RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780191|ref|YP_003064604.1| alanyl-tRNA synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(898 letters)
>gnl|CDD|30363 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 988 bits (2557), Expect = 0.0
Identities = 432/911 (47%), Positives = 583/911 (63%), Gaps = 51/911 (5%)
Query: 1 MSNVSSIRTTFLEFFQKNGHELLPSSSLIPCNDPTLMFTNSGMVPFKNIFTGQEKPVYQA 60
+ IR FL+FF+K GH ++PSS L+P NDPTL+FTN+GMV FK FTG P
Sbjct: 5 KLTTNEIRQKFLDFFEKKGHTVVPSSPLVPRNDPTLLFTNAGMVQFKPYFTGGVTPPANR 64
Query: 61 VTTVQKCVRAGGKHNDLDNVGRTNRHHTFFEMLGNFSFGGYFKERAIQLAWDLLTKEFDL 120
T QKC+R ND+DNVG T RHHTFFEMLGNFSFG YFKE AI+ AW+ LTK L
Sbjct: 65 AVTSQKCIRT----NDIDNVGYTARHHTFFEMLGNFSFGDYFKEEAIEFAWEFLTKVLGL 120
Query: 121 DQRRLYITVYDEDEEAFKLWKKISGLSADKIIRITTNDNFWSMAETGPCGPCSEIFFDQG 180
+ +LY+TVY++D+EA+ W+KI G+ ++IIRI +DNFW M GPCGPCSEIF+D+G
Sbjct: 121 PKEKLYVTVYEDDDEAYNEWEKIIGIPPERIIRIGASDNFWEMG-DGPCGPCSEIFYDRG 179
Query: 181 ECIPGGLPGS-SEEGERYIEIWNLVFMQFEQQNKQERFI-LPKMSIDTGMGLERMATVLQ 238
E I GG PGS E+G+RY+EIWNLVFMQ+ + + LPK +IDTGMGLER+A VLQ
Sbjct: 180 EEIGGGPPGSPDEDGDRYLEIWNLVFMQYNRDPGDGNYTPLPKKNIDTGMGLERIAAVLQ 239
Query: 239 EKTNNYDIDLFKHLIQASEQVTGMKYEGNN---IVNHRVIVDHLRSSSFLIADGILPANE 295
NYD DLF+ +I+A E++TG KY + V+ RVI DH+RS +F+IADG+LP+NE
Sbjct: 240 GVPTNYDTDLFRPIIKAIEKLTGKKYGEDEEDPDVSFRVIADHIRSLAFMIADGVLPSNE 299
Query: 296 GRGYVLRRIMRRAMCYARLLGYTEPLMMHLLPALCTEMGSAYPELIQAKLLIEETLRSED 355
GRGYVLRRI+RRA+ + +LLG EP + L+ + EMG AYPEL + + I+E L+ E+
Sbjct: 300 GRGYVLRRIIRRALRHGKLLGIKEPFLYKLVDTVIDEMGDAYPELKEKEDFIKEVLKLEE 359
Query: 356 ERFGKTLDRGLVLLDGVLSHLGKDEILNGDVAFKLYDTHGLPLDIMQDILCARGLAGIDI 415
ERF KTL+RGL LL+ L+ L K + L+G+ AFKLYDT+G P+++ ++I RGL +D
Sbjct: 360 ERFAKTLERGLKLLEKELAKLKKSKTLDGEDAFKLYDTYGFPVELTEEIAEERGL-KVDE 418
Query: 416 ISFNQALEEQRSRARAHSLGLGSGTTEKIWFSLKEKYGATQFIGYDLLRGSKFMKEDRKV 475
F A+E QR RARA + G G G E L +K T+F+GYD
Sbjct: 419 PGFEYAMEAQRERARASA-GSGEGAKESEDLELIDKLPETEFLGYD-------------- 463
Query: 476 LCQKPPIDLTNGVSSIVKAIVQQGEIVEEAVSGQKVEVVFDQTPFYAEAGGQLGDTGCAI 535
+ V + G+ V E GQ+V VV DQTPFYAE+GGQ+GDTG
Sbjct: 464 ---------DLEMEFKVLVLFVDGKEVSELNEGQEVYVVLDQTPFYAESGGQVGDTGYIF 514
Query: 536 GD-GIRLQITDVQKKAEGIFVHHAIVERGILRTEMSLVLTIDYQNRRQLSINHSATHLLH 594
GD G R ++TDVQK G+ VH VE G L+ + +D + RR+L NH+ATHLLH
Sbjct: 515 GDGGGRFEVTDVQKVGNGVIVHKGKVESGELKVGDEVTAEVDEERRRRLMRNHTATHLLH 574
Query: 595 HALSTILGSHVSQNGSCITPDGLRFDVTHSKPITSAELKSIEDNVNDIIAQNLPVVTRIM 654
AL +LG HV Q GS + P+ LRFD +H K +T+ ELK IE VN+II +NLPV T M
Sbjct: 575 AALRKVLGDHVWQAGSLVDPEKLRFDFSHYKALTAEELKEIERLVNEIIRENLPVKTEEM 634
Query: 655 NREDAIASGAAALLGTKYNDRVRVVSVEYEDGGVHSSALCGGTHVSSTGEIMLLYIVSES 714
+ ++A A GA AL G KY D VRVV + G S LCGGTHVS+TG+I L I+SE
Sbjct: 635 DLDEAKAKGAMALFGEKYGDEVRVVEI-----GDFSVELCGGTHVSNTGDIGLFKIISEE 689
Query: 715 SIRAGIRRIEAITGQRARSHLMGQDEKLKSLASFLKVSQGNVVGRVEEIWEEYRKLQ--L 772
I AG+RRIEA+TG+ A +L Q++ LK +AS LKV ++ +VE + EE ++L+ L
Sbjct: 690 GIAAGVRRIEAVTGEAALEYLQEQEDLLKEIASLLKVPP-ELLPKVERLLEELKELEKEL 748
Query: 773 IHAKRKLQL-----NVEDLSCHKIADVNFMSHIISEVDSKELKSVMDALQKKIQSGIIML 827
K+KL + + +I V ++ + D KEL+ + D L+KK+ S +I+L
Sbjct: 749 ERLKKKLAAAELADLLSNAKAEEIGGVKVLAKEVDGADMKELREIADDLKKKLGSAVIVL 808
Query: 828 VGISKEKKASVLIVVTEDLLDRFNAVDLARLSAKVLGGGGGGGRPHMAQSGGPNGNKADQ 887
++ K S+++ V++DL D+ A +L + A ++ GG GGGRP MAQ GG + K D+
Sbjct: 809 ASVADG-KVSLVVAVSKDLTDKVKAGELVKELAAIV-GGKGGGRPDMAQGGGKDPEKLDE 866
Query: 888 AIAGVASFLKK 898
A+ V ++K+
Sbjct: 867 ALELVIEWVKE 877
>gnl|CDD|144852 pfam01411, tRNA-synt_2c, tRNA synthetases class II (A). Other tRNA
synthetase sub-families are too dissimilar to be
included. This family includes only alanyl-tRNA
synthetases.
Length = 545
Score = 712 bits (1839), Expect = 0.0
Identities = 280/574 (48%), Positives = 370/574 (64%), Gaps = 35/574 (6%)
Query: 7 IRTTFLEFFQKNGHELLPSSSLIPCNDPTLMFTNSGMVPFKNIFTGQE-KPVYQAVTTVQ 65
IR TFL+FF+K GH +PSS ++P NDPTL+FTN+GM FK IF G E KP Y Q
Sbjct: 2 IRQTFLDFFEKKGHTRVPSSPVVPRNDPTLLFTNAGMNQFKPIFLGGEDKPPYNRAVNSQ 61
Query: 66 KCVRAGGKHNDLDNVGRTNRHHTFFEMLGNFSFGGYFKERAIQLAWDLLTKEFDLDQRRL 125
KC+RAG DLDNVGRT RHHTFFEMLGNFSFG YFKE AI+ AW+LLTKE LD RL
Sbjct: 62 KCIRAG----DLDNVGRTARHHTFFEMLGNFSFGDYFKEEAIEFAWELLTKELGLDPERL 117
Query: 126 YITVYDEDEEAFKLWKKISGLSADKIIRITTNDNFWSMAETGPCGPCSEIFFDQGECIPG 185
Y+TVY+ D+EA +W+KI G ++I+R DNFW M +TGPCGPCSEI +D+GE I G
Sbjct: 118 YVTVYEWDDEAGPIWEKIVGGPEERILRFGDKDNFWEMGDTGPCGPCSEIDYDRGEEIGG 177
Query: 186 GLPGSSEE--GERYIEIWNLVFMQFEQQNKQERFILPKMSIDTGMGLERMATVLQEKTNN 243
G + +R++EIWNLVFMQF +++ LPK SIDTGMGLER+ VLQ +N
Sbjct: 178 WPSGGTPTADDDRFLEIWNLVFMQFNRESDGTLKPLPKKSIDTGMGLERLVAVLQNVRSN 237
Query: 244 YDIDLFKHLIQASEQVTGMKYEGNNIVNHRVIVDHLRSSSFLIADGILPANEGRGYVLRR 303
YD D+F LI+ E ++G KY +RVI DH R+ +F IADG++P+NEGRGYVLRR
Sbjct: 238 YDTDVFIPLIELIEAISGAKYYDETDEAYRVIADHTRALTFAIADGVVPSNEGRGYVLRR 297
Query: 304 IMRRAMCYARLLGYTEPLMMHLLPALCTEMGSAYPELIQAKLLIEETLRSEDERFGKTLD 363
I+RRA+ +A+ LG EP + L+P + EMG AYPEL + + I+E L E+ERF KTL+
Sbjct: 298 ILRRALRHAKKLGLKEPFLYDLVPTVIEEMGDAYPELKEKEDTIQEILELEEERFAKTLE 357
Query: 364 RGLVLLDGVLSHLGKDEILNGDVAFKLYDTHGLPLDIMQDILCARGLAGIDIISFNQALE 423
RGL LL+ ++ L K + L G+ AFKLYDT+G P+D+ ++I RGL +D+ F A+
Sbjct: 358 RGLRLLERLIKSLKKKKTLPGEDAFKLYDTYGFPVDLTKEIAEERGL-TVDMPGFEYAMV 416
Query: 424 EQRSRARAHSLGLGSGTTEKIWFSLKEKYGATQFIGYDLLRGSKFMKEDRKVLCQKPPID 483
EQR R++ G E +LKE T+F+GYD L
Sbjct: 417 EQRERSKQAKKEKGE---ELDNSALKELPATTEFLGYDDLE------------------- 454
Query: 484 LTNGVSSIVKAIVQQGEIVEEAVSGQKVEVVFDQTPFYAEAGGQLGDTGCAIGDGIRLQI 543
+ + A+ GE V E ++GQ+ V+ D+TPFYAE+GGQ+GDTG IG+G ++
Sbjct: 455 ----AEAKIIALPDDGEFVAEVLAGQEGGVILDRTPFYAESGGQIGDTGYIIGNGGEFRV 510
Query: 544 TDVQKKAEGIFVHHAIVERGILRTEMSLVLTIDY 577
TDVQK G+ VH +E G L+ +++ +D
Sbjct: 511 TDVQKYG-GVVVHKGKLESGSLKVGDTVIAVVDE 543
>gnl|CDD|35409 KOG0188, KOG0188, KOG0188, Alanyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 895
Score = 593 bits (1531), Expect = e-170
Identities = 325/933 (34%), Positives = 485/933 (51%), Gaps = 85/933 (9%)
Query: 5 SSIRTTFLEFFQKNGHELLPSSSLIPCNDPTLMFTNSGMVPFKNIFTGQEKPVYQAVTTV 64
S +R TFL+FF+ H+++ SSS+IP +DPTL+F N+GM FK IF G + +A +
Sbjct: 5 SEVRKTFLDFFKSKHHKIVHSSSVIPFDDPTLLFANAGMNQFKPIFLGTMAKLKRAANS- 63
Query: 65 QKCVRAGGKHNDLDNVGRTNRHHTFFEMLGNFSFGGYFKERAIQLAWDLLTKEFDLDQRR 124
QKC+RAGGKHNDLD+VG+ HHTFFEMLGN+SFG YFKE A AW+LLT + + R
Sbjct: 64 QKCIRAGGKHNDLDDVGKDFYHHTFFEMLGNWSFGDYFKEEACAWAWELLTFVYGIPTDR 123
Query: 125 LYITVYDEDE--------EAFKLWKKISGLSADKIIRITTNDNFWSMAETGPCGPCSEIF 176
LY+T + DE E ++W ++ G+ +I+ DNFW M +TGPCGPC+EI
Sbjct: 124 LYVTYFGGDEKLGLEPDLECREIWNEL-GVPDSRILPFGMKDNFWEMGDTGPCGPCTEIH 182
Query: 177 FDQGECIPGGLPGSS---EEGERYIEIWNLVFMQFEQQNKQERFILPKMSIDTGMGLERM 233
+D+ GG + +EIWN+VF+Q+ ++ LPK IDTGMG ER+
Sbjct: 183 YDR----IGGRDAVKLVNHDDPDVLEIWNIVFIQYNREADGSLKPLPKKHIDTGMGFERL 238
Query: 234 ATVLQEKTNNYDIDLFKHLIQASEQVTGMKYEGNNI----VNHRVIVDHLRSSSFLIADG 289
+VLQ KT+NYD DLF + +A ++ TG +Y G + +RV+ DH R+ + ++DG
Sbjct: 239 VSVLQNKTSNYDTDLFTPIFEAIQEGTGARYTGEDADGIDTAYRVVADHARTLTVALSDG 298
Query: 290 ILPANEGRGYVLRRIMRRAMCYAR-LLGYTEPLMMHLLPALCTEMGSAYPELIQAKLLIE 348
+P N GRGYVLRRI+RRA+ YA L L+P + +G A+PEL + +
Sbjct: 299 GVPDNTGRGYVLRRILRRAVRYAHEKLNAPPGFFSTLVPVVVETLGDAFPELKRDPQHVI 358
Query: 349 ETLRSEDERFGKTLDRGLVLLDGVLSHLGKDEILNGDVAFKLYDTHGLPLDIMQDILCAR 408
+ + E+ +F KTLDRG L D V LG + + GDVA++LYDT+G P+D+ + + +
Sbjct: 359 DIINEEEAQFLKTLDRGRKLFDRVARELGSSKTIPGDVAWRLYDTYGFPVDLTELMAEEK 418
Query: 409 GLAGIDIISFNQALEEQRSRARAHSLGLGSGTTEKIWFSLKEKYGATQFIGYDLLRGSKF 468
GL ID F E R A+ S G G I + +
Sbjct: 419 GLK-IDETGF----EAARQEAQEKSKG-AGGGKLSIDLDVLSELVPPT------------ 460
Query: 469 MKEDRKVLCQKPPIDLTNGVSSIVKAIVQQGEIVEEAVSGQKVEVVFDQTPFYAEAGGQL 528
+D + + + A+ ++ + VE GQ+ +V D+T FYAE GGQ+
Sbjct: 461 --DDSFKYNEFGV------CKTRILALYREDQFVESIPKGQECGIVLDKTNFYAEQGGQI 512
Query: 529 GDTGCAIGDGIRLQITDVQKKAEGIFVHHAIVERGILRTEMSLVLTIDYQNRRQLSINHS 588
DTG + DG + +V++ G +V H V G L + L +D + R+ + NH+
Sbjct: 513 YDTGKLVIDGDEDFVFNVKRVQVGGYVVHIGVLEGDLSVGDQVELHVDEERRQLIMRNHT 572
Query: 589 ATHLLHHALSTILGSHVSQNGSCITPDGLRFDVTHSKPITSAELKSIEDNVNDIIAQNLP 648
ATHLL+ AL +L Q GS + PD LRFD + +T +LK +ED +N+ I +N P
Sbjct: 573 ATHLLNFALRQVLKG-TDQKGSLVAPDKLRFDFSTKGALTKEQLKKVEDKINEFIQKNAP 631
Query: 649 VVTRIMNREDAIA-SGAAALLGTKYNDRVRVVSVEYEDGGVHSSALCGGTHVSSTGEIML 707
V + + +A G A+ Y D VRVVSV G + S CGGTH+++T I
Sbjct: 632 VYAKELPLAEAKKIPGLRAVFDEVYPDPVRVVSV--GAGQLTSVEFCGGTHLTNTSHIGD 689
Query: 708 LYIVSESSIRAGIRRIEAITGQRARSHLMGQDEKLKSLASFLKVSQGNVVGRVEEI---- 763
IVSE I GIRRI A+TG+ A+ L ++ K L K + + E +
Sbjct: 690 FVIVSEEGIAKGIRRIVAVTGKEAQEALRLAEDLDKDLRKTDKALEKEIQELGENLDHAV 749
Query: 764 ---WEEYRKLQLIHAKRKLQLNVEDLSCHKIADVNF---------------MSHIISEVD 805
W++ +L+ +KLQ ++DLS A V ++ ++
Sbjct: 750 IPYWQKDEIRELL---KKLQKRMDDLSRALKAAVQKEVLEEAKQLKESNPNQPLLVHYIE 806
Query: 806 SKELKSVMDALQKKIQSGIIMLVGISKEKKASVLIVVTEDLLDR-FNAVDLARLSAKVLG 864
S +L A K IML+ + K + L V ++ ++ A + + + +
Sbjct: 807 SSKL-LKKQAPDKS-----IMLLSDDESGKVTCLCQVPQNAANKGLKASEWVQSVSGTM- 859
Query: 865 GGGGGGRPHMAQSGGPNGNKADQAIAGVASFLK 897
GG GGG+ +AQ+ G N D+A++ F
Sbjct: 860 GGKGGGKGVLAQATGNNVGCLDEAVSLATEFAL 892
>gnl|CDD|29811 cd00673, AlaRS_core, Alanyl-tRNA synthetase (AlaRS) class II core
catalytic domain. AlaRS is a homodimer. It is
responsible for the attachment of alanine to the 3' OH
group of ribose of the appropriate tRNA. This domain is
primarily responsible for ATP-dependent formation of the
enzyme bound aminoacyl-adenylate. Class II assignment is
based upon its predicted structure and the presence of
three characteristic sequence motifs..
Length = 232
Score = 331 bits (849), Expect = 7e-91
Identities = 122/237 (51%), Positives = 153/237 (64%), Gaps = 5/237 (2%)
Query: 4 VSSIRTTFLEFFQKNGHELLPSSSLIPCNDPTLMFTNSGMVPFKNIFTGQEKPVYQAVTT 63
S IR TFL FF+K GH +PSS ++P +DPTL+FTN+GM FK IF G+ P +
Sbjct: 1 ASEIRETFLSFFEKKGHTRVPSSPVVPRDDPTLLFTNAGMNQFKPIFLGEVPPPANRLVN 60
Query: 64 VQKCVRAGGKHNDLDNVGRTNRHHTFFEMLGNFSFGGYFKERAIQLAWDLLTKEFDLDQR 123
QKC+RAG N G+T RHHTFFEMLGNFSFG YFKE AI AW+LLT+ L +
Sbjct: 61 SQKCIRAGDIDNV----GKTGRHHTFFEMLGNFSFGDYFKEEAIAFAWELLTEVLGLPKD 116
Query: 124 RLYITVYDEDEEAFKLWKKISGLSADKIIRITTNDNFWSMAETGPCGPCSEIFFDQGECI 183
RLY++V++ D+E +W GL +I RI DNFW M GPCGPCSEIF+D+GE
Sbjct: 117 RLYVSVFEGDDEEEAIWWWKIGLPGIRIERIGFKDNFWEMGGNGPCGPCSEIFYDRGEE- 175
Query: 184 PGGLPGSSEEGERYIEIWNLVFMQFEQQNKQERFILPKMSIDTGMGLERMATVLQEK 240
+E+ +RY+EIWNLVFMQ+ + LPK +DTGMGLER+ VLQ
Sbjct: 176 RDAASLPNEDDDRYLEIWNLVFMQYNRDADGTYRPLPKKIVDTGMGLERLVWVLQGV 232
>gnl|CDD|32699 COG2872, COG2872, Predicted metal-dependent hydrolases related to
alanyl-tRNA synthetase HxxxH domain [General function
prediction only].
Length = 241
Score = 113 bits (283), Expect = 3e-25
Identities = 71/222 (31%), Positives = 101/222 (45%), Gaps = 7/222 (3%)
Query: 512 EVVFDQTPFYAEAGGQLGDTGCAIGDGIRLQITDVQKKAEGIFVHHAIVERGILRTEMSL 571
E+V D+T FY GGQ GDTG I G + DV K E I H + E L+ +
Sbjct: 26 EIVLDRTIFYPTGGGQPGDTGTLIWAGGEYVVEDVTKDGEEIV--HVLAEHAKLKVGDKV 83
Query: 572 VLTIDYQNRRQLSINHSATHLLHHALSTILGSHVSQNGSCITPDGLRFDVTHSKPITSAE 631
L ID++ R + H+A HLL L + G+ + I D R D T E
Sbjct: 84 KLKIDWERRYRHMRMHTALHLLSAVLYKVYGALTTGFE--IGEDYARIDF--DGEDTEDE 139
Query: 632 LKSIEDNVNDIIAQNLPVVTRIMNREDAIASGAAALLGTKYNDRVRVVSVEYEDGGVHSS 691
++ +E N+++ +NLPV+ + RE+A L K V E G +
Sbjct: 140 IEEVEALANELVKENLPVIIYFIPREEAEKLPGLVKLKNKVPPDVEGKIRIVEIGDIDVQ 199
Query: 692 ALCGGTHVSSTGEIMLLYIVSESSIRAGIRRIEAITGQRARS 733
CGGTHV +TGEI + I+ G RR+ G+RA +
Sbjct: 200 P-CGGTHVKNTGEIGEIKILKTEKKGKGNRRVYFTLGERASA 240
>gnl|CDD|37316 KOG2105, KOG2105, KOG2105, Predicted metal-dependent hydrolase,
contains AlaS domain [General function prediction only].
Length = 415
Score = 66.3 bits (161), Expect = 3e-11
Identities = 80/418 (19%), Positives = 152/418 (36%), Gaps = 58/418 (13%)
Query: 473 RKVLCQKPP-----IDLTNGVSSIVKAIVQQGEIVEEAVSGQKVEVVFDQTPFYAEAGGQ 527
KV D V S ++GEI + E+ T + E GGQ
Sbjct: 8 VKVGALACQRNSFLFDFKTLVVSCEPTKNKKGEI-------EGYEIELQDTILFPEGGGQ 60
Query: 528 LGDTGCAIGDGIRLQITDVQKKAEGIFVHHAIVERGILRTEMSLVLTIDYQNRRQLSINH 587
D+G + ++ A+ HH + ++ + +D Q R H
Sbjct: 61 PSDSG-FLKIVEVSHVSRFGLHAK----HHV---NDYIEPGTTVEVAVDEQKRMDYMQQH 112
Query: 588 SATHLLHHALSTILGSHVSQNGSCITPDGLRFDVT-HSKPITSAELKSIEDNVNDIIAQN 646
S HL+ + + + R + + +T+ ++ +IE +VN+ I
Sbjct: 113 SGQHLI----TAVADHLFKLKTTSWELGRFRSAIELDTPSMTAEQVAAIEQSVNEKIRDR 168
Query: 647 LPVVTRIMNREDAIASGAAALLGTK--YNDR---VRVVSVEYEDGGVHSSALCGGTHVSS 701
LPV R E ++ + + +D +RVV++E D S +C GTHVS+
Sbjct: 169 LPVNVR----ELSLDDPEVEQVSGRGLPDDHAGPIRVVNIEGVD-----SNMCCGTHVSN 219
Query: 702 TGEIMLLYIVSESSIRAGIRRIEAITGQRARSHLMGQDEKLKSLASFLKVSQGNVVGRVE 761
++ ++ I+ + + ++G R + K+L + LK + V V+
Sbjct: 220 LSDLQVIKILGTEKGKKNRTNLIFLSGNRVLKWMERSHGTEKALTALLKCGAEDHVEAVK 279
Query: 762 EIWEEYRKLQLIHAKRKLQLNVEDLS---CHKIADVNFMSHIISEVDSKELKSVMDALQK 818
++ + LQ K L L + DL+ H + + ++ + M+ +
Sbjct: 280 KLQNSTKILQ----KNNLNL-LRDLAVHIAHSLRNSPDWGGVVILHRKEGDSEFMNIIAN 334
Query: 819 KIQSGIIMLVGISKEKKASVLIVVTEDLLDRFNAVDLARLSAKVL-----GGGGGGGR 871
+I S +L ++K L ++ + L +V G G GR
Sbjct: 335 EIGSEETLLFLTVGDEKGGGLFLLAG------PPASVETLGPRVAEVLEGKGAGKKGR 386
>gnl|CDD|29813 cd00768, class_II_aaRS-like_core, Class II tRNA amino-acyl
synthetase-like catalytic core domain. Class II amino
acyl-tRNA synthetases (aaRS) share a common fold and
generally attach an amino acid to the 3' OH of ribose of
the appropriate tRNA. PheRS is an exception in that it
attaches the amino acid at the 2'-OH group, like class I
aaRSs. These enzymes are usually homodimers. This domain
is primarily responsible for ATP-dependent formation of
the enzyme bound aminoacyl-adenylate. The substrate
specificity of this reaction is further determined by
additional domains. Intererestingly, this domain is also
found is asparagine synthase A (AsnA), in the accessory
subunit of mitochondrial polymerase gamma and in the
bacterial ATP phosphoribosyltransferase regulatory
subunit HisZ..
Length = 211
Score = 57.8 bits (139), Expect = 1e-08
Identities = 44/233 (18%), Positives = 66/233 (28%), Gaps = 63/233 (27%)
Query: 13 EFFQKNGHELLPSSSLIPCNDPTLMFTNSGMVPFKNIFTGQEKPVYQAVTTVQKCVRAGG 72
+K GHE + N+ L + +F + + + + R G
Sbjct: 30 PLLEKAGHEPKDLLPVGAENEEDLYLRPTLEPGLVRLFVSHIRKLPLRLAEIGPAFRNEG 89
Query: 73 KHNDLDNVGRTNRHHTFFEMLGNFSFGGYF-----KERAIQLAWDLLTKEFDLDQRRLYI 127
L R F L FG E I+L +LL
Sbjct: 90 GRRGL-------RRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRAL---------- 132
Query: 128 TVYDEDEEAFKLWKKISGLSADKIIRITTNDNFWSMAETGPCGPCSEIFFDQGECIPGGL 187
G+ D + T F G GP EI D E
Sbjct: 133 -----------------GIKLDIVFVEKTPGEFSP----GGAGPGFEIEVDHPE------ 165
Query: 188 PGSSEEGERYIEIWNLVFMQFEQQNKQERFILPKM-------SIDTGMGLERM 233
R +EI + + Q EQ + + L + +I G+GLER+
Sbjct: 166 -------GRGLEIGSGGYRQDEQARAADLYFLDEALEYRYPPTIGFGLGLERL 211
>gnl|CDD|30790 COG0441, ThrS, Threonyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 589
Score = 49.1 bits (117), Expect = 6e-06
Identities = 39/135 (28%), Positives = 60/135 (44%), Gaps = 20/135 (14%)
Query: 585 INHSATHLLHHALSTILGSHVSQNGSCITP---DGLRFDVTHSKPITSAELKSIEDNVND 641
I HS H+L A+ + I P +G +D +PIT +L IE + +
Sbjct: 29 IRHSCAHVLAQAVKRLYP------DVTIGPVIEEGFYYDFDVKEPITPEDLLKIEKEMKE 82
Query: 642 IIAQNLPVVTRIMNREDAIASGA---AALLGTKYNDRVRVVSVEYEDGGVHSSALCGGTH 698
I +NLP+ +++RE+A A A L+ K + E+ D LC G H
Sbjct: 83 IAKENLPIEREVVSREEARAPFGPYKAELIDCKGHPLSEYSQGEFVD-------LCRGPH 135
Query: 699 VSSTGEIML-LYIVS 712
V STG+I L ++
Sbjct: 136 VPSTGKIAFKLLKLA 150
>gnl|CDD|145431 pfam02272, DHHA1, DHHA1 domain. This domain is often found
adjacent to the DHH domain pfam01368 and is called DHHA1
for DHH associated domain. This domain is diagnostic of
DHH subfamily 1 members. This domains is also found in
alanyl tRNA synthetase, suggesting that this domain may
have an RNA binding function. The domain is about 60
residues long and contains a conserved GG motif.
Length = 69
Score = 46.1 bits (110), Expect = 5e-05
Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 822 SGIIMLVGISKEKKASVLIVVTEDLLDRFNAVDLARLSAKVLGGGGGGGRPHMAQSGGPN 881
++L ++ K V ++ L + +L + A++LGGGGGG P A +GG +
Sbjct: 1 DKPVVLFAE-EDGKVKVSARSSKGLDVKGG--ELLKEVAEILGGGGGG-HPDAAGAGGKD 56
Query: 882 GNKADQAIAGV 892
+K ++A+ +
Sbjct: 57 PSKLEEALELL 67
>gnl|CDD|173967 cd08048, TAF11, TATA Binding Protein (TBP) Associated Factor 11
(TAF11) is one of several TAFs that bind TBP and is
involved in forming Transcription Factor IID (TFIID)
complex. The TATA Binding Protein (TBP) Associated
Factor 11 (TAF11) is one of several TAFs that bind TBP
and are involved in forming the Transcription Factor IID
(TFIID) complex. TFIID is one of seven General
Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE,
TFIIF, and TFIID) that are involved in accurate
initiation of transcription by RNA polymerase II in
eukaryotes. TFIID plays an important role in the
recognition of promoter DNA and assembly of the
pre-initiation complex. TFIID complex is composed of the
TBP and at least 13 TAFs. TAFs from various species were
originally named by their predicted molecular weight or
their electrophoretic mobility in polyacrylamide gels. A
new, unified nomenclature for the pol II TAFs has been
suggested to show the relationship between TAF orthologs
and paralogs. Several hypotheses are proposed for TAFs
functions such as serving as activator-binding sites,
core-promoter recognition or a role in essential
catalytic activity. TAF11 interacts with the ligand
binding domains of the nuclear receptors for vitamin D3
and thyroid hormone. TAF11 also directly interacts with
TFIIA, acting as a bridging factor that stabilizes the
TFIIA-TBP-DNA complex. Each TAF, with the help of a
specific activator, is required only for the expression
of subset of genes and is not universally involved for
transcription as are GTFs. In yeast and human cells,
TAFs have been found as components of other complexes
besides TFIID. Several TAFs interact via histone-fold
(HFD) motifs; HFD is the interaction motif involved in
heterodimerization of the core histones and their
assembly into nucleosome octamers. The minimal HFD
contains three alpha-helices linked by two loops and is
found in core histones, TAFS and many other
transcription factors. TFIID has a histone octamer-like
substructure. The TAF11 domain is structurally analogous
to histone H3 and interacts with TAF13, making a novel
histone-like heterodimer. The dimer may be structurally
and functionally similar to the spt3 protein within the
SAGA histone acetyltransferase complex.
Length = 85
Score = 29.8 bits (68), Expect = 3.0
Identities = 20/57 (35%), Positives = 25/57 (43%), Gaps = 11/57 (19%)
Query: 456 QFIGYDLLRGSKFMKEDRKVLCQK-------PPIDLTNGVSSIVKAIVQQGEIVEEA 505
Q Y++ R S F K K L Q + + V+ I K V GEIVEEA
Sbjct: 5 QMNRYEMFRRSSFPKAAIKRLIQSVTGQSVSQNVVIA--VAGIAKVFV--GEIVEEA 57
>gnl|CDD|31229 COG1026, COG1026, Predicted Zn-dependent peptidases,
insulinase-like [General function prediction only].
Length = 978
Score = 29.5 bits (66), Expect = 4.6
Identities = 15/47 (31%), Positives = 20/47 (42%)
Query: 20 HELLPSSSLIPCNDPTLMFTNSGMVPFKNIFTGQEKPVYQAVTTVQK 66
H +L S P DP + F N FT +K VY A + +K
Sbjct: 65 HTVLCGSKKYPVKDPFFKMLKRSLNTFLNAFTFPDKTVYPASSANEK 111
>gnl|CDD|146284 pfam03564, DUF1759, Protein of unknown function (DUF1759). This is
a family of proteins of unknown function.
Length = 146
Score = 29.3 bits (66), Expect = 5.1
Identities = 25/101 (24%), Positives = 43/101 (42%), Gaps = 17/101 (16%)
Query: 414 DIISFN---QALEEQRSRARAHSLGLGSGTTEKIWFSLKEKYGATQFIGYDLLRGSKFMK 470
+I FN ALE + + H L + + + W +LKE+Y + I LL K MK
Sbjct: 27 EIQKFNYLKSALEGEAATLVTH-LPITAANYDVAWEALKERYDNPRVIIRSLLN--KLMK 83
Query: 471 ------EDRKVLCQKPPIDLTNGVSSIVKAIVQQGEIVEEA 505
+ L + L + + I++ + Q GE ++
Sbjct: 84 LPSTNNDSVSQLRR-----LYDEANEIIRQLEQLGENADDT 119
>gnl|CDD|39628 KOG4427, KOG4427, KOG4427, E3 ubiquitin protein ligase
[Posttranslational modification, protein turnover,
chaperones].
Length = 1096
Score = 29.2 bits (65), Expect = 5.2
Identities = 15/64 (23%), Positives = 34/64 (53%), Gaps = 13/64 (20%)
Query: 66 KCVRAGGKHN-DLDNVGRTNRHHTFFEMLGNFSFGGYF-KERAIQLAWDLLTKEFDLDQR 123
+ + +G + DLD++ + +T + +GG+ R I+ WD+L +F ++R
Sbjct: 949 QRLISGDNSDIDLDDL----KRNTKY-------YGGFHDSHRVIKWLWDILAGDFTPEER 997
Query: 124 RLYI 127
+L++
Sbjct: 998 KLFL 1001
>gnl|CDD|31095 COG0752, GlyQ, Glycyl-tRNA synthetase, alpha subunit [Translation,
ribosomal structure and biogenesis].
Length = 298
Score = 28.6 bits (64), Expect = 7.2
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 229 GLERMATVLQEKTNNYDID 247
GLER+A +Q N YD++
Sbjct: 164 GLERLAMYIQGVDNVYDLE 182
>gnl|CDD|32597 COG2605, COG2605, Predicted kinase related to galactokinase and
mevalonate kinase [General function prediction only].
Length = 333
Score = 28.7 bits (64), Expect = 7.4
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 10/71 (14%)
Query: 807 KELKSVMDALQKKIQS------GIIMLVGISKEKKASVLIVVTEDLLDRF--NAVDLARL 858
E+K++ ++ + G I+ G +KK S I + D +DR A+
Sbjct: 224 HEMKALAYEMKDALVRNDIPEFGQILDRGWEAKKKLSSRI--SNDAIDRIYELALKNGAY 281
Query: 859 SAKVLGGGGGG 869
K+ G GGGG
Sbjct: 282 GGKLSGAGGGG 292
>gnl|CDD|36850 KOG1637, KOG1637, KOG1637, Threonyl-tRNA synthetase [Translation,
ribosomal structure and biogenesis].
Length = 560
Score = 28.8 bits (64), Expect = 7.9
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 10/53 (18%)
Query: 587 HSATHLLHHALSTILGSHVSQNGSCITP---DGLRFDVTHSKPITSAELKSIE 636
HS+ H+L AL G+H+ CI P +G +D+ I+S + SIE
Sbjct: 71 HSSAHVLGEALEQEYGAHL-----CIGPPIEEGFYYDML--DEISSNDFPSIE 116
>gnl|CDD|111033 pfam02091, tRNA-synt_2e, Glycyl-tRNA synthetase alpha subunit.
Length = 284
Score = 28.2 bits (63), Expect = 9.7
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 222 MSIDTGMGLERMATVLQEKTNNYDI 246
+S + GLER+A LQ+ + YD+
Sbjct: 151 VSGEITYGLERLAMYLQKVDSVYDL 175
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
0.319 0.136 0.393
Gapped
Lambda K H
0.267 0.0700 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 10,636,780
Number of extensions: 585112
Number of successful extensions: 1550
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1510
Number of HSP's successfully gapped: 23
Length of query: 898
Length of database: 6,263,737
Length adjustment: 103
Effective length of query: 795
Effective length of database: 4,038,010
Effective search space: 3210217950
Effective search space used: 3210217950
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 (27.7 bits)