RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 010897
(498 letters)
>gnl|CDD|130848 TIGR01788, Glu-decarb-GAD, glutamate decarboxylase. This model
represents the pyridoxal phosphate-dependent glutamate
(alpha) decarboxylase found in bacteria (low and hi-GC
gram positive, proteobacteria and cyanobacteria),
plants, fungi and at least one archaon (Methanosarcina).
The product of the enzyme is gamma-aminobutyrate (GABA).
Length = 431
Score = 743 bits (1921), Expect = 0.0
Identities = 271/432 (62%), Positives = 340/432 (78%), Gaps = 3/432 (0%)
Query: 16 STFASRYVRAAIPRFKMPDNSMPKEAAYQVINDELMLDGNPRLNLASFVTTWMEPECDKL 75
S + SR V IP+++MP+ MP +AAYQ+I+DEL LDGNPRLNLA+FVTTWMEPE KL
Sbjct: 1 SAYGSRAVSTGIPKYRMPEEEMPPDAAYQLIHDELSLDGNPRLNLATFVTTWMEPEARKL 60
Query: 76 VMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSEAIMLAGL 135
+ +INKN +D DEYP T E++NRCVNM+A L++ P D + AVG T+GSSEAIML GL
Sbjct: 61 MDETINKNMIDKDEYPQTAEIENRCVNMLADLWHAPAKDAE-AVGTSTIGSSEAIMLGGL 119
Query: 136 AFKRKWQQKRKEQGKPYDKPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYYVMNPVKA 195
A K +W+++ + GKP DKPN+V G+NVQVCWEKFARYF+VEL+EV ++ G YV++P +
Sbjct: 120 AMKWRWRKRMEAAGKPTDKPNLVMGSNVQVCWEKFARYFDVELREVPMDPGRYVIDPEQV 179
Query: 196 VELVDENTICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPFL 255
VE VDENTI V ILG+T TGE+EDVK L+D L + N +TGWD PIHVDAASGGFIAPF+
Sbjct: 180 VEAVDENTIGVVCILGTTYTGEYEDVKALNDALDEYNAKTGWDIPIHVDAASGGFIAPFV 239
Query: 256 YPDLEWDFRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINYLGSDQPTFT 315
YPDLEWDFRLP VKSINVSGHKYGLVY GVGWV+WR ++ LP+EL+FH+NYLG D+PTFT
Sbjct: 240 YPDLEWDFRLPRVKSINVSGHKYGLVYPGVGWVIWRDEEALPEELIFHVNYLGGDEPTFT 299
Query: 316 LNFSKGSSQIIAQYYQFIRLGFEGYKNIMENCMGNARALREGLEKTGRFEILSKDVGVPL 375
LNFS+ ++Q+IAQYY F+RLG EGY+ IM+N + AR L E + K G FEI+S G+PL
Sbjct: 300 LNFSRPANQVIAQYYNFLRLGREGYRKIMQNSLDVARYLAEEIAKLGPFEIISDGSGIPL 359
Query: 376 VAFSLKDS--SAHTVFEISEGLRKFGWIVPAYTMPANAENVAVLRVVVREDFSRSLVERL 433
VAF LKD +T++++S LR+ GWIVPAYT+P NAE++ V+R+VVRE FSR L E L
Sbjct: 360 VAFKLKDDADPGYTLYDLSHRLRERGWIVPAYTLPKNAEDIVVMRIVVREGFSRDLAELL 419
Query: 434 ISHIEEVLKEIE 445
I IE L +E
Sbjct: 420 IEDIEAALAYLE 431
>gnl|CDD|223154 COG0076, GadB, Glutamate decarboxylase and related PLP-dependent
proteins [Amino acid transport and metabolism].
Length = 460
Score = 382 bits (982), Expect = e-129
Identities = 167/456 (36%), Positives = 231/456 (50%), Gaps = 17/456 (3%)
Query: 10 SREILSSTFASRYVRAAIPRFKMPDNSMPKEAAYQVINDELMLDGNPRLNLASFVTTWME 69
S + LS F + P P + E A +I DEL LDG+PR NLA F T +
Sbjct: 16 SGDSLSPLFGALSDSRMAPEKGEPLEEVLDELAELLIKDELYLDGHPRANLAGFCPTRVP 75
Query: 70 PECDKLVMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSEA 129
P +L+++++NKN D DE P EL+ R VNM++ L P A G T G +EA
Sbjct: 76 PVAAELLVSALNKNLGDPDESPAAAELEERVVNMLSDLLGAPEE----ASGTFTSGGTEA 131
Query: 130 IMLAGLAFKRKW-QQKRKEQGKPYDKPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYY 188
+LA LA + +W ++ E GKP KPNIV +EK ARY + L+ V Y
Sbjct: 132 NLLALLAARERWRKRALAESGKPGGKPNIVCSETAHFSFEKAARYLGLGLRRVPTVPTDY 191
Query: 189 VMNPVKAVELVDENTI--CVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAA 246
++ E +DENTI V G+T TG +D++ L D+ + + +HVDAA
Sbjct: 192 RIDVDALEEAIDENTIGGVVVGTAGTTDTGSIDDIEELADIAEE------YGIWLHVDAA 245
Query: 247 SGGFIAPFLYPDLEWDFRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINY 306
GGF+ PFL PD WDF L V SI V GHKYGL G G V++R ++ L L+F Y
Sbjct: 246 FGGFLLPFLEPDGRWDFGLEGVDSITVDGHKYGLAPIGCGVVLFRDEEALRRILIFADYY 305
Query: 307 L-GSDQPTFTLNFSKGSSQIIAQYYQFIRLGFEGYKNIMENCMGNARALREGLEKTGRFE 365
L G P FT+ S+ Q +A Y RLG EGY+ +++ + AR L E LEK G FE
Sbjct: 306 LPGGGIPNFTILGSRPGRQALALYANLRRLGREGYRKLLDRTLELARYLAEELEKLGDFE 365
Query: 366 ILSKDVGVPLVAFSLKDSSAHTVFEISEGLRKFGWIVPAYTMPANAENVAVLRVVVREDF 425
+++ + +P+VAF LKD T+ ++SE L + GW VPA +P V V R+
Sbjct: 366 LVN-EPELPIVAFRLKD-DEDTLADLSERLDRRGWQVPAQLLPKGLAIVFGTHVTGRQGL 423
Query: 426 SRSLVERLI-SHIEEVLKEIESLPSRVSTKTAHVIP 460
+ LI E +L IE +
Sbjct: 424 KFIVANLLITDREESLLALIEEPGREIEDLLEGTFG 459
>gnl|CDD|215836 pfam00282, Pyridoxal_deC, Pyridoxal-dependent decarboxylase
conserved domain.
Length = 373
Score = 367 bits (944), Expect = e-124
Identities = 111/385 (28%), Positives = 160/385 (41%), Gaps = 48/385 (12%)
Query: 33 PDNSMP-KEAAYQVIND-ELMLDGNPRLNLASFVTTWMEPECDKLVMA------------ 78
P P A +I + L + G+ R N+ VTTW P A
Sbjct: 1 PGYLRPLLPEAAPIIPEPLLDILGDIRKNIMPGVTTWHSPNFHAYFPAGNSYPSLLGDML 60
Query: 79 --SINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVAD--DKTAVGVGTVGSSEAIMLAG 134
+IN N + P TEL+N ++ +A + P GV GSSE+ +LA
Sbjct: 61 SDAINCNGFTWESSPACTELENVVMDWLAKMLGLPKEFLGSGEGGGVLQGGSSESNLLAL 120
Query: 135 LAFKRKWQQKRKEQGKPY-DKPNIVTGANVQVCWEKFARYFEVELKEVKLEE--GYYVMN 191
LA + KW ++ K GKP K T EK A VEL+E+ +E M+
Sbjct: 121 LAARTKWIRRMKAAGKPSLGKLVAYTSDQAHSSIEKAALIAGVELREIPTDENGKMRGMD 180
Query: 192 PVKAVELVDENT---ICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASG 248
KA+E EN V A LG+T +G F+ ++ L D+ K +D +HVDAA
Sbjct: 181 LEKAIEEDKENGLIPFFVCATLGTTGSGAFDPLQELGDICNK------YDLWLHVDAAYA 234
Query: 249 G--FIAPFLYPDLEWDFRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINY 306
G FI P W F + S + + HK+ LV + R K L L F+ Y
Sbjct: 235 GSAFICPEFRH---WLFGIERADSFSFNPHKWMLVLLDCSALWVRDKGALQQALQFNPEY 291
Query: 307 LGS---------DQPTFTLNFSKGSSQIIAQYYQFIR-LGFEGYKNIMENCMGNARALRE 356
LG D + + S+ I + + +R G EG +N + + A+
Sbjct: 292 LGHNDKQSDVAVDYGDWQIPLSRR--FRILKLWFVLRSYGVEGLQNQIRRHVELAKYFEA 349
Query: 357 GLEKTGRFEILSKDVGVPLVAFSLK 381
+ K RFEI + G+ LV F LK
Sbjct: 350 LVRKDSRFEI-CAERGLGLVCFRLK 373
>gnl|CDD|99743 cd06450, DOPA_deC_like, DOPA decarboxylase family. This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). The major groups
in this CD correspond to DOPA/tyrosine decarboxylase
(DDC), histidine decarboxylase (HDC), and glutamate
decarboxylase (GDC). DDC is active as a dimer and
catalyzes the decarboxylation of tyrosine. GDC catalyzes
the decarboxylation of glutamate and HDC catalyzes the
decarboxylation of histidine.
Length = 345
Score = 326 bits (838), Expect = e-108
Identities = 123/394 (31%), Positives = 176/394 (44%), Gaps = 63/394 (15%)
Query: 59 NLASFVTTWMEPECDKLVMASINKNYVDM--DEYPVTTELQNRCVNMIAHLFNTPVADDK 116
LA FVTT M+P L M + KN +D DE P TE++ VN +A LF +
Sbjct: 1 FLAGFVTT-MDPPALLLEMLTSAKNAIDFTWDESPAATEMEAEVVNWLAKLFG---LPSE 56
Query: 117 TAVGVGTVGSSEAIMLAGLAFKRKWQQKRKE-QGKPYDKPNIVTGANVQVCWEKFARYFE 175
A GV T G SE+ +LA LA + + +++ K G+ DK IV V EK A Y +
Sbjct: 57 DADGVFTSGGSESNLLALLAARDRARKRLKAGGGRGIDKLVIVCSDQAHVSVEKAAAYLD 116
Query: 176 VELKEVKLEEGYYVMNPVKAVELVDE------NTICVAAILGSTLTGEFEDVKLLHDLLT 229
V+++ V ++E M+P +DE N I V A G+T TG + ++ + DL
Sbjct: 117 VKVRLVPVDEDG-RMDPEALEAAIDEDKAEGLNPIMVVATAGTTDTGAIDPLEEIADLAE 175
Query: 230 KKNEETGWDTPIHVDAASGGFIAPFLYPDLEWDFRLPLVKSINVSGHKYGLVYAGVGWVV 289
K D +HVDAA GGF+ PF P DF + V SI+V HKYGLV G V+
Sbjct: 176 KY------DLWLHVDAAYGGFLLPFPEPRH-LDFGIERVDSISVDPHKYGLVPLGCSAVL 228
Query: 290 WRTKDDLPDELVFHINYLGSDQPTFTLNFSKGSSQIIAQYYQFIRLGFEGYKNIMENCMG 349
R + + R G +GY ++ +
Sbjct: 229 VR---------------------------------ALKLWATLRRFGRDGYGEHIDRIVD 255
Query: 350 NARALREGLEKTGRFEILSKDVGVPLVAFSLKDSSA--HTVFEISEGLRKFG-WIVPAYT 406
A+ L E + FE+L + + LV F LK S +++S+ L + G W VPA T
Sbjct: 256 LAKYLAELIRADPGFELL-GEPNLSLVCFRLKPSVKLDELNYDLSDRLNERGGWHVPATT 314
Query: 407 MPANAENVAVLRVVVREDF-SRSLVERLISHIEE 439
+ VLR VV +R + L+ IE
Sbjct: 315 LG----GPNVLRFVVTNPLTTRDDADALLEDIER 344
>gnl|CDD|234361 TIGR03812, tyr_de_CO2_Arch, tyrosine decarboxylase MnfA. Members
of this protein family are the archaeal form, MnfA, of
tyrosine decarboxylase, and are involved in methanofuran
biosynthesis. Members show clear homology to the
Enterococcus form, Tdc, that is involved in tyrosine
decarboxylation for resistance to acidic conditions
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 373
Score = 157 bits (400), Expect = 1e-43
Identities = 113/372 (30%), Positives = 174/372 (46%), Gaps = 41/372 (11%)
Query: 74 KLVMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSEAIMLA 133
K I N D +P T +++ V + +L + P A G G +EA + A
Sbjct: 38 KAYDMFIETNLGDPGLFPGTKKIEEEVVGSLGNLLHLP-----DAYGYIVSGGTEANIQA 92
Query: 134 GLAFKRKWQQKRKEQGKPYDKPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYYVMNPV 193
A K +++++ PNI+ + +EK A +EL+ L+E Y ++
Sbjct: 93 VRAAKNLAREEKR-------TPNIIVPESAHFSFEKAAEMLGLELRYAPLDE-DYTVDVK 144
Query: 194 KAVELVDENTICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAP 253
+L+D+NTI + I G+T G+ +D++ L + +N +HVDAA GGF+ P
Sbjct: 145 DVEDLIDDNTIGIVGIAGTTELGQIDDIEELSKI-ALEN-----GIYLHVDAAFGGFVIP 198
Query: 254 FL---YPDLEWDFRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINYL-GS 309
FL Y +DF LP V+SI + HK GL G +++R+K L L YL
Sbjct: 199 FLKKGYNPPPFDFSLPGVQSITIDPHKMGLSPIPAGGILFRSKSYL-KYLSVDAPYLTVK 257
Query: 310 DQPTFTLNFSKGSSQIIAQYYQFIR-LGFEGYKNIMENCMGNARALREGLEKTGRFEILS 368
Q T T S S+ A Y I+ LG EGY+ I+ CM N R L E L+K G FE +
Sbjct: 258 KQATITGTRSGASA---AATYAVIKYLGREGYRKIVAECMENTRYLVEELKKIG-FEPVI 313
Query: 369 KDVGVPLVAFSLKDSSAHTVFEISEGLRKFGWIVPAYTMPANAENVAVLRVVVREDFSRS 428
+ V + +VAF + D E+ + LR GW V LR+VV +R
Sbjct: 314 EPV-LNIVAFEVDD-----PEEVRKKLRDRGWYVSV------TRCPKALRIVVMPHVTRE 361
Query: 429 LVERLISHIEEV 440
+E + ++E+
Sbjct: 362 HIEEFLEDLKEI 373
>gnl|CDD|237409 PRK13520, PRK13520, L-tyrosine decarboxylase; Provisional.
Length = 371
Score = 157 bits (399), Expect = 2e-43
Identities = 115/357 (32%), Positives = 169/357 (47%), Gaps = 42/357 (11%)
Query: 90 YPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSEAIMLAGLAFKRKWQQKRKEQG 149
+P T +L+ V M+ L + P A G T G +EA + A A +
Sbjct: 54 FPGTAKLEEEAVEMLGELLHLP-----DAYGYITSGGTEANIQAVRAAR---------NL 99
Query: 150 KPYDKPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYYVMNPVKAVE-LVDENTICVAA 208
+KPNIV + ++K A VEL+ L++ Y V VKAVE L+D+NTI +
Sbjct: 100 AKAEKPNIVVPESAHFSFDKAADMLGVELRRAPLDDDYRVD--VKAVEDLIDDNTIGIVG 157
Query: 209 ILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPFLYPDLEWDFRLPLV 268
I G+T G+ + + L + +N +HVDAA GGF+ PFL +DF LP V
Sbjct: 158 IAGTTELGQVDPIPELSKI-ALEN-----GIFLHVDAAFGGFVIPFLDDPPNFDFSLPGV 211
Query: 269 KSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINYL-GSDQPTFTLNFSKGSSQIIA 327
SI + HK GL G +++R + L D L YL Q T T S G+ +A
Sbjct: 212 DSITIDPHKMGLAPIPAGGILFRDESYL-DALAVDTPYLTSKKQATLTGTRS-GAG--VA 267
Query: 328 QYYQFIR-LGFEGYKNIMENCMGNARALREGLEKTGRFEILSKDVGVPLVAFSLKDSSAH 386
Y ++ LG EGY+ ++E CM N R L E L++ G FE + + V + +VAF +
Sbjct: 268 ATYAVMKYLGREGYRKVVERCMENTRWLAEELKERG-FEPVIEPV-LNIVAFDDPNP--- 322
Query: 387 TVFEISEGLRKFGWIVPAYTMPANAENVAVLRVVVREDFSRSLVERLISHIEEVLKE 443
E+ E LR+ GW V LR+V +R +E + ++EV K
Sbjct: 323 --DEVREKLRERGWRVSV------TRCPEALRIVCMPHVTREHIENFLEDLKEVKKR 371
>gnl|CDD|235068 PRK02769, PRK02769, histidine decarboxylase; Provisional.
Length = 380
Score = 64.3 bits (157), Expect = 4e-11
Identities = 43/163 (26%), Positives = 79/163 (48%), Gaps = 24/163 (14%)
Query: 208 AILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPFLYPDLEWDFRLPL 267
A +G+T+TG +++K + ++L K + D IH DAA G I PF+ + F
Sbjct: 166 ANIGTTMTGAIDNIKEIQEILKKIGID---DYYIHADAALSGMILPFVNNPPPFSFADG- 221
Query: 268 VKSINVSGHKY-------GLVYAGVGWVVWRTKDDLPDELVFHINYLGS-DQPTFTLNFS 319
+ SI +SGHK+ G+V A +V + + ++Y+GS DQ T++ S
Sbjct: 222 IDSIAISGHKFIGSPMPCGIVLAKKKYV---------ERISVDVDYIGSRDQ---TISGS 269
Query: 320 KGSSQIIAQYYQFIRLGFEGYKNIMENCMGNARALREGLEKTG 362
+ + + LG +G + +++C+ A+ + L+ G
Sbjct: 270 RNGHTALLLWAAIRSLGSKGLRQRVQHCLDMAQYAVDRLQANG 312
>gnl|CDD|166673 PLN03032, PLN03032, serine decarboxylase; Provisional.
Length = 374
Score = 57.9 bits (140), Expect = 4e-09
Identities = 55/200 (27%), Positives = 90/200 (45%), Gaps = 16/200 (8%)
Query: 169 KFARYFEVELKEV-KLEEGY--YVMNPVKAVELVDENTICVAAILGSTLTGEFEDVKLLH 225
K AR + +E +V L G Y + D+ I I G+T+ G +D+
Sbjct: 126 KAARMYRMEAVKVPTLPSGEIDYDDLERALAKNRDKPAILNVNI-GTTVKGAVDDL---- 180
Query: 226 DLLTKKNEETGWDTP---IHVDAASGGFIAPFLYPDLEWDFRLPLVKSINVSGHKYGLVY 282
D + + +E G+ IH D A G + PF+ E FR P + S++VSGHK+ +
Sbjct: 181 DRILRILKELGYTEDRFYIHCDGALFGLMMPFVSRAPEVTFRKP-IGSVSVSGHKF--LG 237
Query: 283 AGVGWVVWRTKDDLPDELVFHINYLGSDQPTFTLNFSKGSSQIIAQYYQFIRLGFEGYKN 342
+ V T+ L ++ YL S T + S+ + +Y R G+ G K
Sbjct: 238 CPMPCGVALTRKKHVKALSQNVEYLNSRDAT--IMGSRNGHAPLYLWYTLRRKGYRGIKR 295
Query: 343 IMENCMGNARALREGLEKTG 362
+++CM NA L++ L + G
Sbjct: 296 DVQHCMRNAHYLKDRLTEAG 315
>gnl|CDD|177904 PLN02263, PLN02263, serine decarboxylase.
Length = 470
Score = 54.4 bits (131), Expect = 7e-08
Identities = 45/161 (27%), Positives = 75/161 (46%), Gaps = 22/161 (13%)
Query: 210 LGSTLTGEFEDVKLLHDLLTKKNEETGWDTP---IHVDAASGGFIAPFLYPDLEWDFRLP 266
+G+T+ G +D+ DL+ K EE G+ IH D A G + PF+ + F+ P
Sbjct: 236 IGTTVKGAVDDL----DLVIKTLEECGFSQDRFYIHCDGALFGLMMPFVKRAPKVTFKKP 291
Query: 267 LVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINYLGSDQPTF-----TLNFSKG 321
+ S++VSGHK+ G + R + HIN L S+ T+ S+
Sbjct: 292 -IGSVSVSGHKFVGCPMPCGVQITRME---------HINVLSSNVEYLASRDATIMGSRN 341
Query: 322 SSQIIAQYYQFIRLGFEGYKNIMENCMGNARALREGLEKTG 362
I +Y R G+ G++ ++ C+ NA L++ L + G
Sbjct: 342 GHAPIFLWYTLNRKGYRGFQKEVQKCLRNAHYLKDRLREAG 382
>gnl|CDD|223594 COG0520, csdA, Selenocysteine lyase/Cysteine desulfurase
[Posttranslational modification, protein turnover,
chaperones].
Length = 405
Score = 48.8 bits (117), Expect = 4e-06
Identities = 79/375 (21%), Positives = 133/375 (35%), Gaps = 81/375 (21%)
Query: 104 IAHLFNTPVADDKTAVGVGTVGSSEAIMLAGLAFKRKWQQKRKEQGKPYDKPNIVTG--- 160
+A N +D+ T G++EA+ L R + IV
Sbjct: 75 VARFLNADSSDEIVF----TRGTTEALNLVARGLGRSLKPG----------DEIVVSDLE 120
Query: 161 --ANVQVCWEKFARYFEVELKEVKLEEGYYVMNPVKAVE-LVDENTICVAAILGSTLTGE 217
+N+ V W++ A+ +++ + L++ + + A+E L+ T VA S +TG
Sbjct: 121 HHSNI-VPWQELAKRTGAKVRVIPLDDDG--LLDLDALEKLITPKTKLVALSHVSNVTGT 177
Query: 218 FEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPFLYPDL-EW--DFRLPLVKSINVS 274
VK + +L + + VDAA A L D+ E DF L S
Sbjct: 178 VNPVKEIAELAHEHG------ALVLVDAAQA---AGHLPIDVQELGCDF---LA----FS 221
Query: 275 GHK--YGLVYAGVGWVVWRTKDDLPDEL---------VFHINYLGSDQPTFTLNFSKGSS 323
GHK G GV +V + +L +EL + +++ + +
Sbjct: 222 GHKWLLGPTGIGVLYV----RKELLEELEPFLGGGGMIEYVSRDEGVTLAELPLRFEAGT 277
Query: 324 QIIAQYYQFIR----LGFEGYKNIMENCMGNARALREGLEKTGRFEILSKDV--GVPLVA 377
IA L G + I + L EGL + EI +V+
Sbjct: 278 PNIAGAIGLAAALDYLLEIGMEAIEAHERELTEYLLEGLSELPGVEIYGPPDADRGGIVS 337
Query: 378 FSLKDSSAHTVFEISEGLRKFGWIVPAYTMPANA-----ENVAVLRVVV-----REDFSR 427
F++K H V + L + G V A A A +R + ED
Sbjct: 338 FNVKGIHPHDVATL---LDEKGIAVRAGHHCAQPLHRLLGVDATIRASLHLYNTEED--- 391
Query: 428 SLVERLISHIEEVLK 442
V+RL+ +++ L
Sbjct: 392 --VDRLLEALKKALA 404
>gnl|CDD|129937 TIGR00858, bioF, 8-amino-7-oxononanoate synthase.
7-keto-8-aminopelargonic acid synthetase is an alternate
name. This model represents 8-amino-7-oxononanoate
synthase, the BioF protein of biotin biosynthesis. This
model is based on a careful phylogenetic analysis to
separate members of this family from
2-amino-3-ketobutyrate and other related pyridoxal
phosphate-dependent enzymes. In several species,
including Staphylococcus and Coxiella, a candidate
8-amino-7-oxononanoate synthase is confirmed by location
in the midst of a biotin biosynthesis operon but scores
below the trusted cutoff of this model [Biosynthesis of
cofactors, prosthetic groups, and carriers, Biotin].
Length = 360
Score = 38.8 bits (91), Expect = 0.005
Identities = 19/90 (21%), Positives = 36/90 (40%), Gaps = 7/90 (7%)
Query: 350 NARALREGLEKTGRFEILSKDVG-VPLVAFSLKDSSAHTVFEISEGLRKFGWIVPAYTMP 408
LR GLE G F ++ VP++ + ++E L++ G V A P
Sbjct: 277 LIARLRAGLEALG-FTLMPSCTPIVPVIIGD-----NASALALAEELQQQGIFVGAIRPP 330
Query: 409 ANAENVAVLRVVVREDFSRSLVERLISHIE 438
+ LR+ + + ++RL ++
Sbjct: 331 TVPAGTSRLRLTLSAAHTPGDIDRLAEALK 360
>gnl|CDD|163511 TIGR03799, NOD_PanD_pyr, putative pyridoxal-dependent aspartate
1-decarboxylase. This enzyme is proposed here to be a
form of aspartate 1-decarboxylase, pyridoxal-dependent,
that represents a non-orthologous displacement to the
more widely distributed pyruvoyl-dependent form
(TIGR00223). Aspartate 1-decarboxylase makes
beta-alanine, used usually in pathothenate biosynthesis,
by decarboxylation from asparatate. A number of species
with the PanB and PanC enzymes, however, lack PanD. This
protein family occurs in a number of Proteobacteria that
lack PanD. This enzyme family appears to be a
pyridoxal-dependent enzyme (see pfam00282). The family
was identified by Partial Phylogenetic Profiling;
members in Geobacter sulfurreducens, G. metallireducens,
and Pseudoalteromonas atlantica are clustered with the
genes for PanB and PanC. We suggest the gene symbol panP
(panthothenate biosynthesis enzyme, Pyridoxal-dependent)
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Pantothenate and coenzyme A].
Length = 522
Score = 35.8 bits (83), Expect = 0.057
Identities = 43/180 (23%), Positives = 79/180 (43%), Gaps = 13/180 (7%)
Query: 194 KAVELVDENTICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAP 253
K EL ++N I AI+G T E ++ L ++ E HVDAA GG A
Sbjct: 255 KCAELAEQN-IKPLAIVGVAGTTETGNIDPLDEMADIAQEL---GCHFHVDAAWGG--AT 308
Query: 254 FLYPDLEWDFR-LPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINYL---GS 309
L + + S+ + HK V G G V+++ + + H Y+ GS
Sbjct: 309 LLSNTYRHLLKGIERADSVTIDAHKQLYVPMGAGMVLFKDPALM-SAIEHHAEYILRKGS 367
Query: 310 -DQPTFTLNFSKGSSQIIAQYYQFIRLGFEGYKNIMENCMGNARALREGLEKTGRFEILS 368
D + TL S+ ++ Y +G +GY+ +++ + A+ + +++ FE+++
Sbjct: 368 KDLGSHTLEGSRPGMAMLV-YAGLHIIGRKGYELLIDQSIEKAKYFADLIQQQPDFELVT 426
>gnl|CDD|178323 PLN02721, PLN02721, threonine aldolase.
Length = 353
Score = 33.9 bits (78), Expect = 0.17
Identities = 23/95 (24%), Positives = 41/95 (43%), Gaps = 7/95 (7%)
Query: 350 NARALREGLEKTGRFEILSKDVGVPLVAFSLKDSSAHTVFEISEGLRKFGWIVPAYTMPA 409
A+ L EGL + + V +V F + D S T ++ + L + G ++ MP
Sbjct: 266 KAKLLAEGLNQIKGLRVNVAAVETNIVYFDITDGSRITAEKLCKSLEEHGVLL----MPG 321
Query: 410 NAENVAVLRVVVREDFSRSLVERLISHIEEVLKEI 444
N+ +RVV S S V+ +S ++ +
Sbjct: 322 NSS---RIRVVTHHQISDSDVQYTLSCFQQAALTL 353
>gnl|CDD|99747 cd06454, KBL_like, KBL_like; this family belongs to the pyridoxal
phosphate (PLP)-dependent aspartate aminotransferase
superfamily (fold I). The major groups in this CD
corresponds to serine palmitoyltransferase (SPT),
5-aminolevulinate synthase (ALAS),
8-amino-7-oxononanoate synthase (AONS), and
2-amino-3-ketobutyrate CoA ligase (KBL). SPT is
responsible for the condensation of L-serine with
palmitoyl-CoA to produce 3-ketodihydrospingosine, the
reaction of the first step in sphingolipid biosynthesis.
ALAS is involved in heme biosynthesis; it catalyzes the
synthesis of 5-aminolevulinic acid from glycine and
succinyl-coenzyme A. AONS catalyses the decarboxylative
condensation of l-alanine and pimeloyl-CoA in the first
committed step of biotin biosynthesis. KBL catalyzes the
second reaction step of the metabolic degradation
pathway for threonine converting 2-amino-3-ketobutyrate,
to glycine and acetyl-CoA. The members of this CD are
widely found in all three forms of life.
Length = 349
Score = 33.7 bits (78), Expect = 0.20
Identities = 25/91 (27%), Positives = 40/91 (43%), Gaps = 4/91 (4%)
Query: 350 NARALREGLEKTGRFEILSKDVGVPLVAFSLKDSSAHTVFEISEGLRKFGWIVPAYTMPA 409
N R LR GL++ G S +P + D A V S+ L + G V A P
Sbjct: 262 NVRYLRRGLKELGFPVGGSPSHIIPPLIG---DDPAKAV-AFSDALLERGIYVQAIRYPT 317
Query: 410 NAENVAVLRVVVREDFSRSLVERLISHIEEV 440
A LR+ + ++ ++RL+ ++EV
Sbjct: 318 VPRGTARLRISLSAAHTKEDIDRLLEALKEV 348
>gnl|CDD|129241 TIGR00135, gatC, aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase,
C subunit. Archaea, organelles, and many bacteria
charge Gln-tRNA by first misacylating it with Glu and
then amidating Glu to Gln. This small protein is part of
the amidotransferase heterotrimer and appears to be
important to the stability of the amidase subunit encode
by gatA, but its function may not be required in every
organism that expresses gatA and gatB. The seed
alignment for This model does not include any eukaryotic
sequence and is not guaranteed to find eukaryotic
examples, although it does find some. Saccharomyces
cerevisiae, which expresses the amidotransferase for
mitochondrial protein translation, seems to lack a gatC
ortholog. This model has been revised to remove the
candidate sequence from Methanococcus jannaschii, now
part of a related model [Protein synthesis, tRNA
aminoacylation].
Length = 93
Score = 30.0 bits (68), Expect = 0.64
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 5/53 (9%)
Query: 422 REDFSRSLVERLISHIEEVLKEIESLPSRVSTK----TAHVIPMVNETQGDKP 470
R + S E ++E+L +E L + V T+ H + + N + D+P
Sbjct: 14 RLELSEEEAESFAGDLDEILDYVEQL-NEVDTENVEPMTHPLEISNVLREDEP 65
>gnl|CDD|237108 PRK12467, PRK12467, peptide synthase; Provisional.
Length = 3956
Score = 31.7 bits (72), Expect = 1.3
Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 9/72 (12%)
Query: 422 REDFSRSLVERLISHIEEVLKE--------IESLPSRVSTKTAHVIPMVNETQGDKPLKK 473
R+ F + +ERL + +L+ + LP+ + + V+ N T P ++
Sbjct: 3036 RQHFDAAAIERLAESFDRLLQAMLNNPAARLGELPTLAAHERRQVLHAWNATAAAYPSER 3095
Query: 474 SVRE-TQEEVTR 484
V + + +V R
Sbjct: 3096 LVHQLIEAQVAR 3107
>gnl|CDD|223793 COG0721, GatC, Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit
[Translation, ribosomal structure and biogenesis].
Length = 96
Score = 28.7 bits (65), Expect = 1.9
Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 422 REDFSRSLVERLISHIEEVLKEIESLPSRVSTK----TAHVIPMVNETQGDKPLKKSVRE 477
R + S +E+ + +E++L +E L + V T+ T H + + N + D+ +
Sbjct: 16 RLELSEEELEKFATQLEDILGYVEQL-NEVDTEGVEPTTHPLEVSNVLREDEVTE---GL 71
Query: 478 TQEEVTR 484
+EE+
Sbjct: 72 DREELLA 78
>gnl|CDD|198302 cd03193, GST_C_Metaxin, C-terminal, alpha helical domain of Metaxin
and related proteins. Glutathione S-transferase (GST)
C-terminal domain family, Metaxin subfamily; composed of
metaxins and related proteins. Metaxin 1 is a component
of a preprotein import complex of the mitochondrial
outer membrane. It extends to the cytosol and is
anchored to the mitochondrial membrane through its
C-terminal domain. In mice, metaxin is required for
embryonic development. In humans, alterations in the
metaxin gene may be associated with Gaucher disease.
Metaxin 2 binds to metaxin 1 and may also play a role in
protein translocation into the mitochondria. Genome
sequencing shows that a third metaxin gene also exists
in zebrafish, Xenopus, chicken, and mammals. Sequence
analysis suggests that all three metaxins share a common
ancestry and that they possess similarity to GSTs. Also
included in the subfamily are uncharacterized proteins
with similarity to metaxins, including a novel GST from
Rhodococcus with toluene o-monooxygenase and
glutamylcysteine synthetase activities. Other members
are the cadmium-inducible lysosomal protein CDR-1 and
its homologs from C. elegans, and the failed axon
connections (fax) protein from Drosophila. CDR-1 is an
integral membrane protein that functions to protect
against cadmium toxicity and may also have a role in
osmoregulation to maintain salt balance in C. elegans.
The fax gene of Drosophila was identified as a genetic
modifier of Abelson (Abl) tyrosine kinase. The fax
protein is localized in cellular membranes and is
expressed in embryonic mesoderm and axons of the central
nervous system.
Length = 88
Score = 28.4 bits (64), Expect = 2.2
Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 219 EDVKLLHDLLTKKNEETGW---DTPIHVDAASGGFIAPFLYPDLEWDFRLPLVKS 270
ED++ L LL + + D P VDA +A LYP + LV S
Sbjct: 26 EDLEALSTLL----GDKKFLFGDKPTSVDATVFAHLASILYPPEDSPLLRVLVAS 76
>gnl|CDD|197544 smart00150, SPEC, Spectrin repeats.
Length = 101
Score = 28.4 bits (64), Expect = 2.6
Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 5/76 (6%)
Query: 418 RVVVREDFSRSL--VERLISHIEEVLKEIESLPSRVSTKTAHVIPMVNETQGDKPLKKSV 475
+++ ED + L VE L+ E E+E+ RV ++ E D +
Sbjct: 19 QLLASEDLGKDLESVEALLKKHEAFEAELEAHEERVEALNELGEQLIEEGHPDAE---EI 75
Query: 476 RETQEEVTRHWKRFVK 491
E EE+ W+ +
Sbjct: 76 EERLEELNERWEELKE 91
>gnl|CDD|235860 PRK06778, PRK06778, hypothetical protein; Validated.
Length = 289
Score = 29.5 bits (66), Expect = 3.7
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 6/56 (10%)
Query: 380 LKDSSAHTVFEISEGLRKFGWIVPAYTMPANAENVAV---LRVVVREDFSRSLVER 432
LK SA + E++ + I M AN E V LRV++++D +R++ ER
Sbjct: 106 LKKKSATELGELATSINT---IARDAHMEANLEMEIVPQGLRVLIKDDQNRNMFER 158
>gnl|CDD|180866 PRK07179, PRK07179, hypothetical protein; Provisional.
Length = 407
Score = 29.6 bits (67), Expect = 4.5
Identities = 25/96 (26%), Positives = 46/96 (47%), Gaps = 6/96 (6%)
Query: 350 NARALREGLEKTGRFEILSKDVGVPLVAFSLKDSSAHTVFEISEGLRKFGWIVPAYTMPA 409
NAR LREGL + G + I S+ + L S +++ + FG + A PA
Sbjct: 311 NARFLREGLSELG-YNIRSESQIIALETGSERNTEVLRDALEERNV--FGAVFCA---PA 364
Query: 410 NAENVAVLRVVVREDFSRSLVERLISHIEEVLKEIE 445
+N ++R+ + D + S ++R++ E E++
Sbjct: 365 TPKNRNLIRLSLNADLTASDLDRVLEVCREARDEVD 400
>gnl|CDD|235416 PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid;
Reviewed.
Length = 436
Score = 29.3 bits (67), Expect = 4.6
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 420 VVREDFSRSLVERLISH--IEEVLKEIESLPS 449
V RE FS + E L +H I + +E+ +P
Sbjct: 96 VDREGFSEYVTEALENHPLITVIREEVTEIPE 127
>gnl|CDD|236491 PRK09377, tsf, elongation factor Ts; Provisional.
Length = 290
Score = 28.9 bits (66), Expect = 6.4
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 14/62 (22%)
Query: 143 QKRKEQGKPYD-KPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYYVMNPVKAVE-LVD 200
++ KE+GKP + IV G + ++ KEV L E +V +P K V L+
Sbjct: 209 EQAKEEGKPEEIVEKIVEG--------RLNKFL----KEVVLLEQPFVKDPKKTVGQLLK 256
Query: 201 EN 202
E
Sbjct: 257 EA 258
>gnl|CDD|181006 PRK07505, PRK07505, hypothetical protein; Provisional.
Length = 402
Score = 28.8 bits (65), Expect = 6.8
Identities = 15/64 (23%), Positives = 29/64 (45%)
Query: 383 SSAHTVFEISEGLRKFGWIVPAYTMPANAENVAVLRVVVREDFSRSLVERLISHIEEVLK 442
T + ++ L G+ P A+ A LR++ R + ++RL S ++E+L
Sbjct: 339 GDEDTAIKAAKQLLDRGFYTSPVFFPVVAKGRAGLRIMFRASHTNDEIKRLCSLLKEILD 398
Query: 443 EIES 446
E +
Sbjct: 399 EGLA 402
>gnl|CDD|237025 PRK11929, PRK11929, putative bifunctional
UDP-N-acetylmuramoylalanyl-D-glutamate--2,
6-diaminopimelate
ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-
alanine ligase; Provisional.
Length = 958
Score = 28.9 bits (65), Expect = 8.2
Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 370 DVGVPLVAFSLKDSSAHTVFEISEGLRKFGWIVPAYTMPANAENVAVLRVVVRE 423
++GVPL L+ VFE+ G+ G I AY A VA++ RE
Sbjct: 644 EIGVPLTLLRLRAQHRAAVFEL--GMNHPGEI--AYLAAIAAPTVALVTNAQRE 693
>gnl|CDD|238138 cd00226, PRCH, Photosynthetic reaction center (RC) complex, subunit
H; RC is an integral membrane protein-pigment complex
which catalyzes light-induced reduction of ubiquinone to
ubiquinol, generating a transmembrane electrochemical
gradient of protons used to produce ATP by ATP synthase.
Subunit H is positioned mainly in the cytoplasm with one
transmembrane alpha helix. Provides proton transfer
pathway (water channels) connecting the terminal quinone
electron acceptor of RC, to the aqueous phase. Found in
photosynthetic bacteria: alpha, beta, and gamma
proteobacteria.
Length = 246
Score = 28.2 bits (63), Expect = 8.9
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 168 EKFARYFEVELKEVKLEEGYYVMNPVKAVELVDENTICVAAILG 211
E+ RY EVEL G V+ P+ + V + + V AIL
Sbjct: 173 EQLFRYLEVELA----GGGRTVLLPMGFAK-VKSDRVKVTAILS 211
>gnl|CDD|227241 COG4904, COG4904, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 174
Score = 28.0 bits (62), Expect = 9.2
Identities = 22/81 (27%), Positives = 33/81 (40%), Gaps = 8/81 (9%)
Query: 419 VVVREDFSRSLVERLISHI-----EEVLKEIESLPSRVSTKTAHVIPMVNETQGDKPLKK 473
+ V+ F SL+ + EEV+K L SR ++ AH+IP T G PL
Sbjct: 91 LAVQLAFMSSLLREAAMALARDDREEVVK-YLKLQSRFAS--AHLIPTAKGTNGFTPLLT 147
Query: 474 SVRETQEEVTRHWKRFVKGRR 494
+ E E + + R
Sbjct: 148 ELTEYTNEDAKPLLVELISRL 168
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
0.318 0.134 0.399
Gapped
Lambda K H
0.267 0.0719 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 25,727,067
Number of extensions: 2548447
Number of successful extensions: 2600
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2556
Number of HSP's successfully gapped: 48
Length of query: 498
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 397
Effective length of database: 6,457,848
Effective search space: 2563765656
Effective search space used: 2563765656
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 (27.3 bits)