RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 014163
(429 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 = 673 bits (1738), Expect = 0.0
Identities = 242/385 (62%), Positives = 306/385 (79%), Gaps = 3/385 (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--SAHTVFEISEGLRKK 398
VAF LKD +T++++S LR++
Sbjct: 360 VAFKLKDDADPGYTLYDLSHRLRER 384
>gnl|CDD|215836 pfam00282, Pyridoxal_deC, Pyridoxal-dependent decarboxylase
conserved domain.
Length = 373
Score = 366 bits (942), Expect = e-125
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|223154 COG0076, GadB, Glutamate decarboxylase and related PLP-dependent
proteins [Amino acid transport and metabolism].
Length = 460
Score = 351 bits (903), Expect = e-118
Identities = 154/424 (36%), Positives = 219/424 (51%), Gaps = 17/424 (4%)
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 ILSKDVGVPLVAFSLKDSSAHTVFEISEGLRKKLNRFQVVYPQKLPMSYPWSTKLRVISH 425
+++ + +P+VAF LKD T+ ++SE L + ++ + T +
Sbjct: 366 LVN-EPELPIVAFRLKD-DEDTLADLSERLD-RRGWQVPAQLLPKGLAIVFGTHVTGRQG 422
Query: 426 LRRV 429
L+ +
Sbjct: 423 LKFI 426
>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 = 298 bits (765), Expect = 1e-98
Identities = 108/351 (30%), Positives = 158/351 (45%), Gaps = 57/351 (16%)
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--HTVFEISEGLRKK 398
A+ L E + FE+L + + LV F LK S +++S+ L ++
Sbjct: 256 LAKYLAELIRADPGFELL-GEPNLSLVCFRLKPSVKLDELNYDLSDRLNER 305
>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 = 145 bits (367), Expect = 2e-39
Identities = 105/331 (31%), Positives = 158/331 (47%), Gaps = 39/331 (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 KDVGVPLVAFSLKDSSAHTVFEISEGLRKKL 399
+ V + +VAF + D E +RKKL
Sbjct: 314 EPV-LNIVAFEVDD---------PEEVRKKL 334
>gnl|CDD|237409 PRK13520, PRK13520, L-tyrosine decarboxylase; Provisional.
Length = 371
Score = 143 bits (364), Expect = 5e-39
Identities = 104/312 (33%), Positives = 153/312 (49%), Gaps = 36/312 (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 TVFEISEGLRKK 398
E+ E LR++
Sbjct: 323 --DEVREKLRER 332
>gnl|CDD|235068 PRK02769, PRK02769, histidine decarboxylase; Provisional.
Length = 380
Score = 63.5 bits (155), Expect = 5e-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 = 3e-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 = 54.8 bits (132), Expect = 4e-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 = 3e-06
Identities = 66/311 (21%), Positives = 111/311 (35%), Gaps = 63/311 (20%)
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 FSLKDSSAHTV 388
F++K H V
Sbjct: 338 FNVKGIHPHDV 348
>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 = 0.038
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|185081 PRK15127, PRK15127, multidrug efflux system protein AcrB;
Provisional.
Length = 1049
Score = 30.6 bits (69), Expect = 1.9
Identities = 11/55 (20%), Positives = 28/55 (50%)
Query: 364 FEILSKDVGVPLVAFSLKDSSAHTVFEISEGLRKKLNRFQVVYPQKLPMSYPWST 418
++I+++ G P +K ++ + + +R +L + + +P L + YP+ T
Sbjct: 275 YDIIAEFNGQPASGLGIKLATGANALDTAAAIRAELAKMEPFFPSGLKIVYPYDT 329
>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 = 2.0
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|236491 PRK09377, tsf, elongation factor Ts; Provisional.
Length = 290
Score = 29.7 bits (68), Expect = 3.0
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|223342 COG0264, Tsf, Translation elongation factor Ts [Translation,
ribosomal structure and biogenesis].
Length = 296
Score = 28.4 bits (64), Expect = 6.7
Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 14/67 (20%)
Query: 142 QQKRKEQGKPYD-KPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYYVMNPVKAVE-LV 199
+ K +GKP + IV G + ++ EV L E +V +P K VE L+
Sbjct: 213 LAQLKAEGKPENIVEKIVEG--------RMNKFL----AEVCLLEQPFVKDPKKTVEQLL 260
Query: 200 DENTICV 206
E V
Sbjct: 261 KEANAKV 267
>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 = 7.1
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|189759 pfam00889, EF_TS, Elongation factor TS.
Length = 134
Score = 27.1 bits (61), Expect = 9.4
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 14/67 (20%)
Query: 138 KRKWQQKRKEQGKPYD-KPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYYVMNPVKAV 196
+ + + KE+GKP + IV G KF LKEV L E +V +P K V
Sbjct: 66 REILKAQAKEEGKPENIIEKIVEGR-----LNKF-------LKEVCLLEQPFVKDPKKTV 113
Query: 197 -ELVDEN 202
+L+ E
Sbjct: 114 GQLLKEA 120
>gnl|CDD|240144 cd05013, SIS_RpiR, RpiR-like protein. RpiR contains a SIS (Sugar
ISomerase) domain, which is found in many phosphosugar
isomerases and phosphosugar binding proteins. In E.
coli, rpiR negatively regulates the expression of rpiB
gene. Both rpiB and rpiA are ribose phosphate isomerases
that catalyze the reversible reactions of ribose
5-phosphate into ribulose 5-phosphate.
Length = 139
Score = 27.2 bits (61), Expect = 9.4
Identities = 10/22 (45%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 318 FSKGSSQIIAQY--YQFIRLGF 337
F GSS ++A+Y Y+ +RLG
Sbjct: 19 FGVGSSGLVAEYLAYKLLRLGK 40
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
0.319 0.135 0.406
Gapped
Lambda K H
0.267 0.0813 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,171,506
Number of extensions: 2177445
Number of successful extensions: 1804
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1766
Number of HSP's successfully gapped: 35
Length of query: 429
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 329
Effective length of database: 6,502,202
Effective search space: 2139224458
Effective search space used: 2139224458
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: 60 (26.7 bits)