RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780503|ref|YP_003064916.1| putative glutamine synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(461 letters)
>gnl|CDD|161979 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.
Length = 460
Score = 258 bits (660), Expect = 3e-69
Identities = 134/469 (28%), Positives = 203/469 (43%), Gaps = 44/469 (9%)
Query: 18 EQAAKWLKDNRIEDVECITPDLAGIPRGKMMPSSKFISNIPLTVPSAIYRHTISGESLHS 77
E+ K +K+ ++ V+ D+ G P+ +P+S +I G
Sbjct: 1 EEVFKLIKEENVKFVDLRFTDIKGKPQHVEIPASALDKEA-FEEGIMFDGSSIRG----- 54
Query: 78 PYLFHNERDGDLRLSPDLSTLSIVPWEMDPTAQIVCDVVD-YNGKEVTYTPRNVLKRVLN 136
F + D+ L PD ST I PW + T +++CDV + + G+ PR++ KR
Sbjct: 55 ---FQGIEESDMLLKPDPSTAVIDPWRAEKTLRVICDVYEPFTGEPYERDPRSIAKRAEE 111
Query: 137 FYAQNE-LKPIIAPEIEFYL---IAKNEDPDYPLQPPKGRSGRSILGGQSYSIMG----- 187
+ PE EF+L + + GR +
Sbjct: 112 YLKSGIGDTAYFGPEPEFFLFDSVEFGSLANGSFYEVDSEEGRWNEESGNRGYKPRDKGG 171
Query: 188 ------INEFDEIIDDIWKFSEKQGLEIDTLIHEEGPAQFEINIRHGDPLKLADQVFLFK 241
+ +I ++ + E+ G +++ HE Q EI+ + LK AD + +K
Sbjct: 172 YFPVAPTDTAVDIRREMVLYLEQLGFDVEVHHHEVATGQHEIDFKFDTLLKTADDIQTYK 231
Query: 242 RTIREAAFKHDIYATFMAKPMQNYPGSAMHIHQSVLDIKSNQNIFSNPDG----SETDNF 297
++ A KH ATFM KP+ GS MH HQS+ K +N+F+ +G SET
Sbjct: 232 YVVKNVARKHGKTATFMPKPLFGDNGSGMHCHQSLW--KDGENLFAGEEGYAGLSETA-- 287
Query: 298 RYFIGGLQKYIPNALVMLAPYGNSYRRLVLDMGCPVNNAWGYDNRTTAFRIP-FSDAKTK 356
Y+IGG+ K+ P NSY+RLV PV A+ NR+ RIP + K K
Sbjct: 288 LYYIGGILKHAKALAAFTNPTVNSYKRLVPGYEAPVYLAYSARNRSALIRIPASGNPKAK 347
Query: 357 RIENRLPSSDTNPYLVLAASLACGLLGILQKIEPTPP--------TMKSANQEAI-NLPR 407
RIE R P NPYL AA L GL GI KI+P P + + ++ I LP
Sbjct: 348 RIEFRFPDPSANPYLAFAAMLMAGLDGIKNKIDPGEPVDKNLYELSPEELREKGIPQLPG 407
Query: 408 GLLEAV-TLLENTSHFKDIFGSQFIDMYANLKRNEFETFMQVISPWERE 455
L EA+ L + +FG +FI+ + LKR E++ + PWE E
Sbjct: 408 SLEEALDELESDHLVEGGVFGEEFIEAFIELKRKEWDPYRLRPHPWEFE 456
>gnl|CDD|163137 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 = 212 bits (543), Expect = 9e-56
Identities = 125/387 (32%), Positives = 185/387 (47%), Gaps = 28/387 (7%)
Query: 85 RDGDLRLSPDLSTLSIVPWEMDPTAQIVCDVVDYNGKEVTYTPRNVLKRVLNFYAQNELK 144
D DL PDL +L+ +PW+ A + D+ NGK PR VLKR L A+ L
Sbjct: 57 ADPDLMAIPDLDSLTQLPWQPG-VAWVAADLH-VNGKPYPQAPRVVLKRQLAEAAELGLT 114
Query: 145 PIIAPEIEFYLIAKNEDPDYPLQPPKGRSGRSILGGQSYSIMGINEFDEIIDDIWKFSEK 204
E EF+L+ ++ED L L Y G+ +++ +I
Sbjct: 115 LNTGVECEFFLLRRDEDGS--LSIA---DRADTLAKPCYDQRGLMRRYDVLTEISDAMNA 169
Query: 205 QGLEIDTLIHEEGPAQFEINIRHGDPLKLADQVFLFKRTIREAAFKHDIYATFMAKPMQN 264
G + HE+ QFE+N + D L AD+ F+ ++E A KH + ATFM KP +
Sbjct: 170 LGWDPYQNDHEDANGQFEMNFTYADALTTADRHAFFRYMVKEIAEKHGMRATFMPKPFAD 229
Query: 265 YPGSAMHIHQSVLDIKSNQNIFSNP-DGSE---TDNFRYFIGGLQKYIPNALVMLAPYGN 320
G+ H H S+ D + +N+F++ D + + +FIGG+ + P +LAP N
Sbjct: 230 LTGNGCHFHLSLWD-EDGRNLFADDSDPNGLGLSKLAYHFIGGILHHAPALCAVLAPTVN 288
Query: 321 SYRRLVLDMG------CPVNNAWGYDNRTTAFRIPFSDAKTKRIENRLPSSDTNPYLVLA 374
SY+RL P ++G +NRT RIP R E RL NPYL A
Sbjct: 289 SYKRLNAPRTTSGATWAPNFISYGGNNRTHMVRIP----DPGRFELRLADGAANPYLAQA 344
Query: 375 ASLACGLLGILQKIEPTPPTMKSANQEAIN------LPRGLLEAVTLLENTSHFKDIFGS 428
A LA GL GI +K++P PP + E + LP+ LLEA+ LE + G+
Sbjct: 345 AILAAGLDGIERKLDPGPPRDINLYAEELAARGVETLPQNLLEALRALEADPLLAEALGA 404
Query: 429 QFIDMYANLKRNEFETFMQVISPWERE 455
+F+D + LKR E+E + + +S WE +
Sbjct: 405 EFVDEFLKLKRQEWEEYHRHVSDWEID 431
>gnl|CDD|181884 PRK09469, glnA, glutamine synthetase; Provisional.
Length = 469
Score = 137 bits (346), Expect = 8e-33
Identities = 121/407 (29%), Positives = 176/407 (43%), Gaps = 46/407 (11%)
Query: 88 DLRLSPDLSTLSIVPWEMDPTAQIVCDVVDYNGKE-VTYTPRNVLKRVLNFYAQNELKP- 145
D+ L PD ST + P+ D T I CD+++ + PR++ KR ++ +
Sbjct: 65 DMVLMPDASTAVLDPFFEDSTLIIRCDILEPGTMQGYDRDPRSIAKRAEDYLRSTGIADT 124
Query: 146 -IIAPEIEFYLI---------------------AKNEDPDYPLQPPKGRSG-RSILGGQS 182
+ PE EF+L A N Y G G R + G
Sbjct: 125 VLFGPEPEFFLFDDIRFGSSISGSHVAIDDIEAAWNSGTKYE----GGNKGHRPGVKGGY 180
Query: 183 YSIMGINEFDEIIDDIWKFSEKQGLEIDTLIHEEGPA-QFEINIRHGDPLKLADQVFLFK 241
+ + ++ +I + E+ GL ++ HE A Q E+ R K AD++ ++K
Sbjct: 181 FPVPPVDSSQDIRSAMCLVMEEMGLVVEAHHHEVATAGQNEVATRFNTMTKKADEIQIYK 240
Query: 242 RTIREAAFKHDIYATFMAKPMQNYPGSAMHIHQSVLDIKSNQNIFSNPD-GSETDNFRYF 300
+ A ATFM KPM GS MH H S+ K+ N+F+ ++ Y+
Sbjct: 241 YVVHNVAHAFGKTATFMPKPMFGDNGSGMHCHMSL--SKNGVNLFAGDKYAGLSEQALYY 298
Query: 301 IGGLQKYIPNALVMLA-PYGNSYRRLVLDMGCPVNNAWGYDNRTTAFRIPF-SDAKTKRI 358
IGG+ K+ A+ LA P NSY+RLV PV A+ NR+ + RIP + K +RI
Sbjct: 299 IGGIIKH-AKAINALANPTTNSYKRLVPGYEAPVMLAYSARNRSASIRIPVVASPKARRI 357
Query: 359 ENRLPSSDTNPYLVLAASLACGLLGILQKIEPTPPTMKS----ANQEAINLPR---GLLE 411
E R P NPYL AA L GL GI KI P K+ +EA +P+ L E
Sbjct: 358 EVRFPDPAANPYLCFAALLMAGLDGIKNKIHPGEAMDKNLYDLPPEEAAEIPQVAGSLEE 417
Query: 412 AVTLLENTSHF---KDIFGSQFIDMYANLKRNEFETFMQVISPWERE 455
A+ L+ F +F ID Y L+R E + P E E
Sbjct: 418 ALNALDADREFLTAGGVFTDDAIDAYIALRREEVDRVRMTPHPVEFE 464
>gnl|CDD|177922 PLN02284, PLN02284, glutamine synthetase.
Length = 354
Score = 34.7 bits (80), Expect = 0.054
Identities = 48/193 (24%), Positives = 81/193 (41%), Gaps = 32/193 (16%)
Query: 193 EIIDDIWKFSEKQGLEIDTLIHEEGPAQFEINIRHGDPLKLADQV----FLFKRTIREAA 248
+I+D +K G+ I + E P Q+E + + DQ+ ++ +R I E A
Sbjct: 170 DIVDAHYKACLYAGINISGINGEVMPGQWEFQVGPVVGISAGDQLWVARYILER-ITEIA 228
Query: 249 FKHDIYATFMAKPMQ-NYPGSAMHIHQSVLDIKSNQNIFSNPDGSETDNFRYFIGGLQKY 307
+ +F KP+ ++ G+ H + S KS + G E + I L
Sbjct: 229 ---GVVVSFDPKPIPGDWNGAGAHTNYST---KSMRE----DGGYEV--IKKAIEKLGL- 275
Query: 308 IPNALVMLAPYG-NSYRRLVLDMG----CPVNN-AWGYDNRTTAFRIPFSDAKTKR--IE 359
+A YG + RRL G +N +WG NR + R+ K + E
Sbjct: 276 --RHKEHIAAYGEGNERRLT---GKHETADINTFSWGVANRGASIRVGRDTEKEGKGYFE 330
Query: 360 NRLPSSDTNPYLV 372
+R P+S+ +PY+V
Sbjct: 331 DRRPASNMDPYVV 343
>gnl|CDD|181415 PRK08412, flgL, flagellar hook-associated protein FlgL; Validated.
Length = 827
Score = 30.2 bits (68), Expect = 1.2
Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 108 TAQIVCDVVDYNGKEVTYTPRNVLKRV-LNFYAQNELKPIIA--PEIEFYLIAKNEDPD 163
+A V D++D G T +N + V LN + Q E+K + ++F+LI+ + D D
Sbjct: 272 SATKVSDLLDKIGHAYGNTSQNKVVDVSLNNWGQIEIKDLTPGSSNLDFHLISSDGDFD 330
>gnl|CDD|181841 PRK09421, modB, molybdate ABC transporter permease protein;
Reviewed.
Length = 229
Score = 29.5 bits (67), Expect = 2.1
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 15/64 (23%)
Query: 18 EQAAKWLKDNRIEDVECITPDLA--GIPRGKMMPSSK----------FISNIP---LTVP 62
EQAA+ L + IT L GI G ++ ++ F+SNIP T+P
Sbjct: 123 EQAARTLGASPWRVFFTITLPLTLPGIIAGTVLAFARSLGEFGATITFVSNIPGETQTIP 182
Query: 63 SAIY 66
SA+Y
Sbjct: 183 SAMY 186
>gnl|CDD|178603 PLN03036, PLN03036, glutamine synthetase; Provisional.
Length = 432
Score = 28.8 bits (64), Expect = 3.1
Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 336 AWGYDNRTTAFRIPFSDAKTKR--IENRLPSSDTNPYLVLA 374
+WG NR + R+ K + +E+R P+S+ +PY+V +
Sbjct: 365 SWGVANRGCSIRVGRDTEKKGKGYLEDRRPASNMDPYIVTS 405
>gnl|CDD|129414 TIGR00314, cdhA, CO dehydrogenase/acetyl-CoA synthase complex,
epsilon subunit. Acetyl-CoA decarbonylase/synthase
(ACDS) is a multienzyme complex. Carbon monoxide
dehydrogenase is a synonym. The ACDS complex carries out
an unusual reaction involving the reversible cleavage
and synthesis of acetyl-CoA in methanogens. The model
contains the prosite signature for 4Fe-4S ferredoxins
[C-x(2)-C-x(2)-C-x(3)-C-[PEG]] between residues 448-462
of the model.
Length = 784
Score = 28.7 bits (64), Expect = 3.2
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 313 VMLAPYGNSYRRLVLDMGCPVNNAWGYDNRT 343
V++ P+G+ YRR L YD +T
Sbjct: 636 VVVGPHGSKYRRAYLGRPWKKEKWKVYDIKT 666
>gnl|CDD|180857 PRK07135, dnaE, DNA polymerase III DnaE; Validated.
Length = 973
Score = 28.5 bits (64), Expect = 3.8
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 135 LNFYAQNELKPIIAPEIE-----FYLIAKN 159
+N +KPII ++E F L+AKN
Sbjct: 51 YKLCKKNNIKPIIGLDLEVENFRFILLAKN 80
>gnl|CDD|181797 PRK09358, PRK09358, adenosine deaminase; Provisional.
Length = 340
Score = 27.4 bits (62), Expect = 8.3
Identities = 12/45 (26%), Positives = 20/45 (44%), Gaps = 3/45 (6%)
Query: 392 PPTMKS-ANQEAINLPRGLLEAVTLLENTSHFKDIFGSQFIDMYA 435
P T+ A + I LP +E + + F+D+ F+D Y
Sbjct: 25 PETILELARRNGIALPATDVEELPWVRAAYDFRDLQ--SFLDKYD 67
>gnl|CDD|148856 pfam07485, DUF1529, Domain of Unknown Function (DUF1259). This
family is the lppY/lpqO homologue family.
Length = 123
Score = 27.2 bits (61), Expect = 8.8
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 13/49 (26%)
Query: 204 KQGLEIDTLIH----EEGPAQFEINIR-HGDPLKLADQVFLFKRTIREA 247
G+E+ T +H E P ++I GDP KLA R +REA
Sbjct: 79 ANGIEV-TALHNHWLFEQPRLMYMHIWGVGDPAKLA-------RKVREA 119
>gnl|CDD|131362 TIGR02309, HpaB-1, 4-hydroxyphenylacetate 3-monooxygenase,
oxygenase component. This gene for this monooxygenase
is found within apparent operons for the degradation of
4-hydroxyphenylacetic acid in Deinococcus, Thermus and
Oceanobacillus. Phylogenetic trees support inclusion of
the Bacillus halodurans sequence above trusted although
the complete 4-hydroxyphenylacetic acid degradation
pathway may not exist in that organism. Generally, this
enzyme acts with the assistance of a small flavin
reductase domain protein (HpaC) to provide the cycle the
flavin reductant for the reaction. This family of
sequences is a member of a larger subfamily of
monooxygenases (pfam03241).
Length = 477
Score = 27.2 bits (60), Expect = 9.3
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 231 LKLADQVFLFKRTIREAAFKHDIYATFMAKPMQNYPGSAMHIHQSVLDIKSNQNIFSNPD 290
+AD++ +F T+ +A + D YA A P N PG +++ S F +P
Sbjct: 189 FPIADEILIFPSTVLKAGAEKDPYALAFAIP-TNTPGLHFVCREALDGGDSP---FDHPL 244
Query: 291 GSETD 295
S +
Sbjct: 245 SSRFE 249
>gnl|CDD|183476 PRK12366, PRK12366, replication factor A; Reviewed.
Length = 637
Score = 27.3 bits (61), Expect = 9.5
Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 4/64 (6%)
Query: 105 MDPTAQIVCDVVDYNGKEVTYTPRNVLKRVLNFYAQNELKPIIAPEIEFYLIAKNEDPDY 164
D T I C N +++ + LK LN A L+ ++ E+ FY + +
Sbjct: 570 DDGTGTINCRFYGKNVEKLLGMSKEELKE-LNLEA---LEDLLGEEVVFYGNVSFRNEEL 625
Query: 165 PLQP 168
Sbjct: 626 RFNV 629
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.319 0.137 0.412
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,819,718
Number of extensions: 514415
Number of successful extensions: 1001
Number of sequences better than 10.0: 1
Number of HSP's gapped: 986
Number of HSP's successfully gapped: 23
Length of query: 461
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 364
Effective length of database: 3,898,497
Effective search space: 1419052908
Effective search space used: 1419052908
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 (21.7 bits)
S2: 59 (26.6 bits)