RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780137|ref|YP_003064550.1| malic enzyme [Candidatus
Liberibacter asiaticus str. psy62]
(779 letters)
>gnl|CDD|30629 COG0281, SfcA, Malic enzyme [Energy production and conversion].
Length = 432
Score = 525 bits (1354), Expect = e-149
Identities = 217/433 (50%), Positives = 278/433 (64%), Gaps = 18/433 (4%)
Query: 18 DSLFKQALLYHQYPSPGKLEVNATKMLNDQKDLSLAYSPGVAAPSMMIAEDPSKAAMYTN 77
+ L +AL H+Y PGK+ + T L+ Q+DL LAY+PGVA I+EDP KA YT
Sbjct: 15 EQLKTEALDKHEYLDPGKILIYPTVPLHTQEDLPLAYTPGVAEACKAISEDPRKAYSYTA 74
Query: 78 RSNLVAVVSNGSAVLGLGDIGPLASKPVMEGKAVLFKKFAGINVFDIEINAKDVDTMVST 137
R NLVAVV++G+AVLGLG+IGPLA KPVMEGKAVLFK FAGI+V IE++ + ++
Sbjct: 75 RGNLVAVVTDGTAVLGLGNIGPLAGKPVMEGKAVLFKAFAGIDVLPIELDVGTNNEIIEF 134
Query: 138 IVALEPTFGGINLEDIKAPECFEVERILSQKLKIPFLHDDQHGTAVTVTAATLNGMKLVG 197
+ ALEPTFGGINLEDI AP CF +E L ++ IP HDDQ GTA+ AA LN +KL G
Sbjct: 135 VKALEPTFGGINLEDIDAPRCFAIEERLRYRMNIPVFHDDQQGTAIVTLAALLNALKLTG 194
Query: 198 KKFSDIKIVTLGAGAAALACLNLLVTMGVRRENIWVYDLEGLVYEGREK-KFDKWKSVYA 256
KK D KIV GAGAA +A +LLV GV+ ENI+V D +GL+Y+GRE ++ K A
Sbjct: 195 KKLKDQKIVINGAGAAGIAIADLLVAAGVKEENIFVVDRKGLLYDGREDLTMNQKKYAKA 254
Query: 257 Q-KSGPKPLSETMNNADVFLGLSVAGALDPAILKFMAEKPLIMVLANPNPEAMPDEIKKV 315
+G + L + ADV +G+S GA ++K MA+ P+I LANP PE P++ K+
Sbjct: 255 IEDTGERTLDLALAGADVLIGVSGVGAFTEEMVKEMAKHPIIFALANPTPEITPEDAKEW 314
Query: 316 RPD-AMICTGRSDFSNQVNNVLCFPYIFRGALDCGATAITEEMKVAAARAMAVLVRDVPP 374
A++ TGRSD+ NQVNNVL FP IFRGALD A IT+EMK+AAA A+A L R+
Sbjct: 315 GDGAAIVATGRSDYPNQVNNVLIFPGIFRGALDVRAKTITDEMKIAAAEAIADLAREEVL 374
Query: 375 DVVFDNFAKESPVFGPNYLIPSPFDPNLISYIAPAVAKAAEEAGVASSPIEDYEVYRDSL 434
Y+IP PFDP +IS +A AVAKAA E GVA PI+D E Y +L
Sbjct: 375 ---------------EEYIIPPPFDPRVISRVAVAVAKAAMEEGVARRPIDDEEAYEQAL 419
Query: 435 KRFSFPGRSLMKK 447
+ + MK+
Sbjct: 420 EARLWKPEYRMKR 432
>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 = 289 bits (741), Expect = 2e-78
Identities = 116/241 (48%), Positives = 154/241 (63%), Gaps = 19/241 (7%)
Query: 178 QHGTAVTVTAATLNGMKLVGKKFSDIKIVTLGAGAAALACLNLLVTMGVRRENIWVYDLE 237
QHGTA+ A LN +KLVGKK ++KIV GAGAA +A LL+ G + ENI V D +
Sbjct: 1 QHGTAIVTLAGLLNALKLVGKKIEEVKIVINGAGAAGIAIARLLLAAGAKPENIVVVDSK 60
Query: 238 GLVYEGREKKFDKWKSVYAQKSGPKP----LSETMNNADVFLGLSVAGALDPAILKFMAE 293
G++YEGRE + K+ A+++ P+ L E + ADVF+G+S G + ++K MA+
Sbjct: 61 GVIYEGREDDLNPDKNEIAKETNPEKTGGTLKEALKGADVFIGVSRPGVVKKEMIKKMAK 120
Query: 294 KPLIMVLANPNPEAMPDEIKKVRPDAMICTGRSDFSNQVNNVLCFPYIFRGALDCGATAI 353
P++ LANP PE P+E K+ D ++ TGRSDF NQVNNVL FP IFRGALD AT I
Sbjct: 121 DPIVFALANPVPEIWPEEAKEAGAD-IVATGRSDFPNQVNNVLGFPGIFRGALDVRATKI 179
Query: 354 TEEMKVAAARAMAVLVRDVPPDVVFDNFAKESPVFGPNYLIPSPFDPNLISYIAPAVAKA 413
TEEMK+AAA A+A + A+E V G Y+IP+PFDP ++ +A AVAKA
Sbjct: 180 TEEMKLAAAEAIA-------------DLAEE-EVLGEEYIIPTPFDPRVVPRVATAVAKA 225
Query: 414 A 414
A
Sbjct: 226 A 226
>gnl|CDD|146532 pfam03949, Malic_M, Malic enzyme, NAD binding domain.
Length = 255
Score = 244 bits (625), Expect = 8e-65
Identities = 109/269 (40%), Positives = 138/269 (51%), Gaps = 47/269 (17%)
Query: 178 QHGTAVTVTAATLNGMKLVGKKFSDIKIVTLGAGAAALACLNLLVTMGVR--------RE 229
GTA V A LN +K+ GK SD KIV GAGAA + LLV VR R+
Sbjct: 1 IQGTAAVVLAGLLNALKITGKPLSDQKIVFFGAGAAGIGIAELLVAAMVREGLSEEEARK 60
Query: 230 NIWVYDLEGLVYEGREKKFDKWKSVYAQK----SGPKPLSETMNNA--DVFLGLS-VAGA 282
NIW+ D +GL+ EGRE +K +A+K G L+E + A DV +G+S V G
Sbjct: 61 NIWMVDRKGLLTEGREDLNP-FKKPFARKTNEVKGWGTLAEAVKGAKPDVLIGVSGVPGV 119
Query: 283 LDPAILKFMA---EKPLIMVLANPNP--EAMPDEIKKVRPD-AMICTG----------RS 326
I++ MA E+P+I L+NP P E P+E K A+ TG RS
Sbjct: 120 FTEEIVRAMAEHTERPIIFALSNPTPKAEITPEEAYKWTAGRALFATGSPFPPVELNGRS 179
Query: 327 DFSNQVNNVLCFPYIFRGALDCGATAITEEMKVAAARAMAVLVRDVPPDVVFDNFAKESP 386
D+ NQVNNVL FP I GALD A IT+EM +AAA A+A LV +
Sbjct: 180 DYPNQVNNVLIFPGIGLGALDVRARRITDEMFLAAAEALAELVTE--------------E 225
Query: 387 VFGPNYLIPSPFDPNLISY-IAPAVAKAA 414
G Y+IP FD +S +A AVAKAA
Sbjct: 226 ELGEGYIIPPLFDIREVSPRVAVAVAKAA 254
>gnl|CDD|30628 COG0280, Pta, Phosphotransacetylase [Energy production and
conversion].
Length = 327
Score = 218 bits (557), Expect = 4e-57
Identities = 97/324 (29%), Positives = 178/324 (54%), Gaps = 8/324 (2%)
Query: 444 LMKKIFSIAKGTDSKRILFSAGEDERVLRATQILIKENIARPVLIGSLLTIQDNIRRHDL 503
+ ++F A+ KRI+ GE+ERVLRA Q+L KE +A+P+L+G I++ + L
Sbjct: 1 FLYRLFERARK-APKRIVLPEGEEERVLRAAQVLAKEGLAKPILVGRPEEIEEVAKALGL 59
Query: 504 QIIATKDFDVID-LNNKQSLKDYVDSYRSLSAEKGISLDSIYDLLRSNTTLLGSLALKRG 562
+ ++I+ + + ++YVD L KG++ + +L+R + T+ ++ + G
Sbjct: 60 DL---DGIEIINPELDPERFEEYVDRLYELRKRKGVTPEDAQELVREDPTVFAAMMVALG 116
Query: 563 EGDGMICMCDSESGYNSHLTDIHKIIGMGLGISHYSAMSMCIVRDNFLFFTDTHVSAEPS 622
E DG+ + + L +IIG G+S S++ + ++ D LFF D V+ +P+
Sbjct: 117 EADGL--VSGAVHTTADTLRPALQIIGTRPGVSLVSSVFIMLLPDGTLFFADCAVNPDPT 174
Query: 623 AMEIADSTILASQAICSLGMRPKVSVLFHSNSGSHCIKSSLKMRDSFEKICELS-KNLEV 681
A E+AD A++ G+ PKV++L +S GS S+ K+R++ + + E + +LEV
Sbjct: 175 AEELADIAENAAETARRFGIEPKVALLSYSTFGSGKGPSTDKVREATKILRERAPPDLEV 234
Query: 682 DAIVQEEVCLSEIFCDKDVPNTSSSQDAQLLVFPNIDSANIALEMAKSVTNGLHIGTLLL 741
D +Q + L E K P++ + A +LVFP++++ NI ++ + + L +G +L
Sbjct: 235 DGELQFDAALVEKVAAKKAPDSPLAGSANVLVFPDLEAGNIGYKLLQRLGGALAVGPILQ 294
Query: 742 GAALPVHIVPSSVSVREIIDMVAL 765
G A PV+ + SV +I++M AL
Sbjct: 295 GLAKPVNDLSRGASVEDIVNMAAL 318
>gnl|CDD|144928 pfam01515, PTA_PTB, Phosphate acetyl/butaryl transferase. This
family contains both phosphate acetyltransferase and
phosphate butaryltransferase. These enzymes catalyse the
transfer of an acetyl or butaryl group to
orthophosphate.
Length = 319
Score = 182 bits (463), Expect = 4e-46
Identities = 94/324 (29%), Positives = 178/324 (54%), Gaps = 8/324 (2%)
Query: 443 SLMKKIFSIAKGTDSKRILFSAGEDERVLRATQILIKENIARPVLIGSLLTIQDNIRRHD 502
S +++IF AK KRI+F GEDERVL+A + L++E IA P+LIG+ + I+
Sbjct: 1 SFLERIFERAKS-AKKRIVFPEGEDERVLKAAKELLEEGIADPILIGNEIEIKAKALGLG 59
Query: 503 LQIIATKDFDVIDLNNKQSLKDYVDSYRSLSAEKGISLDSIYDLLRSNTTLLGSLALKRG 562
L + +++D ++Y D + L KG++ + +++R + T ++ +K G
Sbjct: 60 LDLSG---IEIVDPETSPRDEEYADEFYELRKHKGMTPEIAREIVR-DPTYFAAMLVKLG 115
Query: 563 EGDGMICMCDSESGYNSHLTDIHKIIGMGLGISHYSAMSMCIVRDNFLFFTDTHVSAEPS 622
E DG+ + + + L +II G+ S++ + ++ D LFFTD V+ P+
Sbjct: 116 EADGL--VSGAVNTTADTLRPALQIIKTLPGVKIVSSVFIMLLPDRLLFFTDCAVNPNPT 173
Query: 623 AMEIADSTILASQAICSLG-MRPKVSVLFHSNSGSHCIKSSLKMRDSFEKICELSKNLEV 681
A E+A+ + A++ +LG + P+V++L +S GS +S K+R++ + E + +L V
Sbjct: 174 AEELAEIALNAAKTAKALGNIEPRVAMLSYSTFGSGKGESVEKVREATKIAKEKAPDLVV 233
Query: 682 DAIVQEEVCLSEIFCDKDVPNTSSSQDAQLLVFPNIDSANIALEMAKSVTNGLHIGTLLL 741
D +Q + + E + P++ + A +LVFP++++ NI ++A+ + IG +L
Sbjct: 234 DGELQLDAAIVEEVAAQKAPDSPVAGKANVLVFPDLEAGNIGYKIAQRLAGAEAIGPILQ 293
Query: 742 GAALPVHIVPSSVSVREIIDMVAL 765
G A PV+ + SV +I++ +A+
Sbjct: 294 GLAKPVNDLSRGASVEDIVNTIAI 317
>gnl|CDD|144108 pfam00390, malic, Malic enzyme, N-terminal domain.
Length = 182
Score = 142 bits (361), Expect = 3e-34
Identities = 56/180 (31%), Positives = 77/180 (42%), Gaps = 50/180 (27%)
Query: 33 PGKLEVNATKMLNDQ--KDLSLAYSPGVAAPSMMIAEDPSKA-AMYTNRSNL-------- 81
GK EV K+L+ +DL + Y+P V I+E + +YT+ NL
Sbjct: 1 QGKNEVLFYKLLSTHIEEDLPIVYTPTVGEACQAISEIYRRPRGLYTSIGNLGKIKDILK 60
Query: 82 --------VAVVSNGSAVLGLGDIGPLASKPVMEGKAVLFKKFAGIN---VFDIEINAK- 129
V VV++G +LGLGD+G +A P+MEGK L+ FAGI+ V I ++
Sbjct: 61 NWPEEDVRVIVVTDGERILGLGDLG-VAGMPIMEGKLALYTAFAGIDPSRVLPIVLDVGT 119
Query: 130 --------------------------DVDTMVSTIVALEPTFGGINLEDIKAPECFEVER 163
VD V + AL P FGGI ED AP FE+
Sbjct: 120 NNEKLLNDPLYLGLRHKRVRGEEYDEFVDEFVEAVKALFPPFGGIQFEDFGAPNAFEILE 179
>gnl|CDD|36471 KOG1257, KOG1257, KOG1257, NADP+-dependent malic enzyme [Energy
production and conversion].
Length = 582
Score = 135 bits (341), Expect = 5e-32
Identities = 113/398 (28%), Positives = 164/398 (41%), Gaps = 78/398 (19%)
Query: 84 VVSNGSAVLGLGDIGPLASKPVMEGKAVLFKKFAGIN-------VFDIEIN--------- 127
VV++G +LGLGD+G + + GK L+ GI D+ N
Sbjct: 165 VVTDGERILGLGDLG-VNGMGIPVGKLALYTALGGIRPSRCLPVCLDVGTNNEKLLNDPL 223
Query: 128 ----------AKDVDTMVST-IVALEPTFGG---INLEDIKAPECFEVERILSQ-KLKIP 172
K+ D + + A+ +G I ED F R+L + + K
Sbjct: 224 YIGLRQRRVRGKEYDEFLDEFMEAVVQRYGPNTLIQFEDFANHNAF---RLLEKYRNKYC 280
Query: 173 FLHDDQHGTAVTVTAATLNGMKLVGKKFSDIKIVTLGAGAAAL----ACLNLLVTMGV-- 226
+DD GTA A L +++ GK SD I+ LGAG AAL + +V G+
Sbjct: 281 MFNDDIQGTAAVALAGLLAALRITGKPLSDHVILFLGAGEAALGIANLIVMAMVKEGLSE 340
Query: 227 --RRENIWVYDLEGLVYEGREKKFDKWKSVYAQKSGP-KPLSETMNNA--DVFLGLS-VA 280
R+ IW+ D +GL+ +GR+ + K +A+ K L E + V +G S V
Sbjct: 341 EEARKKIWLVDSKGLITKGRKASLTEEKKPFAKDHEEIKDLEEAVKEVKPTVLIGASGVG 400
Query: 281 GALDPAILKFMA---EKPLIMVLANP--NPEAMPDEIKKVRPDAMICTGRSDFSN----- 330
GA +L+ MA E+P+I L+NP E ++ K I S F
Sbjct: 401 GAFTEEVLRAMAKSNERPIIFALSNPTSKAECTAEQAYKWTKGRAIFASGSPFPPVEYNG 460
Query: 331 ------QVNNVLCFPYIFRGALDCGATAITEEMKVAAARAMAVLVRDVPPDVVFDNFAKE 384
Q NN FP I G + GA I +EM +AAA A+A V + + K
Sbjct: 461 KVYVPGQGNNAYIFPGIGLGVVLSGARRIPDEMFLAAAEALAEQVSE-------EELEKG 513
Query: 385 SPVFGPNYLIPSPFDPNLISY-IAPAVAKAAEEAGVAS 421
L P + IS IA AV K A E G+A+
Sbjct: 514 R-------LYPPLSNIREISANIAAAVLKYAYEEGLAT 544
>gnl|CDD|133454 cd05312, NAD_bind_1_malic_enz, NAD(P) binding domain of malic
enzyme (ME), subgroup 1. 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 of eukaryotic 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 = 279
Score = 124 bits (315), Expect = 7e-29
Identities = 93/284 (32%), Positives = 132/284 (46%), Gaps = 48/284 (16%)
Query: 180 GTAVTVTAATLNGMKLVGKKFSDIKIVTLGAGAAALACLNLLVTMGVR--------RENI 231
GTA A L +++ GK SD +I+ LGAG+A + +L+V+ VR R+ I
Sbjct: 3 GTAAVALAGLLAALRITGKPLSDQRILFLGAGSAGIGIADLIVSAMVREGLSEEEARKKI 62
Query: 232 WVYDLEGLVYEGREKKFDKWKSVYAQK---SGPKPLSETMNNA--DVFLGLS-VAGALDP 285
W+ D +GL+ + R+ +K +A+K K L E + V +GLS V GA
Sbjct: 63 WLVDSKGLLTKDRKDL-TPFKKPFARKDEEKEGKSLLEVVKAVKPTVLIGLSGVGGAFTE 121
Query: 286 AILKFMA---EKPLIMVLANP--NPEAMPDEIKKVRPDAMICTGRSDFS----------- 329
+++ MA E+P+I L+NP E ++ K + S F
Sbjct: 122 EVVRAMAKSNERPIIFALSNPTSKAECTAEDAYKWTDGRALFASGSPFPPVEYNGKTYVP 181
Query: 330 NQVNNVLCFPYIFRGALDCGATAITEEMKVAAARAMAVLVRDVPPDVVFDNFAKESPVFG 389
Q NN FP I GA+ GA IT+EM +AAA A+A LV D + A+
Sbjct: 182 GQGNNAYIFPGIGLGAILSGARHITDEMFLAAAEALASLVTD-------EELARGR---- 230
Query: 390 PNYLIPSPFDPNLISY-IAPAVAKAAEEAGVASS--PIEDYEVY 430
L P + IS IA AVAK A E G+A+ P ED E Y
Sbjct: 231 ---LYPPLSNIREISAQIAVAVAKYAYEEGLATRYPPPEDLEEY 271
>gnl|CDD|133442 cd00762, NAD_bind_malic_enz, NAD(P) binding domain of malic enzyme.
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. 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 = 254
Score = 110 bits (276), Expect = 2e-24
Identities = 76/269 (28%), Positives = 119/269 (44%), Gaps = 47/269 (17%)
Query: 178 QHGTAVTVTAATLNGMKLVGKKFSDIKIVTLGAGAAALACLNLLVTMGVRR--------E 229
GTA A L +K+ KK S+ K++ GAGAAAL NL+V + V+ +
Sbjct: 1 IQGTASVAVAGLLAALKVTKKKISEHKVLFNGAGAAALGIANLIVXLXVKEGISKEEACK 60
Query: 230 NIWVYDLEGLVYEGREKKFDKWKSVYAQKSGPKPLSETMNNA------DVFLGLS-VAGA 282
IW D +GL+ + R++ + A+ + P+ S + +A D +G+S V GA
Sbjct: 61 RIWXVDRKGLLVKNRKETCPN-EYHLARFANPERESGDLEDAVEAAKPDFLIGVSRVGGA 119
Query: 283 LDPAILKFMA---EKPLIMVLANPNPEA--MPDEIKKVRPDAMI-CTGRSDFSN------ 330
P +++ A E+P+I L+NP +A +E I +G
Sbjct: 120 FTPEVIRAXAEINERPVIFALSNPTSKAECTAEEAYTATEGRAIFASGSPFHPVELNGGT 179
Query: 331 ----QVNNVLCFPYIFRGALDCGATAITEEMKVAAARAMAVLVRDVPPDVVFDNFAKESP 386
Q NN+ FP + G + C IT+++ ++AA A+A V + +
Sbjct: 180 YKPGQGNNLYIFPGVALGVILCRIRHITDDVFLSAAEAIA---SSVTEESL--------- 227
Query: 387 VFGPNYLIPSPFDPNLISY-IAPAVAKAA 414
P L P FD +S IA AVAK A
Sbjct: 228 --KPGRLYPPLFDIQEVSLNIAVAVAKYA 254
>gnl|CDD|133449 cd05191, NAD_bind_amino_acid_DH, NAD(P) binding domain of amino
acid dehydrogenase-like proteins. Amino acid
dehydrogenase(DH)-like NAD(P)-binding domains are
members of the Rossmann fold superfamily and are found
in glutamate, leucine, and phenylalanine DHs (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 = 86
Score = 36.2 bits (84), Expect = 0.033
Identities = 14/56 (25%), Positives = 20/56 (35%), Gaps = 2/56 (3%)
Query: 180 GTAVTVTAATLNGMKLVGKKFSDIKIVTLGAGAAALACLNLLVTMGVRRENIWVYD 235
TA A K+ K +V LGAG LL G ++ + + D
Sbjct: 1 ATAAGAVALLKAAGKVTNKSLKGKTVVVLGAGEVGKGIAKLLADEGGKK--VVLCD 54
>gnl|CDD|31690 COG1501, COG1501, Alpha-glucosidases, family 31 of glycosyl
hydrolases [Carbohydrate transport and metabolism].
Length = 772
Score = 33.5 bits (76), Expect = 0.22
Identities = 32/157 (20%), Positives = 54/157 (34%), Gaps = 22/157 (14%)
Query: 401 NLISYIAPAVAKAAEEAGVASSPI-----EDYEVYRDSLKRFSFPGRSLM-KKIFSIAKG 454
L+ YI A+A+E P+ ED Y +L G L+ + +G
Sbjct: 568 RLLPYIYTLAAEASETGLPMMRPLFLEFPEDETTY--NLDDQYMFGDDLLVAPVVE--EG 623
Query: 455 TDSKRILFSAGE------DERVLRATQILIKENIAR-PVLI--GSLLTIQDNIRRHDLQI 505
S+ + G E I ++ + PV + GS++ + +N
Sbjct: 624 QTSREVYLPEGTWYDFWTGEEYEGGQTITVEAPLETIPVFVRAGSIIPLLENELYVGESY 683
Query: 506 IATKDFDVIDLNNKQSLKDYVD---SYRSLSAEKGIS 539
+ FDV + S + Y D S+ E S
Sbjct: 684 VEDVAFDVFPGQDGASGELYDDDGESFAYEKGEYTDS 720
>gnl|CDD|36108 KOG0890, KOG0890, KOG0890, Protein kinase of the PI-3 kinase family
involved in mitotic growth, DNA repair and meiotic
recombination [Signal transduction mechanisms, Chromatin
structure and dynamics, Replication, recombination and
repair, Cell cycle control, cell division, chromosome
partitioning].
Length = 2382
Score = 30.4 bits (68), Expect = 2.3
Identities = 33/184 (17%), Positives = 57/184 (30%), Gaps = 31/184 (16%)
Query: 277 LSVAGALDPAILKFMAEKPLIMVLANPNPEAMPDEIKKVRPDAMICTGRSDFSNQVNNVL 336
L GA+DP+ +F ++ + +L E IK DF+
Sbjct: 1108 LGELGAIDPSCHRFKEQETIPSILQVLPIECSDLPIK-----------FIDFAWDTLVKA 1156
Query: 337 CFPYIFRGALDCGATAITEEMKVAAARAMAVLVRDVPPDVVFDNFAKES-PVFGPNYLIP 395
+ D A AI E + + + + L R + +++ F E P +
Sbjct: 1157 FLCEPDQLKQDVVAYAIQEVLVLGGSSNIEPLDRGMCE--LWERFPNEVKEEMEP--TLT 1212
Query: 396 SPFDPNLISYIAPAVAKAAEEAGVASSPIEDYEVYRDSLKRFS-----FPGRSLMKKIFS 450
S + K G + YR+ L R+S S +FS
Sbjct: 1213 SRYASQ----------KPEPSVGEKKPIYKSSLGYREWLSRWSLKLIAKAESSEASPLFS 1262
Query: 451 IAKG 454
+
Sbjct: 1263 LCSI 1266
>gnl|CDD|144968 pfam01568, Molydop_binding, Molydopterin dinucleotide binding
domain. This domain is found in various molybdopterin -
containing oxidoreductases and tungsten
formylmethanofuran dehydrogenase subunit d (FwdD) and
molybdenum formylmethanofuran dehydrogenase subunit
(FmdD); where the domain constitutes almost the entire
subunit. The formylmethanofuran dehydrogenase catalyses
the first step in methane formation from CO2 in
methanogenic archaea and has a molybdopterin
dinucleotide cofactor. This domain corresponds to the
C-terminal domain IV in dimethyl sulfoxide
(DMSO)reductase which interacts with the 2-amino
pyrimidone ring of both molybdopterin guanine
dinucleotide molecules.
Length = 110
Score = 29.5 bits (67), Expect = 4.0
Identities = 10/42 (23%), Positives = 13/42 (30%), Gaps = 2/42 (4%)
Query: 361 AARAMAVLVRDVPPDVVF--DNFAKESPVFGPNYLIPSPFDP 400
+ A + V P VVF + N L DP
Sbjct: 58 SVVVRAKVTDRVRPGVVFMPFGWWAAPKGGNANVLTSDGTDP 99
>gnl|CDD|133443 cd01065, NAD_bind_Shikimate_DH, NAD(P) binding domain of Shikimate
dehydrogenase. Shikimate dehydrogenase (DH) is an amino
acid DH family member. Shikimate pathway links
metabolism of carbohydrates to de novo biosynthesis of
aromatic amino acids, quinones and folate. It is
essential in plants, bacteria, and fungi but absent in
mammals, thus making enzymes involved in this pathway
ideal targets for broad spectrum antibiotics and
herbicides. Shikimate DH catalyzes the reduction of
3-hydroshikimate to shikimate using the cofactor NADH.
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 DHs, 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 = 155
Score = 29.2 bits (66), Expect = 4.6
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 204 KIVTLGAGAAALACLNLLVTMGVRRENIWVYD 235
K++ LGAG AA A L +G I + +
Sbjct: 21 KVLILGAGGAARAVAYALAELGA--AKIVIVN 50
>gnl|CDD|35591 KOG0370, KOG0370, KOG0370, Multifunctional pyrimidine synthesis
protein CAD (includes carbamoyl-phophate synthetase,
aspartate transcarbamylase, and glutamine
amidotransferase) [General function prediction only].
Length = 1435
Score = 29.1 bits (65), Expect = 4.8
Identities = 43/214 (20%), Positives = 65/214 (30%), Gaps = 76/214 (35%)
Query: 276 GLSV--AGALDPAI---LKFMAEKPLIMVLANPN--------------------PEAMPD 310
GLS+ AG D + +K + E+ + +L NPN PE +
Sbjct: 387 GLSIGQAGEFDYSGSQAIKALKEENIFTILINPNIATVQTSKGLADKVYFLPVTPEYVTK 446
Query: 311 EIKKVRPDAMICTGRSDFSNQVNNVLCFPYIFRGALDCG--------------------- 349
IK RPD ++ T F Q AL+CG
Sbjct: 447 VIKAERPDGILLT----FGGQ------------TALNCGVELDKAGVFAQYGVKVLGTPI 490
Query: 350 ATAITEEMKVAAARAMAVLVRDVPPDVVFDNFAKESPVFGPNYLIPSPFDPNLISYIAPA 409
T IT E + ARA+ + + P S + + + Y P
Sbjct: 491 QTIITTEDRDLFARALNEINEKIAP------SEAVSTIEE------ALEAAERLGY--PV 536
Query: 410 VAKAAEEAGVASSPIEDYEVYRDSLKRFSFPGRS 443
+ +AA G S + E L +
Sbjct: 537 IVRAAYALGGLGSGFANNEEELQDLAAQALALSP 570
>gnl|CDD|133101 cd06243, Peptidase_M14-like_1_6, Peptidase M14-like domain of a
functionally uncharacterized subgroup of the M14 family
of metallocarboxypeptidases (MCPs). The M14 family are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. Two major subfamilies of the M14 family,
defined based on sequence and structural homology, are
the A/B and N/E subfamilies. Enzymes belonging to the
A/B subfamily are normally synthesized as inactive
precursors containing preceding signal peptide, followed
by an N-terminal pro-region linked to the enzyme; these
proenzymes are called procarboxypeptidases. The A/B
enzymes can be further divided based on their substrate
specificity; Carboxypeptidase A-like (CPA-like) enzymes
favor hydrophobic residues while carboxypeptidase B-like
(CPB-like) enzymes only cleave the basic residues lysine
or arginine. The A forms have slightly different
specificities, with Carboxypeptidase A1 (CPA1)
preferring aliphatic and small aromatic residues, and
CPA2 preferring the bulky aromatic side chains. Enzymes
belonging to the N/E subfamily enzymes are not produced
as inactive precursors and instead rely on their
substrate specificity and subcellular
compartmentalization to prevent inappropriate cleavages.
They contain an extra C-terminal transthyretin-like
domain, thought to be involved in folding or formation
of oligomers. MCPs can also be classified based on
their involvement in specific physiological processes;
the pancreatic MCPs participate only in alimentary
digestion and include carboxypeptidase A and B (A/B
subfamily), while others, namely regulatory MCPs or the
N/E subfamily, are involved in more selective reactions,
mainly in non-digestive tissues and fluids, acting on
blood coagulation/fibrinolysis, inflammation and local
anaphylaxis, pro-hormone and neuropeptide processing,
cellular response and others. Another MCP subfamily,
is that of succinylglutamate desuccinylase
/aspartoacylase, which hydrolyzes N-acetyl-L-aspartate
(NAA), and deficiency in which is the established cause
of Canavan disease. Another subfamily (referred to as
subfamily C) includes an exceptional type of activity in
the MCP family, that of dipeptidyl-peptidase activity of
gamma-glutamyl-(L)-meso-diaminopimelate peptidase I
which is involved in bacterial cell wall metabolism.
Length = 236
Score = 28.7 bits (64), Expect = 6.3
Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 4/62 (6%)
Query: 356 EMKVAAARAMAVLVRDVPPDVVFDNFAKESPVFGPNYLIPSPFDPNLISYIAPAVAKAAE 415
+ A+A+A ++RD PDVV D A E P NY I + NL I + K +
Sbjct: 103 LLNTPEAQALASVLRDYRPDVVVD--AHEYPGASQNYDILLLWPRNL--NIDEFLTKLNQ 158
Query: 416 EA 417
A
Sbjct: 159 AA 160
>gnl|CDD|145900 pfam02994, Transposase_22, L1 transposable element.
Length = 370
Score = 28.1 bits (62), Expect = 9.0
Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 5/85 (5%)
Query: 463 SAGEDERVLRATQILIKENIAR-PVLIGSLLTIQDNIRRHDLQIIATKDFDVIDLNNKQS 521
S ED + + K N R L ++ IQD +RR +L+II + + L ++
Sbjct: 154 SGAEDS--IEEIKRTGKFNEKRKKRLEQNIQEIQDYVRRPNLRIIGVPESEDEQLKGPEN 211
Query: 522 LKDYV--DSYRSLSAEKGISLDSIY 544
+ + +++ +L E + + Y
Sbjct: 212 IFQKIIEENFPNLKREANVQIQEAY 236
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.318 0.133 0.376
Gapped
Lambda K H
0.267 0.0801 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 8,953,215
Number of extensions: 482257
Number of successful extensions: 1249
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1215
Number of HSP's successfully gapped: 28
Length of query: 779
Length of database: 6,263,737
Length adjustment: 101
Effective length of query: 678
Effective length of database: 4,081,228
Effective search space: 2767072584
Effective search space used: 2767072584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.1 bits)