RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 005411
(698 letters)
>gnl|CDD|223252 COG0174, GlnA, Glutamine synthetase [Amino acid transport and
metabolism].
Length = 443
Score = 225 bits (577), Expect = 1e-66
Identities = 89/299 (29%), Positives = 139/299 (46%), Gaps = 12/299 (4%)
Query: 399 KKSDAFESDVSLIRVIWVDASGQHRCRVVPVKRFNDIVTKYGVGLTFACMGMTSAVDGPA 458
E+ V + + + D +G R + +P ++ + + S++ G
Sbjct: 6 VLKLLKENGVKFVDLRFTDLNGVLRGKTIPAEKPVSV---LAQLFEGGVVFDGSSIAG-F 61
Query: 459 DGTNLSGTGEIRLMPDLSTRWRIPWQKQEE-MIMADMHLKPGEPWEYCPREALRKVSRLL 517
+G ++ L PDLST PW++ ++ D++ G P+ PR L++ L
Sbjct: 62 EGIG---ESDMVLKPDLSTLVVDPWREGPTARVLCDVYDPDGTPYPRDPRSVLKRALARL 118
Query: 518 KEEFNLVLNAGFEIEFYLLKSVLREGKEEWVPIDFTPYCSTAAYDAVSPVFQEVLADLHS 577
K+E G E+EF+L + P D Y A D ++++ L +
Sbjct: 119 KDEGLAPAVVGPELEFFLFDRD-GRDPDGGRPADKGGYFDVAPLDEAEDFRRDIVEALEA 177
Query: 578 LNISVEQLHAEAGKGQFEIALGHTVAAKAADNLIFTREVLRAVARKHGLLATFVPKFALD 637
I +E +H E GQFEI L A KAAD ++ + V++ VA KHGL ATF+PK
Sbjct: 178 AGIEIEAIHHEVAPGQFEINLRFDDALKAADQIVIFKYVVKEVAEKHGLTATFMPKPFFG 237
Query: 638 DIGSGSHVHLSLW-QNGENVFMASDSSSKHGMSSVGEKFMAGVLHHLSSILAFTAPVPN 695
D GSG HVH SLW ++G N+F D G+S F+ G+L H ++ A TAP N
Sbjct: 238 DNGSGMHVHQSLWDKDGGNLFA--DEDGYAGLSETALHFIGGILKHAPALTAITAPTVN 294
>gnl|CDD|215731 pfam00120, Gln-synt_C, Glutamine synthetase, catalytic domain.
Length = 259
Score = 192 bits (489), Expect = 3e-56
Identities = 70/206 (33%), Positives = 96/206 (46%), Gaps = 14/206 (6%)
Query: 503 EYCPREALRKVSRLLKEEFNLVLNAGFEIEFYLLKSVLREGKEEWV------PIDFTPYC 556
PR L++ L G E EF+L V G + Y
Sbjct: 1 PRDPRSILKRALARLASL-GYTPYFGPEQEFFLFDDVRPGGGPPPGGYPDPRGPYYGGYF 59
Query: 557 STAAYDAVSPVFQEVLADLHSLNISVEQLHAEAGKGQFEIALGHTVAAKAADNLIFTREV 616
A D + ++++ L + I VE +H E GQ EI L A +AADNL + V
Sbjct: 60 PVAPLDEARDIRRDIVKALEAAGIPVEGIHHEVAPGQHEIDLRFADALEAADNLQLFKYV 119
Query: 617 LRAVARKHGLLATFVPKFALDDIGSGSHVHLSLW--QNGENVFMASDSSSKHGMSSVGEK 674
++ VA KHGL ATF+PK D GSG H H SLW ++G+N+F +D G+S
Sbjct: 120 VKRVAEKHGLTATFMPKPIFGDNGSGMHTHQSLWDRKDGKNLF--ADGDGYAGLSETARH 177
Query: 675 FMAGVLHHLSSILAFTAPVPN---RL 697
F+ G+L H +I A+TAP N RL
Sbjct: 178 FIGGILKHAPAITAYTAPTVNSYKRL 203
>gnl|CDD|234109 TIGR03105, gln_synth_III, glutamine synthetase, type III. This
family consists of the type III isozyme of glutamine
synthetase, originally described in Rhizobium meliloti,
where types I and II also occur.
Length = 435
Score = 158 bits (402), Expect = 3e-42
Identities = 88/300 (29%), Positives = 139/300 (46%), Gaps = 27/300 (9%)
Query: 405 ESDVSLIRVIWVDASGQHRCRVVPVKRFNDIVTKYGVGLT-FA--CMGMTSAVDGPADGT 461
+ + +VD G + ++VP + + + T G G FA +G + PAD
Sbjct: 7 DKGIKYFLASFVDLHGVQKAKLVPAEAIDHMATG-GAGFAGFAAWGLGQS-----PADP- 59
Query: 462 NLSGTGEIRLMPDLSTRWRIPWQKQEEMIMADMHLKPGEPWEYCPREALRKVSRLLKEEF 521
++ +PDL + ++PWQ + AD+H+ G+P+ PR L++ E
Sbjct: 60 ------DLMAIPDLDSLTQLPWQPGVAWVAADLHVN-GKPYPQAPRVVLKRQLAEAAEL- 111
Query: 522 NLVLNAGFEIEFYLLKSVLREGKEEWVPIDFTPYCSTAAYDAVS-----PVFQEVLADLH 576
L LN G E EF+LL+ R+ D + YD V E+ ++
Sbjct: 112 GLTLNTGVECEFFLLR---RDEDGSLSIADRADTLAKPCYDQRGLMRRYDVLTEISDAMN 168
Query: 577 SLNISVEQLHAEAGKGQFEIALGHTVAAKAADNLIFTREVLRAVARKHGLLATFVPKFAL 636
+L Q E GQFE+ + A AD F R +++ +A KHG+ ATF+PK
Sbjct: 169 ALGWDPYQNDHEDANGQFEMNFTYADALTTADRHAFFRYMVKEIAEKHGMRATFMPKPFA 228
Query: 637 DDIGSGSHVHLSLW-QNGENVFMASDSSSKHGMSSVGEKFMAGVLHHLSSILAFTAPVPN 695
D G+G H HLSLW ++G N+F + G+S + F+ G+LHH ++ A AP N
Sbjct: 229 DLTGNGCHFHLSLWDEDGRNLFADDSDPNGLGLSKLAYHFIGGILHHAPALCAVLAPTVN 288
>gnl|CDD|233073 TIGR00653, GlnA, glutamine synthetase, type I. Alternate name:
glutamate--ammonia ligase. This model represents the
dodecameric form, which can be subdivided into 1-alpha
and 1-beta forms. The phylogeny of the 1-alpha and
1-beta forms appears polyphyletic. E. coli,
Synechocystis PCC6803, Aquifex aeolicus, and the
crenarcheon Sulfolobus acidocaldarius have form 1-beta,
while Bacillus subtilis, Thermotoga maritima, and
various euryarchaea has form 1-alpha. The 1-beta
dodecamer from the crenarcheon Sulfolobus acidocaldarius
differs from that in E. coli in that it is not regulated
by adenylylation [Amino acid biosynthesis, Glutamate
family].
Length = 459
Score = 156 bits (396), Expect = 3e-41
Identities = 89/320 (27%), Positives = 136/320 (42%), Gaps = 48/320 (15%)
Query: 405 ESDVSLIRVIWVDASGQHRCRVVPVKRFNDIVTKYGVGLTFACMGMTSAVDGPADGTNLS 464
E +V + + + D G+ + +P + + G+ DG+++
Sbjct: 9 EENVKFVDLRFTDIKGKPQHVEIPASALDKEAFEEGIMF---------------DGSSIR 53
Query: 465 GTGEIR-----LMPDLSTRWRIPWQKQEEMIM-ADMHLKP--GEPWEYCPREALRKVSRL 516
G I L PD ST PW+ ++ + + D++ +P GEP+E PR ++
Sbjct: 54 GFQGIEESDMLLKPDPSTAVIDPWRAEKTLRVICDVY-EPFTGEPYERDPRSIAKRAEEY 112
Query: 517 LKEEFNLVLNAGFEIEFYLLKSV---------------------LREGKEEWVPIDFTPY 555
LK G E EF+L SV G + P D Y
Sbjct: 113 LKSGIGDTAYFGPEPEFFLFDSVEFGSLANGSFYEVDSEEGRWNEESGNRGYKPRDKGGY 172
Query: 556 CSTAAYDAVSPVFQEVLADLHSLNISVEQLHAEAGKGQFEIALGHTVAAKAADNLIFTRE 615
A D + +E++ L L VE H E GQ EI K AD++ +
Sbjct: 173 FPVAPTDTAVDIRREMVLYLEQLGFDVEVHHHEVATGQHEIDFKFDTLLKTADDIQTYKY 232
Query: 616 VLRAVARKHGLLATFVPKFALDDIGSGSHVHLSLWQNGENVFMASDSSSKHGMSSVGEKF 675
V++ VARKHG ATF+PK D GSG H H SLW++GEN+F + + G+S +
Sbjct: 233 VVKNVARKHGKTATFMPKPLFGDNGSGMHCHQSLWKDGENLFAGEEYA---GLSETALYY 289
Query: 676 MAGVLHHLSSILAFTAPVPN 695
+ G+L H ++ AFT P N
Sbjct: 290 IGGILKHAKALAAFTNPTVN 309
>gnl|CDD|218322 pfam04909, Amidohydro_2, Amidohydrolase. These proteins are
amidohydrolases that are related to pfam01979.
Length = 272
Score = 95.0 bits (236), Expect = 1e-21
Identities = 41/166 (24%), Positives = 63/166 (37%), Gaps = 21/166 (12%)
Query: 220 LEVAQFLDLPLQIHTGFGDKDLDLRLSNPLHLRAILEDKRFSKCRFVLLHASYPFSKEAS 279
E L LP+ +HTGFGD DL + PL L + RF + VL H P+ E
Sbjct: 123 FEALAELGLPVDLHTGFGDAGEDLDAAQPLLLSGLAR--RFPDLKIVLDHGGGPWIPEGL 180
Query: 280 --YLAYVYPQVYLDFGLAIPK---LSVQGMISSIKELLELAPTKKVMFSTDAYASPETYF 334
L P VY+ + S ++ EL+E +++F +D P
Sbjct: 181 RLALLARRPNVYVKLSGLGRRSGFDSPAADPPALAELIEAFGPDRILFGSDYPHPPLERP 240
Query: 335 LGAKRAREVVFSVLRDTCIDEDLSVGEAIEVAKDIFALNAAQFYKI 380
L A +++ + E + I NAA+ Y +
Sbjct: 241 LAALDLLDLLD--------------ALSEEEREKILGGNAARLYGL 272
>gnl|CDD|225070 COG2159, COG2159, Predicted metal-dependent hydrolase of the
TIM-barrel fold [General function prediction only].
Length = 293
Score = 76.3 bits (188), Expect = 4e-15
Identities = 47/165 (28%), Positives = 72/165 (43%), Gaps = 28/165 (16%)
Query: 220 LEVAQFLDLPLQIHTGFGDKDLDLRL--SNPLHLRAILEDKRFSKCRFVLLHA--SYPFS 275
E A+ L +P+ IHTG G L S+PL+L + ++F + + VL H YP+
Sbjct: 150 YEAAEELGVPVVIHTGAGPGGAGLEKGHSDPLYLDDVA--RKFPELKIVLGHMGEDYPWE 207
Query: 276 KEASYLAYVYPQVYLDFGLAIPKLSVQGMISSIKELLELAPTKKVMFSTDAYASPETYFL 335
EA LAY +P VYLD PK ++ +KEL K++F +D P +
Sbjct: 208 LEAIELAYAHPNVYLDTSGVRPKYFAPPLLEFLKELGP----DKILFGSD---YPAIHPE 260
Query: 336 GAKRAREVVFSVLRDTCIDEDLSVGEAIEVAKDIFALNAAQFYKI 380
+ E +G + EV + I NAA+ +
Sbjct: 261 VW---------------LAELDELGLSEEVKEKILGENAARLLGL 290
>gnl|CDD|181884 PRK09469, glnA, glutamine synthetase; Provisional.
Length = 469
Score = 71.7 bits (176), Expect = 4e-13
Identities = 43/115 (37%), Positives = 58/115 (50%), Gaps = 4/115 (3%)
Query: 582 VEQLHAE-AGKGQFEIALGHTVAAKAADNLIFTREVLRAVARKHGLLATFVPKFALDDIG 640
VE H E A GQ E+A K AD + + V+ VA G ATF+PK D G
Sbjct: 207 VEAHHHEVATAGQNEVATRFNTMTKKADEIQIYKYVVHNVAHAFGKTATFMPKPMFGDNG 266
Query: 641 SGSHVHLSLWQNGENVFMASDSSSKHGMSSVGEKFMAGVLHHLSSILAFTAPVPN 695
SG H H+SL +NG N+F A D + G+S ++ G++ H +I A P N
Sbjct: 267 SGMHCHMSLSKNGVNLF-AGDKYA--GLSEQALYYIGGIIKHAKAINALANPTTN 318
>gnl|CDD|226477 COG3968, COG3968, Uncharacterized protein related to glutamine
synthetase [General function prediction only].
Length = 724
Score = 56.5 bits (136), Expect = 3e-08
Identities = 33/104 (31%), Positives = 47/104 (45%), Gaps = 1/104 (0%)
Query: 562 DAVSPVFQEVLADLHSLNISVEQLHAEAGKGQFEIALGHTVAAKAADNLIFTREVLRAVA 621
+ VS ++V +L++L I + H E GQFEIA A D+ EVL+ A
Sbjct: 266 ERVSAFMKDVEKELYALGIPAKTRHNEVAPGQFEIAPIFESGNLATDHQQLVMEVLKKTA 325
Query: 622 RKHGLLATFVPKFALDDIGSGSHVHLSLWQN-GENVFMASDSSS 664
KHGL+ K GSG H + S+ + G N+ D
Sbjct: 326 LKHGLVCLLHEKPFAGINGSGKHNNWSMGTDDGLNLLDPGDMPH 369
>gnl|CDD|177922 PLN02284, PLN02284, glutamine synthetase.
Length = 354
Score = 38.9 bits (91), Expect = 0.006
Identities = 47/182 (25%), Positives = 72/182 (39%), Gaps = 39/182 (21%)
Query: 489 MIMADMHLKPGEPWEYCPREALRKV---SRLLKEE--FNLVLNAGFEIEFYLLKSVLREG 543
++M D + GEP R K+ + EE + G E E+ LL+ ++
Sbjct: 89 LVMCDAYTPAGEPIPTNKRAKAAKIFSHPDVAAEEPWY------GIEQEYTLLQKDVK-- 140
Query: 544 KEEWV---PIDFTP------YCSTAAYDAVSPVFQEVLADLH-------SLNISVEQLHA 587
W P+ P YC A A F + D H +NIS ++
Sbjct: 141 ---WPLGWPVGGYPGPQGPYYCGVGADKA----FGRDIVDAHYKACLYAGINIS--GING 191
Query: 588 EAGKGQFEIALGHTVAAKAADNLIFTREVLRAVARKHGLLATFVPK-FALDDIGSGSHVH 646
E GQ+E +G V A D L R +L + G++ +F PK D G+G+H +
Sbjct: 192 EVMPGQWEFQVGPVVGISAGDQLWVARYILERITEIAGVVVSFDPKPIPGDWNGAGAHTN 251
Query: 647 LS 648
S
Sbjct: 252 YS 253
>gnl|CDD|216250 pfam01026, TatD_DNase, TatD related DNase. This family of proteins
are related to a large superfamily of metalloenzymes.
TatD, a member of this family has been shown
experimentally to be a DNase enzyme.
Length = 255
Score = 37.6 bits (88), Expect = 0.015
Identities = 33/122 (27%), Positives = 54/122 (44%), Gaps = 22/122 (18%)
Query: 215 IFISSLEVAQFLDLPLQIHTGFGDKDLDLRLSNPLHLRAILEDKRFSKCRFVLLHASYPF 274
+F LE+A+ LDLP+ IHT ++D L IL++ R V LH +
Sbjct: 112 VFRRQLELAKELDLPVVIHTRDAEED----------LLEILKEAGAPGLRVV-LH-CFTG 159
Query: 275 SKEASYLAYVYPQVYLDFG--LAIPKLSVQGMISSIKELLELAPTKKVMFSTDA-YASPE 331
S E + LD G ++I + ++E++ P +++ TDA Y +P
Sbjct: 160 SLE-------TAKEILDLGFYISISGIVTFKNAKKLREVVAEIPLDRLLVETDAPYLAPV 212
Query: 332 TY 333
Y
Sbjct: 213 PY 214
>gnl|CDD|182623 PRK10657, PRK10657, isoaspartyl dipeptidase; Provisional.
Length = 388
Score = 34.8 bits (81), Expect = 0.15
Identities = 23/103 (22%), Positives = 43/103 (41%), Gaps = 14/103 (13%)
Query: 289 YLDFGLAIPKLSVQGMIS---SIKELLELA-PTKKVMFSTDAYASPETY-----FLGAKR 339
+D + P +G ++ ++K LE P +V S+D S + +G
Sbjct: 245 VIDLTTSDPDFLGEGEVAPAEALKRALEAGVPLSRVTLSSDGNGSLPKFDEDGNLVGLGV 304
Query: 340 AR-EVVFSVLRDTCIDEDLSVGEAIEVAKDIFALNAAQFYKIN 381
E + +R+ DE L + +A++ N A+F K+N
Sbjct: 305 GSVESLLEEVRELVKDEGLPLEDALKP----LTSNVARFLKLN 343
>gnl|CDD|178603 PLN03036, PLN03036, glutamine synthetase; Provisional.
Length = 432
Score = 33.4 bits (76), Expect = 0.45
Identities = 41/177 (23%), Positives = 73/177 (41%), Gaps = 29/177 (16%)
Query: 489 MIMADMHLKPGEPWEYCPREALRKVSRLL--KEEFNLVLNAGFEIEFYLLKSVLREGKEE 546
+++ D + GEP P + + + K+ + V G E E+ LL+ ++
Sbjct: 149 LVICDTYTPAGEP---IPTNKRHRAAEIFSNKKVVDEVPWFGIEQEYTLLQQNVK----- 200
Query: 547 WV---PIDFTP------YCSTAAYDAVSPVFQEVLADLHS-----LNISVEQLHAEAGKG 592
W P+ P YC A F ++D H I++ + E G
Sbjct: 201 WPLGWPVGAYPGPQGPYYCGAGA----DKSFGRDISDAHYKACLYAGINISGTNGEVMPG 256
Query: 593 QFEIALGHTVAAKAADNLIFTREVLRAVARKHGLLATFVPKFALDDI-GSGSHVHLS 648
Q+E +G +V A D++ +R +L + + G++ T PK D G+G H + S
Sbjct: 257 QWEYQVGPSVGIDAGDHIWCSRYILERITEQAGVVLTLDPKPIEGDWNGAGCHTNYS 313
>gnl|CDD|217811 pfam03951, Gln-synt_N, Glutamine synthetase, beta-Grasp domain.
Length = 84
Score = 29.8 bits (68), Expect = 0.97
Identities = 17/87 (19%), Positives = 31/87 (35%), Gaps = 22/87 (25%)
Query: 407 DVSLIRVIWVDASG-QHRCRVVPVKRFNDIVTKYGVGLTFACMGMTSAVDGPADGTNLSG 465
V + + + D G R+ P ++ + G+G DG+++ G
Sbjct: 1 GVKFVDLRFTDILGRLKHVRI-PATELDEDAFEEGIGF---------------DGSSIEG 44
Query: 466 TGEIR-----LMPDLSTRWRIPWQKQE 487
I L PD ST + P++
Sbjct: 45 FAPINESDMYLKPDPSTAYIDPFRPDP 71
>gnl|CDD|223162 COG0084, TatD, Mg-dependent DNase [DNA replication, recombination,
and repair].
Length = 256
Score = 31.4 bits (72), Expect = 1.4
Identities = 31/125 (24%), Positives = 54/125 (43%), Gaps = 29/125 (23%)
Query: 215 IFISSLEVAQFLDLPLQIHTGFGDKDLDLRLSNPLHLRAILEDKRFSKCRFVLLHASYPF 274
+F + LE+A+ L+LP+ IHT +D IL+++ V LH +
Sbjct: 113 VFEAQLELAKELNLPVIIHTRDAHED----------TLEILKEEGAP-VGGV-LH-CFSG 159
Query: 275 SKEASYLAYVYPQVYLDFGLAIPKLSVQGMI-----SSIKELLELAPTKKVMFSTDA-YA 328
S E + LD G +S+ G++ ++E+ P +++ TDA Y
Sbjct: 160 SAE-------EARKLLDLGF---YISISGIVTFKNAEKLREVARELPLDRLLLETDAPYL 209
Query: 329 SPETY 333
+P Y
Sbjct: 210 APVPY 214
>gnl|CDD|234303 TIGR03666, Rv2061_F420, PPOX class probable F420-dependent enzyme,
Rv2061 family. A Genome Properties metabolic
reconstruction for F420 biosynthesis shows that slightly
over 10 percent of all prokaryotes with fully sequenced
genomes, including about two thirds of the
Actinomycetales, make F420. A variant of the Partial
Phylogenetic Profiling algorithm, SIMBAL, shows that
this protein likely binds F420 in a cleft similar to
that in which the homologous enzyme pyridoxamine
phosphate oxidase (PPOX) binds FMN [Unknown function,
Enzymes of unknown specificity].
Length = 132
Score = 30.4 bits (69), Expect = 1.4
Identities = 11/37 (29%), Positives = 16/37 (43%)
Query: 613 TREVLRAVARKHGLLATFVPKFALDDIGSGSHVHLSL 649
T +AR++GL P F+ G +V L L
Sbjct: 88 TARARDLLARRYGLQGRLFPLFSKLRRGRDRNVGLEL 124
>gnl|CDD|237229 PRK12848, ubiA, 4-hydroxybenzoate octaprenyltransferase; Reviewed.
Length = 282
Score = 31.0 bits (71), Expect = 2.0
Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 6/34 (17%)
Query: 266 VLLHASYPFSKEASYLAYVYPQVYLD--FGLAIP 297
+ L YPF K ++L PQV L FG IP
Sbjct: 121 LALAWIYPFMKRYTHL----PQVVLGAAFGWGIP 150
>gnl|CDD|238617 cd01292, metallo-dependent_hydrolases, Superfamily of
metallo-dependent hydrolases (also called amidohydrolase
superfamily) is a large group of proteins that show
conservation in their 3-dimensional fold (TIM barrel)
and in details of their active site. The vast majority
of the members have a conserved metal binding site,
involving four histidines and one aspartic acid residue.
In the common reaction mechanism, the metal ion (or
ions) deprotonate a water molecule for a nucleophilic
attack on the substrate. The family includes urease
alpha, adenosine deaminase, phosphotriesterase
dihydroorotases, allantoinases, hydantoinases, AMP-,
adenine and cytosine deaminases, imidazolonepropionase,
aryldialkylphosphatase, chlorohydrolases,
formylmethanofuran dehydrogenases and others.
Length = 275
Score = 30.8 bits (69), Expect = 2.0
Identities = 47/253 (18%), Positives = 78/253 (30%), Gaps = 39/253 (15%)
Query: 135 ILDQASPDGSIWTLDVFIETFLKQLRSAANKIVGLKSIAAYRSGLEINPHVTKKDAEEGL 194
++D S T + + AA G++ + G+ P +DAE L
Sbjct: 52 VVDMGSTPPPTTTKAAI-----EAVAEAARASAGIRVVLGL--GIPGVPAAVDEDAEALL 104
Query: 195 AEDLRSGKPVRI---------TNKSLIDYIFISSLEVAQFLDLPLQIHTGFGDKDLDLRL 245
E LR G + T L D LE A+ L LP+ IH G
Sbjct: 105 LELLRRGLELGAVGLKLAGPYTATGLSDESLRRVLEEARKLGLPVVIHAGELPDPTR--- 161
Query: 246 SNPLHLRAILEDKRFSKCRFVLLHASYPFSKEASYLAYVYPQVYLDFGLAIPKLSVQGMI 305
+ + + H S+ + L + +
Sbjct: 162 ---ALEDLVALLRLGGRVVIG--HVSHLDPELLELLKEAGVSLEVCPLSNYLLGRDGEGA 216
Query: 306 SSIKELLELAPTKKVMFSTD-AYASPETYFLGAKRAREVVFSVLRDTCIDEDLSVGEAIE 364
+++ LLEL +V TD T L R + + L +G ++E
Sbjct: 217 EALRRLLELGI--RVTLGTDGPPHPLGTDLLALLRL------------LLKVLRLGLSLE 262
Query: 365 VAKDIFALNAAQF 377
A + +N A+
Sbjct: 263 EALRLATINPARA 275
>gnl|CDD|218343 pfam04950, DUF663, Protein of unknown function (DUF663). This
family contains several uncharacterized eukaryotic
proteins.
Length = 293
Score = 30.4 bits (69), Expect = 2.8
Identities = 13/64 (20%), Positives = 27/64 (42%), Gaps = 10/64 (15%)
Query: 200 SGKPVRI-TNKSLIDYIFISSLEVAQFLDLPLQIHTGFGDKDLDLRLSNPL----HLRAI 254
+G P +I + + Y+F + +V F P+ + T G + + L + +A
Sbjct: 220 TGHPYKIFKKTAFVRYMFFNPEDVEWF--KPVPLFTKSGRRG---HIKEALGTHGYFKAT 274
Query: 255 LEDK 258
+ K
Sbjct: 275 FDGK 278
>gnl|CDD|238635 cd01310, TatD_DNAse, TatD like proteins; E.coli TatD is a
cytoplasmic protein, shown to have magnesium dependent
DNase activity.
Length = 251
Score = 30.2 bits (69), Expect = 2.9
Identities = 28/125 (22%), Positives = 58/125 (46%), Gaps = 29/125 (23%)
Query: 215 IFISSLEVAQFLDLPLQIHTGFGDKDLDLRLSNPLHLRAILEDKRFSKCRFVLLHASYPF 274
+F + LE+A+ L+LP+ IH+ +D + IL K + + + H +
Sbjct: 109 VFRAQLELAKELNLPVVIHSRDAHED----------VLEIL--KEYGPPKRGVFH-CFSG 155
Query: 275 SKEASYLAYVYPQVYLDFGLAIPKLSVQGMIS-----SIKELLELAPTKKVMFSTDA-YA 328
S E + LD G I S+ G+++ ++E+++ P ++++ TD+ Y
Sbjct: 156 SAE-------EAKELLDLGFYI---SISGIVTFKNANELREVVKEIPLERLLLETDSPYL 205
Query: 329 SPETY 333
+P +
Sbjct: 206 APVPF 210
>gnl|CDD|235278 PRK04311, PRK04311, selenocysteine synthase; Provisional.
Length = 464
Score = 29.8 bits (68), Expect = 5.4
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 11/43 (25%)
Query: 612 FTREV----LRAVARKHGLLATFVPKFALDDIGSGSHVHLSLW 650
FT+EV L A+ ++HGL + D+GSGS V LS +
Sbjct: 233 FTKEVSLAELAALGKEHGLPV-------VYDLGSGSLVDLSQY 268
>gnl|CDD|238640 cd01315, L-HYD_ALN, L-Hydantoinases (L-HYDs) and Allantoinase
(ALN); L-Hydantoinases are a member of the
dihydropyrimidinase family, which catalyzes the
reversible hydrolytic ring opening of dihydropyrimidines
and hydantoins (five-membered cyclic diamides used in
biotechnology). But L-HYDs differ by having an L-enantio
specificity and by lacking activity on possible natural
substrates such as dihydropyrimidines. Allantoinase
catalyzes the hydrolytic cleavage of the five-member
ring of allantoin (5-ureidohydantoin) to form allantoic
acid.
Length = 447
Score = 29.6 bits (67), Expect = 6.7
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 156 LKQLRSAANK-IVGLKSIAAYRSGLEINPHVTKKDAEEGLAEDLRSGKPV 204
L QLR +VG K SG++ P V + EE + E ++G +
Sbjct: 130 LDQLRPLDEAGVVGFKCFLC-PSGVDEFPAVDDEQLEEAMKELAKTGSVL 178
>gnl|CDD|212538 cd11592, Agmatinase_PAH, Agmatinase-like family includes
proclavaminic acid amidinohydrolase. This agmatinase
subfamily contains bacterial and fungal/metazoan
enzymes, including proclavaminic acid amidinohydrolase
(PAH, EC 3.5.3.22) and Pseudomonas aeruginosa
guanidinobutyrase (GbuA) and guanidinopropionase (GpuA).
PAH hydrolyzes amidinoproclavaminate to yield
proclavaminate and urea in clavulanic acid biosynthesis.
Clavulanic acid is an effective inhibitor of
beta-lactamases and is used in combination with
amoxicillin to prevent the beta-lactam rings of the
antibiotic from hydrolysis and, thus keeping the
antibiotic biologically active. GbuA hydrolyzes
4-guanidinobutyrate (4-GB) into 4-aminobutyrate and urea
while GpuA hydrolyzes 3-guanidinopropionate (3-GP) into
beta-alanine and urea. Mutation studies show that
significant variations in two active site loops in these
two enzymes may be important for substrate specificity.
This subfamily belongs to the ureohydrolase superfamily,
which includes arginase, agmatinase, proclavaminate
amidinohydrolase, and formiminoglutamase.
Length = 289
Score = 29.4 bits (67), Expect = 6.9
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 16/61 (26%)
Query: 574 DLHSLNISVEQLHAEAGK----GQFEIALG--HTVAAKAADNLIFTREVLRAVARKHGLL 627
+ ++EQ+ G + LG H++ T +LRA+A+KHG +
Sbjct: 76 TPGDIEDALEQIEEAYRAILAAGPRPLTLGGDHSI----------TLPILRALAKKHGPV 125
Query: 628 A 628
A
Sbjct: 126 A 126
>gnl|CDD|232992 TIGR00474, selA, seryl-tRNA(sec) selenium transferase. In
bacteria, the incorporation of selenocysteine as the
21st amino acid, encoded by TGA, requires several
elements: SelC is the tRNA itself, SelD acts as a donor
of reduced selenium, SelA modifies a serine residue on
SelC into selenocysteine, and SelB is a
selenocysteine-specific translation elongation factor.
3-prime or 5-prime non-coding elements of mRNA have been
found as probable structures for directing
selenocysteine incorporation. This model describes SelA.
This model excludes homologs that appear to differ in
function from Frankia alni, Helicobacter pylori,
Methanococcus jannaschii and other archaea, and so on
[Protein synthesis, tRNA aminoacylation].
Length = 454
Score = 29.5 bits (67), Expect = 7.3
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 11/43 (25%)
Query: 612 FTREV----LRAVARKHGLLATFVPKFALDDIGSGSHVHLSLW 650
FT EV L A+ R+HGL ++D+GSGS V LS +
Sbjct: 228 FTEEVSIAELVALGREHGLPV-------MEDLGSGSLVDLSRY 263
>gnl|CDD|184232 PRK13675, PRK13675, GTP cyclohydrolase; Provisional.
Length = 308
Score = 29.1 bits (66), Expect = 7.5
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 202 KPVRITNKSLIDYIFISSLEVAQFLDLP 229
K V+I K + I + EV F+DLP
Sbjct: 28 KLVKIKRKGKRPIVLIPTFEV--FVDLP 53
>gnl|CDD|233691 TIGR02027, rpoA, DNA-directed RNA polymerase, alpha subunit,
bacterial and chloroplast-type. This family consists of
the bacterial (and chloroplast) DNA-directed RNA
polymerase alpha subunit, encoded by the rpoA gene. The
RNA polymerase catalyzes the transcription of DNA into
RNA using the four ribonucleoside triphosphates as
substrates. The amino terminal domain is involved in
dimerizing and assembling the other RNA polymerase
subunits into a transcriptionally active enzyme. The
carboxy-terminal domain contains determinants for
interaction with DNA and with transcriptional activator
proteins [Transcription, DNA-dependent RNA polymerase].
Length = 297
Score = 28.8 bits (65), Expect = 9.0
Identities = 18/80 (22%), Positives = 31/80 (38%), Gaps = 27/80 (33%)
Query: 506 PREALRKVSRLLKEEFNLVLNAGFEIEFYLLKSVLREGKEEWVPIDFTPYCSTAAYDAVS 565
P++A+ + +++L E +N EIE E +EE
Sbjct: 188 PKDAIAEAAKILIEHLEPFVNLDEEIE------AFEEEQEE------------------- 222
Query: 566 PVFQEVLADLHSLNISVEQL 585
+E L D L+I +E+L
Sbjct: 223 --EEEELEDAKLLSIKIEEL 240
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 0.136 0.397
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 36,426,901
Number of extensions: 3700046
Number of successful extensions: 3379
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3353
Number of HSP's successfully gapped: 44
Length of query: 698
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 594
Effective length of database: 6,324,786
Effective search space: 3756922884
Effective search space used: 3756922884
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: 62 (27.6 bits)