RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy19
(494 letters)
>gnl|CDD|216342 pfam01170, UPF0020, Putative RNA methylase family UPF0020. This
domain is probably a methylase. It is associated with
the THUMP domain that also occurs with RNA modification
domains.
Length = 172
Score = 117 bits (294), Expect = 8e-31
Identities = 57/180 (31%), Positives = 84/180 (46%), Gaps = 17/180 (9%)
Query: 285 RNIVEFN-ITTLKPTIAYNMVRLASPIPGDVFLDPMCGGGTIPVECSL----SYPHTFFV 339
R F LKPT+A MV LA PGD LDPMCG GTI +E +L P
Sbjct: 1 RGYRPFFHPAPLKPTLARAMVNLAGWKPGDPLLDPMCGSGTILIEAALMGANIAPL---Y 57
Query: 340 CGDINEKLVLKTQANVLHNSGNLNRELKVSPLVCNVRQLCFKPACVDGIVTDLPFGKRVG 399
DI+ ++V + N N+G ++ V + L VD IVT+ P+G R+G
Sbjct: 58 GSDIDWRMVQGARIN-AENAGVGDKIEFVQADAAKLPLL---NGSVDAIVTNPPYGIRIG 113
Query: 400 SKSNNFLLYRLFLIEIGKIVRPQIGRAILLTSDRKHLIQALHITSALWKCRKQIKINMSG 459
SK LY FL E +++R GR + T ++K +A + + + +++ G
Sbjct: 114 SKGALEKLYPAFLREAKRVLR---GRLVFATPEKKDFEKA--AEERGLRKKHEFNVHLGG 168
>gnl|CDD|223194 COG0116, COG0116, Predicted N6-adenine-specific DNA methylase [DNA
replication, recombination, and repair].
Length = 381
Score = 102 bits (255), Expect = 1e-23
Identities = 58/259 (22%), Positives = 96/259 (37%), Gaps = 51/259 (19%)
Query: 219 KFRVTCNRVGKHTVTS----MESERAFGGKLNDTYFW--LVDLDDYDIDINLQIRYNEAY 272
F V VG H TS + A + Y VDLD D+ IN+++ + A
Sbjct: 92 TFAVRFRGVGSHLFTSPDIARIVKDAIVDRFRRKYGRRPSVDLDGPDVRINVELDKDTAT 151
Query: 273 VGLPVTQTSLHRRNIVEFN-ITTLKPTIAYNMVRLASPIPGDVFLDPMCGGGTIPVECSL 331
+G+ T SLH+R ++ LK T+A ++ LA P + LDPMCG GTI +E +L
Sbjct: 152 LGIDTTGDSLHKRGYRVYDGPAPLKETLAAAILLLAGWKPDEPLLDPMCGSGTILIEAAL 211
Query: 332 ---------------------------------------SYPHTFFVCGDINEKLVLKTQ 352
DI+ + + +
Sbjct: 212 IAANIAPGLNRRFGFEFWDWFDKDLWDKLREEAEERARRGKELPIIYGSDIDPRHIEGAK 271
Query: 353 ANVLHNSGNLNRELKVSPLVCNVRQLCFKPACVDGIVTDLPFGKRVGSKSNNFLLYRLFL 412
AN + + L ++++ P+G+R+GS++ LYR F
Sbjct: 272 ANAR----AAGVGDLIEFKQADATDLKEPLEEYGVVISNPPYGERLGSEALVAKLYREFG 327
Query: 413 IEIGKIVRPQIGRAILLTS 431
+ +++ R + TS
Sbjct: 328 RTLKRLL-AGWSRYVFTTS 345
Score = 35.0 bits (81), Expect = 0.076
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 2/66 (3%)
Query: 21 ATVVTGFEDVVVEECQEKFGKDLLLMKSIGRVFFNIDLKDIEKVK-ELRGIDNILFIIAT 79
AT G ED++ E +E G + + G V F D++ I + R IL +
Sbjct: 7 ATTARGLEDLLARELEEL-GAEEVAKVVNGGVHFEGDVELIYRANLWSRTASRILLPLGE 65
Query: 80 FENFGF 85
F+
Sbjct: 66 FKAETL 71
>gnl|CDD|223971 COG1041, COG1041, Predicted DNA modification methylase [DNA
replication, recombination, and repair].
Length = 347
Score = 74.0 bits (182), Expect = 2e-14
Identities = 40/154 (25%), Positives = 63/154 (40%), Gaps = 10/154 (6%)
Query: 281 SLHRRNIVEFNITTLKPTIAYNMVRLASPIPGDVFLDPMCGGGTIPVECSLSYPHTFFVC 340
+R F ++ P +A MV LA G++ LDP CG G I +E L +
Sbjct: 169 DPEKRPF--FRPGSMDPRLARAMVNLARVKRGELVLDPFCGTGGILIEAGLMGARV--IG 224
Query: 341 GDINEKLVLKTQANVLHNSGNLNRELKVSPLVCNVRQLCFKPACVDGIVTDLPFGKRVGS 400
DI+E++V + N+ + E V + L + VD I TD P+G+
Sbjct: 225 SDIDERMVRGAKINLEY----YGIEDYPVLKVLDATNLPLRDNSVDAIATDPPYGRSTKI 280
Query: 401 KSNNFL-LYRLFLIEIGKIVRPQIGRAILLTSDR 433
K LY L ++++P GR +
Sbjct: 281 KGEGLDELYEEALESASEVLKP-GGRIVFAAPRD 313
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 68.2 bits (167), Expect = 5e-14
Identities = 26/122 (21%), Positives = 51/122 (41%), Gaps = 6/122 (4%)
Query: 312 GDVFLDPMCGGGTIPVECSLSYPHTFFVCGDINEKLVLKTQANVLHNSGNLNRELKVSPL 371
GD LDP G G + + + P V +++ + + + +V +
Sbjct: 1 GDRVLDPGAGSGAFLLAAARAGPDARVVGVELDPEAAALARRRLAL----AGLAPRVRVV 56
Query: 372 VCNVRQL-CFKPACVDGIVTDLPFGKRVGSKSNNFLLYRLFLIEIGKIVRPQIGRAILLT 430
V + R+L D ++ + P+G R G +N LY FL ++++P G +++T
Sbjct: 57 VGDARELLELPDGSFDLVLGNPPYGPRAGDPKDNRDLYDRFLAAALRLLKPG-GVLVVIT 115
Query: 431 SD 432
Sbjct: 116 PA 117
>gnl|CDD|233303 TIGR01177, TIGR01177, TIGR01177 family protein. This family is
found exclusively in the Archaea [Hypothetical proteins,
Conserved].
Length = 329
Score = 65.2 bits (159), Expect = 2e-11
Identities = 56/224 (25%), Positives = 88/224 (39%), Gaps = 21/224 (9%)
Query: 219 KFRVTCNRVGKHTVTSMESERAFGGKLNDTYFWLVDLDDYDIDINLQIRYNEAYVGLPVT 278
F V + ++V ER G L F V L DI + + I + Y+G +
Sbjct: 85 SFAVRVRDLRGYSVDKARLERKIGAILKKKGF-KVSLRRPDIVVRVVITEDIFYLGRVLE 143
Query: 279 --------QTSLHRRNIVEFNITTLKPTIAYNMVRLASPIPGDVFLDPMCGGGTIPVECS 330
+ RR F ++ P +A MV LA GD LDP CG G +E
Sbjct: 144 ERDKEQFIERKPDRRPF--FKPGSMDPKLARAMVNLARVTEGDRVLDPFCGTGGFLIEAG 201
Query: 331 LSYPHTFFVCG-DINEKLVLKTQANVLHNSGNLNRELKVSPLVCNVRQLCFKPACVDGIV 389
L V G DI+ K+V + N+ H G + +K + +L VD I
Sbjct: 202 LMGAK---VIGCDIDWKMVAGARINLEH-YGIEDFFVKRG----DATKLPLSSESVDAIA 253
Query: 390 TDLPFGKRVGSKSN-NFLLYRLFLIEIGKIVRPQIGRAILLTSD 432
TD P+G+ + + LY L E ++++ + + +
Sbjct: 254 TDPPYGRSTTAAGDGLESLYERSLEEFHEVLKSEGWIVYAVPTR 297
>gnl|CDD|214952 smart00981, THUMP, 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 characterised 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 = 83
Score = 53.0 bits (128), Expect = 4e-09
Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 219 KFRVTCNRVGKHT-VTSMESERAFGGKLNDTYFWL-VDLDDYDIDINLQIRYNEAYVGL 275
F V R GK+ TS+E +RA G KL + VDL + D+ I +++R ++AY+ +
Sbjct: 24 TFAVRAKRRGKNHEFTSLEVKRAIGDKLLEKTGGRKVDLKNPDVVIRVELRKDKAYLSI 82
>gnl|CDD|223378 COG0301, ThiI, Thiamine biosynthesis ATP pyrophosphatase [Coenzyme
metabolism].
Length = 383
Score = 56.5 bits (137), Expect = 1e-08
Identities = 23/69 (33%), Positives = 36/69 (52%), Gaps = 11/69 (15%)
Query: 220 FRVTCNRVGK-HTVTSMESERAFGGKLNDTYFWL-VDLDDYDIDINLQIRYNEAYV---- 273
F+V R GK TS+E R G + + VDL + D++I+++IR ++AY+
Sbjct: 104 FKVRARRAGKEFPFTSLEVNRYVGEAILENIESAGVDLKNPDVEIHIEIREDKAYIYTER 163
Query: 274 -----GLPV 277
GLPV
Sbjct: 164 IKGPGGLPV 172
>gnl|CDD|212584 cd11715, THUMP_AdoMetMT, THUMP domain associated with
S-adenosylmethionine-dependent methyltransferases.
Proteins of this family contain an N-terminal THUMP
domain and a C-terminal S-adenosylmethionine-dependent
methyltransferase domain. Members have been implicated
in the modification of 23S RNA m2G2445, a highly
conserved modification in bacteria and in the m2G6
modification of tRNA. The THUMP domain is named after
thiouridine synthases, methylases and PSUSs. The domain
consists of about 110 amino acid residues. It is
predicted to be an RNA-binding domain and probably
functions by delivering a variety of RNA modification
enzymes to their targets.
Length = 152
Score = 53.0 bits (128), Expect = 2e-08
Identities = 23/109 (21%), Positives = 39/109 (35%), Gaps = 28/109 (25%)
Query: 21 ATVVTGFEDVVVEECQEKFGKDLLLMKSIGRVFFNIDLKDIEKV-KELRGIDNILFIIAT 79
AT G E+++ E + +D + G V F DL+D + LR +L ++A
Sbjct: 3 ATCPPGLEELLAAELKALGAED--VEVGPGGVSFEGDLEDAYRANLWLRTAHRVLLLLAE 60
Query: 80 FENFGFSNKGTEEDSGQKDESDLLKDKLKDVATIQNKVLEIDWKKYMEI 128
FE +D + IDW+ Y++
Sbjct: 61 FEAE------DFDD-------------------LYELAKAIDWEDYLDP 84
Score = 49.1 bits (118), Expect = 4e-07
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 5/65 (7%)
Query: 219 KFRVTCNRVGKHTVTSMESERAFGGKLNDTY-----FWLVDLDDYDIDINLQIRYNEAYV 273
F V RVG S + + D + VDLD+ D+ I + + + A +
Sbjct: 87 TFAVRATRVGSKLFHSQFAALRVKDAIVDRFREKGKRPSVDLDNPDVRIRVHLSKDRATL 146
Query: 274 GLPVT 278
L ++
Sbjct: 147 SLDLS 151
>gnl|CDD|212585 cd11716, THUMP_ThiI, THUMP domain of thiamine biosynthesis protein
ThiI. ThiI is an enzyme responsible for the formation
of the modified base S(4)U (4-thiouridine) found at
position 8 in some prokaryotic tRNAs. This modification
acts as a signal for UV exposure, triggering a response
that provides protection against its damaging effects.
ThiI consists of an N-terminal THUMP domain, followed by
an NFLD domain, and a C-terminal PP-loop pyrophosphatase
domain. The N-terminal THUMP domain has been implicated
in the recognition of the acceptor-stem region. The
THUMP domain is named after thiouridine synthases,
methylases and PSUSs. The domain consists of about 110
amino acid residues. It is predicted to be an
RNA-binding domain and probably functions by delivering
a variety of RNA modification enzymes to their targets.
Length = 166
Score = 51.7 bits (125), Expect = 8e-08
Identities = 22/56 (39%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 220 FRVTCNRVGK-HTVTSMESERAFGGKLNDTYFWL-VDLDDYDIDINLQIRYNEAYV 273
F+V R K TSME R G L + L VDL + D+ I ++IR + AYV
Sbjct: 102 FKVRAKRADKSFPFTSMEINREVGAALLENTPDLKVDLKNPDVTIRVEIREDGAYV 157
>gnl|CDD|236981 PRK11783, rlmL, 23S rRNA m(2)G2445 methyltransferase; Provisional.
Length = 702
Score = 53.7 bits (130), Expect = 2e-07
Identities = 27/78 (34%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 253 VDLDDYDIDINLQIRYNEAYVGLPVTQTSLHRRNI-VEFNITTLKPTIAYNMVRLAS-PI 310
VD + DI IN ++ EA + L ++ SLH+R LK +A ++ + P
Sbjct: 130 VDKEQPDIRINARLNKGEATISLDLSGESLHQRGYRQATGEAPLKENLAAAILLRSGWPQ 189
Query: 311 PGDVFLDPMCGGGTIPVE 328
G LDPMCG GT+ +E
Sbjct: 190 EGTPLLDPMCGSGTLLIE 207
>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 = 48.4 bits (116), Expect = 2e-07
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 219 KFRVTCNRVGK-HTVTSMESERAFGGKLNDTYFWLVDLDDYDIDINLQIRYNEAYVGL 275
F V R GK H TS E R G + + VDL++ DI ++++I ++AY+ +
Sbjct: 33 TFAVRTKRRGKNHEFTSREVNREVGKAILERTGLKVDLENPDIVVHVEILKDKAYISI 90
>gnl|CDD|234932 PRK01269, PRK01269, tRNA s(4)U8 sulfurtransferase; Provisional.
Length = 482
Score = 51.7 bits (125), Expect = 5e-07
Identities = 26/71 (36%), Positives = 36/71 (50%), Gaps = 11/71 (15%)
Query: 220 FRVTCNRVGKHTVTSMESERAFGGKLNDTYFWL-VDLDDYDIDINLQIRYNEAYV----- 273
F V R GKH TS++ ER GG LN VDL + D+ ++L+IR + Y+
Sbjct: 107 FCVRVKRRGKHDFTSIDVERYVGGGLNQHIESAGVDLKNPDVTVHLEIRDDRLYLVTERH 166
Query: 274 ----GLPV-TQ 279
G P+ TQ
Sbjct: 167 EGLGGFPLGTQ 177
>gnl|CDD|212583 cd11688, THUMP, THUMP domain, predicted to bind RNA. The THUMP
domain is named after THioUridine synthases, RNA
Methyltransferases and Pseudo-uridine synthases. It is
predicted to be an RNA-binding domain and probably
functions by delivering a variety of RNA modification
enzymes to their targets.
Length = 148
Score = 41.7 bits (98), Expect = 1e-04
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 219 KFRVTCNRVGKHTVTSMESERAFGGKLNDTYFWLVDLDDYDIDINLQIRYNEAYVG 274
KF V R K + S E G + D + VDLD+ DI +N+++ A +
Sbjct: 93 KFAVRARRRNKTILNSQEIAMKVGDAIVDAFNPEVDLDNPDIVVNVEVHKEIASIA 148
>gnl|CDD|234960 PRK01565, PRK01565, thiamine biosynthesis protein ThiI;
Provisional.
Length = 394
Score = 40.2 bits (95), Expect = 0.002
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 11/69 (15%)
Query: 220 FRVTCNRVGKH-TVTSMESERAFGGKLNDTY-FWLVDLDDYDIDINLQIRYNEAYV---- 273
F+V R K + SME R G + + + VD+ + D+ + +++R AYV
Sbjct: 105 FKVEARRSDKSFPLDSMELNRELGAYILENFPNLKVDVKNPDVTLRVEVRKEAAYVYTEK 164
Query: 274 -----GLPV 277
GLPV
Sbjct: 165 IPGAGGLPV 173
>gnl|CDD|232930 TIGR00342, TIGR00342, tRNA sulfurtransferase ThiI. Members of this
protein family are "ThiI", a sulfurtransferase involved
in 4-thiouridine modification of tRNA. This protein
often is bifunctional, with genetically separable
activities, where the C-terminal rhodanese-like domain
(residues 385 to 482 in E. coli ThiI), a domain not
included in this model, is sufficient to synthesize the
thiazole moiety of thiamine (see TIGR04271). Note that
ThiI, because of its role in tRNA modification, may
occur in species (such as Mycoplasma genitalium) that
lack de novo thiamine biosynthesis [Biosynthesis of
cofactors, prosthetic groups, and carriers, Thiamine,
Protein synthesis, tRNA and rRNA base modification].
Length = 371
Score = 38.5 bits (90), Expect = 0.007
Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 10/68 (14%)
Query: 220 FRVTCNRVGKH-TVTSMESERAFGGKLNDTYFWLVDLDDYDIDINLQIRYNEAYV----- 273
F+V R GK + S+E + GG + + VDL + DI ++++IR +E +
Sbjct: 102 FKVRTKRRGKDFPLNSVEVNKYVGGGIVEKIGLKVDLTNPDITVHIEIREDEFLIITERY 161
Query: 274 ----GLPV 277
GLPV
Sbjct: 162 EGIGGLPV 169
>gnl|CDD|224731 COG1818, COG1818, Predicted RNA-binding protein, contains THUMP
domain [General function prediction only].
Length = 175
Score = 36.2 bits (84), Expect = 0.016
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 7/87 (8%)
Query: 220 FRVTCNRVGKHTVTSMESERAFGGKLNDTYFWLVDLDDYDIDINLQIRYNEAYVGLPVTQ 279
F V R GKH TS + E G + VDL+D D + +++ + A +
Sbjct: 96 FAVRTKRRGKHDFTSRDVEVVVGEAVKKATGAEVDLEDPDKVVWVEVLGDRAGI------ 149
Query: 280 TSLHRRNIVEFNITTLKPTIAYNMVRL 306
S+ E I LKP +L
Sbjct: 150 -SVLPGEKEEKKIKLLKPLARPLFRKL 175
>gnl|CDD|225151 COG2242, CobL, Precorrin-6B methylase 2 [Coenzyme metabolism].
Length = 187
Score = 33.8 bits (78), Expect = 0.12
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 309 PIPGDVFLDPMCGGGTIPVECSLSYPHTFFVCGDINEKLVLKTQAN 354
P PGD D G G+I +E +L+ P + + +E+ + + N
Sbjct: 32 PRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERN 77
>gnl|CDD|203189 pfam05175, MTS, Methyltransferase small domain. This domain is
found in ribosomal RNA small subunit methyltransferase C
as well as other methyltransferases .
Length = 170
Score = 32.5 bits (75), Expect = 0.23
Identities = 20/103 (19%), Positives = 35/103 (33%), Gaps = 8/103 (7%)
Query: 309 PIPGDVFLDPMCGGGTIPVECSLSYPHTFFVCGDINEKLVLKTQANVLHNSGNLNRELKV 368
G LD CG G + + P DIN + + +AN+ N
Sbjct: 29 KPLGGKVLDLGCGYGVLGAALAKRSPDLEVTMVDINARALESARANLAANGLEN-----G 83
Query: 369 SPLVCNVRQLCFKPACVDGIVTDLPFGKRVGSKSNNFLLYRLF 411
++ +P D I+++ PF G ++ + R
Sbjct: 84 EVFWSDLYS-AVEPGKFDLIISNPPF--HAGKATDYDVAQRFI 123
>gnl|CDD|233880 TIGR02469, CbiT, precorrin-6Y C5,15-methyltransferase
(decarboxylating), CbiT subunit. This model recognizes
the CbiT methylase which is responsible, in part (along
with CbiE), for methylating precorrin-6y (or
cobalt-precorrin-6y) at both the 5 and 15 positions as
well as the concomitant decarbozylation at C-12. In many
organisms, this protein is fused to the CbiE subunit.
The fused protein, when found in organisms catalyzing
the oxidative version of the cobalamin biosynthesis
pathway, is called CobL [Biosynthesis of cofactors,
prosthetic groups, and carriers, Heme, porphyrin, and
cobalamin].
Length = 124
Score = 30.8 bits (70), Expect = 0.60
Identities = 11/51 (21%), Positives = 21/51 (41%)
Query: 305 RLASPIPGDVFLDPMCGGGTIPVECSLSYPHTFFVCGDINEKLVLKTQANV 355
PGDV D G G++ +E + P+ + N + + + N+
Sbjct: 13 SKLRLRPGDVLWDIGAGTGSVTIEAARLVPNGRVYAIERNPEALDLIERNL 63
>gnl|CDD|166325 PLN02684, PLN02684, Probable galactinol--sucrose
galactosyltransferase.
Length = 750
Score = 31.8 bits (72), Expect = 0.96
Identities = 22/82 (26%), Positives = 35/82 (42%), Gaps = 14/82 (17%)
Query: 90 TEEDSGQKDESDLL---------KDKLKD-----VATIQNKVLEIDWKKYMEIWKQITNY 135
T E +K E LL K K KD + I N E KY+ +W IT Y
Sbjct: 252 TVEAGDEKKEQPLLRLTGIKENEKFKKKDDPNVGIKNIVNIAKEKHGLKYVYVWHAITGY 311
Query: 136 NGVLYPSIEQFNKYNDILRHKK 157
G + P +++ +Y ++++
Sbjct: 312 WGGVRPGVKEMEEYGSVMKYPN 333
>gnl|CDD|187859 cd09728, 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 DxTHG family.
Length = 400
Score = 31.2 bits (71), Expect = 1.4
Identities = 12/73 (16%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 125 YMEIWKQITNYNGVLYPSIEQFNK-YNDILRHKKSIRNEINIKKESSCETEPQVNNVQIE 183
+++I+K I + + +E+ + + + K I+NE++ K + E + + I
Sbjct: 300 FLKIYKGIFENSEISLEDLEKLLELFFEREVISKIIKNELSKIKNLAEEIKGEELIKLIL 359
Query: 184 KGDLQNQELKEID 196
+ ++ ++D
Sbjct: 360 FYNEGDKIDCQVD 372
>gnl|CDD|215507 PLN02939, PLN02939, transferase, transferring glycosyl groups.
Length = 977
Score = 31.0 bits (70), Expect = 1.8
Identities = 48/225 (21%), Positives = 97/225 (43%), Gaps = 25/225 (11%)
Query: 31 VVEECQEKFGKDLLLMKSIGRVFFNIDLKDIEKVKE----LRGIDNILFIIATFENFGFS 86
++EE EK +LL+ + + + K+++ +KE L+ D+I F+ A
Sbjct: 198 ILEEQLEKLRNELLIRGATEGLCVHSLSKELDVLKEENMLLK--DDIQFLKAELIEV--- 252
Query: 87 NKGTEEDSGQ-KDESDLLKDKLKDVAT----IQNKVLEIDWKKYMEIWKQITNYNGVLYP 141
TEE + + E LL L+++ + Q V ++ +Y W+++ N +L
Sbjct: 253 -AETEERVFKLEKERSLLDASLRELESKFIVAQEDVSKLSPLQYDCWWEKVENLQDLLDR 311
Query: 142 SIEQFNKYNDILRHKKSIRNEINIKKESSCETEPQVNNVQIEKGDLQNQELKEIDINSMC 201
+ Q K +L + +R++++ + S E V+ K +L Q+LK ++
Sbjct: 312 ATNQVEKAALVLDQNQDLRDKVDKLEASLKEA--NVSKFSSYKVELLQQKLKLLEERLQA 369
Query: 202 SSQNQKTNFTNPEENLLKFRVTCN--------RVGKHTVTSMESE 238
S + +E++ +F+ T + R +H M SE
Sbjct: 370 SDHEIHSYIQLYQESIKEFQDTLSKLKEESKKRSLEHPADDMPSE 414
>gnl|CDD|130658 TIGR01597, PYST-B, Plasmodium yoelii subtelomeric family PYST-B.
This model represents a paralogous family of Plasmodium
yoelii genes preferentially located in the subtelomeric
regions of the chromosomes. There are no obvious
homologs to these genes in any other organism.
Length = 255
Score = 29.5 bits (66), Expect = 3.7
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 145 QFNKYNDILRHKKSIRNEIN--IKKESSCETEPQVNNVQIEKGDLQNQELKEID 196
QFN ND + +RN I+ IKK T P +NNV + L N+ KE++
Sbjct: 70 QFNDCNDDDKEIAHLRNIIDSHIKKHKERNTLPDLNNVDKKTKKLINKLQKELE 123
>gnl|CDD|236254 PRK08384, PRK08384, thiamine biosynthesis protein ThiI;
Provisional.
Length = 381
Score = 29.5 bits (66), Expect = 4.1
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 10/69 (14%)
Query: 219 KFRVTCNRVGKH-TVTSMESERAFGGKLNDTYFWLVDLDDYDIDINLQIRYNEAYV---- 273
+FRVT R+ K + S E + G + + VDL +YDI++ +++ +AYV
Sbjct: 109 RFRVTARRITKEFPLKSPEIQAKVGEYILENEESEVDLHNYDIEVGVELMEGKAYVFVDK 168
Query: 274 -----GLPV 277
GLP+
Sbjct: 169 VKAWGGLPI 177
>gnl|CDD|99741 cd00617, Tnase_like, Tryptophanase family (Tnase). This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). The major groups
in this CD correspond to tryptophanase (Tnase) and
tyrosine phenol-lyase (TPL). Tnase and TPL are active as
tetramers and catalyze beta-elimination reactions. Tnase
catalyzes degradation of L-tryptophan to yield indole,
pyruvate and ammonia and TPL catalyzes degradation of
L-tyrosine to yield phenol, pyruvate and ammonia.
Length = 431
Score = 29.6 bits (67), Expect = 4.1
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 55 NIDLKDIEKVKELRGIDNILFIIATFEN 82
NID+ +EK+ + G +NI +I+ T N
Sbjct: 135 NIDVAKLEKLIDEVGAENIPYIVLTITN 162
>gnl|CDD|224657 COG1743, COG1743, Adenine-specific DNA methylase containing a
Zn-ribbon [DNA replication, recombination, and repair].
Length = 875
Score = 29.8 bits (67), Expect = 4.5
Identities = 10/36 (27%), Positives = 12/36 (33%), Gaps = 6/36 (16%)
Query: 293 TTLKPTIAYNMVRLASPIPGDVFLDPMCGGGTIPVE 328
P LDP GGG+IP+E
Sbjct: 78 NPRWPQPIETPFEGPK------LLDPFAGGGSIPLE 107
>gnl|CDD|176509 cd08566, GDPD_AtGDE_like, Glycerophosphodiester phosphodiesterase
domain of Agrobacterium tumefaciens and similar
proteins. This subfamily corresponds to the
glycerophosphodiester phosphodiesterase domain (GDPD)
present in Agrobacterium tumefaciens
glycerophosphodiester phosphodiesterase (AtGDE, EC
3.1.4.46) and its uncharacterized eukaryotic homolgoues.
Members in this family shows high sequence similarity to
Escherichia coli GP-GDE, which catalyzes the degradation
of glycerophosphodiesters to produce
sn-glycerol-3-phosphate (G3P) and the corresponding
alcohols. AtGDE exists as a hexamer that is a trimer of
dimers, which is unique among current known GDPD family
members. However, it remains unclear if the hexamer
plays a physiological role in AtGDE enzymatic function.
Length = 240
Score = 28.8 bits (65), Expect = 5.3
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 6/39 (15%)
Query: 49 IGRVFFNIDLKD------IEKVKELRGIDNILFIIATFE 81
G++ N+DLKD I VK+ +D ++F + E
Sbjct: 98 KGKILLNLDLKDADLDEVIALVKKHGALDQVIFKSYSEE 136
>gnl|CDD|202698 pfam03602, Cons_hypoth95, Conserved hypothetical protein 95.
Length = 183
Score = 28.4 bits (64), Expect = 5.8
Identities = 11/51 (21%), Positives = 18/51 (35%), Gaps = 6/51 (11%)
Query: 285 RNIVEFNITTLKPTIA------YNMVRLASPIPGDVFLDPMCGGGTIPVEC 329
R + +PT +N++ I G LD G G + +E
Sbjct: 11 RKLKVPPGPGTRPTTDRVREALFNILAPYFEIGGARVLDLFAGSGALGLEA 61
>gnl|CDD|177858 PLN02208, PLN02208, glycosyltransferase family protein.
Length = 442
Score = 28.8 bits (64), Expect = 6.9
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 2 DLHKLVSTAQSDEKQITIEATVVTGFEDVVVEECQE 37
DL KLV + + K+I + ++TG+ D VEE QE
Sbjct: 404 DLGKLVRSNHTKLKEILVSPGLLTGYVDKFVEELQE 439
>gnl|CDD|204685 pfam11599, AviRa, RRNA methyltransferase AviRa. This family of
proteins represents the methyltransferase AviRa from
Streptomyces viridochromogenes. This protein mediates
the resistance to the antibiotic avilamycin. AviRa
methylates a specific guanine base within the
peptidyl-transferase loop of the 23S ribosomal RNA.
Length = 248
Score = 28.4 bits (63), Expect = 7.3
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 21/106 (19%)
Query: 374 NVRQLCFKPACVDGIVTDLPFGKR------VGSKSNNFLLYRLFLIEIGKIVRPQIGRAI 427
N + C D I+TDLP+G+ VG LL L + I
Sbjct: 157 NALEACDAGFAPDIIITDLPYGEMTEWEEQVGGGGIAGLLNALAAACGADAI-------I 209
Query: 428 LLTSDRKHLIQALHITSALWKCRKQIKINMSGMKSFVFILNRTADL 473
+ D+K Q +H A++K +++KI G + + + AD+
Sbjct: 210 AVCMDKK---QKIHN--AIFKALERLKI---GKRKAEIVKKKAADI 247
>gnl|CDD|234740 PRK00377, cbiT, cobalt-precorrin-6Y C(15)-methyltransferase;
Provisional.
Length = 198
Score = 28.2 bits (63), Expect = 7.4
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 312 GDVFLDPMCGGGTIPVECSLSYPHTFFVCG-DINEKLVLKTQANV 355
GD+ LD CG G++ VE SL T V D +EK + T+ N
Sbjct: 41 GDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNA 85
>gnl|CDD|215203 PLN02355, PLN02355, probable galactinol--sucrose
galactosyltransferase 1.
Length = 758
Score = 28.7 bits (64), Expect = 8.2
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 5/70 (7%)
Query: 85 FSNKGT---EEDSGQKD--ESDLLKDKLKDVATIQNKVLEIDWKKYMEIWKQITNYNGVL 139
F+N+ T E QK+ E + D + I ++ E KY+ +W IT Y G +
Sbjct: 265 FANRLTHIKENHKFQKNGKEGHRVDDPALGLGHIVTEIKEKHSLKYVYVWHAITGYWGGV 324
Query: 140 YPSIEQFNKY 149
P + Y
Sbjct: 325 KPGVAGMEHY 334
>gnl|CDD|177161 MTH00099, COX3, cytochrome c oxidase subunit III; Validated.
Length = 261
Score = 28.5 bits (64), Expect = 8.4
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 428 LLTSDRKHLIQALHITSAL 446
L+ +RKH++QAL IT L
Sbjct: 151 LMEGNRKHMLQALFITILL 169
>gnl|CDD|212587 cd11718, THUMP_SPOUT, THUMP domain associated with SPOUT RNA
Methylases. Members of this archaeal protein family are
characterized by containing an N-terminal THUMP domain
and a C-terminal SPOUT RNA methyltransferase domain. No
functional information is available The THUMP domain is
named after thiouridine synthases, methylases and PSUSs.
The domain consists of about 110 amino acid residues. It
is predicted to be an RNA-binding domain and probably
functions by delivering a variety of RNA modification
enzymes to their targets.
Length = 145
Score = 27.6 bits (62), Expect = 9.0
Identities = 16/56 (28%), Positives = 28/56 (50%)
Query: 220 FRVTCNRVGKHTVTSMESERAFGGKLNDTYFWLVDLDDYDIDINLQIRYNEAYVGL 275
F V R GKH TS++ G + + VDL++ D + ++I + AY+ +
Sbjct: 90 FAVRTTRRGKHDFTSIDVNVVLGAAVKELTGAEVDLNNPDKVVYVEIIGDRAYISI 145
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
0.320 0.138 0.403
Gapped
Lambda K H
0.267 0.0747 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 25,068,320
Number of extensions: 2472933
Number of successful extensions: 1976
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1946
Number of HSP's successfully gapped: 75
Length of query: 494
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 393
Effective length of database: 6,457,848
Effective search space: 2537934264
Effective search space used: 2537934264
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 (21.8 bits)
S2: 61 (27.2 bits)