RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 035795
(164 letters)
>gnl|CDD|215492 PLN02907, PLN02907, glutamate-tRNA ligase.
Length = 722
Score = 136 bits (345), Expect = 5e-38
Identities = 90/244 (36%), Positives = 112/244 (45%), Gaps = 85/244 (34%)
Query: 4 SLRSSEYNARNAQYHM--------------FNWLKIVYMPL------WFVHNGL----DN 39
+LRSSEY+ RNAQY+ F+ L VY L WFV NG D+
Sbjct: 409 ALRSSEYHDRNAQYYRILEDMGLRKVHIWEFSRLNFVYTLLSKRKLQWFVDNGKVEGWDD 468
Query: 40 PLFLALQRIIRRRLKIESLMQFILE------LYLLSLKW--------------------- 72
P F +Q I+RR LKIE+L QFIL L L+ +W
Sbjct: 469 PRFPTVQGIVRRGLKIEALKQFILSQGASKNLNLM--EWDKLWTINKKIIDPVCPRHTAV 526
Query: 73 -KTDFFIFTFS-------VRIKLRHKTCKGVGVKATTYAKTIWMDLANAELIS------- 117
K + T + VRI RHK +G G KATT+ IW+D A+AE IS
Sbjct: 527 LKEGRVLLTLTDGPETPFVRIIPRHKKYEGAGKKATTFTNRIWLDYADAEAISEGEEVTL 586
Query: 118 ---GTNF-----RNQDGNFT---GVVHLEG-YKTTVLKLTWLLEIS-----KLVGFDYLI 160
G +++ G T G +HLEG KTT LKLTWL + + LV FDYLI
Sbjct: 587 MDWGNAIIKEITKDEGGAVTALSGELHLEGSVKTTKLKLTWLPDTNELVPLSLVEFDYLI 646
Query: 161 TKKK 164
TKKK
Sbjct: 647 TKKK 650
>gnl|CDD|240404 PTZ00402, PTZ00402, glutamyl-tRNA synthetase; Provisional.
Length = 601
Score = 49.2 bits (117), Expect = 2e-07
Identities = 61/245 (24%), Positives = 98/245 (40%), Gaps = 81/245 (33%)
Query: 1 MSFSLRSSEYNARNAQYHMF--------------NWLKIVYMPL------WFVHN----G 36
++ +LR++EY+ RN QY+ F + L + Y + V G
Sbjct: 246 VTHALRTNEYHDRNDQYYWFCDALGIRKPIVEDFSRLNMEYSVMSKRKLTQLVDTHVVDG 305
Query: 37 LDNPLFLALQRIIRRRLKIESLMQFILELYLLS----LKWKTDFFIF------------- 79
D+P F ++ ++RR LK+E+L QF+ E + ++W ++
Sbjct: 306 WDDPRFPTVRALVRRGLKMEALRQFVQEQGMSKTVNFMEWSKLWYFNTQILDPSVPRYTV 365
Query: 80 ---TFSVRI------------KLRHKTCKGVGVKATTYAKTIWMDLANAELISG------ 118
T VR KL HK +G K + I++D + L+
Sbjct: 366 VSNTLKVRCTVEGQIHLEACEKLLHKKVPDMGEKTYYKSDVIFLDAEDVALLKEGDEVTL 425
Query: 119 --------TNFR--NQDGNFTG---VVHLEG-YKTTVLKLTWLLE-----ISKLVGFDYL 159
N R +D T V+HLEG K T KLTW+ E + +L +D+L
Sbjct: 426 MDWGNAYIKNIRRSGEDALITDADIVLHLEGDVKKTKFKLTWVPESPKAEVMELNEYDHL 485
Query: 160 ITKKK 164
+TKKK
Sbjct: 486 LTKKK 490
>gnl|CDD|178772 PLN03233, PLN03233, putative glutamate-tRNA ligase; Provisional.
Length = 523
Score = 41.9 bits (98), Expect = 6e-05
Identities = 23/87 (26%), Positives = 40/87 (45%), Gaps = 24/87 (27%)
Query: 1 MSFSLRSSEYNARNAQY--------------HMFNWLKIVYMPL------WFVHN----G 36
++ +LR++EY+ R+AQ+ H F + + L WFV N G
Sbjct: 204 VTHALRTTEYDDRDAQFFWIQKALGLRRPRIHAFARMNFMNTVLSKRKLTWFVDNGHVTG 263
Query: 37 LDNPLFLALQRIIRRRLKIESLMQFIL 63
D+ F ++ I RR + I++L F+
Sbjct: 264 WDDARFPTIRGISRRGIDIDALKMFMC 290
>gnl|CDD|185676 cd00807, GlnRS_core, catalytic core domain of glutaminyl-tRNA
synthetase. Glutaminyl-tRNA synthetase (GlnRS) cataytic
core domain. These enzymes attach Gln to the appropriate
tRNA. Like other class I tRNA synthetases, they
aminoacylate the 2'-OH of the nucleotide at the 3' end
of the tRNA. The core domain is based on the Rossman
fold and is responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate. GlnRS contains
the characteristic class I HIGH and KMSKS motifs, which
are involved in ATP binding. These enzymes function as
monomers. Archaea and most bacteria lack GlnRS. In these
organisms, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme.
Length = 238
Score = 38.8 bits (91), Expect = 5e-04
Identities = 20/86 (23%), Positives = 31/86 (36%), Gaps = 24/86 (27%)
Query: 4 SLRSSEYNARNAQY--------------HMFNWLKIVYMPL------WFVHNGL----DN 39
SL + E+ R Y F+ L + Y + V G D+
Sbjct: 125 SLCTLEFEDRRPSYYWLCDALRLYRPHQWEFSRLNLTYTVMSKRKLLQLVDEGYVDGWDD 184
Query: 40 PLFLALQRIIRRRLKIESLMQFILEL 65
P L+ + RR + E++ QFIL
Sbjct: 185 PRLPTLRGLRRRGVTPEAIRQFILRQ 210
>gnl|CDD|211386 cd11300, Fut8_like, Alpha 1-6-fucosyltransferase. Alpha
1,6-fucosyltransferase (Fut8) transfers a fucose moiety
from GDP-fucose to the reducing terminal
N-acetylglucosamine of the core structure of Asn-linked
oligosaccharides, in a process termed core fucosylation.
Core fucosylation is essential for the function of
growth factor receptors. O-fucosyltransferase-like
proteins are GDP-fucose dependent enzymes with
similarities to the family 1 glycosyltransferases (GT1).
They are soluble ER proteins that may be proteolytically
cleaved from a membrane-associated preprotein, and are
involved in the O-fucosylation of protein substrates,
the core fucosylation of growth factor receptors, and
other processes.
Length = 328
Score = 31.8 bits (73), Expect = 0.11
Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 3/27 (11%)
Query: 56 ESLMQFILELYLLSLKWKTDFFIFTFS 82
SL I++++LLS + D+ + TFS
Sbjct: 274 SSLKGIIIDIHLLS---ECDYLVCTFS 297
>gnl|CDD|223318 COG0240, GpsA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 329
Score = 30.2 bits (69), Expect = 0.43
Identities = 8/41 (19%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 24 KIVYMPLWFVHNGLDNPLFLALQRIIRRRLKIESLMQFILE 64
K VY G++ P+ A+ R++ L + ++ ++
Sbjct: 285 KAVYE--LAKKLGIEMPITEAVYRVLYEGLDPKEAIEELMG 323
>gnl|CDD|232985 TIGR00463, gltX_arch, glutamyl-tRNA synthetase, archaeal and
eukaryotic family. The glutamyl-tRNA synthetases of the
eukaryotic cytosol and of the Archaea are more similar
to glutaminyl-tRNA synthetases than to bacterial
glutamyl-tRNA synthetases. This model models just the
eukaryotic cytosolic and archaeal forms of the enzyme.
In some eukaryotes, the glutamyl-tRNA synthetase is part
of a longer, multifunctional aminoacyl-tRNA ligase. In
many species, the charging of tRNA(gln) proceeds first
through misacylation with Glu and then transamidation.
For this reason, glutamyl-tRNA synthetases, including
all known archaeal enzymes (as of 2010) may act on both
tRNA(gln) and tRNA(glu) [Protein synthesis, tRNA
aminoacylation].
Length = 556
Score = 29.8 bits (67), Expect = 0.74
Identities = 29/176 (16%), Positives = 54/176 (30%), Gaps = 55/176 (31%)
Query: 36 GLDNPLFLALQRIIRRRLKIESLMQFILELYL----LSLKWKTDFFI-----------FT 80
G D+P L+ I RR ++ E++ +F+L + + +++ WK + + +
Sbjct: 346 GWDDPRLPTLRAIRRRGIRPEAIRKFMLSIGVKINDVTMSWKNIYALNRKIIDEEARRYF 405
Query: 81 FSV-------------RIKLR--HKTCKGVGVKATTYAKTIW---------------MDL 110
F + R H +G + I+ MD
Sbjct: 406 FIWNPVKIEIVGLPEPKRVERPLHPDHPEIGERVLILRGEIYVPKDDLEEGVEPVRLMDA 465
Query: 111 ANAELISGTNFRNQDGNFTGVVHLEGYKTTVLKLTWLLEIS----KLVGFDYLITK 162
N + S R G K + WL K++ D I +
Sbjct: 466 VNV-IYSKKELRYHSEGLEGA-----RKLGKSIIHWLPAKDAVKVKVIMPDASIVE 515
>gnl|CDD|184553 PRK14176, PRK14176, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 287
Score = 28.6 bits (64), Expect = 1.3
Identities = 12/48 (25%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 85 IKLRHKTCKGVGVKATTYAKTIWMDLANAELISGTNFRNQDGNFTGVV 132
++L+HK C+ VG++A + D EL+ + N+ + G++
Sbjct: 56 VRLKHKACERVGIRAEDQ--FLPADTTQEELLELIDSLNKRKDVHGIL 101
>gnl|CDD|115782 pfam07151, DUF1391, Protein of unknown function (DUF1391). This
family consists of several Enterobacterial proteins of
around 50 residues in length. Members of this family are
found in Escherichia coli and Salmonella typhi where
they are often known as YdfA. The function of this
family is unknown.
Length = 49
Score = 25.6 bits (56), Expect = 3.3
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 108 MDLANAELISGTNFRNQDGNFTGVVHLEG--YKTTVLKLTWLL 148
+DL N E + F NQDG FT + + + +KT WLL
Sbjct: 3 LDLGNNESLVCGVFPNQDGTFTAMTYTKSKTFKTEAGARRWLL 45
>gnl|CDD|217290 pfam02926, THUMP, THUMP domain. The THUMP domain is named after
after thiouridine synthases, methylases and PSUSs. The
THUMP domain consists of about 110 amino acid residues.
The structure of ThiI reveals that the THUMP has a fold
unlike that of previously characterized RNA-binding
domains. It is predicted that this domain is an
RNA-binding domain The THUMP domain probably functions
by delivering a variety of RNA modification enzymes to
their targets.
Length = 92
Score = 26.1 bits (58), Expect = 3.8
Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 47 RIIRRRLKIESLMQFILELYLLSLKWKTDFFIFTFSVRIKLRHKTCK 93
R+I + ++ ++ ILEL + + F TF+VR K R K +
Sbjct: 1 RVIPPEAECKADLEDILEL-AKEIIKEKFFEGETFAVRTKRRGKNHE 46
>gnl|CDD|204533 pfam10613, Lig_chan-Glu_bd, Ligated ion channel L-glutamate- and
glycine-binding site. This region, sometimes called the
S1 domain, is the luminal domain just upstream of the
first, M1, transmembrane region of transmembrane
ion-channel proteins, and it binds L-glutamate and
glycine. It is found in association with Lig_chan,
pfam00060.
Length = 65
Score = 24.9 bits (55), Expect = 7.4
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 121 FRNQDGNFTGVVHLEGYKTTVLKLTWLLEISKLVGFDYLI 160
+ N TG EGY +L E++K++GF+Y I
Sbjct: 5 LKENGENLTGNERFEGYCIDLLD-----ELAKILGFNYEI 39
>gnl|CDD|225374 COG2818, Tag, 3-methyladenine DNA glycosylase [DNA replication,
recombination, and repair].
Length = 188
Score = 25.8 bits (57), Expect = 9.7
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 17 YHMFNWLKIVYMPLWFVHNGLDNPLFLALQRIIRRRLKIESLM---QFILEL 65
+H F+ K+ M V L + IIR R KI++ + + +LEL
Sbjct: 61 FHGFDPEKVAAMTEEDVERLLADA------GIIRNRGKIKATINNARAVLEL 106
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
0.328 0.140 0.433
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,378,694
Number of extensions: 763669
Number of successful extensions: 718
Number of sequences better than 10.0: 1
Number of HSP's gapped: 712
Number of HSP's successfully gapped: 31
Length of query: 164
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 74
Effective length of database: 6,945,742
Effective search space: 513984908
Effective search space used: 513984908
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 55 (24.9 bits)