RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2359
(137 letters)
>gnl|CDD|178496 PLN02908, PLN02908, threonyl-tRNA synthetase.
Length = 686
Score = 62.9 bits (153), Expect = 2e-12
Identities = 38/125 (30%), Positives = 57/125 (45%), Gaps = 11/125 (8%)
Query: 1 MHRPLESDCELQLLHFYDSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNV 60
M RPLE DC+L+L F D + TFW S + +LG L + +L P
Sbjct: 98 MTRPLEGDCKLKLFKFDDDE---GRDTFWHSSAHILGEALELEYG----CKLCIGPCTTR 150
Query: 61 KSGSFVYDVQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFEHNKY 120
G F YD + + + + A K E PFER+ ++++ A +F NK+
Sbjct: 151 GEG-FYYDAFYG---DRTLNEEDFKPIEARAEKAVKEKQPFERIEVTREEALEMFSENKF 206
Query: 121 KLEQI 125
K+E I
Sbjct: 207 KVEII 211
>gnl|CDD|237050 PRK12305, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 575
Score = 48.6 bits (117), Expect = 1e-07
Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 7/77 (9%)
Query: 58 PNVKSGSFVYDVQLSGVDNWKP-TSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFE 116
P ++ G F YD D +P T +L+ + +M K+ +PFER +S++ A F
Sbjct: 34 PPIEDG-FYYDF-----DVPEPFTPEDLKKIEKKMKKIIKRGLPFEREEVSREEAREEFA 87
Query: 117 HNKYKLEQIPSIVQQSI 133
+ YKLE I I ++ I
Sbjct: 88 NEPYKLELIDDIPEEGI 104
>gnl|CDD|234752 PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 638
Score = 43.1 bits (103), Expect = 1e-05
Identities = 34/138 (24%), Positives = 56/138 (40%), Gaps = 31/138 (22%)
Query: 1 MHRPLESDCELQLLHFYDSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNV 60
+ P+E D L+++ D + S + +L+ A K +L+ P+
Sbjct: 47 LSTPIEEDASLEIITAKDEE---GLEIIRHSAA----HLLAQAVK-----RLY----PDA 90
Query: 61 KSG-------SFVYDVQLSGVDNWKP-TSAELRVLSAEMVKLAYEAVPFERLSISQDLAE 112
K F YD D +P T +L + EM ++ E P ER +S++ A
Sbjct: 91 KLTIGPVIENGFYYDF-----DRERPFTPEDLEAIEKEMKEIIKENYPIEREVVSREEAI 145
Query: 113 ALFEH--NKYKLEQIPSI 128
LF+ YK+E I I
Sbjct: 146 ELFKDRGEPYKVELIEEI 163
>gnl|CDD|183530 PRK12444, PRK12444, threonyl-tRNA synthetase; Reviewed.
Length = 639
Score = 37.8 bits (88), Expect = 8e-04
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 6/66 (9%)
Query: 65 FVYDVQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFE--HNKYKL 122
F YD+ L +LR + EM K+ E + ER+ +S++ A LF+ +++ KL
Sbjct: 106 FYYDMDLPS----SVNVEDLRKIEKEMKKIINENIKIERVEVSREEAAKLFQEMNDRLKL 161
Query: 123 EQIPSI 128
E + +I
Sbjct: 162 ELLEAI 167
>gnl|CDD|223518 COG0441, ThrS, Threonyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 589
Score = 36.9 bits (86), Expect = 0.002
Identities = 27/104 (25%), Positives = 43/104 (41%), Gaps = 16/104 (15%)
Query: 28 FWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNVKSGSFVYDVQLSGVDNWKP-TSAELRV 86
SC+ +L + + D P ++ G F YD + +P T +L
Sbjct: 29 IRHSCAHVLAQAVKRLYPDVTIG-------PVIEEG-FYYDFDVK-----EPITPEDLLK 75
Query: 87 LSAEMVKLAYEAVPFERLSISQDLAEALFEHNKYKLEQIPSIVQ 130
+ EM ++A E +P ER +S++ A A F YK E I
Sbjct: 76 IEKEMKEIAKENLPIEREVVSREEARAPFG--PYKAELIDCKGH 117
>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 = 35.8 bits (83), Expect = 0.004
Identities = 27/92 (29%), Positives = 45/92 (48%), Gaps = 9/92 (9%)
Query: 39 VLSNAFKDN-VEVQLHSFPSPNVKSGSFVYDVQLSGVDNWKPTSAELRVLSAEMVKLAYE 97
+L+ A K +V+L P V+ G F YD +L T +L + +M ++A +
Sbjct: 7 LLAEALKQLYPDVKLAIGPV--VEDG-FYYDFELDR----SFTQEDLEKIEKDMKEIAKK 59
Query: 98 AVPFERLSISQDLAEALFEHNK-YKLEQIPSI 128
P +LS+S + A F+ + YKLE + I
Sbjct: 60 NYPVAKLSVSLEEALEAFKVLEPYKLELLDEI 91
>gnl|CDD|128752 smart00476, DNaseIc, deoxyribonuclease I. Deoxyribonuclease I
catalyzes the endonucleolytic cleavage of
double-stranded DNA. The enzyme is secreted outside the
cell and also involved in apoptosis in the nucleus.
Length = 276
Score = 30.9 bits (70), Expect = 0.17
Identities = 20/64 (31%), Positives = 26/64 (40%)
Query: 15 HFYDSDPYHSNRTFWRSCSIMLGSVLSNAFKDNVEVQLHSFPSPNVKSGSFVYDVQLSGV 74
+ YD N F R ++ S S A K+ V V LH+ P V +YDV L
Sbjct: 112 YLYDDGCECGNDVFSREPFVVKFSSPSTAVKEFVIVPLHTTPEAAVAEIDALYDVYLDVR 171
Query: 75 DNWK 78
W
Sbjct: 172 QKWG 175
>gnl|CDD|183548 PRK12478, PRK12478, enoyl-CoA hydratase; Provisional.
Length = 298
Score = 29.2 bits (65), Expect = 0.57
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 7/65 (10%)
Query: 62 SGSFVYDVQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFEHNKYK 121
+G ++Y + L+ V T L + A +L EAVPFERL EA +
Sbjct: 158 TGMWLYRLSLAKVKWHSLTGRPLTGVQAAEAELINEAVPFERL-------EARVAEVATE 210
Query: 122 LEQIP 126
L +IP
Sbjct: 211 LARIP 215
>gnl|CDD|133437 cd01667, TGS_ThrRS_N, TGS _ThrRS_N: ThrRS (threonyl-tRNA
Synthetase) is a class II tRNA synthetase that couples
threonine to its cognate tRNA. In addition to its
catalytic and anticodon-binding domains, ThrRS has an
N-terminal TGS domain, named after the ThrRS, GTPase,
and SpoT proteins where it occurs. The TGS domain is
thought to interact with the tRNA acceptor arm along
with an adjacent N-terminal domain. The specific
function of TGS is not well understood.
Length = 61
Score = 27.5 bits (62), Expect = 0.60
Identities = 9/16 (56%), Positives = 13/16 (81%)
Query: 1 MHRPLESDCELQLLHF 16
+ RPLE DCEL+++ F
Sbjct: 46 LSRPLEEDCELEIITF 61
>gnl|CDD|216297 pfam01095, Pectinesterase, Pectinesterase.
Length = 298
Score = 27.2 bits (61), Expect = 2.5
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 23 HSNRTFWRSCSI 34
HSNR F+R C I
Sbjct: 134 HSNRQFYRDCDI 145
>gnl|CDD|178087 PLN02468, PLN02468, putative pectinesterase/pectinesterase
inhibitor.
Length = 565
Score = 27.1 bits (60), Expect = 3.0
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 16 FYDSDPYHSNRTFWRSCSIMLGSV 39
F D+ H+ R F+R C+I G+V
Sbjct: 385 FQDTLYAHAQRQFYRECNI-YGTV 407
>gnl|CDD|219807 pfam08353, DUF1727, Domain of unknown function (DUF1727). This
domain of unknown function is found at the C-terminus of
bacterial proteins which include UDP-N-acetylmuramyl
tripeptide synthase and the related Mur ligase.
Length = 110
Score = 26.4 bits (59), Expect = 3.4
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 92 VKLAYEAVPFERLSISQDLAEAL 114
++L Y VP E++ + DL +A+
Sbjct: 68 LRLKYAGVPEEKIIVEPDLEQAI 90
>gnl|CDD|213228 cd03261, ABC_Org_Solvent_Resistant, ATP-binding cassette transport
system involved in resistant to organic solvents. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 235
Score = 26.7 bits (60), Expect = 4.3
Identities = 19/63 (30%), Positives = 30/63 (47%)
Query: 69 VQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFEHNKYKLEQIPSI 128
V + G D + AEL L M L F+ L++ +++A L EH + E+I I
Sbjct: 57 VLIDGEDISGLSEAELYRLRRRMGMLFQSGALFDSLTVFENVAFPLREHTRLSEEEIREI 116
Query: 129 VQQ 131
V +
Sbjct: 117 VLE 119
>gnl|CDD|218495 pfam05203, Hom_end_hint, Hom_end-associated Hint. Homing
endonucleases are encoded by mobile DNA elements that
are found inserted within host genes in all domains of
life. The crystal structure of the homing nuclease
PI-Sce revealed two domains: an endonucleolytic centre
resembling the C-terminal domain of Drosophila
melanogaster Hedgehog protein, and a a second domain
containing the protein-splicing active site. This Domain
corresponds to the latter protein-splicing domain.
Length = 392
Score = 26.6 bits (59), Expect = 4.8
Identities = 20/86 (23%), Positives = 31/86 (36%), Gaps = 7/86 (8%)
Query: 33 SIMLGSV-LSNAFKDNVEVQLHSFPSPNVKSGSFVYDVQLSGVDNWKPTSAELR----VL 87
S+M G V L+ + + V S + + G Y V +SG +P +
Sbjct: 286 SVMEGIVHLARSLGISASVTTRSAKTEIIDGGGVQYRVNISGGTALQPVLSYCASGHKRR 345
Query: 88 SAEMVKLAYEAVPFERLSISQDLAEA 113
E VPF I ++L E
Sbjct: 346 RPPPHSFIREPVPFY--FILKELGED 369
>gnl|CDD|227156 COG4819, EutA, Ethanolamine utilization protein, possible
chaperonin protecting lyase from inhibition [Amino acid
transport and metabolism].
Length = 473
Score = 26.4 bits (58), Expect = 5.9
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 71 LSGVDNWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLAEALFEHNKYKLEQIPSIVQ 130
+ D K T A+L ++ EM +L E V F LS L EAL + P I+
Sbjct: 205 GAITDGRKLTGAQLVQVTREMAELLVEVVDFGALS---PLYEALITTKLLPADVTPEIIS 261
Query: 131 QS 132
S
Sbjct: 262 FS 263
>gnl|CDD|215179 PLN02314, PLN02314, pectinesterase.
Length = 586
Score = 26.3 bits (58), Expect = 7.0
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 16 FYDSDPYHSNRTFWRSCSI 34
F D+ HSNR F+R C I
Sbjct: 405 FQDTLYAHSNRQFYRDCDI 423
>gnl|CDD|225259 COG2385, SpoIID, Sporulation protein and related proteins [Cell
division and chromosome partitioning].
Length = 397
Score = 25.8 bits (57), Expect = 8.2
Identities = 14/66 (21%), Positives = 21/66 (31%), Gaps = 10/66 (15%)
Query: 54 SFPSPNVKSGSFVYDVQLSGVDNWKPT----------SAELRVLSAEMVKLAYEAVPFER 103
P ++S YDV S V W T +++ S MV + R
Sbjct: 250 GSDLPYLRSVPSPYDVSTSPVVVWSKTFSLAELSQVLASKGPARSTRMVVALKKRARSGR 309
Query: 104 LSISQD 109
+ Q
Sbjct: 310 IQALQV 315
>gnl|CDD|225067 COG2156, KdpC, K+-transporting ATPase, c chain [Inorganic ion
transport and metabolism].
Length = 190
Score = 25.7 bits (57), Expect = 8.7
Identities = 15/62 (24%), Positives = 19/62 (30%), Gaps = 3/62 (4%)
Query: 52 LHSFPSPNVKSGSFVYDVQLSGVDNWKPTSAELRVLSAEMVKLAYEAVPFERLSISQDLA 111
H PS Y+ SG N P++ EL V P + DL
Sbjct: 67 FHGRPSATDGEP---YNAVASGGSNLGPSNPELLERVKARVAALRAENPVNDSEVPVDLV 123
Query: 112 EA 113
A
Sbjct: 124 TA 125
>gnl|CDD|173015 PRK14550, rnhB, ribonuclease HII; Provisional.
Length = 204
Score = 25.7 bits (56), Expect = 9.1
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 34 IMLGSVLSNAFKDNVEVQLHSF 55
I + SVL+ AFKD ++LH+
Sbjct: 130 IAMASVLAKAFKDREMLELHAL 151
>gnl|CDD|224118 COG1197, Mfd, Transcription-repair coupling factor (superfamily II
helicase) [DNA replication, recombination, and repair /
Transcription].
Length = 1139
Score = 26.1 bits (58), Expect = 9.2
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 6/41 (14%)
Query: 82 AELRVLSAEMVKL--AYEAVPFERLSISQDL----AEALFE 116
+LR + V L +E +P++R S SQD+ EAL
Sbjct: 52 EDLRFFPDQPVLLLPDWETLPYDRFSPSQDIVSSRLEALRR 92
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 0.131 0.382
Gapped
Lambda K H
0.267 0.0666 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,646,100
Number of extensions: 558496
Number of successful extensions: 494
Number of sequences better than 10.0: 1
Number of HSP's gapped: 491
Number of HSP's successfully gapped: 30
Length of query: 137
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 50
Effective length of database: 7,078,804
Effective search space: 353940200
Effective search space used: 353940200
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: 54 (24.7 bits)