroplast-encoded biotin
carboxyl carrier protein that may be highly derived from
the last common ancestral sequence. Scoring below the
noise cutoff are biotin carboxyl carrier domains of other
enzymes such as pyruvate carboxylase.The gene name is
accB or fabE [Fatty acid and phospholipid metabolism,
Biosynthesis].
Length = 156
Score = 40.2 bits (94), Expect = 0.002
Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 1362 APMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQV 1416
AP P + V+VG +VKK ++ ++ MK I A G V EI VE G V
Sbjct: 94 APSPDA--KPFVEVGDKVKKGQIVCIVEAMKLMNEIEAEVAGKVVEILVENGQPV 146
>gnl|CDD|130212 TIGR01142, purT, phosphoribosylglycinamide formyltransferase 2.
This enzyme is an alternative to PurN (TIGR00639)
[Purines, pyrimidines, nucleosides, and nucleotides,
Purine ribonucleotide biosynthesis].
Length = 380
Score = 42.0 bits (99), Expect = 0.002
Identities = 42/204 (20%), Positives = 82/204 (40%), Gaps = 25/204 (12%)
Query: 154 AGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVIL 213
G + A T+ + + R AA + +P +D+++E +++ +P ++
Sbjct: 84 EGYFVVPNARATKLTMNREGIRRLAAEELGLPTSR--YMFADSLDELREAVEKIGYPCVV 141
Query: 214 KAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQIL--- 270
K G+G +V + IE+ ++ AQ A G+ ++VE++ID + +I
Sbjct: 142 KPVMSSSGKGQSVVRGPEDIEKAWEYAQEGARGGAGR--VIVEEFID----FDYEITLLT 195
Query: 271 ------GDKYGDVVHLYERDCSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGY 324
+ + + D +Q Q+MS + + R+ +LG
Sbjct: 196 VRHVDGNTTFCAPIGHRQIDGDYHESWQ-------PQEMSEKALEEAQRIAKRITDALGG 248
Query: 325 SNAGTVEFLLDKDDNFYFIEVNPR 348
VE + K D F EV+PR
Sbjct: 249 YGLFGVELFV-KGDEVIFSEVSPR 271
>gnl|CDD|163679 cd07941, DRE_TIM_LeuA3, Desulfobacterium autotrophicum LeuA3 and
related proteins, N-terminal catalytic TIM barrel
domain. Desulfobacterium autotrophicum LeuA3 is
sequence-similar to alpha-isopropylmalate synthase
(LeuA) but its exact function is unknown. Members of
this family have an N-terminal TIM barrel domain that
belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 273
Score = 41.7 bits (99), Expect = 0.002
Identities = 23/64 (35%), Positives = 34/64 (53%)
Query: 830 VESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAG 889
E+GA L L D G P ++ RE+ P + + +H H+ +G VA +LA V+AG
Sbjct: 161 AEAGADWLVLCDTNGGTLPHEIAEIVKEVRERLPGVPLGIHAHNDSGLAVANSLAAVEAG 220
Query: 890 ADIV 893
A V
Sbjct: 221 ATQV 224
>gnl|CDD|234864 PRK00915, PRK00915, 2-isopropylmalate synthase; Validated.
Length = 513
Score = 42.0 bits (100), Expect = 0.002
Identities = 26/67 (38%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 830 VESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNI---LIHVHTHDMAGTGVATTLACV 886
+++GA + + D G P LI + RE+ PNI +I VH H+ G VA +LA V
Sbjct: 159 IDAGATTINIPDTVGYTTPEEFGELIKTLRERVPNIDKAIISVHCHNDLGLAVANSLAAV 218
Query: 887 KAGADIV 893
+AGA V
Sbjct: 219 EAGARQV 225
>gnl|CDD|180811 PRK07051, PRK07051, hypothetical protein; Validated.
Length = 80
Score = 37.3 bits (87), Expect = 0.004
Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 7/75 (9%)
Query: 1359 EIGAPMPGNIIE-------VKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVE 1411
EI +P+PG V+VG V DV+ ++ VMK T + A A G V E VE
Sbjct: 5 EIVSPLPGTFYRRPSPDAPPYVEVGDAVAAGDVVGLIEVMKQFTEVEAEAAGRVVEFLVE 64
Query: 1412 VGGQVAQNDLVVVLD 1426
G V ++ ++
Sbjct: 65 DGEPVEAGQVLARIE 79
>gnl|CDD|178767 PLN03228, PLN03228, methylthioalkylmalate synthase; Provisional.
Length = 503
Score = 41.1 bits (96), Expect = 0.004
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 828 QLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYP---NILIHVHTHDMAGTGVATTLA 884
+ +++GA + + D G+ P L+ + P +I+ VH H+ G A T+A
Sbjct: 247 EAIKAGATSVGIADTVGINMPHEFGELVTYVKANTPGIDDIVFSVHCHNDLGLATANTIA 306
Query: 885 CVKAGADIVDVAADSMSGI 903
+ AGA V+V +++GI
Sbjct: 307 GICAGARQVEV---TINGI 322
>gnl|CDD|226433 COG3919, COG3919, Predicted ATP-grasp enzyme [General function
prediction only].
Length = 415
Score = 40.7 bits (95), Expect = 0.005
Identities = 53/200 (26%), Positives = 85/200 (42%), Gaps = 10/200 (5%)
Query: 152 IGAGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPV 211
+ A E P +L+ L +K L + A + +P P T +++D + DE+ FPV
Sbjct: 95 LSAFFEVPLPDWALLRWLCEKPLLYNRAEELGLPY-PKTYLVNSEIDTL---VDELTFPV 150
Query: 212 ILKAAFGGG-GRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQIL 270
ILK GG R A A E K A A G D+++V+++I P E Q
Sbjct: 151 ILKPGMGGSVHFEARAKAFTAADNEEMKLALHRAYEEIGPDNVVVQEFI--PGGGENQFS 208
Query: 271 GDKYGDVVH-LYERDCSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGT 329
D H + E R+Y V + I + + +S+ ++
Sbjct: 209 YAALWDKGHPVAEFTARRLRQYPVDFGYTSTVVEVVDNQQVI-QAARDFLESIEHTGLVE 267
Query: 330 VEFLLD-KDDNFYFIEVNPR 348
VEF D +D ++ ++VNPR
Sbjct: 268 VEFKYDPRDGSYKLLDVNPR 287
>gnl|CDD|236454 PRK09288, purT, phosphoribosylglycinamide formyltransferase 2;
Validated.
Length = 395
Score = 40.1 bits (95), Expect = 0.007
Identities = 41/168 (24%), Positives = 74/168 (44%), Gaps = 31/168 (18%)
Query: 194 VTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDM 253
+++++ +E+ +P ++K G+G +V + + IE+ ++ AQ G+ +
Sbjct: 135 ADSLEELRAAVEEIGYPCVVKPVMSSSGKGQSVVRSPEDIEKAWEYAQEGGRGGAGR--V 192
Query: 254 LVEKYIDRPRHIEVQILGDKYGDVV--------HLYER-D--CSMQRRYQKVIQIAPAQD 302
+VE++ID E+ +L + D H E D S Q P Q
Sbjct: 193 IVEEFID--FDYEITLLTVRAVDGGTHFCAPIGHRQEDGDYRESWQ----------P-QP 239
Query: 303 MSVSVRDAITETSVRLAKSLGYSNAGT--VEFLLDKDDNFYFIEVNPR 348
MS + + E + ++ +LG G VE + K D YF EV+PR
Sbjct: 240 MSPAALEEAQEIAKKVTDALG--GRGLFGVELFV-KGDEVYFSEVSPR 284
>gnl|CDD|233705 TIGR02068, cya_phycin_syn, cyanophycin synthetase. Cyanophycin is
an insoluble storage polymer for carbon, nitrogen, and
energy, found in most Cyanobacteria. The polymer has a
backbone of L-aspartic acid, with most Asp side chain
carboxyl groups attached to L-arginine. The polymer is
made by this enzyme, cyanophycin synthetase, and
degraded by cyanophycinase. Heterologously expressed
cyanophycin synthetase in E. coli produces a closely
related, water-soluble polymer with some Arg replaced by
Lys. It is unclear whether enzymes that produce soluble
cyanophycin-like polymers in vivo in non-Cyanobacterial
species should be designated as cyanophycin synthetase
itself or as a related enzyme. This model makes the
designation as cyanophycin synthetase. Cyanophycin
synthesis is analogous to polyhydroxyalkanoic acid (PHA)
biosynthesis, except that PHA polymers lack nitrogen and
may be made under nitrogen-limiting conditions [Cellular
processes, Biosynthesis of natural products].
Length = 864
Score = 40.5 bits (95), Expect = 0.008
Identities = 32/115 (27%), Positives = 56/115 (48%), Gaps = 13/115 (11%)
Query: 171 DKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRM-VAN 229
DK L ++ A VP+ GT V + E ++ +PV++K G GRG+ + +
Sbjct: 213 DKDLTKEILSDAGVPVPEGTV--VQSAEDAWEAAQDLGYPVVIKPYDGNHGRGVTINILT 270
Query: 230 KDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVHLYERD 284
+D IE ++ A E+ ++VE++I R + ++G K VV + ER
Sbjct: 271 RDEIESAYEAAVEES------SGVIVERFI-TGRDHRLLVVGGK---VVAVAERV 315
>gnl|CDD|184751 PRK14571, PRK14571, D-alanyl-alanine synthetase A; Provisional.
Length = 299
Score = 39.0 bits (91), Expect = 0.012
Identities = 39/158 (24%), Positives = 69/158 (43%), Gaps = 21/158 (13%)
Query: 200 VKEFCDE--VEFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEK 257
+KEF + +P ++K G G+ + + E F+ A E L +G ++V++
Sbjct: 115 IKEFMKTSPLGYPCVVKPRREGSSIGVFICESD----EEFQHALKEDLPRYG--SVIVQE 168
Query: 258 YIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQ---------IAPAQDMSVSVR 308
YI R + V IL + G V L + +RR+ + I PA ++
Sbjct: 169 YI-PGREMTVSILETEKGFEV-LPILELRPKRRFYDYVAKYTKGETEFILPAP-LNPEEE 225
Query: 309 DAITETSVRLAKSLGYSNAGTVEFLLDKDDNFYFIEVN 346
+ ET+++ G G V+ + D FYF+E+N
Sbjct: 226 RLVKETALKAFVEAGCRGFGRVDGIF-SDGRFYFLEIN 262
>gnl|CDD|178534 PLN02948, PLN02948, phosphoribosylaminoimidazole carboxylase.
Length = 577
Score = 39.3 bits (92), Expect = 0.015
Identities = 40/191 (20%), Positives = 79/191 (41%), Gaps = 15/191 (7%)
Query: 161 PAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGG- 219
P + ++ + DK + K +P+ P E + D++ ++ D +P++LK+
Sbjct: 111 PKSSTIRIIQDKYAQKVHFSKHGIPL-PEFME-IDDLESAEKAGDLFGYPLMLKSRRLAY 168
Query: 220 GGRGMRMVANKDAIEENFKRAQSEALASFG--KDDMLVEKYIDRPRHIEVQILGDKYGDV 277
GRG + ++ + S A+A+ G + + EK+ + + V + + G
Sbjct: 169 DGRGNAVAKTEEDL--------SSAVAALGGFERGLYAEKWAPFVKELAVMVARSRDGST 220
Query: 278 VHLYERDCSMQRRYQKVIQIAPAQDMSVSVRDAITETSVRLAKSLGYSNAGTVEFLLDKD 337
Y ++ + + APA ++ V T+ + + SL + VE L KD
Sbjct: 221 R-CYPVVETIHKDNICHVVEAPA-NVPWKVAKLATDVAEKAVGSLEGAGVFGVELFLLKD 278
Query: 338 DNFYFIEVNPR 348
EV PR
Sbjct: 279 GQILLNEVAPR 289
>gnl|CDD|180605 PRK06524, PRK06524, biotin carboxylase-like protein; Validated.
Length = 493
Score = 39.0 bits (91), Expect = 0.018
Identities = 56/271 (20%), Positives = 92/271 (33%), Gaps = 67/271 (24%)
Query: 102 QAFLVGKGMPPVAAYLNIPEIICIAKNNNVDAIHPGYGFLSEREDFAKAVIGAGLEFIGP 161
F+ +G A ++ E E E A+ AGLE + P
Sbjct: 97 LEFIKRRGPGGKACFVMFDE---------------------ETEALARQ---AGLEVMHP 132
Query: 162 APNVLKT-LGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFP-----VILKA 215
P L+ L K++ A +A VP +P + VD E ++++
Sbjct: 133 -PAELRHRLDSKIVTTRLANEAGVPSVPHV---LGRVDSYDELSALAHGAGLGDDLVVQT 188
Query: 216 AFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILG--DK 273
+G G V + ++ + + G+ ++ V K R R++EV I +
Sbjct: 189 PYGDSGSTTFFVRG----QRDWDKYAGGIV---GQPEIKVMK---RIRNVEVCIEACVTR 238
Query: 274 YGDVVHLYERDCSMQRRYQKVIQIAPAQ------DMSVSV-----RDAITETSVRLAKSL 322
+G V+ ++ P + D+ E +L L
Sbjct: 239 HGTVIGPAMTSLVGYP------ELTPYRGGWCGNDIWPGALPPAQTRKAREMVRKLGDVL 292
Query: 323 ---GYSNAGTVEFLLDKD-DNFYFIEVNPRL 349
GY V+ L D D D Y EVNPRL
Sbjct: 293 SREGYRGYFEVDLLHDLDADELYLGEVNPRL 323
>gnl|CDD|233164 TIGR00877, purD, phosphoribosylamine--glycine ligase. Alternate
name: glycinamide ribonucleotide synthetase (GARS). This
enzyme appears as a monofunctional protein in
prokaryotes but as part of a larger, multidomain protein
in eukaryotes [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 422
Score = 38.1 bits (89), Expect = 0.037
Identities = 24/111 (21%), Positives = 50/111 (45%), Gaps = 11/111 (9%)
Query: 154 AGLEFIGPAPNVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVIL 213
AG+ GP + G K A+D + +P E TD ++ K + E P+++
Sbjct: 87 AGIPVFGPTKEAAQLEGSKAFAKDFMKRYGIPTA--EYEVFTDPEEAKSYIQEKGAPIVV 144
Query: 214 KAAFGGGGRGMRMVANKD----AIEENFKRAQSEALASFGKDDMLVEKYID 260
KA G+G+ + + A+E+ ++ +A +++E+++D
Sbjct: 145 KADGLAAGKGVIVAKTNEEAIKAVEDILEQKFGDAGER-----VVIEEFLD 190
>gnl|CDD|163677 cd07939, DRE_TIM_NifV, Streptomyces rubellomurinus FrbC and related
proteins, catalytic TIM barrel domain. FrbC (NifV) of
Streptomyces rubellomurinus catalyzes the condensation
of acetyl-CoA and alpha-ketoglutarate to form
homocitrate and CoA, a reaction similar to one catalyzed
by homocitrate synthase. The gene encoding FrbC is one
of several genes required for the biosynthesis of
FR900098, a potent antimalarial antibiotic. This
protein is also required for assembly of the nitrogenase
MoFe complex but its exact role is unknown. This
family also includes the NifV proteins of Heliobacterium
chlorum and Gluconacetobacter diazotrophicus, which
appear to be orthologous to FrbC. This family belongs
to the DRE-TIM metallolyase superfamily. DRE-TIM
metallolyases include 2-isopropylmalate synthase (IPMS),
alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 259
Score = 37.1 bits (87), Expect = 0.042
Identities = 25/73 (34%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 823 EDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATT 882
+ A+ E+GA L D G+L P LI R + + H H+ G A T
Sbjct: 142 IEFAEVAQEAGADRLRFADTVGILDPFTTYELIRRLRAATD-LPLEFHAHNDLGLATANT 200
Query: 883 LACVKAGADIVDV 895
LA V+AGA V V
Sbjct: 201 LAAVRAGATHVSV 213
>gnl|CDD|240289 PTZ00144, PTZ00144, dihydrolipoamide succinyltransferase;
Provisional.
Length = 418
Score = 37.4 bits (87), Expect = 0.055
Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 8/73 (10%)
Query: 1344 KKLKLRSKADSDTAGEIGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADG 1403
K +K+ + DS + G + +E K KVG VK+++V+ ++ K I A A G
Sbjct: 45 KVIKVPTMGDSISEGTV--------VEWKKKVGDYVKEDEVICIIETDKVSVDIRAPASG 96
Query: 1404 VVKEIFVEVGGQV 1416
V+ +IF E G V
Sbjct: 97 VITKIFAEEGDTV 109
>gnl|CDD|222735 pfam14398, ATPgrasp_YheCD, YheC/D like ATP-grasp. A member of the
ATP-grasp fold predicted to be involved in the
modification/biosynthesis of spore-wall and capsular
proteins.
Length = 262
Score = 36.5 bits (85), Expect = 0.068
Identities = 23/126 (18%), Positives = 39/126 (30%), Gaps = 31/126 (24%)
Query: 155 GLEFIGPAPNVLKTLGDK-----VLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEF 209
G+ P +K L++ +L+ +P TE V +K F
Sbjct: 8 GIPIFNP------GFFNKWEVHEHLSKHPSLRPYLP----ETELVRSPSSLKSFLGR-YK 56
Query: 210 PVILKAAFGGGGRGMRMV---------------ANKDAIEENFKRAQSEALASFGKDDML 254
V LK G G+G+ + N+ + S L +
Sbjct: 57 SVYLKPINGSKGKGIIRLTKLEGRYIVRYRDDGKNQTRTFSSLASLASWILKHLSTRKYI 116
Query: 255 VEKYID 260
V++ ID
Sbjct: 117 VQQGID 122
>gnl|CDD|223229 COG0151, PurD, Phosphoribosylamine-glycine ligase [Nucleotide
transport and metabolism].
Length = 428
Score = 36.8 bits (86), Expect = 0.076
Identities = 30/123 (24%), Positives = 49/123 (39%), Gaps = 13/123 (10%)
Query: 118 NIPEIICIAKNNNVDAIHPGYGFLSEREDF-----AKAVIGAGLEFIGPAPNVLKTLGDK 172
+ ++ AK NVD + G E A+ AG+ GP + G K
Sbjct: 51 DHEALVAFAKEKNVDLVVVG------PEAPLVAGVVDALRAAGIPVFGPTKAAAQLEGSK 104
Query: 173 VLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDA 232
A+D K +P E TD ++ K + DE P+++KA G+G+ + +
Sbjct: 105 AFAKDFMKKYGIPT--AEYEVFTDPEEAKAYIDEKGAPIVVKADGLAAGKGVIVAMTLEE 162
Query: 233 IEE 235
E
Sbjct: 163 AEA 165
>gnl|CDD|130050 TIGR00977, LeuA_rel, 2-isopropylmalate synthase/homocitrate
synthase family protein. This model represents
uncharacterized proteins related to 2-isopropylmalate
synthases and homocitrate synthases but phylogenetically
distint. Each species represented in the seed alignment
also has a member of a known family of 2-isopropylmalate
synthases [Unknown function, General].
Length = 526
Score = 36.4 bits (84), Expect = 0.12
Identities = 19/63 (30%), Positives = 30/63 (47%)
Query: 831 ESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGA 890
++GA L L D G P + + + +H H+ +GT VA +L V+AGA
Sbjct: 165 QAGADWLVLCDTNGGTLPHEISEITTKVKRSLKQPQLGIHAHNDSGTAVANSLLAVEAGA 224
Query: 891 DIV 893
+V
Sbjct: 225 TMV 227
>gnl|CDD|238223 cd00381, IMPDH, IMPDH: The catalytic domain of the inosine
monophosphate dehydrogenase. IMPDH catalyzes the
NAD-dependent oxidation of inosine 5'-monophosphate
(IMP) to xanthosine 5' monophosphate (XMP). It is a
rate-limiting step in the de novo synthesis of the
guanine nucleotides. There is often a CBS domain
inserted in the middle of this domain, which is proposed
to play a regulatory role. IMPDH is a key enzyme in the
regulation of cell proliferation and differentiation. It
has been identified as an attractive target for
developing chemotherapeutic agents.
Length = 325
Score = 35.6 bits (83), Expect = 0.15
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 22/82 (26%)
Query: 822 YEDLAKQLVESGAQVLCLKDMA-----GLLKPTAAKLLIGSFREKYPNILIHVHTHDMAG 876
++ A+ LVE+G V+ + D A +++ +I ++KYPN+ + +AG
Sbjct: 95 DKERAEALVEAGVDVIVI-DSAHGHSVYVIE------MIKFIKKKYPNVDV------IAG 141
Query: 877 TGVAT---TLACVKAGADIVDV 895
V T + AGAD V V
Sbjct: 142 -NVVTAEAARDLIDAGADGVKV 162
>gnl|CDD|234495 TIGR04192, GRASP_w_spasm, ATP-GRASP peptide maturase,
grasp-with-spasm system. Members of this protein family
are ATP-GRASP proteins that occur in a peptide
maturation cassette with a SPASM domain protein. SPASM
(TIGR04085) usually occurs as a C-terminal extension to
radical SAM enzymes that act as peptide maturases,
although it can occur independently.
Length = 318
Score = 35.5 bits (82), Expect = 0.18
Identities = 11/22 (50%), Positives = 19/22 (86%)
Query: 326 NAGTVEFLLDKDDNFYFIEVNP 347
N G+++F++ +D+ FYF+EVNP
Sbjct: 274 NCGSLDFIVTEDNEFYFLEVNP 295
>gnl|CDD|237586 PRK14016, PRK14016, cyanophycin synthetase; Provisional.
Length = 727
Score = 35.5 bits (83), Expect = 0.24
Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 9/77 (11%)
Query: 184 VPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRM-VANKDAIEENFKRAQS 242
VP+ G VT + E +E+ +PV++K G GRG+ + + ++ IE + A
Sbjct: 227 VPVPEGR--VVTSAEDAWEAAEEIGYPVVVKPLDGNHGRGVTVNITTREEIEAAYAVASK 284
Query: 243 EALASFGKDDMLVEKYI 259
E+ D++VE+YI
Sbjct: 285 ES------SDVIVERYI 295
>gnl|CDD|216282 pfam01071, GARS_A, Phosphoribosylglycinamide synthetase, ATP-grasp
(A) domain. Phosphoribosylglycinamide synthetase
catalyzes the second step in the de novo biosynthesis of
purine. The reaction catalyzed by
Phosphoribosylglycinamide synthetase is the ATP-
dependent addition of 5-phosphoribosylamine to glycine
to form 5'phosphoribosylglycinamide. This domain is
related to the ATP-grasp domain of biotin
carboxylase/carbamoyl phosphate synthetase (see
pfam02786).
Length = 193
Score = 34.2 bits (79), Expect = 0.30
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 170 GDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVAN 229
G K A+D + +P E TD ++ K + E FP ++KA G+G+ + +
Sbjct: 1 GSKSFAKDFMKRHGIPT--AEYETFTDPEEAKSYIREAGFPAVVKADGLAAGKGVIVAMD 58
Query: 230 KD 231
+
Sbjct: 59 NE 60
>gnl|CDD|235154 PRK03739, PRK03739, 2-isopropylmalate synthase; Validated.
Length = 552
Score = 35.1 bits (82), Expect = 0.30
Identities = 13/29 (44%), Positives = 20/29 (68%), Gaps = 2/29 (6%)
Query: 864 NILIHVHTHDMAGTGVATT-LACVKAGAD 891
++++ +H H+ GTGVA LA + AGAD
Sbjct: 238 SVILSLHPHNDRGTGVAAAELA-LMAGAD 265
>gnl|CDD|225141 COG2232, COG2232, Predicted ATP-dependent carboligase related to
biotin carboxylase [General function prediction only].
Length = 389
Score = 34.8 bits (80), Expect = 0.36
Identities = 58/264 (21%), Positives = 100/264 (37%), Gaps = 41/264 (15%)
Query: 145 EDFAKAVIGAGLEFIGPAP-NVLKTLGDKVLARDAALK---ADVPI-----IPGTTEPVT 195
ED A+ V + F G LG +V + +K A + + P
Sbjct: 78 EDLAEDVDAPIIPFSGFEALRTSGELGCEVAGNEPEVKVVEASNKLKFYRKLEVLGMPEP 137
Query: 196 DVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLV 255
K++ +E E +ILK G GG + E E G +
Sbjct: 138 SEKKIEPL-EEGEKTLILKPVSGAGG-----------LVE--LVKFDEEDPPPG---FIF 180
Query: 256 EKYIDRPRHIEVQILGDKYGDVVHLYERDCSMQRRYQKVIQIAPAQDMSVSVRDAITETS 315
+++I R + V + + D + L D + + Q +++ + + E +
Sbjct: 181 QEFI-EGRPVSVSFISNG-SDALTLAVNDQIIDGLRGEYSQFVYKGNLTPFPYEEVEE-A 237
Query: 316 VRLAK----SLGYSNAGTVEFLLDKDDNFYFIEVNPRLQVEHTLSEEITGIDVVQSQIKI 371
RLA+ LG + V+F+L D Y IEVNPR+Q E +GI++ + I+
Sbjct: 238 ERLAEELVEELGLVGSNGVDFVL-NDKGPYVIEVNPRIQGTLECIERSSGINLFRLHIQA 296
Query: 372 AQGKSLTELGLCQEKITPQGCAIQ 395
G+ E+ P+G A +
Sbjct: 297 FDGE-------LPERPKPRGYACK 313
>gnl|CDD|173033 PRK14569, PRK14569, D-alanyl-alanine synthetase A; Provisional.
Length = 296
Score = 34.3 bits (78), Expect = 0.37
Identities = 36/154 (23%), Positives = 65/154 (42%), Gaps = 30/154 (19%)
Query: 205 DEVEFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRH 264
DE+ FPV +K + GG V + ++ ++ A ++++E+++ +
Sbjct: 127 DEISFPVAVKPSSGGSSIATFKVKSIQELKHAYEEASKYG-------EVMIEQWVT-GKE 178
Query: 265 IEVQILGDK-YGDV-------VHLYERDCSMQRRYQKVIQIAPAQDMSVSVRDAITETSV 316
I V I+ D+ Y V + YE S + Y + +++ V
Sbjct: 179 ITVAIVNDEVYSSVWIEPQNEFYDYESKYSGKSIYHSPSGLCEQKELEVR---------- 228
Query: 317 RLAKS----LGYSNAGTVEFLLDKDDNFYFIEVN 346
+LAK LG S V+F+ D NFY +E+N
Sbjct: 229 QLAKKAYDLLGCSGHARVDFIYDDRGNFYIMEIN 262
>gnl|CDD|235571 PRK05704, PRK05704, dihydrolipoamide succinyltransferase; Validated.
Length = 407
Score = 34.4 bits (80), Expect = 0.41
Identities = 18/61 (29%), Positives = 28/61 (45%)
Query: 1366 GNIIEVKVKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVAQNDLVVVL 1425
I K G VK+++VL+ + K + A A GV+ EI E G V ++ +
Sbjct: 17 ATIATWHKKPGDAVKRDEVLVEIETDKVVLEVPAPAAGVLSEILAEEGDTVTVGQVLGRI 76
Query: 1426 D 1426
D
Sbjct: 77 D 77
>gnl|CDD|237068 PRK12344, PRK12344, putative alpha-isopropylmalate/homocitrate
synthase family transferase; Provisional.
Length = 524
Score = 34.7 bits (81), Expect = 0.44
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 869 VHTHDMAGTGVATTLACVKAGA 890
+H H+ +G VA +LA V+AGA
Sbjct: 206 IHAHNDSGCAVANSLAAVEAGA 227
>gnl|CDD|233320 TIGR01222, minC, septum site-determining protein MinC. The minC
protein assists in correct placement of the septum for
cell division by inhibiting septum formation at other
sites. Homologs from Deinocoocus, Synechocystis PCC 6803,
and Helicobacter pylori do not hit the full length of the
model and score between the trusted and noise cutoffs
[Cellular processes, Cell division].
Length = 217
Score = 33.5 bits (77), Expect = 0.46
Identities = 29/149 (19%), Positives = 49/149 (32%), Gaps = 18/149 (12%)
Query: 1257 LHTTNTYNLQQILKTSPSDVFAFLRLKSERIFLNGPNIGEEFSCEFKTGDTAYVTTLSIS 1316
L N L Q L + F K I L+ + + ++
Sbjct: 16 LDDQNLDELLQELSEKITQAPKFFA-KGPII-LDVIELPNPELKDLP----------ALV 63
Query: 1317 EHLNDHGERTVFFLYNGQLRSLDKNKAKKLKLRSKADSDTAGEIGAPMPGNIIEVKVKVG 1376
L HG V G K +A L + S + +I+ V+ G
Sbjct: 64 SELRRHGLEVVGISG-GSEEITAKAQALDLLVLSSGRKNKKEATRVESTTKVIKTPVRSG 122
Query: 1377 QQV--KKNDVLIVMSVMKTETLIHASADG 1403
QQ+ K D++++ +V ++ ADG
Sbjct: 123 QQIYAKHGDLIVLGNVNAGAEVL---ADG 148
>gnl|CDD|163680 cd07942, DRE_TIM_LeuA, Mycobacterium tuberculosis LeuA3 and related
proteins, N-terminal catalytic TIM barrel domain.
Alpha-isopropylmalate synthase (LeuA), a key enzyme in
leucine biosynthesis, catalyzes the first committed step
in the pathway, converting acetyl-CoA and
alpha-ketoisovalerate to alpha-isopropyl malate and CoA.
Although the reaction catalyzed by LeuA is similar to
that of the Arabidopsis thaliana IPMS1 protein, the two
fall into phylogenetically distinct families within the
same superfamily. LeuA has and N-terminal TIM barrel
catalytic domain, a helical linker domain, and a
C-terminal regulatory domain. LeuA forms a homodimer in
which the linker domain of one monomer sits over the
catalytic domain of the other, inserting residues into
the active site that may be important for catalysis.
Homologs of LeuA are found in bacteria as well as fungi.
This family includes alpha-isopropylmalate synthases I
(LEU4) and II (LEU9) from Saccharomyces cerevisiae.
This family belongs to the DRE-TIM metallolyase
superfamily. DRE-TIM metallolyases include
2-isopropylmalate synthase (IPMS), alpha-isopropylmalate
synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase,
homocitrate synthase, citramalate synthase,
4-hydroxy-2-oxovalerate aldolase, re-citrate synthase,
transcarboxylase 5S, pyruvate carboxylase, AksA, and
FrbC. These members all share a conserved
triose-phosphate isomerase (TIM) barrel domain
consisting of a core beta(8)-alpha(8) motif with the
eight parallel beta strands forming an enclosed barrel
surrounded by eight alpha helices. The domain has a
catalytic center containing a divalent cation-binding
site formed by a cluster of invariant residues that cap
the core of the barrel. In addition, the catalytic site
includes three invariant residues - an aspartate (D), an
arginine (R), and a glutamate (E) - which is the basis
for the domain name "DRE-TIM".
Length = 284
Score = 33.7 bits (78), Expect = 0.54
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 864 NILIHVHTHDMAGTGVATTLACVKAGADIV 893
+++I +H H+ GTGVA + AGAD V
Sbjct: 209 SVIISLHPHNDRGTGVAAAELALLAGADRV 238
>gnl|CDD|215974 pfam00529, HlyD, HlyD family secretion protein.
Length = 304
Score = 34.0 bits (78), Expect = 0.57
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVM 1388
E+ + G +I + VK G +VK DVL+ +
Sbjct: 4 EVQPQVSGIVIRILVKEGDRVKAGDVLVRL 33
>gnl|CDD|162728 TIGR02146, LysS_fung_arch, homocitrate synthase. This model
includes the yeast LYS21 gene which carries out the
first step of the alpha-aminoadipate (AAA) lysine
biosynthesis pathway. A related pathway is found in
Thermus thermophilus. This enzyme is closely related to
2-isopropylmalate synthase (LeuA) and citramalate
synthase (CimA), both of which are present in the
euryarchaeota. Some archaea have a separate homocitrate
synthase (AksA) which also synthesizes longer
homocitrate analogs.
Length = 344
Score = 34.0 bits (78), Expect = 0.61
Identities = 17/55 (30%), Positives = 23/55 (41%)
Query: 841 DMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIVDV 895
D G P LI + P + I +H H+ G VA ++ GA IVD
Sbjct: 160 DTVGKAAPRQVYELIRTVVRVVPGVDIELHAHNDTGCAVANAYNAIEGGATIVDT 214
>gnl|CDD|222128 pfam13437, HlyD_3, HlyD family secretion protein. This is a family
of largely bacterial haemolysin translocator HlyD
proteins.
Length = 102
Score = 31.6 bits (72), Expect = 0.71
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 1397 IHASADGVVKEIFVEVGGQVAQNDLVVVL 1425
I A DGVV E+ VE G VA D + +
Sbjct: 2 IRAPIDGVVAELDVEEGQVVAAGDPLAEI 30
>gnl|CDD|182488 PRK10476, PRK10476, multidrug resistance protein MdtN; Provisional.
Length = 346
Score = 33.5 bits (77), Expect = 0.79
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 1352 ADSDTAGEIGAPMPGNIIEVKVKVGQQVKKNDVL 1385
D+D + + + G I+E+ V Q VKK D+L
Sbjct: 44 IDADVV-HVASEVGGRIVELAVTENQAVKKGDLL 76
>gnl|CDD|173034 PRK14570, PRK14570, D-alanyl-alanine synthetase A; Provisional.
Length = 364
Score = 33.3 bits (76), Expect = 0.94
Identities = 54/214 (25%), Positives = 100/214 (46%), Gaps = 36/214 (16%)
Query: 152 IGAGLEFIGPAPNVLKTLGDKVLARDAALKA-DVPIIP----GTTEPVTDVDKVKEFCDE 206
+GAG+ +G A ++ K K+L LK+ ++P++P + D + +K+ E
Sbjct: 117 VGAGI--LGSAISINKYFC-KLL-----LKSFNIPLVPFIGFRKYDYFLDKEGIKKDIKE 168
Query: 207 V-EFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHI 265
V +PVI+K A G G+ + N++ IE+ + A L +++EK+I R I
Sbjct: 169 VLGYPVIVKPAVLGSSIGINVAYNENQIEKCIEEAFKYDLT------VVIEKFI-EAREI 221
Query: 266 EVQILGDKY------GDVV------HLYERDCSMQRRYQKVIQIAPAQDMSVSVRDAITE 313
E ++G++ G++V + Y+ S V I PA + + D I E
Sbjct: 222 ECSVIGNEQIKIFTPGEIVVQDFIFYDYDAKYSTIPGNSIVFNI-PAHLDTKHLLD-IKE 279
Query: 314 TSVRLAKSLGYSNAGTVEFLLDKDDNFYFI-EVN 346
+ K+L ++FL++KD ++ E+N
Sbjct: 280 YAFLTYKNLELRGMARIDFLIEKDTGLIYLNEIN 313
>gnl|CDD|223919 COG0850, MinC, Septum formation inhibitor [Cell division and
chromosome partitioning].
Length = 219
Score = 32.7 bits (75), Expect = 1.0
Identities = 32/151 (21%), Positives = 56/151 (37%), Gaps = 21/151 (13%)
Query: 1257 LHTTNTYNLQQILKTSPSDVFAFLRLKSERIFLNGPNIGEEFSCEFKTGDTAYVTTLSIS 1316
LH + + Q L + F F GP I + D ++
Sbjct: 15 LHNQDLDEILQALSDKIAQAPGF--------FKKGPVILDVSLLGNTRLDLK-----ALV 61
Query: 1317 EHLNDHGERTVFFLYNGQLRSLDKNKAK-KLKLRSKADSDTAGEIGAPMPGN-IIEVKVK 1374
+ L + G R + + + L K++ L L S+ + P+P IIE V+
Sbjct: 62 KALREAGLRIL-GISGCRELKLKAIKSQSLLPLLSEGKEEREAPAPPPVPKTLIIETPVR 120
Query: 1375 VGQQV--KKNDVLIVMSVMKTETLIHASADG 1403
GQ++ D++++ V +I ADG
Sbjct: 121 SGQRIYAPGGDLIVLGDVNPGAEII---ADG 148
>gnl|CDD|215533 PLN02983, PLN02983, biotin carboxyl carrier protein of acetyl-CoA
carboxylase.
Length = 274
Score = 32.9 bits (75), Expect = 1.1
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 1373 VKVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEVGGQVA 1417
VKVG +V+K V+ ++ MK I A G + EI E G V+
Sbjct: 220 VKVGDKVQKGQVVCIIEAMKLMNEIEADQSGTIVEILAEDGKPVS 264
>gnl|CDD|199871 cd06251, M14_ASTE_ASPA_like_1, Peptidase M14 Succinylglutamate
desuccinylase (ASTE)/aspartoacylase (ASPA)-like;
uncharacterized subgroup. A functionally uncharacterized
subgroup of the Succinylglutamate desuccinylase
(ASTE)/aspartoacylase (ASPA) subfamily which is part of
the M14 family of metallocarboxypeptidases. ASTE
catalyzes the fifth and last step in arginine catabolism
by the arginine succinyltransferase pathway, and
aspartoacylase (ASPA, also known as aminoacylase 2, and
ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid
(NAA) into aspartate and acetate. NAA is abundant in the
brain, and hydrolysis of NAA by ASPA may help maintain
white matter. ASPA is an NAA scavenger in other tissues.
Mutations in the gene encoding ASPA cause Canavan disease
(CD), a fatal progressive neurodegenerative disorder
involving dysmyelination and spongiform degeneration of
white matter in children. This enzyme binds zinc which is
necessary for activity. Measurement of elevated NAA
levels in urine is used in the diagnosis of CD.
Length = 287
Score = 32.9 bits (76), Expect = 1.1
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 1360 IGAPMPGNIIEVKVKVGQQVKKNDVLIVMS--VMKTETLIHASADGVV 1405
+ AP G ++ VK+G +V+K +L ++ + E + A DG+V
Sbjct: 222 VRAPRGG-LLRSLVKLGDRVEKGQLLATITDPFGEEEAEVKAPFDGIV 268
>gnl|CDD|215936 pfam00478, IMPDH, IMP dehydrogenase / GMP reductase domain. This
family is involved in biosynthesis of guanosine
nucleotide. Members of this family contain a TIM barrel
structure. In the inosine monophosphate dehydrogenases 2
CBS domains pfam00571 are inserted in the TIM barrel.
This family is a member of the common phosphate binding
site TIM barrel family.
Length = 467
Score = 33.0 bits (76), Expect = 1.1
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 22/78 (28%)
Query: 826 AKQLVESGAQVLCLKDMA-----GLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVA 880
A+ LVE+G V+ + D A +L+ +I ++KYP + + +AG V
Sbjct: 228 AEALVEAGVDVIVI-DSAHGHSEYVLE------MIKWIKKKYPELDV------IAGN-VV 273
Query: 881 T---TLACVKAGADIVDV 895
T + AGAD V V
Sbjct: 274 TAEAARELIDAGADAVKV 291
>gnl|CDD|163506 TIGR03794, NHLM_micro_HlyD, NHLM bacteriocin system secretion
protein. Members of this protein family are homologs of
the HlyD membrane fusion protein of type I secretion
systems. Their occurrence in prokaryotic genomes is
associated with the occurrence of a novel class of
microcin (small bacteriocins) with a leader peptide
region related to nitrile hydratase. We designate the
class of bacteriocin as Nitrile Hydratase Leader
Microcin, or NHLM. This family, therefore, is designated
as NHLM bacteriocin system secretion protein. Some but
not all NHLM-class putative microcins belong to the TOMM
(thiazole/oxazole modified microcin) class as assessed by
the presence of the scaffolding protein and/or
cyclodehydratase in the same gene clusters [Transport and
binding proteins, Amino acids, peptides and amines,
Cellular processes, Biosynthesis of natural products].
Length = 421
Score = 32.9 bits (75), Expect = 1.4
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 1360 IGAPMPGNIIEVKVKVGQQVKKNDVLIVMS 1389
I +P G +I++ V+VG QVKK V+ +
Sbjct: 61 IQSPGSGVVIDLDVEVGDQVKKGQVVARLF 90
>gnl|CDD|233365 TIGR01347, sucB, 2-oxoglutarate dehydrogenase complex
dihydrolipoamide succinyltransferase (E2 component).
This model describes the TCA cycle 2-oxoglutarate system
E2 component, dihydrolipoamide succinyltransferase. It is
closely related to the pyruvate dehydrogenase E2
component, dihydrolipoamide acetyltransferase. The seed
for this model includes mitochondrial and Gram-negative
bacterial forms. Mycobacterial candidates are highly
derived, differ in having and extra copy of the
lipoyl-binding domain at the N-terminus. They score below
the trusted cutoff, but above the noise cutoff and above
all examples of dihydrolipoamide acetyltransferase
[Energy metabolism, TCA cycle].
Length = 403
Score = 32.4 bits (74), Expect = 2.0
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 6/73 (8%)
Query: 1359 EIGAP-MPGNIIEVKV-----KVGQQVKKNDVLIVMSVMKTETLIHASADGVVKEIFVEV 1412
EI P + +I E V KVG VK+++ ++ + K + + ADGV++EI +
Sbjct: 2 EIKVPELAESITEGTVAEWHKKVGDTVKRDENIVEIETDKVVLEVPSPADGVLQEILFKE 61
Query: 1413 GGQVAQNDLVVVL 1425
G V ++ +L
Sbjct: 62 GDTVESGQVLAIL 74
>gnl|CDD|233642 TIGR01930, AcCoA-C-Actrans, acetyl-CoA acetyltransferases. This
model represents a large family of enzymes which
catalyze the thiolysis of a linear fatty acid CoA (or
acetoacetyl-CoA) using a second CoA molecule to produce
acetyl-CoA and a CoA-ester product two carbons shorter
(or, alternatively, the condensation of two molecules of
acetyl-CoA to produce acetoacetyl-CoA and CoA). This
enzyme is also known as "thiolase", "3-ketoacyl-CoA
thiolase", "beta-ketothiolase" and "Fatty oxidation
complex beta subunit". When catalyzing the degradative
reaction on fatty acids the corresponding EC number is
2.3.1.16. The condensation reaction corresponds to
2.3.1.9. Note that the enzymes which catalyze the
condensation are generally not involved in fatty acid
biosynthesis, which is carried out by a decarboxylating
condensation of acetyl and malonyl esters of acyl
carrier proteins. Rather, this activity may produce
acetoacetyl-CoA for pathways such as IPP biosynthesis in
the absence of sufficient fatty acid oxidation [Fatty
acid and phospholipid metabolism, Other].
Length = 386
Score = 32.2 bits (74), Expect = 2.0
Identities = 21/66 (31%), Positives = 28/66 (42%), Gaps = 15/66 (22%)
Query: 145 EDFAKAVIGAGLEFIGPAP---------NVLKTLGDKVLARDAALKADVPI-IPGTTEPV 194
ED AVI LE P NVL+ + +AR AAL A +P +P T
Sbjct: 22 EDLGAAVIKELLERNPLDPELIDDVIFGNVLQAGEQQNIARQAALLAGLPESVPAYT--- 78
Query: 195 TDVDKV 200
V++
Sbjct: 79 --VNRQ 82
>gnl|CDD|176112 cd08420, PBP2_CysL_like, C-terminal substrate binding domain of
LysR-type transcriptional regulator CysL, which
activates the transcription of the cysJI operon encoding
sulfite reductase, contains the type 2 periplasmic
binding fold. CysL, also known as YwfK, is a regular of
sulfur metabolism in Bacillus subtilis. Sulfur is
required for the synthesis of proteins and essential
cofactors in all living organism. Sulfur can be
assimilated either from inorganic sources (sulfate and
thiosulfate), or from organic sources (sulfate esters,
sulfamates, and sulfonates). CysL activates the
transcription of the cysJI operon encoding sulfite
reductase, which reduces sulfite to sulfide. Both cysL
mutant and cysJI mutant are unable to grow using sulfate
or sulfite as the sulfur source. Like other LysR-type
regulators, CysL also negatively regulates its own
transcription. In Escherichia coli, three LysR-type
activators are involved in the regulation of sulfur
metabolism: CysB, Cbl and MetR. The topology of this
substrate-binding domain is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis.
Length = 201
Score = 31.7 bits (73), Expect = 2.0
Identities = 5/20 (25%), Positives = 12/20 (60%)
Query: 854 LIGSFREKYPNILIHVHTHD 873
L+ FR++YP + + + +
Sbjct: 18 LLARFRKRYPEVRVSLTIGN 37
>gnl|CDD|178347 PLN02746, PLN02746, hydroxymethylglutaryl-CoA lyase.
Length = 347
Score = 32.1 bits (73), Expect = 2.2
Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 3/80 (3%)
Query: 824 DLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGTGVATTL 883
+AK+L + G + L D G+ P ++ + P + VH HD G +A L
Sbjct: 201 YVAKELYDMGCYEISLGDTIGVGTPGTVVPMLEAVMAVVPVDKLAVHFHDTYGQALANIL 260
Query: 884 ACVKAGADIVDVAADSMSGI 903
++ G VD S++G+
Sbjct: 261 VSLQMGISTVD---SSVAGL 277
>gnl|CDD|189911 pfam01256, Carb_kinase, Carbohydrate kinase. This family is
related to pfam02110 and pfam00294 implying that it also
is a carbohydrate kinase. (personal obs Yeats C).
Length = 242
Score = 31.6 bits (72), Expect = 2.3
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 872 HDMAGTGVATTLACVKAGADIVDVAADS 899
D G + LA +++GA +V VA DS
Sbjct: 8 KDYTGAPLLAALAALRSGAGLVSVATDS 35
>gnl|CDD|176131 cd08440, PBP2_LTTR_like_4, TThe C-terminal substrate binding domain
of an uncharacterized LysR-type transcriptional
regulator, contains the type 2 periplasmic binding fold.
LysR-transcriptional regulators comprise the largest
family of prokaryotic transcription factor. Homologs of
some of LTTRs with similar domain organizations are also
found in the archaea and eukaryotic organisms. The LTTRs
are composed of two functional domains joined by a
linker helix involved in oligomerization: an N-terminal
HTH (helix-turn-helix) domain, which is responsible for
the DNA-binding specificity, and a C-terminal
substrate-binding domain, which is structurally
homologous to the type 2 periplasmic binding proteins.
As also observed in the periplasmic binding proteins,
the C-terminal domain of the bacterial transcriptional
repressor undergoes a conformational change upon
substrate binding which in turn changes the DNA binding
affinity of the repressor. The genes controlled by the
LTTRs have diverse functional roles including amino acid
biosynthesis, CO2 fixation, antibiotic resistance,
degradation of aromatic compounds, nodule formation of
nitrogen-fixing bacteria, and synthesis of virulence
factors, to a name a few. This substrate-binding domain
shows significant homology to the type 2 periplasmic
binding proteins (PBP2), which are responsible for the
uptake of a variety of substrates such as phosphate,
sulfate, polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis.
Length = 197
Score = 31.3 bits (72), Expect = 2.3
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 16/62 (25%)
Query: 850 AAKLL---IGSFREKYPNILIHVHTHDMAGTGVATTLACVKAGADIVDVAADSMSGICSQ 906
AA LL + +FR ++P I + + D++ V + V++G VD GI S+
Sbjct: 11 AATLLPPVLAAFRRRHPGIRVRL--RDVSAEQV---IEAVRSGE--VDF------GIGSE 57
Query: 907 PA 908
P
Sbjct: 58 PE 59
>gnl|CDD|224431 COG1514, LigT, 2'-5' RNA ligase [Translation, ribosomal structure
and biogenesis].
Length = 180
Score = 30.8 bits (70), Expect = 3.0
Identities = 16/73 (21%), Positives = 22/73 (30%), Gaps = 10/73 (13%)
Query: 709 HTCLKFLKECPWERLAE----LRELIPNIPFQMILRGNSLVGYSNY------SPAEVGAF 758
H LKFL E ++ E L + PF + L G E
Sbjct: 39 HITLKFLGEVDEDKADELIEALARIAAPEPFPITLDGAGSFPNPRRPRVIWVGVEETEEL 98
Query: 759 CRLASQAGIDIFR 771
LA + + R
Sbjct: 99 RALAEELERALAR 111
>gnl|CDD|215182 PLN02321, PLN02321, 2-isopropylmalate synthase.
Length = 632
Score = 31.9 bits (72), Expect = 3.4
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 3/71 (4%)
Query: 828 QLVESGAQVLCLKDMAGLLKPTAAKLLIGSFREKYP---NILIHVHTHDMAGTGVATTLA 884
+++++GA L + D G P+ LI + P N++I H + G A TLA
Sbjct: 248 EVIKAGATTLNIPDTVGYTLPSEFGQLIADIKANTPGIENVIISTHCQNDLGLSTANTLA 307
Query: 885 CVKAGADIVDV 895
AGA V+V
Sbjct: 308 GAHAGARQVEV 318
>gnl|CDD|224816 COG1904, UxaC, Glucuronate isomerase [Carbohydrate transport and
metabolism].
Length = 463
Score = 31.6 bits (72), Expect = 3.5
Identities = 13/71 (18%), Positives = 26/71 (36%), Gaps = 4/71 (5%)
Query: 1095 LDSLKDHALERKAEFDPIMACDYREDEPFKMNKLIFPKATKKFMKFRDEFGPVDKLPTRI 1154
+DSL+ H + F + +R D + + F +K + D
Sbjct: 158 IDSLEYHKELAEDGFHGRVLPAWRPDAAVDIERAGFADYVEKLGEVAGT----DISTWDG 213
Query: 1155 FFHALERKAEF 1165
+ AL ++ E+
Sbjct: 214 YLDALRKRREY 224
>gnl|CDD|223914 COG0845, AcrA, Membrane-fusion protein [Cell envelope biogenesis,
outer membrane].
Length = 372
Score = 31.6 bits (71), Expect = 3.5
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 1359 EIGAPMPGNIIEVKVKVGQQVKKNDVLIVM 1388
E+ A + G + E+ VK G +VKK +L +
Sbjct: 68 EVLARVAGIVAEILVKEGDRVKKGQLLARL 97
Score = 31.2 bits (70), Expect = 4.7
Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 2/72 (2%)
Query: 1357 AGEIGAPMPGNIIEVKVKVGQQVKKNDVLIV--MSVMKTETLIHASADGVVKEIFVEVGG 1414
+ A +V+V + + + + + A G+V EI V+ G
Sbjct: 27 KSLLEATAGAVAPKVEVAKVKPAELSAAVRAPGRVEATRSVEVLARVAGIVAEILVKEGD 86
Query: 1415 QVAQNDLVVVLD 1426
+V + L+ LD
Sbjct: 87 RVKKGQLLARLD 98
>gnl|CDD|225555 COG3010, NanE, Putative N-acetylmannosamine-6-phosphate epimerase
[Carbohydrate transport and metabolism].
Length = 229
Score = 31.1 bits (71), Expect = 3.5
Identities = 18/77 (23%), Positives = 24/77 (31%), Gaps = 27/77 (35%)
Query: 827 KQLVESGAQVLCL---------KDMAGLLKPTAAKLLIGSFREKYPNILIHVHTHDMAGT 877
L E+GA ++ D+ L+ R KYP L MA
Sbjct: 92 DALAEAGADIIAFDATDRPRPDGDLEELIA-----------RIKYPGQLA------MADC 134
Query: 878 G-VATTLACVKAGADIV 893
L K G DI+
Sbjct: 135 STFEEGLNAHKLGFDII 151
>gnl|CDD|222084 pfam13375, RnfC_N, RnfC Barrel sandwich hybrid domain. This domain
is part of the barrel sandwich hybrid superfamily. It is
found at the N-terminus of the RnfC Electron transport
complex protein. It appears to be most related to the
N-terminal NQRA domain (pfam05896).
Length = 101
Score = 29.4 bits (67), Expect = 3.9
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 14/53 (26%)
Query: 1360 IGAPMPGNIIEVKVKVGQQVKKNDVLIVMSVMKTETL----IHASADGVVKEI 1408
IGAP + VKVG +V K + + + +HAS G VK I
Sbjct: 38 IGAP--AKPL---VKVGDRVLKGQKI-----AEADGFVSAPVHASVSGTVKAI 80
>gnl|CDD|213950 TIGR04337, AmmeMemoSam_rS, AmmeMemoRadiSam system radical SAM
enzyme. Members of this protein family are
uncharacterized radical SAM enzymes that occur in a
prokaryotic three-gene system along with homologs of
mammalian proteins Memo (Mediator of ErbB2-driven cell
MOtility) and AMMERCR1 (Alport syndrome, Mental
Retardation, Midface hypoplasia, and Elliptocytosis).
Among radical SAM enzymes that have been experimentally
characterized, the most closely related in sequence
include activases of pyruvate formate-lyase and of
benzylsuccinate synthase.
Length = 349
Score = 31.1 bits (71), Expect = 4.1
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 67 EVAIRVARACNEMGIKSV 84
E AI VA+AC E GIK+V
Sbjct: 133 EYAIDVAQACRERGIKTV 150
>gnl|CDD|225101 COG2190, NagE, Phosphotransferase system IIA components [Carbohydrate
transport and metabolism].
Length = 156
Score = 30.3 bits (69), Expect = 4.1
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 1364 MPGNIIEVKVKVGQQVKKNDVLI 1386
+ G E VK G +VK D L+
Sbjct: 84 LNGEGFESLVKEGDKVKAGDPLL 106
>gnl|CDD|225354 COG2759, MIS1, Formyltetrahydrofolate synthetase [Nucleotide
transport and metabolism].
Length = 554
Score = 31.5 bits (72), Expect = 4.2
Identities = 21/83 (25%), Positives = 37/83 (44%), Gaps = 9/83 (10%)
Query: 184 VPIIPGTTEPVTDVDK----VKEFCDEVEFPVILKAAFGGGGRGMRMVANK--DAIEEN- 236
VP++ + TD + +++ C+E V L + GG G +A K +AIE+N
Sbjct: 370 VPVVVAINKFPTDTEAEIAAIEKLCEEHGVEVALSEVWAKGGEGGIELAKKVVEAIEQND 429
Query: 237 --FKRAQSEALASFGKDDMLVEK 257
FKR K + + ++
Sbjct: 430 SEFKRLYDVEDPIEEKIEKIAKE 452
>gnl|CDD|218143 pfam04551, GcpE, GcpE protein. In a variety of organisms,
including plants and several eubacteria, isoprenoids are
synthesised by the mevalonate-independent
2-C-methyl-D-erythritol 4-phosphate (MEP) pathway.
Although different enzymes of this pathway have been
described, the terminal biosynthetic steps of the MEP
pathway have not been fully elucidated. GcpE gene of
Escherichia coli is involved in this pathway.
Length = 345
Score = 30.9 bits (71), Expect = 4.6
Identities = 13/31 (41%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 870 HTHDMAGTGVATTLACVKAGADIVDVAADSM 900
T D+ T VA +AG DIV VA M
Sbjct: 26 DTRDVEAT-VAQIKRLEEAGCDIVRVAVPDM 55
>gnl|CDD|222734 pfam14397, ATPgrasp_ST, Sugar-transfer associated ATP-grasp. A
member of the ATP-grasp fold predicted to be involved in
the biosynthesis of cell surface polysaccharides.
Length = 284
Score = 30.8 bits (70), Expect = 4.7
Identities = 13/68 (19%), Positives = 25/68 (36%), Gaps = 3/68 (4%)
Query: 193 PVTDVDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANKDAIEENFKRAQ-SEALASFGKD 251
D + FC + P+ +K G GG+G+ D ++ L +
Sbjct: 56 SHADESEFVAFCRNHK-PLFVKPVDGMGGKGIE-KLELDDTVSKERKLIALYKLLEDNEK 113
Query: 252 DMLVEKYI 259
+V++ I
Sbjct: 114 GFVVQERI 121
>gnl|CDD|237329 PRK13278, purP,
5-formaminoimidazole-4-carboxamide-1-(beta)-D-
ribofuranosyl 5'-monophosphate synthetase; Provisional.
Length = 358
Score = 31.0 bits (71), Expect = 5.0
Identities = 30/137 (21%), Positives = 50/137 (36%), Gaps = 35/137 (25%)
Query: 164 NVLKTLGDKVLARDAALKADVPIIPGTTEPVTDVDKVKEFCDEVEFPVILKAAFGG--GG 221
+L+ D+ R +A + I P E D+D+ PVI+K G GG
Sbjct: 116 EILRWEADRDKERKLLEEAGIRI-PRKYESPEDIDR----------PVIVK--LPGAKGG 162
Query: 222 RGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYIDRPRHIEVQILGDKYGDVVH-- 279
RG + + + +E + L + VE+ I+ ++G Y H
Sbjct: 163 RGYFIAKSPEEFKEKIDKLIERGLIT------EVEEA-----IIQEYVVGVPY--YFHYF 209
Query: 280 ---LYERD--CSMQRRY 291
+ R + RRY
Sbjct: 210 YSPIKNRLELLGIDRRY 226
>gnl|CDD|173970 cd08205, RuBisCO_IV_RLP, Ribulose bisphosphate carboxylase like
proteins, Rubisco-Form IV. Ribulose bisphosphate
carboxylase (Rubisco) plays an important role in the
Calvin reductive pentose phosphate pathway. It catalyzes
the primary CO2 fixation step. Rubisco is activated by
carbamylation of an active site lysine, stabilized by a
divalent cation, which then catalyzes the proton
abstraction from the substrate ribulose 1,5 bisphosphate
(RuBP) and leads to the formation of two molecules of
3-phosphoglycerate. Members of the Rubisco family can be
divided into 4 subgroups, Form I-IV, which differ in
their taxonomic distribution and subunit composition.
Form I-III have Rubisco activity, while Form IV, also
called Rubisco-like proteins (RLP), are missing critical
active site residues and therefore do not catalyze CO2
fixation. They are believed to utilize a related
enzymatic mechanism, but have divergent functions, like
for example 2,3-diketo-5-methylthiopentyl-1-phosphate
enolase or 5-methylthio-d-ribulose 1-phosphate
isomerase.
Length = 367
Score = 30.6 bits (70), Expect = 5.7
Identities = 39/169 (23%), Positives = 60/169 (35%), Gaps = 53/169 (31%)
Query: 751 SPAEVGAFCRLASQAGIDIFR----VFDPLNS-----VPNLVKGMDAVQ---QVTGGSTI 798
SP E+ + GID+ + + D + V M+AV+ + TG T+
Sbjct: 144 SPEELAELAYELALGGIDLIKDDELLADQPYAPFEERVR---ACMEAVRRANEETGRKTL 200
Query: 799 VEATICYAGDLTNPNKKKYSLNYYEDLAKQLVESGAQVLCLKDMAGLLKPTAAKLLIGSF 858
YA ++T + A + VE+GA L L+ P L +
Sbjct: 201 ------YAPNITGD------PDELRRRADRAVEAGANAL-------LINPNLVGL--DAL 239
Query: 859 RE--KYPNILIHVHTHDMAGTG--------VATTLACVK----AGADIV 893
R + P++ I H A G + L K AGAD V
Sbjct: 240 RALAEDPDLPIMAH---PAFAGALSRSPDYGSHFLLLGKLMRLAGADAV 285
>gnl|CDD|237403 PRK13505, PRK13505, formate--tetrahydrofolate ligase; Provisional.
Length = 557
Score = 30.9 bits (71), Expect = 6.1
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 9/55 (16%)
Query: 194 VTD----VDKVKEFCDEVEFPVILKAAFGGGGRGMRMVANK--DAIEE---NFKR 239
VTD + +KE C+E+ V L + GG G +A K + IEE NFK
Sbjct: 383 VTDTDAEIAALKELCEELGVEVALSEVWAKGGEGGVELAEKVVELIEEGESNFKP 437
>gnl|CDD|133453 cd05311, NAD_bind_2_malic_enz, NAD(P) binding domain of malic
enzyme (ME), subgroup 2. Malic enzyme (ME), a member of
the amino acid dehydrogenase (DH)-like domain family,
catalyzes the oxidative decarboxylation of L-malate to
pyruvate in the presence of cations (typically Mg++ or
Mn++) with the concomitant reduction of cofactor NAD+ or
NADP+. ME has been found in all organisms, and plays
important roles in diverse metabolic pathways such as
photosynthesis and lipogenesis. This enzyme generally
forms homotetramers. The conversion of malate to
pyruvate by ME typically involves oxidation of malate to
produce oxaloacetate, followed by decarboxylation of
oxaloacetate to produce pyruvate and CO2. This
subfamily consists primarily of archaeal and bacterial
ME. Amino acid DH-like NAD(P)-binding domains are
members of the Rossmann fold superfamily and include
glutamate, leucine, and phenylalanine DHs, methylene
tetrahydrofolate DH, methylene-tetrahydromethanopterin
DH, methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+ as
a cofactor. The NAD(P)-binding Rossmann fold superfamily
includes a wide variety of protein families including
NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 226
Score = 30.3 bits (69), Expect = 6.5
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 9/51 (17%)
Query: 209 FPVILKAAFGGGGRGMRMVANKDAIEENFKRAQSEALASFGKDDMLVEKYI 259
FP I + A I E K A +EA+A ++++L E+YI
Sbjct: 164 FPGIFRGALDVRAT---------KITEEMKLAAAEAIADLAEEEVLGEEYI 205
>gnl|CDD|238261 cd00465, URO-D_CIMS_like, The URO-D_CIMS_like protein superfamily
includes bacterial and eukaryotic uroporphyrinogen
decarboxylases (URO-D), coenzyme M methyltransferases
and other putative bacterial methyltransferases, as well
as cobalamine (B12) independent methionine synthases.
Despite their sequence similarities, members of this
family have clearly different functions.
Uroporphyrinogen decarboxylase (URO-D) decarboxylates
the four acetate side chains of uroporphyrinogen III
(uro-III) to create coproporphyrinogen III, an important
branching point of the tetrapyrrole biosynthetic
pathway. The methyltransferases represented here are
important for ability of methanogenic organisms to use
other compounds than carbon dioxide for reduction to
methane, and methionine synthases transfer a methyl
group from a folate cofactor to L-homocysteine in a
reaction requiring zinc.
Length = 306
Score = 30.2 bits (68), Expect = 7.3
Identities = 20/132 (15%), Positives = 42/132 (31%), Gaps = 25/132 (18%)
Query: 826 AKQLVESGAQVLCLKDMAG------LLKPTAAKLLIGSFREKY-----PNILIHVHTHDM 874
AK L+E+GA+ L + + A L K + ++++ + I H+
Sbjct: 150 AKTLIEAGAKALQIHEPAFSQINSFLGPKMFKKFALPAYKKVAEYKAAGEVPIVHHSCYD 209
Query: 875 AGTGVATTLACVKAGADIVDVAADSMSGICSQPAMGTIVSCLENTDKRCGIDLHDVCDYS 934
A + ++ G D++ + + K + +
Sbjct: 210 AADLLE---EMIQLGVDVISFDMTVNEPK-------EAIEKVGEK-KTLVGGVDPGYLPA 258
Query: 935 SYW---RKVREL 943
+ KV EL
Sbjct: 259 TDEECIAKVEEL 270
>gnl|CDD|233206 TIGR00954, 3a01203, Peroxysomal Fatty Acyl CoA Transporter (FAT)
Family protei. [Transport and binding proteins,
Carbohydrates, organic alcohols, and acids].
Length = 659
Score = 30.5 bits (69), Expect = 7.4
Identities = 15/58 (25%), Positives = 30/58 (51%), Gaps = 10/58 (17%)
Query: 1063 DKIIFPKSVTEFFQGSIGEPYQGFPKKLQEKVLDSLK-DHALERKAEFDPIMACDYRE 1119
D+II+P S + + +G K E++LD+++ H LER+ + + D+ +
Sbjct: 533 DQIIYPDSSEDMKR-------RGLSDKDLEQILDNVQLTHILEREGGWSAV--QDWMD 581
>gnl|CDD|232868 TIGR00196, yjeF_cterm, yjeF C-terminal region, hydroxyethylthiazole
kinase-related. E. coli yjeF has full-length orthologs
in a number of species, all of unknown function.
However, yeast YNL200C is homologous and corresponds to
the N-terminal region while yeast YKL151C and B.
subtilis yxkO correspond to this C-terminal region only
[Unknown function, General].
Length = 271
Score = 30.1 bits (68), Expect = 8.1
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 872 HDMAGTGVATTLACVKAGADIVDVAA 897
D +G + LA ++AGA +V VAA
Sbjct: 34 DDYSGAPLLAALAALRAGAGLVTVAA 59
>gnl|CDD|176117 cd08426, PBP2_LTTR_like_5, The C-terminal substrate binding domain
of an uncharacterized LysR-type transcriptional
regulator, contains the type 2 periplasmic binding fold.
LysR-transcriptional regulators comprise the largest
family of prokaryotic transcription factor. Homologs of
some of LTTRs with similar domain organizations are also
found in the archaea and eukaryotic organisms. The LTTRs
are composed of two functional domains joined by a
linker helix involved in oligomerization: an N-terminal
HTH (helix-turn-helix) domain, which is responsible for
the DNA-binding specificity, and a C-terminal
substrate-binding domain, which is structurally
homologous to the type 2 periplasmic binding proteins.
As also observed in the periplasmic binding proteins,
the C-terminal domain of the bacterial transcriptional
repressor undergoes a conformational change upon
substrate binding which in turn changes the DNA binding
affinity of the repressor. The genes controlled by the
LTTRs have diverse functional roles including amino acid
biosynthesis, CO2 fixation, antibiotic resistance,
degradation of aromatic compounds, nodule formation of
nitrogen-fixing bacteria, and synthesis of virulence
factors, to a name a few. This substrate-binding domain
shows significant homology to the type 2 periplasmic
binding proteins (PBP2), which are responsible for the
uptake of a variety of substrates such as phosphate,
sulfate, polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis.
Length = 199
Score = 29.6 bits (67), Expect = 8.1
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 6/41 (14%)
Query: 854 LIGSFREKYPNILIHVHTHDMAGTGVATTLACVKAG-ADIV 893
LI FR++YP + V A L V +G ADI
Sbjct: 18 LIARFRQRYPGVFFTVDV-----ASTADVLEAVLSGEADIG 53
>gnl|CDD|238330 cd00587, HCP_like, The HCP family of iron-sulfur proteins includes
hybrid cluster protein (HCP), acetyl-CoA synthase (ACS),
and carbon monoxide dehydrogenase (CODH), all of which
contain [Fe4-S4] metal clusters at their active sites.
These proteins have a conserved alpha-beta rossman fold
domain. HCP, formerly known as prismane, is thought to
play a role in nitrogen metabolism but its specific
function is unknown. Acetyl-CoA synthase (ACS), is
found in acetogenic and methanogenic organisms and is
responsible for the synthesis and breakdown of
acetyl-CoA. ACS forms a heterotetramer with carbon
monoxide dehydrogenase (CODH) consisting of two ACS and
two CODH subunits. CODH reduces carbon dioxide to carbon
monoxide and ACS then synthesizes acetyl-CoA from carbon
monoxide and CoA.
Length = 258
Score = 29.9 bits (67), Expect = 8.5
Identities = 22/90 (24%), Positives = 36/90 (40%), Gaps = 10/90 (11%)
Query: 813 NKKKYSLNYYEDLAKQLVESGAQVL---CLKDMAGLLKPTAAKLLIGSFREKYP--NILI 867
N K Y D+AK+L++ G VL C + L ++G + N +
Sbjct: 104 NNDKKQDKAYADIAKELMKRGVMVLATGCAAEALLKLGLEDGAGILGGLPIVFDMGNCVD 163
Query: 868 HVHTHDMAGTGVATTLACVKAGADIVDVAA 897
+ H ++ A LA + G D D+ A
Sbjct: 164 NSHAANL-----ALKLANMFGGYDRSDLPA 188
>gnl|CDD|173976 cd08211, RuBisCO_large_II, Ribulose bisphosphate carboxylase large
chain, Form II. Ribulose bisphosphate carboxylase
(Rubisco) plays an important role in the Calvin
reductive pentose phosphate pathway. It catalyzes the
primary CO2 fixation step. Rubisco is activated by
carbamylation of an active site lysine, stabilized by a
divalent cation, which then catalyzes the proton
abstraction from the substrate ribulose 1,5 bisphosphate
(RuBP) and leads to the formation of two molecules of
3-phosphoglycerate. Members of the Rubisco family can be
divided into 4 subgroups, Form I-IV , which differ in
their taxonomic distribution and subunit composition.
Form II is mainly found in bacteria, and forms large
subunit oligomers (dimers, tetramers, etc.) that do not
include small subunits.
Length = 439
Score = 30.2 bits (68), Expect = 9.2
Identities = 25/119 (21%), Positives = 42/119 (35%), Gaps = 28/119 (23%)
Query: 771 RVFDPLNS-VPNLVKGMDAVQQVTGGSTIVEATICYAGDLTNPNKKKYSLNYYEDLAKQL 829
+ F PL +P + M Q TG K +S N D ++
Sbjct: 198 QPFCPLKKVIPLVADAMRRAQDETG------------------EAKLFSANITADDPDEM 239
Query: 830 VESGAQVLCL-----KDMAGLLKP-TAAKLLIGSFREKYPNILIHVHTHDMAGTGVATT 882
+ G +L +A L+ A + + R ++P+ +H H AG G T+
Sbjct: 240 IARGEYILEAFGPNAGHVAFLVDGYVAGPAAVTTARRRFPDQFLHYHR---AGHGAVTS 295
>gnl|CDD|143478 cd07562, Peptidase_S41_TRI, Tricorn protease; serine protease
family S41. The tricorn protease (TRI), a member of the
S41 peptidase family and named for its tricorn-like
shape, exists only in some archaea and eubacteria. It
has been shown to act as a carboxypeptidase, involved in
the degradation of proteasomal products to
preferentially yield di- and tripeptides, with
subsequent and final degradations to free amino acid
residues by tricorn interacting factors, F1, F2 and F3.
Tricorn is a hexameric D3-symmetric protease of 720kD,
and can self-associate further into a giant icosahedral
capsid structure containing twenty copies of the
complex. Each tricorn peptidase monomer consists of five
structural domains: a six-bladed beta-propeller and a
seven-bladed beta-propeller that limit access to the
active site, the two domains (C1 and C2) that carry the
active site residues, and a PDZ-like domain (proposed to
be important for substrate recognition) between the C1
and C2 domains. The active site tetrad residues are
distributed between the C1 and C2 domains, with serine
and histidine on C1 and serine and glutamate on C2.
Length = 266
Score = 29.9 bits (68), Expect = 9.8
Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 20/61 (32%)
Query: 936 YWRKVRE-LYAPAHNLLWRCGIDLHDVCDYSSYWRKVRELYAPFECTDLKAASSEAYLYE 994
WR VR+ Y P + G+D W VR Y P L A++ A L +
Sbjct: 9 AWRLVRDNFYDPDMH-----GVD----------WDAVRAEYRPL----LPRAATRAELAD 49
Query: 995 I 995
+
Sbjct: 50 V 50
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.137 0.401
Gapped
Lambda K H
0.267 0.0887 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 73,029,804
Number of extensions: 7373436
Number of successful extensions: 7282
Number of sequences better than 10.0: 1
Number of HSP's gapped: 7055
Number of HSP's successfully gapped: 235
Length of query: 1427
Length of database: 10,937,602
Length adjustment: 109
Effective length of query: 1318
Effective length of database: 6,103,016
Effective search space: 8043775088
Effective search space used: 8043775088
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 65 (28.5 bits)