RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 021397
(313 letters)
>gnl|CDD|223222 COG0144, Sun, tRNA and rRNA cytosine-C5-methylases [Translation,
ribosomal structure and biogenesis].
Length = 355
Score = 77.0 bits (190), Expect = 6e-16
Identities = 58/203 (28%), Positives = 83/203 (40%), Gaps = 13/203 (6%)
Query: 14 LPEAFLDFLKENGLDPSVYSAADSTPRYIRLKT--GNEADLEEIEAELKCKLEKVVWLSG 71
L E D L E+ + + PR +R+ T + +L E E EK L
Sbjct: 58 LVEKLPDALGEDEAEAIAAALLRPPPRSLRVNTLKADVEELLEALEEAGVLDEKPWVLDE 117
Query: 72 FYSLPPDIKIATSMAYKQGKIYGIDAASGAAVSALNISAGDHVLDLCAAPGAKLCMILDI 131
+ I + +G IY D AS L+ G+ VLDLCAAPG K + ++
Sbjct: 118 VLRIEASGPIGRLPEFAEGLIYVQDEASQLPALVLDPKPGERVLDLCAAPGGKTTHLAEL 177
Query: 132 IGDSGS-VTGVDVARHRLAACRTLLQKYALGDRC-RLFVADGTTF-SLAPL-----RLLL 183
+ + G+ V VDV+ RL R L++ LG R + D L P R+LL
Sbjct: 178 MENEGAIVVAVDVSPKRLKRLRENLKR--LGVRNVIVVNKDARRLAELLPGGEKFDRILL 235
Query: 184 D-PGSCNSVLQEKDDTFREWTSR 205
D P S V++ D T
Sbjct: 236 DAPCSGTGVIRRDPDVKWRRTPE 258
>gnl|CDD|237857 PRK14902, PRK14902, 16S rRNA methyltransferase B; Provisional.
Length = 444
Score = 63.7 bits (156), Expect = 3e-11
Identities = 26/68 (38%), Positives = 38/68 (55%)
Query: 81 IATSMAYKQGKIYGIDAASGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTG 140
IA + +K G I D +S AL+ GD VLD CAAPG K I +++ ++G V
Sbjct: 221 IAGTDLFKDGLITIQDESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTGKVVA 280
Query: 141 VDVARHRL 148
+D+ H+L
Sbjct: 281 LDIHEHKL 288
>gnl|CDD|188051 TIGR00446, nop2p, NOL1/NOP2/sun family putative RNA methylase.
[Protein synthesis, tRNA and rRNA base modification].
Length = 264
Score = 53.2 bits (128), Expect = 4e-08
Identities = 44/176 (25%), Positives = 69/176 (39%), Gaps = 19/176 (10%)
Query: 42 IRLKT--GNEADLEEIEAELKCKLEKVVWLSGFYSLPPDI-KIATSMAYKQGKIYGIDAA 98
IR+ T N DL E LE F+ + I ++ Y G Y +A+
Sbjct: 1 IRVNTLKINVEDLLERLENRGVVLEPT-CEEYFFEVKESPFSIGSTPEYLFGYYYPQEAS 59
Query: 99 SGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLLQKY 158
S AL + VLD+ AAPG K I ++ + G + ++++ R A + +
Sbjct: 60 SMIPPIALEPREDERVLDMAAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNIN-- 117
Query: 159 ALGDRC-----RLFVADGTTFSLAPL---RLLLD-PGSCNSVLQEKDDTFREWTSR 205
R + ADG F L +LLD P S V+++ R W+
Sbjct: 118 ----RMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRKDPSRKRNWSEE 169
Score = 27.4 bits (61), Expect = 9.2
Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 7/44 (15%)
Query: 264 GYDKVLVDAECTHDGSI-KHIQKFENW------GWTTLQRRVLD 300
+D +L+DA C+ +G I K + NW + LQ+ ++D
Sbjct: 140 KFDAILLDAPCSGEGVIRKDPSRKRNWSEEDIKYCSLLQKELID 183
>gnl|CDD|233025 TIGR00563, rsmB, ribosomal RNA small subunit methyltransferase
RsmB. This protein is also known as sun protein. The
reading frame was originally interpreted as two reading
frames, fmu and fmv. The recombinant protein from E.
coli was shown to methylate only C967 of small subunit
(16S) ribosomal RNA and to produce only m5C at that
position. The seed alignment is built from bacterial
sequences only. Eukaryotic homologs include Nop2, a
protein required for processing pre-rRNA, that is likely
also a rRNA methyltransferase, although the fine
specificity may differ. Cutoff scores are set to avoid
treating archaeal and eukaroytic homologs automatically
as functionally equivalent, although they may have very
similar roles [Protein synthesis, tRNA and rRNA base
modification].
Length = 426
Score = 53.3 bits (128), Expect = 6e-08
Identities = 32/118 (27%), Positives = 50/118 (42%), Gaps = 13/118 (11%)
Query: 96 DAASGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLL 155
DA++ + L + +LD CAAPG K IL++ V +D+ HRL L
Sbjct: 224 DASAQWVATWLAPQNEETILDACAAPGGKTTHILELAPQ-AQVVALDIHEHRLKRVYENL 282
Query: 156 QKYALGDRCRLFVADGTTFSLAPL-------RLLLD-PGSCNSVLQEKDDTFREWTSR 205
++ LG + DG + R+LLD P S V++ D +W +
Sbjct: 283 KR--LGLTIKAETKDGDGRGPSQWAENEQFDRILLDAPCSATGVIRRHPDI--KWLRK 336
>gnl|CDD|237858 PRK14904, PRK14904, 16S rRNA methyltransferase B; Provisional.
Length = 445
Score = 48.1 bits (115), Expect = 3e-06
Identities = 46/164 (28%), Positives = 60/164 (36%), Gaps = 18/164 (10%)
Query: 40 RYIRLKTGNEADLEEIEAE----LKCKLEKVVWLSGFYSLPPDIKIATSMAYKQGKIYGI 95
R RLKT E L K L F P K G +
Sbjct: 184 RINRLKTTPEKFLAAPADASVTFEKSGLPNFFLSKDFSLFEP--------FLKLGLVSVQ 235
Query: 96 DAASGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLL 155
+ A LN G VLDLCAAPG K + +++ + G +T VD +L R+
Sbjct: 236 NPTQALACLLLNPQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHA 295
Query: 156 QKYALG-DRCRLFVADGTTFS--LAPLRLLLD-PGSCNSVLQEK 195
ALG D +FS P +LLD P + VL +
Sbjct: 296 S--ALGITIIETIEGDARSFSPEEQPDAILLDAPCTGTGVLGRR 337
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 44.0 bits (104), Expect = 7e-06
Identities = 22/68 (32%), Positives = 25/68 (36%), Gaps = 1/68 (1%)
Query: 111 GDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLLQKYALGDRCRLFVAD 170
GD VLD A GA L G V GV++ A R L L R R+ V D
Sbjct: 1 GDRVLDPGAGSGAFLLAAARA-GPDARVVGVELDPEAAALARRRLALAGLAPRVRVVVGD 59
Query: 171 GTTFSLAP 178
P
Sbjct: 60 ARELLELP 67
>gnl|CDD|236790 PRK10901, PRK10901, 16S rRNA methyltransferase B; Provisional.
Length = 427
Score = 45.6 bits (109), Expect = 2e-05
Identities = 28/78 (35%), Positives = 38/78 (48%), Gaps = 3/78 (3%)
Query: 96 DAASGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLL 155
DAA+ A + L G+ VLD CAAPG K IL+ + V +D+ RL R L
Sbjct: 230 DAAAQLAATLLAPQNGERVLDACAAPGGKTAHILE-LAPQAQVVALDIDAQRLERVRENL 288
Query: 156 QKYALGDRCRLFVADGTT 173
Q+ LG + + V D
Sbjct: 289 QR--LGLKATVIVGDARD 304
>gnl|CDD|201649 pfam01189, Nol1_Nop2_Fmu, NOL1/NOP2/sun family.
Length = 277
Score = 43.5 bits (103), Expect = 5e-05
Identities = 30/95 (31%), Positives = 44/95 (46%), Gaps = 8/95 (8%)
Query: 96 DAASGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLL 155
DA+S ALN + +LD+CAAPG K I +++ + G+V VD + RL +
Sbjct: 70 DASSQLDAIALNPQEDEFILDMCAAPGGKTTHIAELMKNEGTVVAVDRNKQRLKRVYANI 129
Query: 156 QKYALGDR-CRLFVADGTTFSLAPL-----RLLLD 184
Q+ LG + D L R+LLD
Sbjct: 130 QR--LGVFNIIVQEGDARQIDQKLLGGEFDRILLD 162
>gnl|CDD|237856 PRK14901, PRK14901, 16S rRNA methyltransferase B; Provisional.
Length = 434
Score = 41.5 bits (98), Expect = 4e-04
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 87 YKQGKIYGIDAASGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARH 146
Y++G D ++ L+ G+ +LD CAAPG K I +++GD G + VD +
Sbjct: 229 YEEGWWTVQDRSAQLVAPLLDPQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSAS 288
Query: 147 RL 148
RL
Sbjct: 289 RL 290
>gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent
methyltransferases (SAM or AdoMet-MTase), class I;
AdoMet-MTases are enzymes that use
S-adenosyl-L-methionine (SAM or AdoMet) as a substrate
for methyltransfer, creating the product
S-adenosyl-L-homocysteine (AdoHcy). There are at least
five structurally distinct families of AdoMet-MTases,
class I being the largest and most diverse. Within this
class enzymes can be classified by different substrate
specificities (small molecules, lipids, nucleic acids,
etc.) and different target atoms for methylation
(nitrogen, oxygen, carbon, sulfur, etc.).
Length = 107
Score = 38.6 bits (90), Expect = 5e-04
Identities = 20/93 (21%), Positives = 31/93 (33%), Gaps = 8/93 (8%)
Query: 114 VLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLLQKYALGDRCRLFVADGTT 173
VLDL GA + G VTGVD++ L R L D + D
Sbjct: 2 VLDLGCGTGALALALASGPG--ARVTGVDISPVALELARKAAA-ALLADNVEVLKGDAEE 58
Query: 174 FSLAPLR----LLLDPGSCNSVLQEKDDTFREW 202
++ DP + ++++ E
Sbjct: 59 LPPEADESFDVIISDP-PLHHLVEDLARFLEEA 90
>gnl|CDD|184896 PRK14903, PRK14903, 16S rRNA methyltransferase B; Provisional.
Length = 431
Score = 40.2 bits (94), Expect = 9e-04
Identities = 16/43 (37%), Positives = 26/43 (60%)
Query: 106 LNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRL 148
+ + G VLD CAAPG K I +++ D G + VD++R ++
Sbjct: 233 MELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKI 275
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 39.1 bits (92), Expect = 0.002
Identities = 18/69 (26%), Positives = 26/69 (37%), Gaps = 2/69 (2%)
Query: 104 SALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLLQKYALGDR 163
L + GD VLD+ PG + +G G V G+D + LA + + LG
Sbjct: 13 ELLAVQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKE--RAAGLGPN 70
Query: 164 CRLFVADGT 172
D
Sbjct: 71 VEFVRGDAD 79
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This family
appears to be have methyltransferase activity.
Length = 151
Score = 36.6 bits (85), Expect = 0.004
Identities = 12/63 (19%), Positives = 25/63 (39%), Gaps = 1/63 (1%)
Query: 108 ISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLLQKYALGDRCRLF 167
+ +G VLDL G ++ + +G V G+D++ + + +K +
Sbjct: 1 LKSGIKVLDLGCGTGYLTFILAEKLGPGAEVVGIDISEEAIEKAKENAKKLGY-ENVEFI 59
Query: 168 VAD 170
D
Sbjct: 60 QGD 62
>gnl|CDD|234689 PRK00216, ubiE, ubiquinone/menaquinone biosynthesis
methyltransferase; Reviewed.
Length = 239
Score = 37.1 bits (87), Expect = 0.006
Identities = 19/77 (24%), Positives = 27/77 (35%), Gaps = 22/77 (28%)
Query: 101 AAVSALNISAGDHVLDLCAAPGAKLCMILDII-------GDSGSVTGVD-------VARH 146
+ L + GD VLDL G D+ G +G V G+D V R
Sbjct: 42 KTIKWLGVRPGDKVLDLACGTG-------DLAIALAKAVGKTGEVVGLDFSEGMLAVGRE 94
Query: 147 RLAACRTLLQ-KYALGD 162
+L ++ GD
Sbjct: 95 KLRDLGLSGNVEFVQGD 111
>gnl|CDD|232976 TIGR00438, rrmJ, cell division protein FtsJ. Methylates the 23S
rRNA. Previously known as cell division protein ftsJ.//
Trusted cutoff too high? [SS 10/1/04] [Protein
synthesis, tRNA and rRNA base modification].
Length = 188
Score = 36.7 bits (85), Expect = 0.006
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 108 ISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVAR 145
I GD VLDL AAPG + ++ +G G V VD+
Sbjct: 30 IKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQP 67
>gnl|CDD|223370 COG0293, FtsJ, 23S rRNA methylase [Translation, ribosomal structure
and biogenesis].
Length = 205
Score = 36.0 bits (84), Expect = 0.013
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 108 ISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDV 143
G V+DL AAPG + +G G + VD+
Sbjct: 43 FKPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDI 78
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 33.8 bits (78), Expect = 0.021
Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 2/61 (3%)
Query: 110 AGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLLQKYALGDRCRLFVA 169
G VLD+ G+ + + VTGVD++ L R + ALG R
Sbjct: 1 PGARVLDIGCGTGSLAIELARLFPG-ARVTGVDLSPEMLELARENAKL-ALGPRITFVQG 58
Query: 170 D 170
D
Sbjct: 59 D 59
>gnl|CDD|131799 TIGR02752, MenG_heptapren, demethylmenaquinone methyltransferase.
MenG is a generic term for a methyltransferase that
catalyzes the last step in menaquinone biosynthesis; the
exact enzymatic activity differs for different MenG
because the menaquinone differ in their prenoid side
chains in different species. Members of this MenG
protein family are 2-heptaprenyl-1,4-naphthoquinone
methyltransferase, and are found together in operons
with the two subunits of the heptaprenyl diphosphate
synthase in Bacillus subtilis and related species
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Menaquinone and ubiquinone].
Length = 231
Score = 35.2 bits (81), Expect = 0.030
Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 3/71 (4%)
Query: 106 LNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLLQKYALGDRCR 165
+N+ AG LD+C + + +G G V G+D + + L+ R QK
Sbjct: 41 MNVQAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGR---QKVKDAGLHN 97
Query: 166 LFVADGTTFSL 176
+ + G L
Sbjct: 98 VELVHGNAMEL 108
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 34.9 bits (81), Expect = 0.037
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 2/70 (2%)
Query: 101 AAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAACRTLLQKYAL 160
A +S L I GD VLD+ G ++ +G +G V G+D++ L R L+K +
Sbjct: 42 ALISLLGIKPGDKVLDVACGTGDMALLLAKSVG-TGEVVGLDISESMLEVAREKLKKKGV 100
Query: 161 GDRCRLFVAD 170
+ V D
Sbjct: 101 QN-VEFVVGD 109
>gnl|CDD|177877 PLN02233, PLN02233, ubiquinone biosynthesis methyltransferase.
Length = 261
Score = 34.5 bits (79), Expect = 0.044
Identities = 18/48 (37%), Positives = 25/48 (52%)
Query: 102 AVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLA 149
AVS GD VLDLC G ++ + +G G V G+D + +LA
Sbjct: 65 AVSWSGAKMGDRVLDLCCGSGDLAFLLSEKVGSDGKVMGLDFSSEQLA 112
>gnl|CDD|165207 PHA02876, PHA02876, ankyrin repeat protein; Provisional.
Length = 682
Score = 33.9 bits (77), Expect = 0.12
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 2/42 (4%)
Query: 43 RLKTGNE--ADLEEIEAELKCKLEKVVWLSGFYSLPPDIKIA 82
RLKT +D EI + + KL++++ S + LPPDIK++
Sbjct: 625 RLKTSISLASDRHEILEKSRSKLDEILDSSDWSKLPPDIKLS 666
>gnl|CDD|233645 TIGR01934, MenG_MenH_UbiE, ubiquinone/menaquinone biosynthesis
methyltransferases. This model represents a family of
methyltransferases involved in the biosynthesis of
menaquinone and ubiqinone. Some members such as the UbiE
enzyme from E. coli are believed to act in both
pathways, while others may act in only the menaquinone
pathway. These methyltransferases are members of the
UbiE/CoQ family of methyltransferases (pfam01209) which
also contains ubiquinone methyltransferases and other
methyltransferases. Members of this clade include a wide
distribution of bacteria and eukaryotes, but no archaea.
An outgroup for this clade is provided by the
phosphatidylethanolamine methyltransferase (EC 2.1.1.17)
from Rhodobacter sphaeroides. Note that a number of
non-orthologous genes which are members of pfam03737
have been erroneously annotated as MenG
methyltransferases [Biosynthesis of cofactors,
prosthetic groups, and carriers, Menaquinone and
ubiquinone].
Length = 223
Score = 33.0 bits (76), Expect = 0.12
Identities = 14/42 (33%), Positives = 18/42 (42%)
Query: 101 AAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVD 142
AV + + G VLD+ G + D G VTGVD
Sbjct: 30 RAVKLIGVFKGQKVLDVACGTGDLAIELAKSAPDRGKVTGVD 71
>gnl|CDD|225317 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and
related methyltransferases [Translation, ribosomal
structure and biogenesis].
Length = 256
Score = 31.9 bits (73), Expect = 0.33
Identities = 25/79 (31%), Positives = 35/79 (44%), Gaps = 2/79 (2%)
Query: 92 IYGIDAASGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAAC 151
IY D +G V+ L IS G VL+ GA + +G G VT ++
Sbjct: 78 IYPKD--AGYIVARLGISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTA 135
Query: 152 RTLLQKYALGDRCRLFVAD 170
R L ++ LGDR L + D
Sbjct: 136 RENLSEFGLGDRVTLKLGD 154
>gnl|CDD|224030 COG1105, FruK, Fructose-1-phosphate kinase and related
fructose-6-phosphate kinase (PfkB) [Carbohydrate
transport and metabolism].
Length = 310
Score = 31.8 bits (73), Expect = 0.45
Identities = 29/113 (25%), Positives = 46/113 (40%), Gaps = 25/113 (22%)
Query: 16 EAFLDFLKENGLDPSVYSAADSTPRYIRLKTG---------------NEADLEEIEAELK 60
E F+ LK+ G+ + T +++ +EA+LE+ +LK
Sbjct: 65 EFFVALLKDEGIPDAFVEVKGDTRINVKILDEEDGEETEINFPGPEISEAELEQFLEQLK 124
Query: 61 CKLEK--VVWLSGFYSLPPDIKIA-----TSMAYKQGKIYGIDAASGAAVSAL 106
LE +V LSG SLPP + + +QG +D SG A+ A
Sbjct: 125 ALLESDDIVVLSG--SLPPGVPPDAYAELIRILRQQGAKVILD-TSGEALLAA 174
>gnl|CDD|216666 pfam01728, FtsJ, FtsJ-like methyltransferase. This family consists
of FtsJ from various bacterial and archaeal sources FtsJ
is a methyltransferase, but actually has no effect on
cell division. FtsJ's substrate is the 23S rRNA. The 1.5
A crystal structure of FtsJ in complex with its cofactor
S-adenosylmethionine revealed that FtsJ has a
methyltransferase fold. This family also includes the N
terminus of flaviviral NS5 protein. It has been
hypothesised that the N-terminal domain of NS5 is a
methyltransferase involved in viral RNA capping.
Length = 177
Score = 31.0 bits (71), Expect = 0.48
Identities = 25/93 (26%), Positives = 36/93 (38%), Gaps = 18/93 (19%)
Query: 91 KIYGIDAASGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHRLAA 150
K+ ID G L G VLDL AAPG ++L+ G +G V VD+
Sbjct: 8 KLLEIDERFG-----LKPGKGKTVLDLGAAPGGFSQVLLE-RGGAGKVVAVDLGPMEPIQ 61
Query: 151 CRTLLQ------------KYALGDRCRLFVADG 171
L+ + L + L ++DG
Sbjct: 62 GVYFLRGDITDPETLEKLRELLPGKVDLVLSDG 94
>gnl|CDD|128549 smart00253, SOCS, suppressors of cytokine signalling.
suppressors of cytokine signalling.
Length = 43
Score = 28.4 bits (64), Expect = 0.48
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 3 CTLDGEISKLPLPEAFLDFLKE 24
CT +I LPLP D+L
Sbjct: 21 CTRTDQIKTLPLPPKLKDYLSY 42
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 31.2 bits (71), Expect = 0.64
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 97 AASGAAVSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHR 147
AA V+ + I G VL L AA G + + D++G G V V+ + HR
Sbjct: 119 AAIIGGVANIPIKPGSKVLYLGAASGTTVSHVSDLVGPEGVVYAVEFS-HR 168
>gnl|CDD|212114 cd10803, YdjC_EF3048_like, Enterococcus faecalis EF3048 and similar
proteins. This subfamily is represented by a putative
cellobiose-phosphate cleavage protein EF3048 from
Enterococcus faecalis v583. It is similar to Escherichia
coli YdjC, a hypothetical protein encoded by the celG
gene. EF3048 might function as a homodimer. Each of the
monomers consists of a (beta/alpha)-barrel fold that
forms an active homodimer. The molecular function of the
EF3048 is unclear.
Length = 228
Score = 30.2 bits (69), Expect = 1.1
Identities = 8/28 (28%), Positives = 13/28 (46%)
Query: 39 PRYIRLKTGNEADLEEIEAELKCKLEKV 66
+ + E D EE+ E K ++EK
Sbjct: 82 RKQSDYEGEGEIDPEEVYREWKAQIEKF 109
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 97
Score = 28.5 bits (64), Expect = 1.6
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 8/59 (13%)
Query: 114 VLDLCAAPGAKLCMILDIIGDSG--SVTGVDVARHRLAACRTLLQKYALGDRCRLFVAD 170
+LDL G +L + +G SVTGVD+++ L + L+ G + R VAD
Sbjct: 1 ILDLGCGTG----RVLRALARAGPSSVTGVDISKEALELAKERLRDK--GPKVRFVVAD 53
>gnl|CDD|183387 PRK11933, yebU, rRNA (cytosine-C(5)-)-methyltransferase RsmF;
Reviewed.
Length = 470
Score = 29.9 bits (68), Expect = 1.8
Identities = 38/124 (30%), Positives = 60/124 (48%), Gaps = 13/124 (10%)
Query: 14 LPEAFLDFLKE---NGLDPSVYSAADSTP--RYIRLKT--GNEADLEEIEAELKCKLEKV 66
LP+AFL ++E + L + AA P R IR+ T + AD ++ A L +
Sbjct: 4 LPDAFLTQMREAMPSHLSMDDFIAACQRPLRRSIRVNTLKISVADFLQLMAPYGWTLTPI 63
Query: 67 VWLS-GFYSLPPD---IKIATSMAYKQGKIYGIDAASGAAVSAL--NISAGDHVLDLCAA 120
W GF+ D + + + + G Y +A+S V+AL + +A VLD+ AA
Sbjct: 64 PWCEEGFWIERDDEDALPLGNTAEHLSGLFYIQEASSMLPVAALFADDNAPQRVLDMAAA 123
Query: 121 PGAK 124
PG+K
Sbjct: 124 PGSK 127
>gnl|CDD|201699 pfam01269, Fibrillarin, Fibrillarin.
Length = 229
Score = 29.5 bits (67), Expect = 2.0
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 103 VSALNISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVARHR 147
+ + I G VL L AA G + + DI+G G V V+ + R
Sbjct: 66 LDNIPIKPGSKVLYLGAASGTTVSHVSDIVGPEGVVYAVEFS-PR 109
>gnl|CDD|237790 PRK14694, PRK14694, putative mercuric reductase; Provisional.
Length = 468
Score = 29.5 bits (66), Expect = 2.1
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 97 AASGAAVSALNISAGDHVLDLCAAPG 122
AA+G + +A+N++ GD LDL A P
Sbjct: 321 AAAGGSRAAINMTGGDASLDLSAMPE 346
>gnl|CDD|235809 PRK06464, PRK06464, phosphoenolpyruvate synthase; Validated.
Length = 795
Score = 29.7 bits (68), Expect = 2.7
Identities = 16/74 (21%), Positives = 30/74 (40%), Gaps = 13/74 (17%)
Query: 16 EAFLDFLKENGLDPSVYSAADSTPRYIRLKTGNEADLEEIEAELKCKLEKVVWLSGFYSL 75
EA+ FL++ GL+ +Y D L + L + A+++ +
Sbjct: 51 EAYRYFLEQTGLNEKIYELLDG------LDVDDVDALAKAGAQIRQLIIDT-------PF 97
Query: 76 PPDIKIATSMAYKQ 89
PPD++ AY +
Sbjct: 98 PPDLEQEIREAYAK 111
>gnl|CDD|211887 TIGR03907, QH_beta, quinohemoprotein amine dehydrogenase, beta
subunit. Quinohemoprotein amine dehydrogenase is a
three subunit enzyme with both a heme group and a
cysteine tryptophylquinone group derived by
post-translational modification of the gamma subunit.
This model describes the beta subunit. This enzyme
catalyzes oxidative deamination of primary aliphatic and
aromatic amines (PMID:10346915) [Energy metabolism,
Amino acids and amines].
Length = 338
Score = 29.0 bits (65), Expect = 3.5
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 75 LPPDIKIATSMAYKQGKIYGIDAASGAAVSALNISAGD 112
+ PD K A + + +YGID +G V ++S+
Sbjct: 40 VSPDGKTAYVLNNRYEDVYGIDLDTGKNVFRADLSSAG 77
>gnl|CDD|221301 pfam11899, DUF3419, Protein of unknown function (DUF3419). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and eukaryotes.
Proteins in this family are typically between 398 to 802
amino acids in length.
Length = 376
Score = 28.7 bits (65), Expect = 4.6
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 12/58 (20%)
Query: 105 ALNISAGDHVLDLCAAPGAKLCMILDIIGDS-GSVTGVDVARH-------RLAACRTL 154
ALN+ D VL + +A C L + V VD+ +LAA R L
Sbjct: 30 ALNLGPDDTVLAITSAG----CNALSYLTAGPARVHAVDLNPAQNALLELKLAAIRAL 83
>gnl|CDD|197323 cd09089, INPP5c_Synj, Catalytic inositol polyphosphate
5-phosphatase (INPP5c) domain of synaptojanins. This
subfamily contains the INPP5c domains of two human
synaptojanins, synaptojanin 1 (Synj1) and synaptojanin 2
(Synj2), and related proteins. It belongs to a family of
Mg2+-dependent inositol polyphosphate 5-phosphatases,
which hydrolyze the 5-phosphate from the inositol ring
of various 5-position phosphorylated phosphoinositides
(PIs) and inositol phosphates (IPs). They belong to the
large EEP (exonuclease/endonuclease/phosphatase)
superfamily that contains functionally diverse enzymes
that share a common catalytic mechanism of cleaving
phosphodiester bonds. Synj1 occurs as two main isoforms:
a brain enriched 145 KDa protein (Synj1-145) and a
ubiquitously expressed 170KDa protein (Synj1-170).
Synj1-145 participates in clathrin-mediated endocytosis.
The primary substrate of the Synj1-145 INPP5c domain is
PI(4,5)P2, which it converts to PI4P. Synj1-145 may work
with membrane curvature sensors/generators (such as
endophilin) to remove PI(4,5)P2 from curved membranes.
The recruitment of the INPP5c domain of Synj1-145 to
endophilin-induced membranes leads to a fragmentation
and condensation of these structures. The PI(4,5)P2 to
PI4P conversion may cooperate with dynamin to produce
membrane fission. In addition to this INPP5c domain,
Synjs contain an N-terminal Sac1-like domain; the Sac1
domain can dephosphorylate a variety of
phosphoinositides in vitro. Synj2 can hydrolyze
phosphatidylinositol diphosphate (PIP2) to
phosphatidylinositol phosphate (PIP). Synj2 occurs as
multiple alternative splice variants in various tissues.
These variants share the INPP5c domain and the Sac1
domain. Synj2A is recruited to the mitochondria via its
interaction with OMP25 (a mitochondrial outer membrane
protein). Synj2B is found at nerve terminals in the
brain and at the spermatid manchette in testis. Synj2B
undergoes further alternative splicing to give 2B1 and
2B2. In clathrin-mediated endocytosis, Synj2
participates in the formation of clathrin-coated pits,
and perhaps also in vesicle decoating. Rac1 GTPase
regulates the intracellular localization of Synj2 forms,
but not Synj1. Synj2 may contribute to the role of Rac1
in cell migration and invasion, and is a potential
target for therapeutic intervention in malignant tumors.
Length = 328
Score = 28.5 bits (64), Expect = 4.8
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 202 WTSRIPWKERKRAVKARENAASKAIVRSEHP-ELIFYGR 239
WT R+ W+ RK E + + + +P L++YGR
Sbjct: 273 WTDRVLWRRRKWPSDKTEESLVETNDPTWNPGTLLYYGR 311
>gnl|CDD|178293 PLN02690, PLN02690, Agmatine deiminase.
Length = 374
Score = 28.5 bits (64), Expect = 4.8
Identities = 13/20 (65%), Positives = 14/20 (70%), Gaps = 2/20 (10%)
Query: 53 EEIEAELKCKL--EKVVWLS 70
EEIE ELK L EKV+WL
Sbjct: 192 EEIEEELKEYLGVEKVIWLP 211
>gnl|CDD|238874 cd01836, FeeA_FeeB_like, SGNH_hydrolase subfamily, FeeA, FeeB and
similar esterases/lipases. FeeA and FeeB are part of a
biosynthetic gene cluster and may participate in the
biosynthesis of long-chain N-acyltyrosines by providing
saturated and unsaturated fatty acids, which it turn are
loaded onto the acyl carrier protein FeeL. SGNH
hydrolases are a diverse family of lipases and
esterases. The tertiary fold of the enzyme is
substantially different from that of the alpha/beta
hydrolase family and unique among all known hydrolases;
its active site closely resembles the Ser-His-Asp(Glu)
triad found in other serine hydrolases.
Length = 191
Score = 27.6 bits (62), Expect = 5.8
Identities = 18/60 (30%), Positives = 23/60 (38%), Gaps = 5/60 (8%)
Query: 131 IIGDSGSVTGVDVARHRLAAC----RTLLQKYALGDRCRLFVADGTTFSLAPLRLLLDPG 186
++GDS + GV V A R L G R RLF G T + +L P
Sbjct: 7 VLGDS-TAAGVGVETQDQALAGQLARGLAAITGRGVRWRLFAKTGATSADLLRQLAPLPE 65
>gnl|CDD|224801 COG1889, NOP1, Fibrillarin-like rRNA methylase [Translation,
ribosomal structure and biogenesis].
Length = 231
Score = 27.7 bits (62), Expect = 6.6
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 108 ISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDVA 144
I G VL L AA G + + DI+G+ G + V+ +
Sbjct: 74 IKEGSKVLYLGAASGTTVSHVSDIVGE-GRIYAVEFS 109
>gnl|CDD|215749 pfam00148, Oxidored_nitro, Nitrogenase component 1 type
Oxidoreductase.
Length = 397
Score = 28.0 bits (63), Expect = 7.3
Identities = 20/85 (23%), Positives = 28/85 (32%), Gaps = 22/85 (25%)
Query: 20 DFLKENGLDPSVYSAADSTPRY---IRLKTGNE------ADLEEIEAELKCKLEKVVWLS 70
FL+E G++ P ++ ADLEE+E +K
Sbjct: 289 RFLEELGMEVVAVGTGTGHPDDYERLKALLDETLEVIDDADLEELEELIKE--------- 339
Query: 71 GFYSLPPDIKIATSMAYKQGKIYGI 95
L PD+ I S K GI
Sbjct: 340 ----LKPDLLIGGSKERYLAKKLGI 360
>gnl|CDD|183025 PRK11188, rrmJ, 23S rRNA methyltransferase J; Provisional.
Length = 209
Score = 27.4 bits (61), Expect = 8.3
Identities = 14/36 (38%), Positives = 17/36 (47%)
Query: 108 ISAGDHVLDLCAAPGAKLCMILDIIGDSGSVTGVDV 143
G V+DL AAPG + IGD G V D+
Sbjct: 49 FKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDI 84
>gnl|CDD|238388 cd00763, Bacterial_PFK, Phosphofructokinase, a key regulatory
enzyme in glycolysis, catalyzes the phosphorylation of
fructose-6-phosphate to fructose-1,6-biphosphate. The
members belong to a subfamily of the PFKA family
(cd00363) and include bacterial ATP-dependent
phosphofructokinases. These are allosrterically
regulated homotetramers; the subunits are of about 320
amino acids.
Length = 317
Score = 27.4 bits (61), Expect = 9.5
Identities = 15/35 (42%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 220 NAASKAIVRSEHPE-LIFYGRRSGIVGLTKEEIYQ 253
NAA + +VRS E L YG R G GL +I
Sbjct: 16 NAAIRGVVRSAIAEGLEVYGIRDGYAGLIAGDIVP 50
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
0.318 0.134 0.400
Gapped
Lambda K H
0.267 0.0791 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,179,635
Number of extensions: 1562461
Number of successful extensions: 1849
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1844
Number of HSP's successfully gapped: 58
Length of query: 313
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 216
Effective length of database: 6,635,264
Effective search space: 1433217024
Effective search space used: 1433217024
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: 59 (26.4 bits)