RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14271
(65 letters)
>gnl|CDD|238436 cd00859, HisRS_anticodon, HisRS Histidyl-anticodon binding
domain. HisRS belongs to class II aminoacyl-tRNA
synthetases (aaRS). This alignment contains the
anticodon binding domain, which is responsible for
specificity in tRNA-binding, so that the activated
amino acid is transferred to a ribose 3' OH group of
the appropriate tRNA only.
Length = 91
Score = 62.6 bits (153), Expect = 4e-15
Identities = 16/56 (28%), Positives = 36/56 (64%)
Query: 5 KNPKLLDQLQYCEDNQIHWCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQ 60
KL Q +Y + + + +++G+ ELA+ V ++++ T E+ET++ D+L++ L+
Sbjct: 36 GGRKLKKQFKYADRSGARFAVILGEDELAAGVVTVKDLETGEQETVALDELVEELK 91
>gnl|CDD|223202 COG0124, HisS, Histidyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 53.8 bits (130), Expect = 2e-10
Identities = 17/62 (27%), Positives = 36/62 (58%)
Query: 3 YKKNPKLLDQLQYCEDNQIHWCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEK 62
KL Q +Y + + +++G+ ELA+ V ++++ T E+E + D+L++ L+E
Sbjct: 368 DYSGRKLKKQFKYADKLGARFAVILGEDELANGVVTVKDLATGEQEEVPLDELVEELKEL 427
Query: 63 LK 64
L+
Sbjct: 428 LE 429
>gnl|CDD|202547 pfam03129, HGTP_anticodon, Anticodon binding domain. This domain
is found in histidyl, glycyl, threonyl and prolyl tRNA
synthetases it is probably the anticodon binding
domain.
Length = 93
Score = 47.6 bits (114), Expect = 4e-09
Identities = 17/57 (29%), Positives = 35/57 (61%)
Query: 6 NPKLLDQLQYCEDNQIHWCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEK 62
N L + + + I + +V+G+ EL + +V +R+ T E+ET+S ++L++ L+E
Sbjct: 37 NESLGKKFRDADLIGIPFRLVVGEKELENGTVTVRDRDTGEKETVSLEELVEKLKEL 93
>gnl|CDD|234586 PRK00037, hisS, histidyl-tRNA synthetase; Reviewed.
Length = 412
Score = 48.6 bits (117), Expect = 1e-08
Identities = 15/53 (28%), Positives = 36/53 (67%)
Query: 12 QLQYCEDNQIHWCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKLK 64
Q +Y + + + +++G+ ELA+ +V ++++ T E++T+ D+L++ L+E L
Sbjct: 360 QFKYADKSGARFVLILGEDELANGTVTVKDLRTGEQQTVPLDELVEALKELLA 412
>gnl|CDD|215525 PLN02972, PLN02972, Histidyl-tRNA synthetase.
Length = 763
Score = 46.4 bits (110), Expect = 7e-08
Identities = 17/62 (27%), Positives = 34/62 (54%)
Query: 3 YKKNPKLLDQLQYCEDNQIHWCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEK 62
YK + + L+ +++ I W +++G+ EL+ VKL+N+ EE + R + L+ +
Sbjct: 700 YKVSTRKAKHLKRAKESGIPWMVLVGEKELSKGFVKLKNLEAGVEEEVDRTCFVQELKAE 759
Query: 63 LK 64
L
Sbjct: 760 LL 761
>gnl|CDD|237097 PRK12420, PRK12420, histidyl-tRNA synthetase; Provisional.
Length = 423
Score = 36.2 bits (84), Expect = 3e-04
Identities = 14/52 (26%), Positives = 24/52 (46%)
Query: 5 KNPKLLDQLQYCEDNQIHWCIVIGQSELASNSVKLRNVLTREEETISRDKLL 56
KL L Y I + ++IG+ E+++ +V LRN+ E + L
Sbjct: 372 AGRKLKKALNYANKENIPYVLIIGEEEVSTGTVMLRNMKEGSEVKVPLSSLS 423
>gnl|CDD|213530 TIGR00442, hisS, histidyl-tRNA synthetase. This model finds a
histidyl-tRNA synthetase in every completed genome.
Apparent second copies from Bacillus subtilis,
Synechocystis sp., and Aquifex aeolicus are slightly
shorter, more closely related to each other than to
other hisS proteins, and actually serve as regulatory
subunits for an enzyme of histidine biosynthesis. They
were excluded from the seed alignment and score much
lower than do single copy histidyl-tRNA synthetases of
other genomes not included in the seed alignment. These
putative second copies of HisS score below the trusted
cutoff. The regulatory protein kinase GCN2 of
Saccharomyces cerevisiae (YDR283c), and related proteins
from other species designated eIF-2 alpha kinase, have a
domain closely related to histidyl-tRNA synthetase that
may serve to detect and respond to uncharged tRNA(his),
an indicator of amino acid starvation; these regulatory
proteins are not orthologous and so score below the
noise cutoff [Protein synthesis, tRNA aminoacylation].
Length = 397
Score = 34.0 bits (79), Expect = 0.002
Identities = 13/43 (30%), Positives = 24/43 (55%)
Query: 3 YKKNPKLLDQLQYCEDNQIHWCIVIGQSELASNSVKLRNVLTR 45
KL QL+Y + + ++IG+ ELA+ +V L+++ T
Sbjct: 355 DLGGRKLKKQLKYADKLGARFAVIIGEDELANGTVTLKDLRTG 397
>gnl|CDD|238438 cd00861, ProRS_anticodon_short, ProRS Prolyl-anticodon binding
domain, short version found predominantly in bacteria.
ProRS belongs to class II aminoacyl-tRNA synthetases
(aaRS). This alignment contains the anticodon binding
domain, which is responsible for specificity in
tRNA-binding, so that the activated amino acid is
transferred to a ribose 3' OH group of the appropriate
tRNA only.
Length = 94
Score = 32.9 bits (76), Expect = 0.002
Identities = 16/40 (40%), Positives = 25/40 (62%)
Query: 21 IHWCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQ 60
I + IV+G+ A V+++ T E+E IS D+LL+ LQ
Sbjct: 55 IPYRIVVGKKSAAEGIVEIKVRKTGEKEEISIDELLEFLQ 94
>gnl|CDD|238379 cd00738, HGTP_anticodon, HGTP anticodon binding domain, as found
at the C-terminus of histidyl, glycyl, threonyl and
prolyl tRNA synthetases, which are classified as a
group of class II aminoacyl-tRNA synthetases (aaRS). In
aaRSs, the anticodon binding domain is responsible for
specificity in tRNA-binding, so that the activated
amino acid is transferred to a ribose 3' OH group of
the appropriate tRNA only. This domain is also found in
the accessory subunit of mitochondrial polymerase gamma
(Pol gamma b).
Length = 94
Score = 32.0 bits (73), Expect = 0.005
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 25 IVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQ 60
+V+G+ EL + V +++ T E ET+ D+L + L
Sbjct: 59 VVVGEDELENGKVTVKSRDTGESETLHVDELPEFLV 94
>gnl|CDD|237050 PRK12305, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 575
Score = 32.1 bits (74), Expect = 0.009
Identities = 9/41 (21%), Positives = 23/41 (56%)
Query: 25 IVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKLKE 65
+V+G E+ + +V +R + + D+ ++ ++EK+ E
Sbjct: 531 LVVGDKEVEAGTVSVRTRDGEQLNGMPLDEFIELIKEKIAE 571
>gnl|CDD|236327 PRK08661, PRK08661, prolyl-tRNA synthetase; Provisional.
Length = 477
Score = 32.0 bits (74), Expect = 0.009
Identities = 16/41 (39%), Positives = 26/41 (63%)
Query: 25 IVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKLKE 65
I IG +L +N+V L T E+ET+ D+L++ + E L+E
Sbjct: 349 IEIGPRDLENNTVVLVRRDTLEKETVPLDELVEKVPELLEE 389
>gnl|CDD|237059 PRK12325, PRK12325, prolyl-tRNA synthetase; Provisional.
Length = 439
Score = 30.6 bits (70), Expect = 0.031
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 23 WCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQE 61
W I++G LA V+L++ T E E +S + ++ L
Sbjct: 401 WQIIVGPKGLAEGKVELKDRKTGEREELSVEAAINRLTA 439
>gnl|CDD|238439 cd00862, ProRS_anticodon_zinc, ProRS Prolyl-anticodon binding
domain, long version found predominantly in eukaryotes
and archaea. ProRS belongs to class II aminoacyl-tRNA
synthetases (aaRS). This alignment contains the
anticodon binding domain, which is responsible for
specificity in tRNA-binding, so that the activated amino
acid is transferred to a ribose 3' OH group of the
appropriate tRNA only, and an additional C-terminal
zinc-binding domain specific to this subfamily of aaRSs.
Length = 202
Score = 30.0 bits (68), Expect = 0.042
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 25 IVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKLKE 65
I IG +L N+V + T E++T+ +L++ + E L E
Sbjct: 72 IEIGPRDLEKNTVVIVRRDTGEKKTVPLAELVEKVPELLDE 112
>gnl|CDD|236405 PRK09194, PRK09194, prolyl-tRNA synthetase; Provisional.
Length = 565
Score = 30.1 bits (69), Expect = 0.049
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 21 IHWCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKLK 64
I IV+G LA V+ ++ T E+E + D+L++ L+ K
Sbjct: 522 IPHRIVVGDRGLAEGIVEYKDRRTGEKEEVPVDELVEFLKALKK 565
>gnl|CDD|183530 PRK12444, PRK12444, threonyl-tRNA synthetase; Reviewed.
Length = 639
Score = 28.6 bits (64), Expect = 0.16
Identities = 14/61 (22%), Positives = 35/61 (57%)
Query: 5 KNPKLLDQLQYCEDNQIHWCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKLK 64
++ KL +++ + +I + +VIG E+ + +V +R + E I D +++++E++K
Sbjct: 577 RDEKLGYKIREAQMQKIPYVLVIGDKEMENGAVNVRKYGEEKSEVIELDMFVESIKEEIK 636
Query: 65 E 65
Sbjct: 637 N 637
>gnl|CDD|232962 TIGR00409, proS_fam_II, prolyl-tRNA synthetase, family II.
Prolyl-tRNA synthetase is a class II tRNA synthetase and
is recognized by pfam model tRNA-synt_2b, which
recognizes tRNA synthetases for Gly, His, Ser, and Pro.
The prolyl-tRNA synthetases are divided into two widely
divergent groups. This group includes enzymes from
Escherichia coli, Bacillus subtilis, Aquifex aeolicus,
the spirochete Treponema pallidum, Synechocystis
PCC6803, and one of the two prolyL-tRNA synthetases of
Saccharomyces cerevisiae. The other group includes the
Pro-specific domain of a human multifunctional tRNA
ligase and the prolyl-tRNA synthetases from the Archaea,
the Mycoplasmas, and the spirochete Borrelia burgdorferi
[Protein synthesis, tRNA aminoacylation].
Length = 568
Score = 27.9 bits (62), Expect = 0.25
Identities = 10/42 (23%), Positives = 26/42 (61%)
Query: 21 IHWCIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEK 62
I +V+G+ L + ++++ E++ I +D+L++ L+E+
Sbjct: 527 IPLRVVVGKKNLDNGEIEVKKRRNGEKQLIKKDELVECLEEQ 568
>gnl|CDD|223518 COG0441, ThrS, Threonyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 589
Score = 28.0 bits (63), Expect = 0.28
Identities = 8/41 (19%), Positives = 29/41 (70%)
Query: 25 IVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKLKE 65
IV+G E+ + +V +R +++++++ ++L++ L+++++
Sbjct: 542 IVVGDKEVETGTVVVRRRGGKQQKSMTLEELVEELKKEIEG 582
>gnl|CDD|238437 cd00860, ThrRS_anticodon, ThrRS Threonyl-anticodon binding
domain. ThrRS belongs to class II aminoacyl-tRNA
synthetases (aaRS). This alignment contains the
anticodon binding domain, which is responsible for
specificity in tRNA-binding, so that the activated
amino acid is transferred to a ribose 3' OH group of
the appropriate tRNA only.
Length = 91
Score = 27.1 bits (61), Expect = 0.36
Identities = 8/36 (22%), Positives = 21/36 (58%)
Query: 25 IVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQ 60
+V+G E+ + +V +R + ++S D+ ++ L+
Sbjct: 56 LVVGDKEVETGTVSVRTRDGGDLGSMSLDEFIEKLK 91
>gnl|CDD|234752 PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 638
Score = 27.4 bits (62), Expect = 0.48
Identities = 10/41 (24%), Positives = 24/41 (58%)
Query: 25 IVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKLKE 65
+V+G E+ + +V +R ++ T+S D+ ++ L E++
Sbjct: 594 LVVGDKEVEAGTVSVRRRGGKDLGTMSLDEFIERLLEEIAS 634
>gnl|CDD|215487 PLN02900, PLN02900, alanyl-tRNA synthetase.
Length = 936
Score = 26.9 bits (60), Expect = 0.59
Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 7/46 (15%)
Query: 25 IVIGQS-----ELASNSVKLRNVLTREEETISRDKLLDTLQEKLKE 65
+V+ S E+ N ++ ++ EE + + L+ EK K+
Sbjct: 355 VVVELSGDVFPEVKKNEKRITEIIAEEELSFGK--TLEKGIEKFKK 398
>gnl|CDD|188537 TIGR04022, sulfur_SfnB, sulfur acquisition oxidoreductase, SfnB
family. Members of this protein family belong to the
greater family of acyl-CoA dehydrogenases. This family
includes the sulfate starvation induced protein SfnB of
Pseudomonas putida strain DS1, which is both encoded
nearby to and phylogenetically closely correlated with
the dimethyl sulphone monooxygenase SfnG. This family
shows considerable sequence similarity to the
Rhodococcus dibenzothiophene desulfurization enzyme
DszC, although that enzyme falls outside of the scope of
this family [Central intermediary metabolism, Sulfur
metabolism].
Length = 391
Score = 26.5 bits (59), Expect = 0.86
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 28 GQSELASNSVKLRNVLTREEETISRDKLLD 57
GQ AS +V L +V E + + D
Sbjct: 193 GQRTTASGTVLLDDVRVPAEHVVPIQRAFD 222
>gnl|CDD|233345 TIGR01292, TRX_reduct, thioredoxin-disulfide reductase. This model
describes thioredoxin-disulfide reductase, a member of
the pyridine nucleotide-disulphide oxidoreductases
(pfam00070) [Energy metabolism, Electron transport].
Length = 299
Score = 25.7 bits (57), Expect = 1.9
Identities = 8/25 (32%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 26 VIGQSELASNSVKLRNVLTREEETI 50
++G +++ VK++N +T EEE +
Sbjct: 202 IVGDNKV--EGVKIKNTVTGEEEEL 224
>gnl|CDD|164576 CHL00201, syh, histidine-tRNA synthetase; Provisional.
Length = 430
Score = 25.2 bits (55), Expect = 2.3
Identities = 6/28 (21%), Positives = 16/28 (57%)
Query: 24 CIVIGQSELASNSVKLRNVLTREEETIS 51
CI++G +E+ N + ++ + + +E
Sbjct: 379 CIILGDNEIMDNCITIKWLDEQVQENAQ 406
>gnl|CDD|235240 PRK04173, PRK04173, glycyl-tRNA synthetase; Provisional.
Length = 456
Score = 25.1 bits (56), Expect = 2.9
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 24 CIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKL 63
CI + L N+V +R+ T E+ + D+L D L EKL
Sbjct: 417 CITVDFDTLEDNTVTIRDRDTMEQVRVKIDELKDYLAEKL 456
>gnl|CDD|202053 pfam01934, DUF86, Protein of unknown function DUF86. The
function of members of this family is unknown.
Length = 99
Score = 24.6 bits (54), Expect = 3.3
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 37 VKLRNVLTREEETISRDKLLDTLQEKLKE 65
LRN+L +I + + D +QE L +
Sbjct: 63 AGLRNILVHGYFSIDLEIVWDIIQEDLPD 91
>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 24.5 bits (54), Expect = 4.7
Identities = 8/37 (21%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 29 QSELASNSVKLRNVLTREEETISRDKLLDTLQEKLKE 65
+ +L + S + + L + + I+ +++L Q+ LK
Sbjct: 302 RPDLVAVSQQTWDELCKLAKQINLERILQ-WQQHLKG 337
>gnl|CDD|223500 COG0423, GRS1, Glycyl-tRNA synthetase (class II) [Translation,
ribosomal structure and biogenesis].
Length = 558
Score = 24.3 bits (53), Expect = 6.2
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 24 CIVIGQSELASNSVKLRNVLTREEETISRDKLLDTLQEKLKE 65
C+ + L N+V +R + E+ + ++L D L+E +K
Sbjct: 512 CVTVDFETLEDNTVTIRERDSMEQVRVKIEELADYLRELIKG 553
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
0.313 0.130 0.363
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,051,877
Number of extensions: 210616
Number of successful extensions: 199
Number of sequences better than 10.0: 1
Number of HSP's gapped: 199
Number of HSP's successfully gapped: 32
Length of query: 65
Length of database: 10,937,602
Length adjustment: 36
Effective length of query: 29
Effective length of database: 9,340,858
Effective search space: 270884882
Effective search space used: 270884882
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)