RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 043020
(564 letters)
>gnl|CDD|215400 PLN02751, PLN02751, glutamyl-tRNA(Gln) amidotransferase.
Length = 544
Score = 1022 bits (2645), Expect = 0.0
Identities = 428/563 (76%), Positives = 479/563 (85%), Gaps = 19/563 (3%)
Query: 1 MASFLFRTIQSHSFLLCPTTLLRRNNGAFYCSMKSTHTQTATQEKQQPPPKIKSSPQGNQ 60
MA L R +Q+ L RR + F + T A E +Q P K ++
Sbjct: 1 MALTLLRGVQTPVPSRRGPRLFRRASSRFSVRATTA-TSAAAAESKQAPKKSEA------ 53
Query: 61 AKTRTLDRISKEYEAIIGIETHVQLSTLTKAFCTCPYNYGAQPNTSVCPICMGLPGALPV 120
LD+I +++EA+IGIETHVQLSTLTKAFC+CPYNYGA+PNT+VCP+CMGLPG LPV
Sbjct: 54 -----LDKIEQDFEAVIGIETHVQLSTLTKAFCSCPYNYGAEPNTTVCPVCMGLPGTLPV 108
Query: 121 VNSKVVEFAVKLGLALNCKLSFNSKFDRKQYFYPDLPKGYQISQFDIPIATGGYLDVDLP 180
+NSKVVE AVKLGLALNCK+S SKFDRKQYFYPDLPKGYQISQFDIPIA GGY+DVDLP
Sbjct: 109 LNSKVVEKAVKLGLALNCKISLKSKFDRKQYFYPDLPKGYQISQFDIPIAEGGYVDVDLP 168
Query: 181 VEYGGGHRRFGITRVHMEEDAGKLLHADDGEYSQEITFPIIYALQVDLNRAGVPLLEIVS 240
VE+GGGHRRFGITRVHMEEDAGKLLH+ +G YSQ + VDLNRAGVPLLEIVS
Sbjct: 169 VEFGGGHRRFGITRVHMEEDAGKLLHSGNGSYSQ-------GSALVDLNRAGVPLLEIVS 221
Query: 241 EPDMRTGLEAAEYAAELQRLVRYLGVSNGNMQEGSLRCDVNVSIRPVGQSKFGTKVEIKN 300
EPDMRTG+EAAEY AELQRLVRYLGVSNGNMQEGSLRCDVNVSIRPVGQ +FGTKVEIKN
Sbjct: 222 EPDMRTGIEAAEYGAELQRLVRYLGVSNGNMQEGSLRCDVNVSIRPVGQEEFGTKVEIKN 281
Query: 301 LNSFSSINRAIDFEIARQALLYSQGKADQIVQETRLWEEGSQKTVTMRKKEGLADYRYFP 360
+NSFS+++RAIDFEI+RQ LL+ QG+ D+IVQETRLW+EG+QKTVTMRKKEGLADYRYFP
Sbjct: 282 MNSFSAMSRAIDFEISRQILLHRQGQGDEIVQETRLWDEGAQKTVTMRKKEGLADYRYFP 341
Query: 361 EPDLPEVILNKEYVDSIQSSLPELPEMKRRRYEEMGLSMQDVLFLANDINVARFFDATIE 420
EPDLPEV+L +EYVDSI++S+PELPE KRRRYE MGLSMQDVLFLAND NVA FFDAT+
Sbjct: 342 EPDLPEVVLTEEYVDSIRASMPELPEAKRRRYENMGLSMQDVLFLANDKNVAEFFDATLA 401
Query: 421 KGADVKLAANWIMGDIAAYMKNEKLTINEIKLSAAELAELIASIKGATISGKIGKEILFE 480
KGAD KLAANWIMGDIAAY+KNEK++I+EIKL+ ELAELIASIK TISGKIGKEIL E
Sbjct: 402 KGADAKLAANWIMGDIAAYLKNEKVSISEIKLTPKELAELIASIKDGTISGKIGKEILPE 461
Query: 481 LMAKGGTVKGIIIEKDLVQIVDPSEIEKMVDKVLSENPKQLEQYRGGKTKLQGFFAGQVM 540
L+AKGGTVKG++ EK LVQI DP+EIE MVDKVL ENPKQLEQYRGGKTKLQGFFAGQVM
Sbjct: 462 LLAKGGTVKGLVEEKGLVQISDPAEIEAMVDKVLEENPKQLEQYRGGKTKLQGFFAGQVM 521
Query: 541 KISKGKANPGLLNKILLEKLNAK 563
K SKGKANPGLLNKIL+EKLNAK
Sbjct: 522 KASKGKANPGLLNKILMEKLNAK 544
>gnl|CDD|235489 PRK05477, gatB, aspartyl/glutamyl-tRNA amidotransferase subunit B;
Validated.
Length = 474
Score = 774 bits (2002), Expect = 0.0
Identities = 258/490 (52%), Positives = 345/490 (70%), Gaps = 20/490 (4%)
Query: 72 EYEAIIGIETHVQLSTLTKAFCTCPYNYGAQPNTSVCPICMGLPGALPVVNSKVVEFAVK 131
+E +IG+E HVQL+T +K F C ++GA+PNT+VCP+C+GLPGALPV+N + VE+A+K
Sbjct: 4 NFEVVIGLEVHVQLNTKSKIFSGCSTDFGAEPNTNVCPVCLGLPGALPVLNKEAVEYAIK 63
Query: 132 LGLALNCKLSFNSKFDRKQYFYPDLPKGYQISQFDIPIATGGYLDVDLPVEYGGGHRRFG 191
GLALNC+++ S+FDRK YFYPDLPKGYQISQ+D PIA GYL+++L +R G
Sbjct: 64 AGLALNCEIAKRSRFDRKNYFYPDLPKGYQISQYDEPIAENGYLEIELGE------KRIG 117
Query: 192 ITRVHMEEDAGKLLHADDGEYSQEITFPIIYALQVDLNRAGVPLLEIVSEPDMRTGLEAA 251
I R+H+EEDAGK +H YS VD NRAGVPL+EIVSEPDMR+ EA
Sbjct: 118 IERIHLEEDAGKSVHDQGAGYSL-----------VDYNRAGVPLIEIVSEPDMRSPEEAR 166
Query: 252 EYAAELQRLVRYLGVSNGNMQEGSLRCDVNVSIRPVGQSKFGTKVEIKNLNSFSSINRAI 311
Y +L+ ++RYLG+S+GNM+EGSLRCD NVS+RP GQ +FGT+VEIKNLNSF + +AI
Sbjct: 167 AYLKKLRSILRYLGISDGNMEEGSLRCDANVSVRPKGQEEFGTRVEIKNLNSFRFVEKAI 226
Query: 312 DFEIARQALLYSQGKADQIVQETRLWEEGSQKTVTMRKKEGLADYRYFPEPDLPEVILNK 371
++EI RQ + G ++VQETRL++E +T +MR KE DYRYFPEPDLP + ++
Sbjct: 227 EYEIERQIEILESG--GEVVQETRLFDEDKGETRSMRSKEEAHDYRYFPEPDLPPLEISD 284
Query: 372 EYVDSIQSSLPELPEMKRRRY-EEMGLSMQDVLFLANDINVARFFDATIEKGADVKLAAN 430
E+++ I++ LPELP+ KR R+ EE GLS D L +D +A +F+A + GAD KLAAN
Sbjct: 285 EWIEEIRAELPELPDAKRARFVEEYGLSEYDARVLTSDKELADYFEAVVAAGADAKLAAN 344
Query: 431 WIMGDIAAYMKNEKLTINEIKLSAAELAELIASIKGATISGKIGKEILFELMAKGGTVKG 490
W+MG++ + E + I E ++ +LAELI I TISGKI KE+ E++ GG
Sbjct: 345 WLMGELLGLLNEEGIEIEESPITPEQLAELIKLIDDGTISGKIAKEVFEEMLETGGDPDE 404
Query: 491 IIIEKDLVQIVDPSEIEKMVDKVLSENPKQLEQYRGGKTKLQGFFAGQVMKISKGKANPG 550
I+ EK L QI D +E +VD+VL+ NPK +E Y+ GK K GF GQVMK +KGKANP
Sbjct: 405 IVEEKGLKQISDEGALEAIVDEVLAANPKAVEDYKAGKEKALGFLVGQVMKATKGKANPK 464
Query: 551 LLNKILLEKL 560
L+N++L EKL
Sbjct: 465 LVNELLKEKL 474
>gnl|CDD|223142 COG0064, GatB, Asp-tRNAAsn/Glu-tRNAGln amidotransferase B subunit
(PET112 homolog) [Translation, ribosomal structure and
biogenesis].
Length = 483
Score = 698 bits (1805), Expect = 0.0
Identities = 262/493 (53%), Positives = 350/493 (70%), Gaps = 19/493 (3%)
Query: 72 EYEAIIGIETHVQLSTLTKAFCTCPYNYG-AQPNTSVCPICMGLPGALPVVNSKVVEFAV 130
+E +IG+E HVQL+T TK F C ++G A+PNT+VCP+C+GLPGALPV+N + VE A+
Sbjct: 5 NFEVVIGLEVHVQLNTKTKLFSGCSTDFGGAEPNTNVCPVCLGLPGALPVLNKEAVEKAI 64
Query: 131 KLGLALNCKLSFNSKFDRKQYFYPDLPKGYQISQFDIPIATGGYLDVDLPVEYGGGHRRF 190
K GLALNC+++ S FDRK YFYPDLPKGYQISQFD PIA GYL+++L G +R
Sbjct: 65 KAGLALNCEINEKSVFDRKNYFYPDLPKGYQISQFDKPIAENGYLEIELE---DGEEKRI 121
Query: 191 GITRVHMEEDAGKLLHADDGEYSQEITFPIIYALQVDLNRAGVPLLEIVSEPDMRTGLEA 250
GI R+H+EEDAGKL H YS VD NRAGVPL+EIV+EPD+R+ EA
Sbjct: 122 GIERIHLEEDAGKLTHEGSAGYSL-----------VDYNRAGVPLIEIVTEPDIRSPEEA 170
Query: 251 AEYAAELQRLVRYLGVSNGNMQEGSLRCDVNVSIRPVGQSKFGTKVEIKNLNSFSSINRA 310
Y +L+ ++RYLG+S+GNM+EGS+RCD NVS+RP GQ +FGT+VEIKNLNSF ++ +A
Sbjct: 171 RAYLKKLRSILRYLGISDGNMEEGSMRCDANVSVRPKGQEEFGTRVEIKNLNSFRNVEKA 230
Query: 311 IDFEIARQALLYSQGKADQIVQETRLWEEGSQKTVTMRKKEGLADYRYFPEPDLPEVILN 370
I++EI RQ L G +I QETR ++E + KTV+MR KE DYRYFPEPDLP + ++
Sbjct: 231 IEYEIQRQIELLESGG--EIEQETRRFDEATGKTVSMRSKEEAEDYRYFPEPDLPPLEIS 288
Query: 371 KEYVDSIQSSLPELPEMKRRRY-EEMGLSMQDVLFLANDINVARFFDATIEKGADVKLAA 429
E+++ ++++LPELP+ KR RY +E GLS D L +D +A +F+ ++ GAD KLAA
Sbjct: 289 DEWIEEVRATLPELPDEKRERYIKEYGLSEYDARVLTSDKELADYFEEAVKAGADAKLAA 348
Query: 430 NWIMGDIAAYMKNEKLTINEIKLSAAELAELIASIKGATISGKIGKEILFELMA-KGGTV 488
NW+ ++ + +T+ E L+ +LAELI I TISGKI KE++FE++A G
Sbjct: 349 NWLTNELLGLLNKAGITLEESPLTPEQLAELIKLIDEGTISGKIAKELVFEILANGGKDP 408
Query: 489 KGIIIEKDLVQIVDPSEIEKMVDKVLSENPKQLEQYRGGKTKLQGFFAGQVMKISKGKAN 548
+ II EK LVQI D E+EK+VD+VL+ENPK +E Y+ GK K GF GQVMK +KGKAN
Sbjct: 409 EEIIEEKGLVQISDEGELEKIVDEVLAENPKAVEDYKSGKEKALGFLVGQVMKATKGKAN 468
Query: 549 PGLLNKILLEKLN 561
P +N++L EKL
Sbjct: 469 PQQVNELLKEKLG 481
>gnl|CDD|232843 TIGR00133, gatB, aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase,
B subunit. The heterotrimer GatABC is responsible for
transferring the NH2 group that converts Glu to Gln, or
Asp to Asn after the Glu or Asp has been ligated to the
tRNA for Gln or Asn, respectively. In Lactobacillus,
GatABC is responsible only for tRNA(Gln). In the
Archaea, GatABC is responsible only for tRNA(Asn), while
GatDE is responsible for tRNA(Gln). In lineages that
include Thermus, Chlamydia, or Acidithiobacillus, the
GatABC complex catalyzes both [Protein synthesis, tRNA
aminoacylation].
Length = 478
Score = 575 bits (1485), Expect = 0.0
Identities = 241/493 (48%), Positives = 333/493 (67%), Gaps = 20/493 (4%)
Query: 72 EYEAIIGIETHVQLSTLTKAFCTCPYNYG-AQPNTSVCPICMGLPGALPVVNSKVVEFAV 130
EYEA IG+E HVQL+T TK FC+CP ++G A PNT+VCP+C+GLPGALPV+N + V+ A+
Sbjct: 3 EYEAKIGLEIHVQLNTKTKLFCSCPNSFGSAPPNTNVCPVCLGLPGALPVLNEEAVKKAI 62
Query: 131 KLGLALNCKLSFN-SKFDRKQYFYPDLPKGYQISQFDIPIATGGYLDVDLPVEYGGGHRR 189
KL LALN +++ S FDRK YFYPDLPKGYQI+Q D PIA GG L+++L GG +R
Sbjct: 63 KLALALNSQINQPISVFDRKHYFYPDLPKGYQITQQDRPIAEGGKLEIELD----GGEKR 118
Query: 190 FGITRVHMEEDAGKLLHADDGEYSQEITFPIIYALQVDLNRAGVPLLEIVSEPDMRTGLE 249
GI RVHMEED GK H S VD NR+G PL+EIV++PD+ + E
Sbjct: 119 IGIERVHMEEDTGKSQHFGSDVQSL-----------VDFNRSGAPLIEIVTKPDINSPKE 167
Query: 250 AAEYAAELQRLVRYLGVSNGNMQEGSLRCDVNVSIRPVGQSKFGTKVEIKNLNSFSSINR 309
A + +L++++RYLG+S+GN++EGS+RCDVNVSIR GQ GT+VEIKN+NSF I +
Sbjct: 168 ARAFLKKLRQILRYLGISDGNLEEGSMRCDVNVSIRLKGQEHLGTRVEIKNINSFKGIEK 227
Query: 310 AIDFEIARQALLYSQGKADQIVQETRLWEEGSQKTVTMRKKEGLADYRYFPEPDLPEVIL 369
AI +EI RQ +G +++VQETR ++E S TV+MR KE DYRYFPEPDLP + +
Sbjct: 228 AIKYEIERQVKALIRG--EEVVQETRTFDEKSNITVSMRSKETSIDYRYFPEPDLPPINI 285
Query: 370 NKEYVDSIQSSLPELPEMKRRRY-EEMGLSMQDVLFLANDINVARFFDATIEKGADVKLA 428
++ V + LPELP KR R +E GLS QD L +D+ +A +F+ ++ D KLA
Sbjct: 286 DELLVKEVAGKLPELPSAKRIRLKKEYGLSEQDAKVLTSDLTLADYFEEVVKLIGDPKLA 345
Query: 429 ANWIMGDIAAYMKNEKLTINEIKLSAAELAELIASIKGATISGKIGKEILFELMAKGGTV 488
ANWI ++ + ++++ E L ++LAELI IK ISGK K+++ E++ GG
Sbjct: 346 ANWICIELLGVLNKLQISLAECGLKPSDLAELIKLIKEGKISGKSAKQLIEEMLENGGDP 405
Query: 489 KGIIIEKDLVQIVDPSEIEKMVDKVLSENPKQLEQYRGGKTKLQGFFAGQVMKISKGKAN 548
+I E L QI D E+ K++++V+ ENPK++E+Y GK + F GQVMK ++G+AN
Sbjct: 406 SKLIEELGLEQISDEKELIKIIEEVIKENPKEVEKYLSGKERALKFLVGQVMKRTRGRAN 465
Query: 549 PGLLNKILLEKLN 561
P L+N+IL E L+
Sbjct: 466 PQLVNEILKEMLS 478
>gnl|CDD|217294 pfam02934, GatB_N, GatB/GatE catalytic domain. This domain is
found in the GatB and GatE proteins.
Length = 288
Score = 511 bits (1319), Expect = 0.0
Identities = 179/304 (58%), Positives = 238/304 (78%), Gaps = 16/304 (5%)
Query: 74 EAIIGIETHVQLSTLTKAFCTCPYNYGAQPNTSVCPICMGLPGALPVVNSKVVEFAVKLG 133
E +IG+E HVQL+T TK FC CP +GA+PNT+VCP+C+GLPGALPV+N + VE A+K G
Sbjct: 1 ELVIGLEIHVQLNTKTKLFCGCPTEFGAEPNTNVCPVCLGLPGALPVLNKEAVELAIKAG 60
Query: 134 LALNCKLSFNSKFDRKQYFYPDLPKGYQISQFDIPIATGGYLDVDLPVEYGGGHRRFGIT 193
LALNC+++ S+FDRK YFYPDLPKGYQI+Q+D+PIATGGYL++++ GG +R GI
Sbjct: 61 LALNCEINDESRFDRKNYFYPDLPKGYQITQYDLPIATGGYLEIEVE---DGGEKRIGIE 117
Query: 194 RVHMEEDAGKLLHADDGEYSQEITFPIIYALQVDLNRAGVPLLEIVSEPDMRTGLEAAEY 253
R+H+EEDAGKL+H G+YS VDLNRAGVPL+EIV+EPD+R+ EA Y
Sbjct: 118 RIHLEEDAGKLIHEGGGDYS-----------LVDLNRAGVPLIEIVTEPDIRSPEEARAY 166
Query: 254 AAELQRLVRYLGVSNGNMQEGSLRCDVNVSIRPVGQSKFGTKVEIKNLNSFSSINRAIDF 313
+L++++RYLGVS+GNM+EGSLRCD NVS+RP G +FGT+VEIKNLNSF + +AI++
Sbjct: 167 LKKLRQILRYLGVSDGNMEEGSLRCDANVSVRPKGSEEFGTRVEIKNLNSFRFVEKAIEY 226
Query: 314 EIARQALLYSQGKADQIVQETRLWEEGSQKTVTMRKKEGLADYRYFPEPDLPEVILNKEY 373
EI RQ L +G ++ QETRLW+E + +TV+MR KEG ADYRYFPEPDLP ++++ E+
Sbjct: 227 EIERQIELLEEGG--KVPQETRLWDEDTGETVSMRSKEGAADYRYFPEPDLPPIVISDEW 284
Query: 374 VDSI 377
++ I
Sbjct: 285 IEEI 288
>gnl|CDD|197913 smart00845, GatB_Yqey, GatB domain. This domain is found in GatB
and proteins related to bacterial Yqey. It is about 140
amino acid residues long. This domain is found at the C
terminus of GatB which transamidates Glu-tRNA to
Gln-tRNA. The function of this domain is uncertain. It
does however suggest that Yqey and its relatives have a
role in tRNA metabolism.
Length = 147
Score = 194 bits (496), Expect = 9e-60
Identities = 70/147 (47%), Positives = 99/147 (67%)
Query: 414 FFDATIEKGADVKLAANWIMGDIAAYMKNEKLTINEIKLSAAELAELIASIKGATISGKI 473
+F+ ++ GAD KLAANW++G++ + E L I E ++ LAEL+ I TISGKI
Sbjct: 1 YFEEVVKAGADPKLAANWLLGELLGELNKEGLEIEESPITPEHLAELLKLIDDGTISGKI 60
Query: 474 GKEILFELMAKGGTVKGIIIEKDLVQIVDPSEIEKMVDKVLSENPKQLEQYRGGKTKLQG 533
KE+L EL+ G + + I+ EK L QI D E+E +VD+V++ENP +E YR GK K G
Sbjct: 61 AKEVLEELLEGGKSPEEIVEEKGLKQISDEGELEAIVDEVIAENPDAVEDYRAGKKKALG 120
Query: 534 FFAGQVMKISKGKANPGLLNKILLEKL 560
F GQVMK ++GKA+P L+N++L EKL
Sbjct: 121 FLVGQVMKATRGKADPKLVNELLKEKL 147
>gnl|CDD|217159 pfam02637, GatB_Yqey, GatB domain. This domain is found in GatB.
It is about 140 amino acid residues long. This domain is
found at the C terminus of GatB, which transamidates
Glu-tRNA to Gln-tRNA.
Length = 148
Score = 192 bits (490), Expect = 7e-59
Identities = 77/148 (52%), Positives = 104/148 (70%)
Query: 413 RFFDATIEKGADVKLAANWIMGDIAAYMKNEKLTINEIKLSAAELAELIASIKGATISGK 472
FF+ +++GAD KLAANW++G++ Y+ E L I+E L+ LAELI I ISGK
Sbjct: 1 DFFEEAVKEGADPKLAANWLLGELLGYLNKEGLDIDESPLTPEHLAELIKLIDEGKISGK 60
Query: 473 IGKEILFELMAKGGTVKGIIIEKDLVQIVDPSEIEKMVDKVLSENPKQLEQYRGGKTKLQ 532
I KE+L EL+ G + + II EK LVQI D EIEK+VD+V++ENPK +E Y+ GK K
Sbjct: 61 IAKEVLEELLEPGKSPEEIIEEKGLVQISDEEEIEKIVDEVIAENPKAVEDYKSGKEKAL 120
Query: 533 GFFAGQVMKISKGKANPGLLNKILLEKL 560
GF GQVMK ++GKA+P L+N++L EKL
Sbjct: 121 GFLVGQVMKKTRGKADPKLVNELLKEKL 148
>gnl|CDD|237793 PRK14703, PRK14703, glutaminyl-tRNA synthetase/YqeY domain fusion
protein; Provisional.
Length = 771
Score = 151 bits (384), Expect = 7e-39
Identities = 67/191 (35%), Positives = 109/191 (57%), Gaps = 6/191 (3%)
Query: 375 DSIQSSLPELPEMKRRRYE----EMGLSMQDVLFLANDINVARFFDATIEKGADVKLAAN 430
++ L +R R++ E+GL+ +D LA D +A FF+A + G AN
Sbjct: 583 AEARAEAAALNPEQRARFDRYLSELGLNEEDARTLARDPALAAFFEAALAAGKSPVQLAN 642
Query: 431 WIMGDIAAYMKNEKLTINEIKLSAAELAELIASIKGATISGKIGKEILFELMAKGGTVKG 490
W++ D+A +++ + + + A LA L+A + IS +I K++L EL A GG +
Sbjct: 643 WVVNDLAGLLRDR--ELAALPFTPAALARLVALVDAGRISTRIAKDVLAELAASGGDPEA 700
Query: 491 IIIEKDLVQIVDPSEIEKMVDKVLSENPKQLEQYRGGKTKLQGFFAGQVMKISKGKANPG 550
I+ K L Q+ D +E +V++VL+ +P ++ YR GKTKL GFF GQVM+ + GKANP
Sbjct: 701 IVEAKGLEQVSDAGALEPIVEEVLAAHPDKVAAYRAGKTKLLGFFVGQVMRETGGKANPQ 760
Query: 551 LLNKILLEKLN 561
+ ++L +KL
Sbjct: 761 QVRELLQKKLG 771
>gnl|CDD|235205 PRK04028, PRK04028, glutamyl-tRNA(Gln) amidotransferase subunit E;
Validated.
Length = 630
Score = 92.2 bits (230), Expect = 1e-19
Identities = 68/241 (28%), Positives = 119/241 (49%), Gaps = 21/241 (8%)
Query: 330 IVQETRL-WEEGSQKTVTMRKKEGLADYRYFPEPDLPEVILNKEYVDSIQSSLPELPEMK 388
+ +ETR +G+ T +R G A R +PE D+P + + +E ++ I+ +LPELPE K
Sbjct: 403 VPEETRGALPDGT--TRYLRPLPGAA--RMYPETDIPPIRITEELLEKIKKNLPELPEEK 458
Query: 389 RRRY-EEMGLSMQDVLFLANDINVARFFDATIEKGADVKLAANWIMGDIAAYMKNEKLTI 447
R +E GLS + LA F+ ++KG D L A+ + + ++ E + +
Sbjct: 459 VERLIKEYGLSEELAEQLAYS-ERLDLFEELVKKGVDPTLIAS-TLENTLKELRREGVDV 516
Query: 448 NEIKLSAAELAELIASIKGATISGKIGKE----ILFELMAKGGTVKGIIIEKDLVQIVDP 503
++ + E+ + GKI KE IL EL G E+ ++ +
Sbjct: 517 E--NITDEHIEEVFKLVS----EGKIAKEAIEEILKELAENPGKSAEEAAEELGLKGLSE 570
Query: 504 SEIEKMVDKVLSENPKQLEQYRGGKTKLQGFFAGQVMKISKGKANPGLLNKILLEKLNAK 563
E+EK++D+++ EN +++ +G G G+VM +GKA+ L+++IL EKL
Sbjct: 571 EEVEKIIDEIVEENIDFVKE-KGMGAF--GPLMGEVMAELRGKADGKLVSEILREKLKEI 627
Query: 564 S 564
Sbjct: 628 L 628
Score = 73.3 bits (181), Expect = 1e-13
Identities = 46/155 (29%), Positives = 78/155 (50%), Gaps = 32/155 (20%)
Query: 169 IATGGYLDVDLPVEYGGGHRRFGITRVHMEEDAGKLLHADDGEYSQEITFPIIYALQVDL 228
+A GGY++ G + GI + +EEDA + + ++Y+L
Sbjct: 139 VALGGYIET----SEG----KVGIETICLEEDAARKIEEKGDG--------VVYSL---- 178
Query: 229 NRAGVPLLEIVSEPDMRTGLEAAEYAAELQRLVRYLGVSNGNMQE--GSLRCDVNVSIRP 286
+R G+PL+EI + PD+ + +A E A ++ L+R S G ++ G++R DVNVSI
Sbjct: 179 DRLGIPLIEISTAPDIHSPEQAKEVALKIGMLLR----STGKVKRGLGTIRQDVNVSI-- 232
Query: 287 VGQSKFGTKVEIKNLNSFSSINRAIDFEIARQALL 321
G +VEIK + I + +++E+ RQ L
Sbjct: 233 ----AGGARVEIKGVQKLDLIPKVVEYEVQRQLNL 263
Score = 35.9 bits (84), Expect = 0.052
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 3/27 (11%)
Query: 73 YEAI---IGIETHVQLSTLTKAFCTCP 96
YE + +G+E H QL T K FC CP
Sbjct: 6 YEELGLKVGLEIHQQLDTKRKLFCNCP 32
>gnl|CDD|225309 COG2511, GatE, Archaeal Glu-tRNAGln amidotransferase subunit E
(contains GAD domain) [Translation, ribosomal structure
and biogenesis].
Length = 631
Score = 88.6 bits (220), Expect = 2e-18
Identities = 71/232 (30%), Positives = 121/232 (52%), Gaps = 13/232 (5%)
Query: 332 QETR-LWEEGSQKTVTMRKKEGLADYRYFPEPDLPEVILNKEYVDSIQSSLPELPEMKRR 390
+ETR +G+ TV +R G A R +PE D+P + +++E ++ I+ +LPELPE K
Sbjct: 406 EETRGALPDGT--TVYLRPLPGAA--RMYPETDIPPIRIDEELLEKIKENLPELPEEKVE 461
Query: 391 RY-EEMGLSMQDVLFLANDINVARFFDATIEKGADVKLAANWIMGDIAAYMKNEKLTINE 449
RY +E GLS + LA+D F+ +EKG D L A+ + + ++ E + I+
Sbjct: 462 RYVKEYGLSKELAEQLASD-PRVDLFEELVEKGVDPTLIAS-TLVNTLPELRREGVEID- 518
Query: 450 IKLSAAELAELIASIKGATISGKIGKEILFELMAKGGTVKGIIIEKDLVQIVDPSEIEKM 509
L + EL+ + I+ + +EIL L G I EK ++ + E+EK+
Sbjct: 519 -NLDDEHIEELLRLVSEGKIAKEAIEEILKALAENPGKDAAEIAEKLGLKELSEEEVEKI 577
Query: 510 VDKVLSENPKQLEQYRGGKTKLQGFFAGQVMKISKGKANPGLLNKILLEKLN 561
+D+++ N L+ + G G+VM +G+A+ L+++IL EKL
Sbjct: 578 IDEIIESN---LDVIKERGMGAMGLLMGRVMAKLRGRADGKLVSEILREKLQ 626
Score = 85.9 bits (213), Expect = 1e-17
Identities = 76/307 (24%), Positives = 121/307 (39%), Gaps = 86/307 (28%)
Query: 73 YEAI---IGIETHVQLSTLTKAFCTCP--------------------------------- 96
YE + +G+E H QL T K FC CP
Sbjct: 6 YEELGLKVGLEIHQQLDTKRKLFCRCPTELRDGEPDFEFERYLRPTRSELGEVDPAALEE 65
Query: 97 ------YNYGAQPNTSVCPICMGLPGALPVVNSKVVEFAVKLGLALNCKLSFNSKFDRKQ 150
+ Y A +T+ P P N + + A+ + LN + RK
Sbjct: 66 SKRGRKFIYEAYYDTTCLVEADEEPPHEP--NEEALAIALAVAKLLNMDIVDEIHVMRKI 123
Query: 151 YFYPDLPKGYQISQFDIPIATGGYLDVDLPVEYGGGHRRFGITRVHMEEDAGKLLHADDG 210
G+Q + +A GGY++ G GI + +EEDA + +
Sbjct: 124 VIDGSNTSGFQRTAI---VAIGGYIETS------EG--PVGIETLCLEEDAARKIEEKGD 172
Query: 211 EYSQEITFPIIYALQVDLNRAGVPLLEIVSEPDMRTGLEAAEYAAELQRLVRYLGVSNGN 270
++Y+L +R G+PL+EI +EPD+R+ +A E A + ++R S G
Sbjct: 173 T--------VVYSL----DRLGIPLIEISTEPDIRSPEQAREVAERIGYILR----STGK 216
Query: 271 MQEG--SLRCDVNVSIRPVGQSKFGTKVEIKNLNSFSSINRAIDFEIARQA-------LL 321
++ G ++R DVNVSI+ G +VEIK + I +++E+ RQ L
Sbjct: 217 VKRGLGTIRQDVNVSIK------GGARVEIKGVQDLDLIPDVVEYEVERQLNLLKIRDEL 270
Query: 322 YSQGKAD 328
+G AD
Sbjct: 271 KERGGAD 277
>gnl|CDD|213509 TIGR00134, gatE_arch, glutamyl-tRNA(Gln) amidotransferase, subunit
E. This peptide is found only in the Archaea. It is
paralogous to the gatB-encoded subunit of Glu-tRNA(Gln)
amidotransferase. The GatABC system operates in many
bacteria to convert Glu-tRNA(Gln) into Gln-tRNA(Gln).
However, the homologous system in archaea instead
converts Asp-tRNA(Asn) to Asn-tRNA(Asn). Glu-tRNA(Gln)
is converted to Gln-tRNA(Gln) by a heterodimeric
amidotransferase of GatE (this protein) and GatD. The
Archaea have an Asp-tRNA(Asn) amidotransferase instead
of an Asp--tRNA ligase, but the genes have not been
identified. It is likely that this protein replaces gatB
in Asp-tRNA(Asn) amidotransferase but that both enzymes
share gatA [Protein synthesis, tRNA aminoacylation].
Length = 620
Score = 73.0 bits (179), Expect = 2e-13
Identities = 55/199 (27%), Positives = 94/199 (47%), Gaps = 33/199 (16%)
Query: 121 VNSKVVEFAVKLGLALNCKLSFNSKFDRKQYFYPDLPKGYQISQFDIPIATGGYLDVDLP 180
+N + +E AV + L LN ++ RK G+Q + +AT G+L+
Sbjct: 91 LNPEALEIAVTVALLLNMRVVDEFHTMRKIVIDGSNTGGFQRTGL---VATDGHLETP-- 145
Query: 181 VEYGGGHRRFGITRVHMEEDAGKLLHADDGEYSQEITFPIIYALQVDLNRAGVPLLEIVS 240
GI + +EEDA + + D G+ ++Y L+R G+PL+EI +
Sbjct: 146 ------QGTVGIENLCLEEDAARKIE-DTGDG-------VVY----RLDRLGIPLVEITT 187
Query: 241 EPDMRTGLEAAEYAAELQRLVRYLG-VSNGNMQEGSLRCDVNVSIRPVGQSKFGTKVEIK 299
+PD+ A E A + +++R G V G G++R D+N+SIR G +VE+K
Sbjct: 188 DPDISDPQMAKEVAYRIGQILRSTGKVKRG---LGTIRQDLNISIRD------GARVEVK 238
Query: 300 NLNSFSSINRAIDFEIARQ 318
+ I + ++ E+ RQ
Sbjct: 239 GVQDLDLIPKIVEREVKRQ 257
Score = 68.4 bits (167), Expect = 5e-12
Identities = 73/261 (27%), Positives = 121/261 (46%), Gaps = 24/261 (9%)
Query: 305 SSINRAIDFEIARQALLYSQGKADQIVQETR-LWEEGSQKTVTMRKKEGLADYRYFPEPD 363
++ RA+ E+ +A + QG + +ETR E+G+ T +R G A R +PE D
Sbjct: 376 VTVERALR-EVIERAKMALQG----VPEETRKALEDGN--TQYLRPLPGAA--RMYPETD 426
Query: 364 LPEVILNKEYVDSIQSSLPELPEMKRRRYEEMGLSMQDVLFLANDINVARFFDATIEK-G 422
+P + E ++ I+ +LPELPE K+ R +D+ N F+A EK
Sbjct: 427 IPPFRIEDELLEGIRRNLPELPEEKKERIMREYGLSEDLASQLVKSNYVDEFEALTEKFR 486
Query: 423 ADVKLAANWIMGDIAAYMKNEKLTINEIKLSAAELAELIASIKGATISGKIGKEILFE-- 480
D + A+ + + ++ E I+ + EL L +IK GKI KE L E
Sbjct: 487 VDPTVIASLLAYTLRE-LRREGHDIDGL-----ELRHLRDAIK-LLEVGKIAKEGLREIL 539
Query: 481 -LMAKGGTVKGIIIEKDLVQIVDPSEIEKMVDKVLSENPKQLEQYRGGKTKLQGFFAGQV 539
M K ++++ EIE ++ +++ EN + + RG G GQ
Sbjct: 540 KCMCDEPLAAEDAARKLKLKLLAEEEIESIIQEIIEENLDMISE-RG--EGAMGPLMGQA 596
Query: 540 MKISKGKANPGLLNKILLEKL 560
M +GKA+ ++N+IL +KL
Sbjct: 597 MGRLRGKADGKVVNRILRKKL 617
Score = 30.6 bits (69), Expect = 2.3
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 77 IGIETHVQLSTLTKAFCTCP 96
+G+E H QL T +K FC CP
Sbjct: 10 VGLEIHQQLDTKSKLFCPCP 29
>gnl|CDD|224965 COG2054, COG2054, Uncharacterized archaeal kinase related to
aspartokinases, uridylate kinases [General function
prediction only].
Length = 212
Score = 33.6 bits (77), Expect = 0.16
Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 3/86 (3%)
Query: 468 TISGKIGKEILFELMAKGGTVKGIIIEKD---LVQIVDPSEIEKMVDKVLSENPKQLEQY 524
+IS I + + K V GI E LV+ + S+++ V PK L +Y
Sbjct: 120 SISVWIAAKAGATEVVKATDVDGIYEEDPKGKLVREIRASDLKTGETSVDPYLPKLLVKY 179
Query: 525 RGGKTKLQGFFAGQVMKISKGKANPG 550
+ + G +V+ +GK G
Sbjct: 180 KMNCRVVNGKEPERVILALRGKEVVG 205
>gnl|CDD|188566 TIGR04051, rSAM_NirJ, heme d1 biosynthesis radical SAM protein
NirJ. Heme d1 occurs in the cytochrome cd1 subunit of
nitrite reductase in species such as Pseudomonas
stutzeri. NirJ is a radical SAM protein involved in its
bioynthesis. In a number of species, distinct genes
NirJ1 and NirJ2 are found in similar genomic regions;
this model describe authentic NirJ from genomes with
NirJ only [Biosynthesis of cofactors, prosthetic groups,
and carriers, Heme, porphyrin, and cobalamin].
Length = 354
Score = 33.1 bits (76), Expect = 0.32
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 8/65 (12%)
Query: 209 DGEYSQEITFPIIYALQVDLNRAGVPLLEIVS--EPDMRTGL-EAAEYAAELQRLVRYLG 265
D ++ E++ + + DL GVP L I+S EP +R + E A A + L Y+
Sbjct: 25 DIDFPGELSTAEVLRVIDDLKAFGVPAL-ILSGGEPLLRPDIFEIAARARQ---LGFYVA 80
Query: 266 VS-NG 269
+S NG
Sbjct: 81 LSTNG 85
>gnl|CDD|218846 pfam05994, FragX_IP, Cytoplasmic Fragile-X interacting family.
CYFIP1/2 (Cytoplasmic fragile X mental retardation
interacting protein) like proteins for a highly
conserved protein family. The function of CYFIPs is
unclear, but CYFIP interaction with fragile X mental
retardation interacting protein (FMRP) involves the
domain of FMRP which also mediating homo- and
heteromerization.
Length = 815
Score = 31.6 bits (72), Expect = 1.4
Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 3/57 (5%)
Query: 30 YCSMKSTHTQTATQEKQQPPPKIKSS--PQGNQAKTRTLDRISKEYEAIIGIETHVQ 84
Y S + ++E + P I G++A I K+Y IG E H +
Sbjct: 468 YFYNSSPNRIPFSEELPRDKPPIVQPIYLLGSKALNAAFAAILKQYTNFIGPE-HFR 523
>gnl|CDD|237258 PRK12903, secA, preprotein translocase subunit SecA; Reviewed.
Length = 925
Score = 31.2 bits (71), Expect = 1.8
Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 440 MKNEKLTINEIKLSAAELAEL-IASIKGATISGKIGKEILFELMAKGGTVKGIIIEKD-L 497
+ E+ N + EL+E+ A + I+ K E + +II KD L
Sbjct: 839 INEEQ--KNLKQEIKLELSEIQEAEEEIQNINEN--KNEFVEFKNDPKKLNKLIIAKDVL 894
Query: 498 VQIVDPSEIEKMVDKVLSENPKQLEQ 523
+++V S+ K +K + K LE+
Sbjct: 895 IKLVISSDEIKQDEKTTKKKKKDLEK 920
>gnl|CDD|225913 COG3378, COG3378, Phage associated DNA primase [General function
prediction only].
Length = 517
Score = 30.9 bits (70), Expect = 1.8
Identities = 13/49 (26%), Positives = 26/49 (53%)
Query: 446 TINEIKLSAAELAELIASIKGATISGKIGKEILFELMAKGGTVKGIIIE 494
++ + EL L+ I GA+++G++ ++ LF L GG K ++
Sbjct: 200 WLDRVAGGDPELRNLLQRIIGASLTGRVSEQKLFWLYGPGGNGKSTFVD 248
>gnl|CDD|181434 PRK08456, PRK08456, flagellar motor protein MotA; Validated.
Length = 257
Score = 30.5 bits (69), Expect = 1.9
Identities = 28/95 (29%), Positives = 42/95 (44%), Gaps = 21/95 (22%)
Query: 455 AELAELIASIKGATISGKIGKEILF-----ELMAKGGTVKGIIIEKDLVQIVDPSEIEKM 509
AE+A IA AT++G +G LF +L AK K II EK ++ +E +
Sbjct: 176 AEMAAGIAGAFTATVTGIMGSYALFGPWGHKLKAKS---KDIIKEKTVI-------LEGI 225
Query: 510 VDKVLSENPKQLEQYRGGKTKLQGFFAGQVMKISK 544
+ NP+ LE KL + + K S+
Sbjct: 226 LGIAEGANPRDLE------EKLLNYLSPGEPKKSQ 254
>gnl|CDD|240782 cd12336, RRM_RBM7_like, RNA recognition motif in RNA-binding
protein 7 (RBM7) and similar proteins. This subfamily
corresponds to the RRM of RBM7, RBM11 and their
eukaryotic homologous. RBM7 is an ubiquitously expressed
pre-mRNA splicing factor that enhances messenger RNA
(mRNA) splicing in a cell-specific manner or in a
certain developmental process, such as spermatogenesis.
It interacts with splicing factors SAP145 (the
spliceosomal splicing factor 3b subunit 2) and SRp20,
and may play a more specific role in meiosis entry and
progression. Together with additional testis-specific
RNA-binding proteins, RBM7 may regulate the splicing of
specific pre-mRNA species that are important in the
meiotic cell cycle. RBM11 is a novel tissue-specific
splicing regulator that is selectively expressed in
brain, cerebellum and testis, and to a lower extent in
kidney. It is localized in the nucleoplasm and enriched
in SRSF2-containing splicing speckles. It may play a
role in the modulation of alternative splicing during
neuron and germ cell differentiation. Both, RBM7 and
RBM11, contain an N-terminal RNA recognition motif
(RRM), also termed RBD (RNA binding domain) or RNP
(ribonucleoprotein domain), and a region lacking known
homology at the C-terminus. The RRM is responsible for
RNA binding, whereas the C-terminal region permits
nuclear localization and homodimerization. .
Length = 75
Score = 28.4 bits (64), Expect = 2.1
Identities = 10/28 (35%), Positives = 19/28 (67%)
Query: 469 ISGKIGKEILFELMAKGGTVKGIIIEKD 496
+ ++ +EIL+EL + G ++G+ I KD
Sbjct: 9 LDARVTEEILYELFLQAGPLEGVKIPKD 36
>gnl|CDD|176237 cd08276, MDR7, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 336
Score = 30.2 bits (69), Expect = 3.1
Identities = 19/89 (21%), Positives = 36/89 (40%), Gaps = 14/89 (15%)
Query: 454 AAELAELIASIK-GATIS------GKIGKEILFELMAKGGTVKGIII-----EKDLVQIV 501
LA+ I ++ G IS G +L L+ KG T++GI + + + + +
Sbjct: 239 PGTLAQSIKAVAPGGVISLIGFLSGFEAPVLLLPLLTKGATLRGIAVGSRAQFEAMNRAI 298
Query: 502 DPSEIEKMVDKV--LSENPKQLEQYRGGK 528
+ I ++D+V E + G
Sbjct: 299 EAHRIRPVIDRVFPFEEAKEAYRYLESGS 327
>gnl|CDD|218939 pfam06207, DUF1002, Protein of unknown function (DUF1002). This
protein family has no known function. Its members are
about 300 amino acids in length. It has so far been
detected in Firmicute bacteria and some archaebacteria.
Length = 222
Score = 29.8 bits (68), Expect = 3.3
Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 11/75 (14%)
Query: 443 EKLTINEIKLSAAELAELIASIKGATISGKIGKEILFELMAKGGTVKGIIIEKDLVQIVD 502
EK+ + + + EL + + G IG + L+A+ +K I ++
Sbjct: 122 EKIDEEQKEAANEELVTT-SELNGD----GIGDDKAANLVAE---IKKEIAKQK---PKT 170
Query: 503 PSEIEKMVDKVLSEN 517
EI K+V+ VL+
Sbjct: 171 KEEIRKIVNNVLNNL 185
>gnl|CDD|173710 cd05620, STKc_nPKC_delta, Catalytic domain of the Protein
Serine/Threonine Kinase, Novel Protein Kinase C delta.
Serine/Threonine Kinases (STKs), Novel Protein Kinase C
(nPKC), delta isoform, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The nPKC subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. PKCs are classified into three groups
(classical, atypical, and novel) depending on their mode
of activation and the structural characteristics of
their regulatory domain. nPKCs are calcium-independent,
but require DAG (1,2-diacylglycerol) and
phosphatidylserine (PS) for activity. There are four
nPKC isoforms, delta, epsilon, eta, and theta. PKC-delta
plays a role in cell cycle regulation and programmed
cell death in many cell types. It slows down cell
proliferation, inducing cell cycle arrest and enhancing
cell differentiation. PKC-delta is also involved in the
regulation of transcription as well as immune and
inflammatory responses. It plays a central role in the
genotoxic stress response that leads to DNA
damaged-induced apoptosis.
Length = 316
Score = 29.5 bits (66), Expect = 4.4
Identities = 28/78 (35%), Positives = 36/78 (46%), Gaps = 6/78 (7%)
Query: 471 GKIGKEILFELMAKGGTVKGIIIEKDLVQIVDPSE---IEKMVDKVLSENPKQLEQYRGG 527
G GK +L EL KG ++KD+V I D E +EK V + ENP Y
Sbjct: 6 GSFGKVLLAELKGKGEYFAVKALKKDVVLIDDDVECTMVEKRVLALAWENPFLTHLYCTF 65
Query: 528 KTKLQGFFAGQVMKISKG 545
+TK FF VM+ G
Sbjct: 66 QTKEHLFF---VMEFLNG 80
>gnl|CDD|117964 pfam09424, YqeY, Yqey-like protein. The function of this domain
found in the YqeY protein is uncertain.
Length = 143
Score = 28.3 bits (64), Expect = 5.5
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 15/73 (20%)
Query: 492 IIEKDLVQIVDPSEIEKMVDKVLSENPKQLEQYRGGKTKLQGFFAGQVMKI----SKGKA 547
I+E+ L Q + EIE +VD+ ++E G T ++ G+VM G+A
Sbjct: 82 ILEEYLPQQLSDEEIEALVDEAIAEV---------GATSMKDM--GKVMGALMPKVAGRA 130
Query: 548 NPGLLNKILLEKL 560
+ L++ ++ E L
Sbjct: 131 DGKLVSALVKELL 143
>gnl|CDD|222107 pfam13406, SLT_2, Transglycosylase SLT domain. This family is
related to the SLT domain pfam01464.
Length = 292
Score = 29.0 bits (66), Expect = 6.3
Identities = 11/26 (42%), Positives = 13/26 (50%), Gaps = 7/26 (26%)
Query: 64 RTLDRISKEY----E---AIIGIETH 82
L RI K Y E AI G+ET+
Sbjct: 75 ALLARIEKRYGVPPEIIVAIWGVETN 100
>gnl|CDD|184051 PRK13431, PRK13431, F0F1 ATP synthase subunit delta; Provisional.
Length = 180
Score = 28.5 bits (63), Expect = 7.4
Identities = 20/82 (24%), Positives = 42/82 (51%), Gaps = 4/82 (4%)
Query: 424 DVKLAANWIMGDIAAYMKNEKLTINEIKLSAAELAELIASIKG----ATISGKIGKEILF 479
D+K+ + + + K + + EI + +AE I K A +S K+ KE++F
Sbjct: 3 DLKVISKHYAKALKNHTKGDLALLEEIVVGLKNVAEAIKLHKLNQVLAHVSLKVKKEVVF 62
Query: 480 ELMAKGGTVKGIIIEKDLVQIV 501
E++ K ++K + K ++++V
Sbjct: 63 EILEKITSIKACSVLKPVMEVV 84
>gnl|CDD|187872 cd09741, Csx1_III-U, CRISPR/Cas system-associated protein Csx1.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Protein of this family often fused to HTH domain; Some
proteins could have an additional fusion with
RecB-family nuclease domain; Core domain appears to have
a Rossmann-like fold; loosely associated with CRISPR/Cas
systems; also known as NE0113 family.
Length = 219
Score = 28.5 bits (64), Expect = 8.0
Identities = 19/76 (25%), Positives = 29/76 (38%), Gaps = 10/76 (13%)
Query: 193 TRVHMEEDAGKLLHADDGEYSQEITFPIIY----ALQVDLNRAGVPLLEIVSEPDMRTGL 248
T+ A LL + G Y + P + + V + +G L D+RT
Sbjct: 38 TKDGRVRIALGLLAREFGRYYRGYQRPALKFDERHIHVIEDVSGEEL------DDIRTEE 91
Query: 249 EAAEYAAELQRLVRYL 264
+ A + RLVR L
Sbjct: 92 DNEAAADFILRLVREL 107
>gnl|CDD|187628 cd05370, SDR_c2, classical (c) SDR, subgroup 2. Short-chain
dehydrogenases/reductases (SDRs, aka Tyrosine-dependent
oxidoreductases) are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 228
Score = 28.4 bits (64), Expect = 8.4
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 9/65 (13%)
Query: 456 ELAELIASIKGAT--ISGKIGKEILFELMAKGGTVKGIIIEKDLVQIVDPSEIEKMVDKV 513
LA G T I+G+ +E L E + + I+++ + D +E + + +
Sbjct: 20 ALARKFLE-AGNTVIITGR-REERLAEAKKELPNIHTIVLD-----VGDAESVEALAEAL 72
Query: 514 LSENP 518
LSE P
Sbjct: 73 LSEYP 77
>gnl|CDD|178450 PLN02859, PLN02859, glutamine-tRNA ligase.
Length = 788
Score = 29.0 bits (65), Expect = 9.8
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 7/62 (11%)
Query: 501 VDPSEIEKMVDKVLSENPKQL--EQYRGGKTKLQGFFAGQVMKISKGKANPGLLNKILLE 558
V P +IE V++V EN +++ ++YR L GQV K A+P ++ K++ +
Sbjct: 119 VSPEDIEAAVNEVFEENKEKILEQRYRTNVGDL----LGQVRK-RLPWADPKIVKKLIDK 173
Query: 559 KL 560
KL
Sbjct: 174 KL 175
>gnl|CDD|236676 PRK10376, PRK10376, putative oxidoreductase; Provisional.
Length = 290
Score = 28.4 bits (64), Expect = 9.8
Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 249 EAAEYAAELQR--LVRYLGVSN 268
E AELQR LVR++G+SN
Sbjct: 145 EPLTVLAELQRQGLVRHIGLSN 166
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
0.317 0.135 0.383
Gapped
Lambda K H
0.267 0.0833 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,793,908
Number of extensions: 2871886
Number of successful extensions: 2926
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2884
Number of HSP's successfully gapped: 54
Length of query: 564
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 462
Effective length of database: 6,413,494
Effective search space: 2963034228
Effective search space used: 2963034228
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: 62 (27.5 bits)