RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10664
(75 letters)
>gnl|CDD|215364 PLN02678, PLN02678, seryl-tRNA synthetase.
Length = 448
Score = 117 bits (295), Expect = 3e-33
Identities = 45/74 (60%), Positives = 56/74 (75%)
Query: 1 MIDGVDSEAGAIVAGGRGYFLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQ 60
++ VD+E GA VAGGRGY+LKG V L L+ + L+ ++GYTPL TPFFMRK+VM
Sbjct: 149 LLGIVDTERGADVAGGRGYYLKGAGVLLNQALINFGLAFLRKRGYTPLQTPFFMRKDVMA 208
Query: 61 EVAQLAQFDEELYK 74
+ AQLAQFDEELYK
Sbjct: 209 KCAQLAQFDEELYK 222
>gnl|CDD|238393 cd00770, SerRS_core, Seryl-tRNA synthetase (SerRS) class II core
catalytic domain. SerRS is responsible for the
attachment of serine to the 3' OH group of ribose of the
appropriate tRNA. This domain It is primarily
responsible for ATP-dependent formation of the enzyme
bound aminoacyl-adenylate. Class II assignment is based
upon its structure and the presence of three
characteristic sequence motifs in the core domain. SerRS
synthetase is a homodimer.
Length = 297
Score = 103 bits (259), Expect = 8e-29
Identities = 34/75 (45%), Positives = 50/75 (66%)
Query: 1 MIDGVDSEAGAIVAGGRGYFLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQ 60
+D +D E GA V+G R Y+LKG L+ L+ +AL ++G+TP+ PF +RKEVM+
Sbjct: 27 KLDILDFERGAKVSGSRFYYLKGDGALLERALINFALDFLTKRGFTPVIPPFLVRKEVME 86
Query: 61 EVAQLAQFDEELYKM 75
QL +FDE+LYK+
Sbjct: 87 GTGQLPKFDEQLYKV 101
>gnl|CDD|223250 COG0172, SerS, Seryl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 75.7 bits (187), Expect = 4e-18
Identities = 26/72 (36%), Positives = 39/72 (54%)
Query: 3 DGVDSEAGAIVAGGRGYFLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEV 62
+D E A V+G R YF KG L+ L+Q+ L + G+T + P+ + E M
Sbjct: 151 GLLDFERAAKVSGSRFYFYKGKGARLERALIQFMLDLHTKHGFTEVLPPYLVNLESMFGT 210
Query: 63 AQLAQFDEELYK 74
QL +F+E+LYK
Sbjct: 211 GQLPKFEEDLYK 222
>gnl|CDD|232965 TIGR00414, serS, seryl-tRNA synthetase. This model represents the
seryl-tRNA synthetase found in most organisms. This
protein is a class II tRNA synthetase, and is recognized
by the pfam model tRNA-synt_2b. The seryl-tRNA
synthetases of two archaeal species, Methanococcus
jannaschii and Methanobacterium thermoautotrophicum,
differ considerably and are included in a different
model [Protein synthesis, tRNA aminoacylation].
Length = 418
Score = 72.8 bits (179), Expect = 4e-17
Identities = 21/74 (28%), Positives = 39/74 (52%)
Query: 1 MIDGVDSEAGAIVAGGRGYFLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQ 60
+ G+D + V G R Y+LK L+ L+ + L + GY +Y P+ + +E +
Sbjct: 148 KLGGLDFDRAVKVTGSRFYYLKNDGAKLERALINFMLDLLEKNGYQEIYPPYLVNEESLD 207
Query: 61 EVAQLAQFDEELYK 74
QL +F+E+++K
Sbjct: 208 GTGQLPKFEEDIFK 221
>gnl|CDD|235461 PRK05431, PRK05431, seryl-tRNA synthetase; Provisional.
Length = 425
Score = 72.8 bits (180), Expect = 5e-17
Identities = 28/76 (36%), Positives = 42/76 (55%), Gaps = 1/76 (1%)
Query: 1 MIDGVDSEAGAIVAGGRGYFLKGPAVCLQVGLVQYALSKWI-EKGYTPLYTPFFMRKEVM 59
+ +D E A V+G R Y LKG L+ L+Q+ L E GYT + P+ + +E M
Sbjct: 145 KLGILDFERAAKVSGSRFYVLKGDGARLERALIQFMLDLHTEEHGYTEVIPPYLVNEESM 204
Query: 60 QEVAQLAQFDEELYKM 75
QL +F+E+LYK+
Sbjct: 205 YGTGQLPKFEEDLYKI 220
>gnl|CDD|177954 PLN02320, PLN02320, seryl-tRNA synthetase.
Length = 502
Score = 54.9 bits (132), Expect = 1e-10
Identities = 25/60 (41%), Positives = 41/60 (68%)
Query: 2 IDGVDSEAGAIVAGGRGYFLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQE 61
+D D +A A V+G + Y+LK AV L++ LV + LS+ ++KG+TPL TP +R V+++
Sbjct: 209 LDLFDFDAAAEVSGSKFYYLKNEAVLLEMALVNWTLSEVMKKGFTPLTTPEIVRSSVVEK 268
>gnl|CDD|216009 pfam00587, tRNA-synt_2b, tRNA synthetase class II core domain (G,
H, P, S and T). Other tRNA synthetase sub-families are
too dissimilar to be included. This domain is the core
catalytic domain of tRNA synthetases and includes
glycyl, histidyl, prolyl, seryl and threonyl tRNA
synthetases.
Length = 171
Score = 40.7 bits (96), Expect = 8e-06
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 32 LVQYALSKWIEKGYTPLYTPFFMRKEVMQEV-AQLAQFDEELYKM 75
L + GY + TP KE+ + F+EE+YK
Sbjct: 5 LENFIRELLKRYGYQEVDTPILEPKELWEGSGHWDDYFEEEMYKF 49
>gnl|CDD|183145 PRK11462, PRK11462, putative transporter; Provisional.
Length = 460
Score = 29.5 bits (66), Expect = 0.10
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 9/54 (16%)
Query: 18 GYFLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQFDEE 71
F PA+C Y LS I K Y L T K VM+++AQ + ++
Sbjct: 407 ALFTIVPAIC-------YLLSAIIAKRYYSLTTHNL--KTVMEQLAQGKRRCQQ 451
>gnl|CDD|232967 TIGR00418, thrS, threonyl-tRNA synthetase. This model represents
the threonyl-tRNA synthetase found in most organisms.
This protein is a class II tRNA synthetase, and is
recognized by the pfam model tRNA-synt_2b. Note that B.
subtilis has closely related isozymes thrS and thrZ. The
N-terminal regions are quite dissimilar between archaeal
and eubacterial forms, while some eukaryotic forms are
missing sequence there altogether. [Protein synthesis,
tRNA aminoacylation].
Length = 563
Score = 26.9 bits (60), Expect = 0.81
Identities = 9/44 (20%), Positives = 17/44 (38%)
Query: 32 LVQYALSKWIEKGYTPLYTPFFMRKEVMQEVAQLAQFDEELYKM 75
L + K I+ GY + TP E+ + + E ++
Sbjct: 206 LEDFVRQKQIKYGYMEVETPIMYDLELWEISGHWDNYKERMFPF 249
>gnl|CDD|215526 PLN02974, PLN02974, adenosylmethionine-8-amino-7-oxononanoate
transaminase.
Length = 817
Score = 27.0 bits (60), Expect = 0.93
Identities = 14/43 (32%), Positives = 19/43 (44%)
Query: 16 GRGYFLKGPAVCLQVGLVQYALSKWIEKGYTPLYTPFFMRKEV 58
GRG FL P V ++ G +L + G T + R EV
Sbjct: 509 GRGLFLDPPTVGMRNGRWNISLPEGFSSGLEGEETTWESRDEV 551
>gnl|CDD|238394 cd00771, ThrRS_core, Threonyl-tRNA synthetase (ThrRS) class II
core catalytic domain. ThrRS is a homodimer. It is
responsible for the attachment of threonine 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 structure and the presence
of three characteristic sequence motifs in the core
domain.
Length = 298
Score = 26.4 bits (59), Expect = 1.1
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 32 LVQYALSKWIEKGYTPLYTPFFMRKE 57
L + ++GY + TP KE
Sbjct: 36 LEDFLRELQRKRGYQEVETPIIYNKE 61
>gnl|CDD|237050 PRK12305, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 575
Score = 25.5 bits (57), Expect = 3.0
Identities = 6/27 (22%), Positives = 15/27 (55%)
Query: 32 LVQYALSKWIEKGYTPLYTPFFMRKEV 58
+ Y + +++GY +YTP + ++
Sbjct: 212 IEDYLRKEHLKRGYEFVYTPHIGKSDL 238
>gnl|CDD|180320 PRK05948, PRK05948, precorrin-2 methyltransferase; Provisional.
Length = 238
Score = 25.4 bits (56), Expect = 3.4
Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 29 QVGLVQYALSKWI--EKGYTPLYTPFFMRKEVMQEVAQLA 66
Q GL + ++ W+ ++ PLY P+ +E +++ Q A
Sbjct: 42 QPGLAEQIIAPWLSPQQIKLPLYFPYVQDEEQLEQAWQAA 81
>gnl|CDD|167325 PRK02166, PRK02166, hypothetical protein; Reviewed.
Length = 184
Score = 24.7 bits (54), Expect = 5.3
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 56 KEVMQEVAQLAQFDEEL 72
KEV+Q++A ++Q + L
Sbjct: 127 KEVLQDLAAISQVQDAL 143
>gnl|CDD|240295 PTZ00154, PTZ00154, 40S ribosomal protein S17; Provisional.
Length = 134
Score = 24.6 bits (54), Expect = 5.5
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 41 IEKGYTPLYTPFFMRKEVMQEVAQ 64
+EK Y+ L F K++++EVA
Sbjct: 17 VEKYYSKLTLDFHTNKKIVEEVAI 40
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
0.323 0.140 0.420
Gapped
Lambda K H
0.267 0.0777 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,003,634
Number of extensions: 308129
Number of successful extensions: 283
Number of sequences better than 10.0: 1
Number of HSP's gapped: 282
Number of HSP's successfully gapped: 18
Length of query: 75
Length of database: 10,937,602
Length adjustment: 45
Effective length of query: 30
Effective length of database: 8,941,672
Effective search space: 268250160
Effective search space used: 268250160
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 (21.9 bits)
S2: 53 (24.1 bits)