RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 018261
(359 letters)
>gnl|CDD|240367 PTZ00338, PTZ00338, dimethyladenosine transferase-like protein;
Provisional.
Length = 294
Score = 447 bits (1152), Expect = e-159
Identities = 177/332 (53%), Positives = 224/332 (67%), Gaps = 45/332 (13%)
Query: 27 GISFHKSKGQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVEL 86
G+ F+K GQHILKNPL+++ IV+KA IK TD +LEIGPGTGNLT+KLL+ K VIA+E+
Sbjct: 7 GMVFNKKFGQHILKNPLVLDKIVEKAAIKPTDTVLEIGPGTGNLTEKLLQLAKKVIAIEI 66
Query: 87 DSRMVLELQRRFQSTPYSNRLKVIQGDVLKTDLPYFDICVANIPYQISSPLTFKLLFHQP 146
D RMV EL++RFQ++P +++L+VI+GD LKT+ PYFD+CVAN+PYQISSPL FKLL H+P
Sbjct: 67 DPRMVAELKKRFQNSPLASKLEVIEGDALKTEFPYFDVCVANVPYQISSPLVFKLLAHRP 126
Query: 147 AFRCAIIMFQKEFAMRLVAQPGDKLYCRLSVNTQLHARVSHLLKVGKNNFRPPPKVDSSV 206
FRCA++MFQKEFA+RL+AQPGD+LYCRLSVNTQL RV+HL+KV KN+F PPPKV+SSV
Sbjct: 127 LFRCAVLMFQKEFALRLLAQPGDELYCRLSVNTQLLCRVTHLMKVSKNSFNPPPKVESSV 186
Query: 207 VRIEPRKPRPQVNPVEWDGFLRICFIRKNKTLSSIFRLKNVLSMLEKNYRTLQALQSSQN 266
VRIEP+ P P V+ EWDG LRICF RKNKTLS+IF+ K+VL LE NY++ +
Sbjct: 187 VRIEPKNPPPDVDFEEWDGLLRICFSRKNKTLSAIFKTKSVLQTLEHNYKSWCTMI---- 242
Query: 267 SSLGNTEIGTDTPSLGDSNGDQSMGVDDGSDDEMDVEDDDGDSDVEGEVSEFKDKVLAVL 326
FK+ + +L
Sbjct: 243 ----------------------------------------NKKVPVSLE-PFKEFIAEIL 261
Query: 327 REGQFEEKRASKLTQQEFLYLLSLFNKAGIHF 358
+ EKR+ KL +FL LL FNK GIHF
Sbjct: 262 EDSGMFEKRSVKLDIDDFLKLLLAFNKKGIHF 293
>gnl|CDD|223109 COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation)
[Translation, ribosomal structure and biogenesis].
Length = 259
Score = 272 bits (698), Expect = 8e-91
Identities = 95/237 (40%), Positives = 132/237 (55%), Gaps = 12/237 (5%)
Query: 27 GISFHKSKGQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVEL 86
+K GQ+ L + +++ IV+ A I D +LEIGPG G LT+ LLE V A+E+
Sbjct: 1 MFRPNKRLGQNFLIDKNVIDKIVEAANISPGDNVLEIGPGLGALTEPLLERAARVTAIEI 60
Query: 87 DSRMVLELQRRFQSTPYSNRLKVIQGDVLKTDLP---YFDICVANIPYQISSPLTFKLLF 143
D R+ L+ RF L VI GD LK D P VAN+PY ISSP+ FKLL
Sbjct: 61 DRRLAEVLKERFAPYD---NLTVINGDALKFDFPSLAQPYKVVANLPYNISSPILFKLLE 117
Query: 144 HQPAFRCAIIMFQKEFAMRLVAQPGDKLYCRLSVNTQLHARVSHLLKVGKNNFRPPPKVD 203
+ + ++M QKE A RLVA+PG K Y RLSV Q +A V + V + F PPPKVD
Sbjct: 118 EKFIIQDMVLMVQKEVAERLVAKPGSKDYGRLSVLVQYYADVEIVFDVPPSAFYPPPKVD 177
Query: 204 SSVVRIEPRK--PRPQVNPVEWDGFLRICFIRKNKTLSSIFR----LKNVLSMLEKN 254
S+VVR+ P+K P P + ++ F++ F ++ KTL + + L+ VL +
Sbjct: 178 SAVVRLVPKKEKPSPVKDEEKFFKFVKAAFSQRRKTLRNNLKNLFGLEEVLEAAGID 234
>gnl|CDD|233115 TIGR00755, ksgA, dimethyladenosine transferase. In both E. coli
and Saccharomyces cerevisiae, this protein is
responsible for the dimethylation of two adjacent
adenosine residues in a conserved hairpin of 16S rRNA in
bacteria, 18S rRNA in eukaryotes. This adjacent
dimethylation is the only rRNA modification shared by
bacteria and eukaryotes. A single member of this family
is present in each of the first 20 completed microbial
genomes. This protein is essential in yeast, but not in
E. coli, where its deletion leads to resistance to the
antibiotic kasugamycin. Alternate name:
S-adenosylmethionine--6-N',N'-adenosyl (rRNA)
dimethyltransferase [Protein synthesis, tRNA and rRNA
base modification].
Length = 253
Score = 264 bits (676), Expect = 1e-87
Identities = 93/219 (42%), Positives = 129/219 (58%), Gaps = 7/219 (3%)
Query: 28 ISFHKSKGQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELD 87
KS GQ+ L + +++ IV+ A + DV+LEIGPG G LT+ LL+ K V A+E+D
Sbjct: 1 FRPRKSLGQNFLIDESVIQKIVEAANVLEGDVVLEIGPGLGALTEPLLKRAKKVTAIEID 60
Query: 88 SRMVLELQRRFQSTPYSNRLKVIQGDVLKTDLPYFD---ICVANIPYQISSPLTFKLLFH 144
R+ L++ L++I+GD LK DL F V+N+PY ISSPL FKLL
Sbjct: 61 RRLAERLRKLL---SLYENLEIIEGDALKVDLNEFPKQLKVVSNLPYNISSPLIFKLLEK 117
Query: 145 QPAFRCAIIMFQKEFAMRLVAQPGDKLYCRLSVNTQLHARVSHLLKVGKNNFRPPPKVDS 204
FR A++M QKE A RL A+PG K Y RLSV Q A V + KV + F PPPKVDS
Sbjct: 118 -DKFRLAVLMVQKEVAERLTAKPGSKDYGRLSVLVQYFANVEIVFKVPPSAFYPPPKVDS 176
Query: 205 SVVRIEPRKPRPQVNPVEWDGFLRICFIRKNKTLSSIFR 243
+VVR+ PR+ P + ++ L+ F ++ KTL + +
Sbjct: 177 AVVRLIPRETFPVKDEALFEKLLKAAFQQRRKTLRNNLK 215
>gnl|CDD|128898 smart00650, rADc, Ribosomal RNA adenine dimethylases.
Length = 169
Score = 243 bits (624), Expect = 7e-81
Identities = 86/172 (50%), Positives = 113/172 (65%), Gaps = 5/172 (2%)
Query: 44 LVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPY 103
+++ IV+ A ++ D +LEIGPG G LT++LLE K V A+E+D R+ L+ +F +
Sbjct: 1 VIDKIVRAANLRPGDTVLEIGPGKGALTEELLERAKRVTAIEIDPRLAPRLREKFAA--- 57
Query: 104 SNRLKVIQGDVLKTDLPY--FDICVANIPYQISSPLTFKLLFHQPAFRCAIIMFQKEFAM 161
++ L VI GD LK DLP V N+PY IS+P+ FKLL PAFR A++M QKE A
Sbjct: 58 ADNLTVIHGDALKFDLPKLQPYKVVGNLPYNISTPILFKLLEEPPAFRDAVLMVQKEVAR 117
Query: 162 RLVAQPGDKLYCRLSVNTQLHARVSHLLKVGKNNFRPPPKVDSSVVRIEPRK 213
RL A+PG K Y RLSV Q +A V L KV + FRPPPKVDS+VVR+E R
Sbjct: 118 RLAAKPGSKDYGRLSVLLQPYADVKILFKVPPSAFRPPPKVDSAVVRLERRP 169
>gnl|CDD|234708 PRK00274, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Reviewed.
Length = 272
Score = 238 bits (611), Expect = 2e-77
Identities = 98/242 (40%), Positives = 133/242 (54%), Gaps = 16/242 (6%)
Query: 27 GISFHKSKGQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVEL 86
G KS GQ+ L + +++ IV AG + D +LEIGPG G LT+ LLE V AVE+
Sbjct: 13 GHRAKKSLGQNFLIDENILDKIVDAAGPQPGDNVLEIGPGLGALTEPLLERAAKVTAVEI 72
Query: 87 DSRMVLELQRRFQSTPYSNRLKVIQGDVLKTDL----PYFDICVANIPYQISSPLTFKLL 142
D + L F + L +I+GD LK DL P VAN+PY I++PL F LL
Sbjct: 73 DRDLAPILAETFAE----DNLTIIEGDALKVDLSELQPLK--VVANLPYNITTPLLFHLL 126
Query: 143 FHQPAFRCAIIMFQKEFAMRLVAQPGDKLYCRLSVNTQLHARVSHLLKVGKNNFRPPPKV 202
+ R ++M QKE A R+VA+PG K Y RLSV Q + V + V + F PPPKV
Sbjct: 127 EERDPIRDMVVMVQKEVAERIVAKPGSKAYGRLSVLVQYYCDVEKVFDVPPSAFVPPPKV 186
Query: 203 DSSVVRIEPRKPRPQVNPVEWDGF---LRICFIRKNKTLSSIFRLKNVLSMLEKNYRTLQ 259
DS+VVR+ PRK P V + + F ++ F ++ KTL + LKN+ EK L+
Sbjct: 187 DSAVVRLVPRK-EPPVPVKDEELFFRVVKAAFAQRRKTLRNN--LKNLFGSKEKLEEALE 243
Query: 260 AL 261
A
Sbjct: 244 AA 245
>gnl|CDD|237852 PRK14896, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Provisional.
Length = 258
Score = 236 bits (605), Expect = 8e-77
Identities = 98/223 (43%), Positives = 137/223 (61%), Gaps = 6/223 (2%)
Query: 32 KSKGQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMV 91
K GQH L + +V+ IV+ A D +LEIGPG G LT +L + K V A+ELD R+
Sbjct: 5 KKLGQHFLIDDRVVDRIVEYAEDTDGDPVLEIGPGKGALTDELAKRAKKVYAIELDPRLA 64
Query: 92 LELQRRFQSTPYSNRLKVIQGDVLKTDLPYFDICVANIPYQISSPLTFKLLFHQPAFRCA 151
L+ + +++I+GD LK DLP F+ V+N+PYQISSP+TFKLL H F A
Sbjct: 65 EFLRDDE---IAAGNVEIIEGDALKVDLPEFNKVVSNLPYQISSPITFKLLKHG--FEPA 119
Query: 152 IIMFQKEFAMRLVAQPGDKLYCRLSVNTQLHARVSHLLKVGKNNFRPPPKVDSSVVRIEP 211
++M+QKEFA R+VA+PG K Y RLSV Q +A V + KV F P PKVDS+VVR+ P
Sbjct: 120 VLMYQKEFAERMVAKPGTKEYGRLSVMVQYYADVEIVEKVPPGAFSPKPKVDSAVVRLTP 179
Query: 212 RKPRPQV-NPVEWDGFLRICFIRKNKTLSSIFRLKNVLSMLEK 253
R+P+ +V + +D F++ F + KTL + + +S E
Sbjct: 180 REPKYEVYDEDFFDDFVKALFQHRRKTLRNALKNSAHISGKED 222
>gnl|CDD|215900 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase.
Length = 254
Score = 209 bits (534), Expect = 3e-66
Identities = 83/233 (35%), Positives = 132/233 (56%), Gaps = 8/233 (3%)
Query: 30 FHKSKGQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSR 89
+ GQ+ L NP ++ IV KA ++ +D +LEIGPG G LT +L + K V+A+E+D R
Sbjct: 3 GRRKYGQNFLTNPKVINRIVDKANLQESDTVLEIGPGKGALTTELAKRAKQVVAIEIDPR 62
Query: 90 MVLELQRRFQSTPYSNRLKVIQGDVLKTDLPYFD--ICVANIPYQISSPLTFKLLFHQPA 147
+ LQ + P ++V+ D LK P D + V NIPY I++P+ KLLF
Sbjct: 63 LAKRLQEKLALHP---NVEVVHQDFLKFSFPKDDPFLVVGNIPYNITTPIVKKLLFESRF 119
Query: 148 FRCAIIMFQKEFAMRLVAQPGDKLYCRLSVNTQLHARVSHLLKVGKNNFRPPPKVDSSVV 207
+++ QKEFA RL+A+P K+ RL+V T+ + + KV +++FRPPPKVDS++V
Sbjct: 120 GVKMLLVVQKEFARRLLARP--KIRSRLTVLTEPFTDIKLVAKVPRSSFRPPPKVDSALV 177
Query: 208 RIEPRK-PRPQVNPVEWDGFLRICFIRKNKTLSSIFRLKNVLSMLEKNYRTLQ 259
R+E R P P + ++D +R F K ++L + R ++ + +
Sbjct: 178 RLERRDTPLPVKDLKKYDYLVRKLFNGKGRSLFTSLRSLFPGGQVQALSKRAR 230
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 56.3 bits (136), Expect = 5e-10
Identities = 23/79 (29%), Positives = 35/79 (44%), Gaps = 5/79 (6%)
Query: 58 DVILEIGPGTGNLTKKLLEAGK--MVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVL 115
D +L+ G G+G AG V+ VELD +RR + R++V+ GD
Sbjct: 2 DRVLDPGAGSGAFLLAAARAGPDARVVGVELDPEAAALARRRLALAGLAPRVRVVVGDAR 61
Query: 116 KTDL---PYFDICVANIPY 131
+ FD+ + N PY
Sbjct: 62 ELLELPDGSFDLVLGNPPY 80
>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 = 49.7 bits (119), Expect = 8e-08
Identities = 21/87 (24%), Positives = 40/87 (45%), Gaps = 5/87 (5%)
Query: 60 ILEIGPGTGNLTKKLLEA-GKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKTD 118
+L++G GTG L L G V V++ LEL R+ + ++ ++V++GD +
Sbjct: 2 VLDLGCGTGALALALASGPGARVTGVDISPVA-LELARKAAAALLADNVEVLKGDAEELP 60
Query: 119 L---PYFDICVANIPYQISSPLTFKLL 142
FD+ +++ P + L
Sbjct: 61 PEADESFDVIISDPPLHHLVEDLARFL 87
>gnl|CDD|219759 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 92
Score = 44.6 bits (106), Expect = 4e-06
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 10/71 (14%)
Query: 61 LEIGPGTGNLTKKLLEA-GKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKTDL 119
L++G GTG L + L G V V+L M+ ++R K + GD
Sbjct: 1 LDVGCGTGLLAEALARRGGARVTGVDLSPEMLALARKR-------APRKFVVGDAEDLPF 53
Query: 120 P--YFDICVAN 128
P FD+ V++
Sbjct: 54 PDESFDVVVSS 64
>gnl|CDD|226472 COG3963, COG3963, Phospholipid N-methyltransferase [Lipid
metabolism].
Length = 194
Score = 45.9 bits (109), Expect = 7e-06
Identities = 33/125 (26%), Positives = 52/125 (41%), Gaps = 22/125 (17%)
Query: 60 ILEIGPGTGNLTKKLLEAG---KMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDV-- 114
+LE+GPGTG +TK +L G + + A+E V L + + +I GD
Sbjct: 52 VLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPGV------NIINGDAFD 105
Query: 115 LKTDL-----PYFD--IC---VANIPYQISSPLTFKLLFHQPAFRCAIIMFQKEFAMRLV 164
L+T L +FD I + N P + LL+ PA ++ F ++
Sbjct: 106 LRTTLGEHKGQFFDSVISGLPLLNFPMHRRIAILESLLYRLPAGG-PLVQFTYGPLSPVL 164
Query: 165 AQPGD 169
GD
Sbjct: 165 LGRGD 169
>gnl|CDD|225316 COG2518, Pcm, Protein-L-isoaspartate carboxylmethyltransferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 209
Score = 45.7 bits (109), Expect = 1e-05
Identities = 23/79 (29%), Positives = 38/79 (48%), Gaps = 2/79 (2%)
Query: 35 GQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLEL 94
GQ I P +V ++Q +K D +LEIG G+G L V+++E + +
Sbjct: 52 GQTISA-PHMVARMLQLLELKPGDRVLEIGTGSGYQAAVLARLVGRVVSIERIEELAEQA 110
Query: 95 QRRFQSTPYSNRLKVIQGD 113
+R ++ Y N + V GD
Sbjct: 111 RRNLETLGYEN-VTVRHGD 128
>gnl|CDD|219760 pfam08242, Methyltransf_12, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 98
Score = 42.4 bits (100), Expect = 2e-05
Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 4/72 (5%)
Query: 61 LEIGPGTGNLTKKLLEA--GKMVIAVELDSRMVLELQRRFQSTPYSN--RLKVIQGDVLK 116
L+IG GTG L + LLEA G V++ + R + + R+++ D +
Sbjct: 1 LDIGCGTGTLLRALLEALPGLEYTGVDISPAALEAAAERLAALGLLDAVRVRLDVLDAID 60
Query: 117 TDLPYFDICVAN 128
D FD+ VA+
Sbjct: 61 LDPGSFDVVVAS 72
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 97
Score = 41.9 bits (99), Expect = 3e-05
Identities = 23/90 (25%), Positives = 38/90 (42%), Gaps = 11/90 (12%)
Query: 60 ILEIGPGTGNLTKKLLEAG-KMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKTD 118
IL++G GTG + + L AG V V++ + + R + +++ + D D
Sbjct: 1 ILDLGCGTGRVLRALARAGPSSVTGVDISKEALELAKERLRD--KGPKVRFVVADA--RD 56
Query: 119 LPY----FD--ICVANIPYQISSPLTFKLL 142
LP+ FD IC +S LL
Sbjct: 57 LPFEEGSFDLVICAGLSLDYLSPKQLRALL 86
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 41.1 bits (97), Expect = 7e-05
Identities = 24/73 (32%), Positives = 31/73 (42%), Gaps = 5/73 (6%)
Query: 60 ILEIGPGTGNLTKKLLEA--GKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLK- 116
+L+IG GTG+L +L G V V+L M LEL R R+ +QGD
Sbjct: 5 VLDIGCGTGSLAIELARLFPGARVTGVDLSPEM-LELARENAKLALGPRITFVQGDAPDA 63
Query: 117 -TDLPYFDICVAN 128
L FD
Sbjct: 64 LDLLEGFDAVFIG 76
>gnl|CDD|226608 COG4123, COG4123, Predicted O-methyltransferase [General function
prediction only].
Length = 248
Score = 43.4 bits (103), Expect = 8e-05
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 10/80 (12%)
Query: 60 ILEIGPGTGN----LTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVL 115
IL++G G G L ++ +A ++ VE+ QR P R++VI+ D+
Sbjct: 48 ILDLGAGNGALGLLLAQRTEKA--KIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIK 105
Query: 116 ----KTDLPYFDICVANIPY 131
FD+ + N PY
Sbjct: 106 EFLKALVFASFDLIICNPPY 125
>gnl|CDD|237872 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 41.4 bits (98), Expect = 2e-04
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 6/91 (6%)
Query: 43 LLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTP 102
LL E+ V K G D +LE+G G+G + + GK V+ V+++ V + +
Sbjct: 14 LLAENAVDKKG----DRVLEVGTGSGIVAIVAAKNGKKVVGVDINPYAVECAKCNAKLNN 69
Query: 103 YSNR-LKVIQGDVLKT-DLPYFDICVANIPY 131
N ++VI+ D+ + FD+ + N PY
Sbjct: 70 IRNNGVEVIRSDLFEPFRGDKFDVILFNPPY 100
>gnl|CDD|129628 TIGR00537, hemK_rel_arch, HemK-related putative methylase. The
gene hemK from E. coli was found to contribute to heme
biosynthesis and originally suggested to be
protoporphyrinogen oxidase (Medline 95189105).
Functional analysis of the nearest homolog in
Saccharomyces cerevisiae, YNL063w, finds it is not
protoporphyrinogen oxidase and sequence analysis
suggests that HemK homologs have
S-adenosyl-methionine-dependent methyltransferase
activity (Medline 99237242). Homologs are found, usually
in a single copy, in nearly all completed genomes, but
varying somewhat in apparent domain architecture. This
model represents an archaeal and eukaryotic protein
family that lacks an N-terminal domain found in HemK and
its eubacterial homologs. It is found in a single copy
in the first six completed archaeal and eukaryotic
genomes [Unknown function, Enzymes of unknown
specificity].
Length = 179
Score = 39.8 bits (93), Expect = 6e-04
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 58 DVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKT 117
D +LEIG GTG + +L GK ++ +++ V EL+ + + L V+ D+ K
Sbjct: 21 DDVLEIGAGTGLVAIRLKGKGKCILTTDINPFAVKELRE--NAKLNNVGLDVVMTDLFKG 78
Query: 118 DLPYFDICVANIPY 131
FD+ + N PY
Sbjct: 79 VRGKFDVILFNPPY 92
>gnl|CDD|218484 pfam05185, PRMT5, PRMT5 arginine-N-methyltransferase. The human
homologue of yeast Skb1 (Shk1 kinase-binding protein 1)
is PRMT5, an arginine-N-methyltransferase. These
proteins appear to be key mitotic regulators. They play
a role in Jak signalling in higher eukaryotes.
Length = 445
Score = 40.7 bits (96), Expect = 0.001
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 7/90 (7%)
Query: 44 LVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKM------VIAVELDSRMVLELQRR 97
L++ + +K ST VIL +G G G L + L+A + + AVE + V+ LQ+R
Sbjct: 174 LLDRVPEKKKTSSTLVILVVGAGRGPLVDRALKAAEETGRKVKIYAVEKNPNAVVTLQKR 233
Query: 98 FQSTPYSNRLKVIQGDVLKTDLPY-FDICV 126
+ +++ +I D+ + P DI V
Sbjct: 234 VNFEEWGDKVTIISSDMREWKGPEKADILV 263
>gnl|CDD|225443 COG2890, HemK, Methylase of polypeptide chain release factors
[Translation, ribosomal structure and biogenesis].
Length = 280
Score = 38.9 bits (91), Expect = 0.002
Identities = 35/120 (29%), Positives = 53/120 (44%), Gaps = 26/120 (21%)
Query: 26 GGISFHKSKGQHILKNP-----LLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKM 80
GG+ F +G I P LLVE+ + + IL++G G+G + L + G
Sbjct: 79 GGLRFKVDEGVLI---PRPDTELLVEAALALLL-QLDKRILDLGTGSGAIAIALAKEGPD 134
Query: 81 --VIAVELDSRMVLELQRRFQSTPYSN-------RLKVIQGDVLKTDLPYFDICVANIPY 131
VIAV++ L L R N R+ V+Q D+ + FD+ V+N PY
Sbjct: 135 AEVIAVDISPD-ALALARE-------NAERNGLVRVLVVQSDLFEPLRGKFDLIVSNPPY 186
>gnl|CDD|223574 COG0500, SmtA, SAM-dependent methyltransferases [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 257
Score = 38.3 bits (86), Expect = 0.004
Identities = 23/91 (25%), Positives = 37/91 (40%), Gaps = 8/91 (8%)
Query: 54 IKSTDVILEIGPGTGNLT--KKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQ 111
+ +L+IG GTG L +L G V+ V+L M L L R + +
Sbjct: 46 LPGGLGVLDIGCGTGRLALLARLGGRGAYVVGVDLSPEM-LALARARAEGAGLGLVDFVV 104
Query: 112 GDVLKTDLPY-----FDICVANIPYQISSPL 137
D L LP+ FD+ ++ + + P
Sbjct: 105 ADALGGVLPFEDSASFDLVISLLVLHLLPPA 135
>gnl|CDD|225151 COG2242, CobL, Precorrin-6B methylase 2 [Coenzyme metabolism].
Length = 187
Score = 37.2 bits (87), Expect = 0.005
Identities = 29/102 (28%), Positives = 50/102 (49%), Gaps = 7/102 (6%)
Query: 30 FHKSKGQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAG--KMVIAVELD 87
F + +G + K + ++ K + D + +IG GTG++T + AG VIA+E D
Sbjct: 9 FERDEGGPMTKEEIRALTL-SKLRPRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERD 67
Query: 88 SRMVLELQRRFQSTPYSNRLKVIQGDVLKT--DLPYFD-ICV 126
+ ++R N L+V++GD + DLP D I +
Sbjct: 68 EEALELIERNAARFGVDN-LEVVEGDAPEALPDLPSPDAIFI 108
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This family
appears to be have methyltransferase activity.
Length = 151
Score = 36.6 bits (85), Expect = 0.006
Identities = 24/85 (28%), Positives = 43/85 (50%), Gaps = 13/85 (15%)
Query: 54 IKSTDVILEIGPGTGNLTKKLLE---AGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVI 110
+KS +L++G GTG LT L E G V+ +++ + + + + Y N ++ I
Sbjct: 1 LKSGIKVLDLGCGTGYLTFILAEKLGPGAEVVGIDISEEAIEKAKENAKKLGYEN-VEFI 59
Query: 111 QGDVLKTDLP-------YFDICVAN 128
QGD+ +LP FD+ ++N
Sbjct: 60 QGDI--EELPQLQLEDNSFDVVISN 82
>gnl|CDD|225317 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and
related methyltransferases [Translation, ribosomal
structure and biogenesis].
Length = 256
Score = 36.9 bits (86), Expect = 0.009
Identities = 24/89 (26%), Positives = 35/89 (39%), Gaps = 8/89 (8%)
Query: 48 IVQKAGIKSTDVILEIGPGTGNLTKKLLEA----GKMVIAVELDSRMVLELQRR-FQSTP 102
IV + GI +LE G G+G LT L A G V E+ + R
Sbjct: 86 IVARLGISPGSRVLEAGTGSGALTAYLARAVGPEGH-VTTYEIREDF-AKTARENLSEFG 143
Query: 103 YSNRLKVIQGDVLK-TDLPYFDICVANIP 130
+R+ + GDV + D D ++P
Sbjct: 144 LGDRVTLKLGDVREGIDEEDVDAVFLDLP 172
>gnl|CDD|233687 TIGR02021, BchM-ChlM, magnesium protoporphyrin O-methyltransferase.
This model represents the
S-adenosylmethionine-dependent O-methyltransferase
responsible for methylation of magnesium protoporphyrin
IX. This step is essentiasl for the biosynthesis of both
chlorophyll and bacteriochlorophyll. This model
encompasses two closely related clades, from
cyanobacteria (and plants) where it is called ChlM and
other photosynthetic bacteria where it is known as BchM
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Chlorophyll and bacteriochlorphyll].
Length = 219
Score = 36.3 bits (84), Expect = 0.014
Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 60 ILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKTDL 119
+L+ G GTG L+ +L + G +V AV++ +MV + R Q + ++ D+L
Sbjct: 59 VLDAGCGTGLLSIELAKRGAIVKAVDISEQMVQMARNRAQGRDVAGNVEFEVNDLLSLC- 117
Query: 120 PYFDICVA 127
FDI V
Sbjct: 118 GEFDIVVC 125
>gnl|CDD|234689 PRK00216, ubiE, ubiquinone/menaquinone biosynthesis
methyltransferase; Reviewed.
Length = 239
Score = 35.5 bits (83), Expect = 0.027
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 11/84 (13%)
Query: 49 VQKAGIKSTDVILEIGPGTGNLTKKLLEAGKM---VIAVELDSRMVLEL-QRRFQSTPYS 104
++ G++ D +L++ GTG+L L +A V+ ++ M L + + + + S
Sbjct: 44 IKWLGVRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGM-LAVGREKLRDLGLS 102
Query: 105 NRLKVIQGDVLKTDLPY----FDI 124
++ +QGD LP+ FD
Sbjct: 103 GNVEFVQGDA--EALPFPDNSFDA 124
>gnl|CDD|236467 PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent
methyltransferase; Provisional.
Length = 275
Score = 35.5 bits (83), Expect = 0.033
Identities = 27/94 (28%), Positives = 43/94 (45%), Gaps = 8/94 (8%)
Query: 43 LLVESIVQKAGIKSTDVILEIGPGTGNLT---KKLLEAGKMVIAVELDSRMVLELQRRFQ 99
LVE ++ +K +L++G G+G + K V AV++ L + RR
Sbjct: 95 ELVEWALEALLLKEPLRVLDLGTGSGAIALALAKERP-DAEVTAVDISPE-ALAVARRNA 152
Query: 100 STPYSNRLKVIQGDVLKTDLPY--FDICVANIPY 131
R++ +QGD LP FD+ V+N PY
Sbjct: 153 KHGLGARVEFLQGDWF-EPLPGGRFDLIVSNPPY 185
>gnl|CDD|233708 TIGR02072, BioC, biotin biosynthesis protein BioC. This enzyme,
which is found in biotin biosynthetic gene clusters in
proteobacteria, firmicutes, green-sulfur bacteria,
fusobacterium and bacteroides, is believed to carry out
an enzymatic step prior to the formation of pimeloyl-CoA
(although attribution of this annotation is not
traceable). The enzyme appears related to
methyltransferases by homology [Biosynthesis of
cofactors, prosthetic groups, and carriers, Biotin].
Length = 240
Score = 34.6 bits (80), Expect = 0.055
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 47 SIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNR 106
+++++ GI +L+IG GTG LT+ LL K E + + T S
Sbjct: 25 ALLKEKGIFIPASVLDIGCGTGYLTRALL---KRFPQAEFIANDISAGMLAQAKTKLSEN 81
Query: 107 LKVIQGDVLKTDLP--YFDICVAN 128
++ I GD K L FD+ V+N
Sbjct: 82 VQFICGDAEKLPLEDSSFDLIVSN 105
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 34.5 bits (80), Expect = 0.055
Identities = 17/87 (19%), Positives = 35/87 (40%), Gaps = 15/87 (17%)
Query: 50 QKAGIKSTDVILEIGPGTGNLTKKLLEAGKM-----VIAVELDSRMVLELQRRFQSTPYS 104
+ ++ D +L++G G GN ++L A ++ V+ ++ M+ + R
Sbjct: 13 ELLAVQPGDRVLDVGCGPGNDAREL--ARRVGPEGRVVGIDRSEAMLALAKER----AAG 66
Query: 105 NRLKV--IQGDVLKTDLP--YFDICVA 127
V ++GD P FD +
Sbjct: 67 LGPNVEFVRGDADGLPFPDGSFDAVRS 93
>gnl|CDD|232960 TIGR00406, prmA, ribosomal protein L11 methyltransferase.
Ribosomal protein L11 methyltransferase is an
S-adenosyl-L-methionine-dependent methyltransferase
required for the modification of ribosomal protein L11.
This protein is found in bacteria and (with a probable
transit peptide) in Arabidopsis [Protein synthesis,
Ribosomal proteins: synthesis and modification].
Length = 288
Score = 34.8 bits (80), Expect = 0.059
Identities = 21/89 (23%), Positives = 40/89 (44%), Gaps = 10/89 (11%)
Query: 44 LVESIVQKAGIKSTDVILEIGPGTGNLT--KKLLEAGKMVIAVELDSRMVLELQRRFQST 101
+E + K ++++G G+G L+ L A K V+ +++D V ++ +
Sbjct: 152 WLEDLDLKD-----KNVIDVGCGSGILSIAALKLGAAK-VVGIDIDPLAVESARKNAELN 205
Query: 102 PYSNRLKVIQ-GDVLKTDLPYFDICVANI 129
S+RL+V + D+ VANI
Sbjct: 206 QVSDRLQVKLIYLEQPIEGK-ADVIVANI 233
>gnl|CDD|236059 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
Validated.
Length = 230
Score = 34.4 bits (80), Expect = 0.059
Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 1/68 (1%)
Query: 60 ILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKTDL 119
IL+ G G G+L+ L G V+A ++ +MV E + R + + GD L++ L
Sbjct: 67 ILDAGCGVGSLSIPLARRGAKVVASDISPQMVEEARERAPEAGLAGNITFEVGD-LESLL 125
Query: 120 PYFDICVA 127
FD V
Sbjct: 126 GRFDTVVC 133
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 34.2 bits (79), Expect = 0.066
Identities = 21/96 (21%), Positives = 42/96 (43%), Gaps = 9/96 (9%)
Query: 33 SKGQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKM--VIAVELDSRM 90
S G H L +++ GIK D +L++ GTG++ L ++ V+ +++ M
Sbjct: 32 SFGLHRLWR----RALISLLGIKPGDKVLDVACGTGDMALLLAKSVGTGEVVGLDISESM 87
Query: 91 VLELQRRFQSTPYSNRLKVIQGDVLKTDLP--YFDI 124
+ + + + N ++ + GD P FD
Sbjct: 88 LEVAREKLKKKGVQN-VEFVVGDAENLPFPDNSFDA 122
>gnl|CDD|222171 pfam13489, Methyltransf_23, Methyltransferase domain. This
family appears to be a methyltransferase domain.
Length = 154
Score = 33.2 bits (76), Expect = 0.097
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 60 ILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVL 92
+L+IG GTG L + L E G V V+ VL
Sbjct: 26 VLDIGCGTGILLRLLRERGFDVTGVDPSPAAVL 58
>gnl|CDD|226607 COG4122, COG4122, Predicted O-methyltransferase [General function
prediction only].
Length = 219
Score = 33.1 bits (76), Expect = 0.14
Identities = 16/81 (19%), Positives = 28/81 (34%), Gaps = 6/81 (7%)
Query: 42 PLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEA----GKMVIAVELDSRMVLELQRR 97
P + A + ILEIG G + A G+ + +E D +
Sbjct: 45 PETGALLRLLARLSGPKRILEIGTAIGYSALWMALALPDDGR-LTTIERDEERAEIAREN 103
Query: 98 FQSTPYSNRLKVI-QGDVLKT 117
+R++++ GD L
Sbjct: 104 LAEAGVDDRIELLLGGDALDV 124
>gnl|CDD|215560 PLN03076, PLN03076, ARF guanine nucleotide exchange factor
(ARF-GEF); Provisional.
Length = 1780
Score = 33.6 bits (77), Expect = 0.17
Identities = 25/99 (25%), Positives = 39/99 (39%), Gaps = 28/99 (28%)
Query: 263 SSQNSSLGNTEIGTDTPSLGDSNGDQSMGVDDGSDDEMDVEDDDGDSDVEGEVSEFKDKV 322
S + + + + + NGD++ +GSD S++ E S+
Sbjct: 564 SLKKLDAVENNLEPGSLPVANGNGDENG---EGSDSH---------SELSSETSD----A 607
Query: 323 LAVLREGQFEEKRASKLTQQEFLYLLSLFN---KAGIHF 358
E++RA KL QE +SLFN K GI F
Sbjct: 608 AT------IEQRRAYKLELQEG---ISLFNRKPKKGIEF 637
>gnl|CDD|226562 COG4076, COG4076, Predicted RNA methylase [General function
prediction only].
Length = 252
Score = 33.0 bits (75), Expect = 0.19
Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 58 DVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKT 117
D ++G G+G L+ A + VIA+E D + + P +V+ GD
Sbjct: 34 DTFADLGAGSGILSVVAAHAAERVIAIEKDPKRARLAEENLH-VPGDVNWEVVVGDARDY 92
Query: 118 DLPYFDICVA 127
D D+ +
Sbjct: 93 DFENADVVIC 102
>gnl|CDD|178974 PRK00312, pcm, protein-L-isoaspartate O-methyltransferase;
Reviewed.
Length = 212
Score = 31.7 bits (73), Expect = 0.39
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 1/72 (1%)
Query: 42 PLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQST 101
P +V + + +K D +LEIG G+G L + V +VE + E +RR +
Sbjct: 64 PYMVARMTELLELKPGDRVLEIGTGSGYQAAVLAHLVRRVFSVERIKTLQWEAKRRLKQL 123
Query: 102 PYSNRLKVIQGD 113
N + V GD
Sbjct: 124 GLHN-VSVRHGD 134
>gnl|CDD|216841 pfam02006, DUF137, Protein of unknown function DUF137. This family
of archaeal proteins has no known function.
Length = 178
Score = 31.4 bits (72), Expect = 0.42
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 3/44 (6%)
Query: 48 IVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELD--SR 89
V GI S DV+L + G+ T+ L++ GK VIA++L+ SR
Sbjct: 81 KVSPDGIYSADVVL-VPLEDGDRTEALVKMGKTVIAIDLNPLSR 123
>gnl|CDD|226907 COG4530, COG4530, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 129
Score = 31.0 bits (70), Expect = 0.42
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 6/42 (14%)
Query: 275 GTDTPSLGDSNGDQSMGVDDGSDD---EMDVEDDDGDSDVEG 313
G D P LGD D+ + +DD DD E + +DDD S + G
Sbjct: 83 GDDLPDLGD---DEDVDLDDDDDDTFLEDEEDDDDDVSGIIG 121
>gnl|CDD|149273 pfam08123, DOT1, Histone methylation protein DOT1. The DOT1
domain regulates gene expression by methylating histone
H3. H3 methylation by DOT1 has been shown to be
required for the DNA damage checkpoint in yeast.
Length = 205
Score = 31.5 bits (72), Expect = 0.45
Identities = 16/66 (24%), Positives = 26/66 (39%), Gaps = 9/66 (13%)
Query: 41 NPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKL-LEAG--------KMVIAVELDSRMV 91
P + ++ K + DV +++G G GN + LE G M A L
Sbjct: 27 LPEFLSDVLDKCNLGPQDVFVDLGSGVGNCVLQAALEFGCKLSFGCEIMDNASNLAELQD 86
Query: 92 LELQRR 97
E ++R
Sbjct: 87 EEFKKR 92
>gnl|CDD|225137 COG2227, UbiG,
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,
4-benzoquinol methylase [Coenzyme metabolism].
Length = 243
Score = 31.5 bits (72), Expect = 0.52
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 4/63 (6%)
Query: 32 KSKGQHILKNPLLVESIVQKAGIKSTDV---ILEIGPGTGNLTKKLLEAGKMVIAVELDS 88
+ K H + NPL ++ I + A ++ +L++G G G L++ L G V ++
Sbjct: 33 EFKPLHKI-NPLRLDYIREVARLRFDLPGLRVLDVGCGGGILSEPLARLGASVTGIDASE 91
Query: 89 RMV 91
+ +
Sbjct: 92 KPI 94
>gnl|CDD|183636 PRK12631, flgC, flagellar basal body rod protein FlgC; Provisional.
Length = 138
Score = 30.3 bits (68), Expect = 0.71
Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 232 IRKNKTLSSIFRLKNVLSMLEKNYRT--------LQALQSSQNSSLGNTEIG---TDTPS 280
+R N T S+I +V S ++K YR + QS Q +S G G +D P
Sbjct: 19 VRLNTTASNIANADSVSSSVDKTYRARHPIFEAEMAKAQSQQQASQGVAVKGIVESDKPL 78
Query: 281 LGDSNGDQSMGVDDG 295
L + + D M DG
Sbjct: 79 LKEYSPDHPMADADG 93
>gnl|CDD|182340 PRK10258, PRK10258, biotin biosynthesis protein BioC; Provisional.
Length = 251
Score = 30.9 bits (70), Expect = 0.84
Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 12/77 (15%)
Query: 60 ILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKTDL 119
+L+ G G G +++ E G V A++L M+ + +++ + Y + GD+ L
Sbjct: 46 VLDAGCGPGWMSRYWRERGSQVTALDLSPPMLAQARQKDAADHY------LAGDI--ESL 97
Query: 120 PY----FDICVANIPYQ 132
P FD+ +N+ Q
Sbjct: 98 PLATATFDLAWSNLAVQ 114
>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region. The domain
is found in the primary vegetative sigma factor. The
function of this domain is unclear and can be removed
without loss of function.
Length = 211
Score = 30.6 bits (70), Expect = 0.87
Identities = 21/80 (26%), Positives = 28/80 (35%), Gaps = 16/80 (20%)
Query: 293 DDGSDDEMDVEDDDGDSDVEGEVSEFKDKVLA-----VLREGQFE--------EKRASKL 339
D+ ++ D +D+D D D E E D A LRE Q+E R SK
Sbjct: 49 DEEDLEDDDDDDEDEDEDDEEEADLGPDPEEARERFAELRE-QYEKTRKAIEKHGRGSKK 107
Query: 340 TQQEFLYLLSLFNKAGIHFS 359
Q+ L F
Sbjct: 108 AQKAREALAEEF--MQFRLV 125
>gnl|CDD|234740 PRK00377, cbiT, cobalt-precorrin-6Y C(15)-methyltransferase;
Provisional.
Length = 198
Score = 30.5 bits (69), Expect = 0.98
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 6/79 (7%)
Query: 51 KAGIKSTDVILEIGPGTGNLTKK---LLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRL 107
K ++ D+IL+IG GTG++T + L+ V AV+ D + + +R + N +
Sbjct: 35 KLRLRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNI 94
Query: 108 KVIQGD---VLKTDLPYFD 123
+I+G+ +L T FD
Sbjct: 95 VLIKGEAPEILFTINEKFD 113
>gnl|CDD|216949 pfam02254, TrkA_N, TrkA-N domain. This domain is found in a wide
variety of proteins. These protein include potassium
channels, phosphoesterases, and various other
transporters. This domain binds to NAD.
Length = 116
Score = 29.5 bits (67), Expect = 0.98
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 59 VILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKTD 118
+I+ G +L ++L E G V+ ++ D V EL+ + V+ GD +
Sbjct: 2 IIIGYGRVGRSLAEELREGGPDVVVIDKDPERVEELREEG--------VPVVVGDATDEE 53
Query: 119 L 119
+
Sbjct: 54 V 54
>gnl|CDD|218538 pfam05285, SDA1, SDA1. This family consists of several SDA1
protein homologues. SDA1 is a Saccharomyces cerevisiae
protein which is involved in the control of the actin
cytoskeleton. The protein is essential for cell
viability and is localised in the nucleus.
Length = 317
Score = 30.8 bits (70), Expect = 1.1
Identities = 20/95 (21%), Positives = 32/95 (33%), Gaps = 9/95 (9%)
Query: 258 LQALQSSQNSSLGNTEIGTDTPSLGDSNGDQSMGVDDGSDD---------EMDVEDDDGD 308
L+ L+ + E S D + ++ V++ D E D E + D
Sbjct: 72 LELLEKWKEEERKKKEAEQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESSD 131
Query: 309 SDVEGEVSEFKDKVLAVLREGQFEEKRASKLTQQE 343
S+ E E E K E EE ++E
Sbjct: 132 SEDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEE 166
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 31.1 bits (71), Expect = 1.1
Identities = 16/52 (30%), Positives = 25/52 (48%)
Query: 269 LGNTEIGTDTPSLGDSNGDQSMGVDDGSDDEMDVEDDDGDSDVEGEVSEFKD 320
LG E + G + D+ DD ++E DV+ D + D E E S+ +D
Sbjct: 316 LGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDED 367
Score = 29.6 bits (67), Expect = 3.4
Identities = 15/55 (27%), Positives = 22/55 (40%), Gaps = 4/55 (7%)
Query: 288 QSMGVDDGSDDEMD----VEDDDGDSDVEGEVSEFKDKVLAVLREGQFEEKRASK 338
QS+ D DD D +DD GD + + F E + E++ SK
Sbjct: 121 QSLSEIDKDDDVRDDDDFDDDDLGDLASDDRAAHFGGGEDDEEDEEEQPERKKSK 175
>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin. Nucleoplasmins are also
known as chromatin decondensation proteins. They bind to
core histones and transfer DNA to them in a reaction
that requires ATP. This is thought to play a role in the
assembly of regular nucleosomal arrays.
Length = 146
Score = 30.0 bits (68), Expect = 1.1
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 284 SNGDQSMGVDDGSDDEMDVEDDDGDSDVEGEVSEFKDK 321
S D+S ++ ++E D EDDD D E E K K
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEESPVKKVK 146
>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 = 29.2 bits (66), Expect = 1.3
Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 8/43 (18%)
Query: 48 IVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKM-----VIAVE 85
+ K ++ DV+ +IG GTG++T +EA ++ V A+E
Sbjct: 11 TLSKLRLRPGDVLWDIGAGTGSVT---IEAARLVPNGRVYAIE 50
>gnl|CDD|184308 PRK13761, PRK13761, hypothetical protein; Provisional.
Length = 248
Score = 30.2 bits (69), Expect = 1.4
Identities = 19/47 (40%), Positives = 28/47 (59%), Gaps = 9/47 (19%)
Query: 48 IVQKAGIKSTDVI---LEIGPGTGNLTKKLLEAGKMVIAVELD--SR 89
V + GI S DV+ LE G+ T+ L++ GK VIA++L+ SR
Sbjct: 142 KVSEDGIYSADVVLVPLE----DGDRTEALVKMGKTVIAIDLNPLSR 184
>gnl|CDD|187556 cd05245, SDR_a2, atypical (a) SDRs, subgroup 2. This subgroup
contains atypical SDRs, one member is identified as
Escherichia coli protein ybjT, function unknown.
Atypical SDRs are distinct from classical SDRs. Members
of this subgroup have a glycine-rich NAD(P)-binding
motif consensus that generally matches the extended
SDRs, TGXXGXXG, but lacks the characteristic active site
residues of the SDRs. This subgroup has basic residues
(HXXXR) in place of the active site motif YXXXK, these
may have a catalytic role. Atypical SDRs generally lack
the catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 30.4 bits (69), Expect = 1.4
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 7/51 (13%)
Query: 68 GNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLKTD 118
G L +LL+ G V A+ R +L R P+S R+ V++GD+ +
Sbjct: 12 GRLVPRLLQEGHQVRAL---VRSPEKLADR----PWSERVTVVRGDLEDPE 55
>gnl|CDD|185348 PRK15451, PRK15451, tRNA cmo(5)U34 methyltransferase; Provisional.
Length = 247
Score = 30.0 bits (67), Expect = 1.5
Identities = 26/111 (23%), Positives = 49/111 (44%), Gaps = 11/111 (9%)
Query: 43 LLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQSTP 102
+L E VQ G + D+ +G T ++ + + +IA++ M+ +R +
Sbjct: 48 MLAERFVQ-PGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYK 106
Query: 103 YSNRLKVIQGDVLKTDLPYFDICVANIPYQISSPLTFKLLFHQPAFRCAII 153
+ VI+GD+ DI + N + L F L F +P+ R A++
Sbjct: 107 APTPVDVIEGDIR-------DIAIENASMVV---LNFTLQFLEPSERQALL 147
>gnl|CDD|232816 TIGR00080, pimt, protein-L-isoaspartate(D-aspartate)
O-methyltransferase. This is an all-kingdom (but not
all species) full-length ortholog enzyme for repairing
aging proteins. Among the prokaryotes, the gene name is
pcm. Among eukaryotes, pimt [Protein fate, Protein
modification and repair].
Length = 215
Score = 29.8 bits (67), Expect = 1.7
Identities = 28/113 (24%), Positives = 49/113 (43%), Gaps = 8/113 (7%)
Query: 35 GQHILKNPLLVESIVQKAGIKSTDVILEIGPGTGNLT---KKLLEAGKMVIAVELDSRMV 91
GQ I P +V + + +K +LEIG G+G +++ +V+++E +
Sbjct: 57 GQTI-SAPHMVAMMTELLELKPGMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELA 115
Query: 92 LELQRRFQSTPYSNRLKVIQGDVLK---TDLPYFDICVANIPYQISSPLTFKL 141
+ +RR + N + VI GD + PY I V +I L +L
Sbjct: 116 EKAERRLRKLGLDN-VIVIVGDGTQGWEPLAPYDRIYVTAAGPKIPEALIDQL 167
>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230;
Provisional.
Length = 2849
Score = 30.4 bits (68), Expect = 1.7
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 292 VDDGSDDEMDVEDDDGDSDVEGEVSE 317
V D D++ D +DDD + D E E E
Sbjct: 152 VIDDDDEDEDEDDDDEEDDEEEEEEE 177
>gnl|CDD|224615 COG1701, COG1701, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 256
Score = 29.7 bits (67), Expect = 2.1
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 3/44 (6%)
Query: 48 IVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELD--SR 89
V + GI S DV+L + G+ T+ L+ GK VIA++L+ SR
Sbjct: 145 KVSEEGIYSADVVL-VPLEDGDRTEALVRMGKTVIAIDLNPLSR 187
>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein.
Length = 306
Score = 29.8 bits (67), Expect = 2.3
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 275 GTDTPSLGDSNGDQSMGVDDGSDDEMDVEDDDGDSDVEG--EVSEFK 319
G P D G + + + ++E +VE+ + D + EG E EF+
Sbjct: 58 GNPDPFGEDDEGRIEVRISEDGEEE-EVEEGEEDEEEEGEEESEEFE 103
>gnl|CDD|217861 pfam04050, Upf2, Up-frameshift suppressor 2. Transcripts
harbouring premature signals for translation termination
are recognised and rapidly degraded by eukaryotic cells
through a pathway known as nonsense-mediated mRNA decay.
In Saccharomyces cerevisiae, three trans-acting factors
(Upf1 to Upf3) are required for nonsense-mediated mRNA
decay.
Length = 171
Score = 29.3 bits (66), Expect = 2.4
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 291 GVDDGSDD-EMDVEDDDGDSDVEGEVSE 317
DDG +D E+ ED+D +S E EV
Sbjct: 6 ESDDGEEDEELPEEDEDDESSDEEEVDL 33
>gnl|CDD|178511 PLN02923, PLN02923, xylose isomerase.
Length = 478
Score = 29.8 bits (67), Expect = 2.4
Identities = 28/114 (24%), Positives = 48/114 (42%), Gaps = 14/114 (12%)
Query: 177 VNTQLHARVSHLLKVGKNNFRPPPKVD-SSVVRIEPRKPRPQVNPVEWDGFLRICFIRKN 235
+NT + + HL + + K+ + + IEP+ P + +WD F+RK
Sbjct: 240 LNTDMERELDHLARFLEAAVAYKKKIGFNGTLLIEPKPQEPTKHQYDWDAATAANFLRK- 298
Query: 236 KTLSSIFRLKNVLSMLEKNYRTLQA------LQSSQ-NSSLGNTEIGTDTPSLG 282
L F+L +E N+ TL L++++ N LGN + T G
Sbjct: 299 YGLIDEFKLN-----IECNHATLSGHSCHHELETARINGLLGNIDANTGDAQTG 347
>gnl|CDD|220441 pfam09849, DUF2076, Uncharacterized protein conserved in bacteria
(DUF2076). This domain, found in various hypothetical
prokaryotic proteins, has no known function. The domain,
however, is found in various periplasmic ligand-binding
sensor proteins.
Length = 234
Score = 29.3 bits (66), Expect = 2.6
Identities = 11/43 (25%), Positives = 19/43 (44%)
Query: 266 NSSLGNTEIGTDTPSLGDSNGDQSMGVDDGSDDEMDVEDDDGD 308
++ G+ + G + D G D D+ D++DDD D
Sbjct: 191 INNYGDDDSDAAGGDQGSNGDDDDGGFADSGYDDDDMDDDDDD 233
>gnl|CDD|215622 PLN03189, PLN03189, Protease specific for SMALL UBIQUITIN-RELATED
MODIFIER (SUMO); Provisional.
Length = 490
Score = 29.8 bits (67), Expect = 2.6
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 281 LGDSNGDQSMGVDDGSDDEMDVEDDDGDSDVEGEV--SEFKDKVLAVLREGQFEEKRASK 338
+GD G M DD S +E++ + D D E + V V + G + SK
Sbjct: 127 VGDELGKVEMISDDSSIEEVEAVEMDVDEVEEKAEMGNGLSSDVKIVTKNGNLRVEDTSK 186
Query: 339 L 339
+
Sbjct: 187 M 187
>gnl|CDD|218990 pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA).
This family consists of several Ribosomal protein L11
methyltransferase (EC:2.1.1.-) sequences.
Length = 294
Score = 29.5 bits (67), Expect = 2.7
Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 7/79 (8%)
Query: 54 IKSTDVILEIGPGTGNLT--KKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQ 111
+K + +L++G G+G L L A K V+ V++D V + + +L+V
Sbjct: 158 VKPGETVLDVGCGSGILAIAALKLGAKK-VVGVDIDPVAVRAAKENAELNGVEAQLEVYL 216
Query: 112 -GDVLKTDLPYFDICVANI 129
GD+ + D+ VANI
Sbjct: 217 PGDLPEGK---ADVVVANI 232
>gnl|CDD|225172 COG2263, COG2263, Predicted RNA methylase [Translation, ribosomal
structure and biogenesis].
Length = 198
Score = 28.8 bits (65), Expect = 3.0
Identities = 21/75 (28%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 59 VILEIGPGTGNL--TKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDVLK 116
+L++G GTG L LL A V+AV++D + E+ R + ++ + DV
Sbjct: 48 TVLDLGAGTGILAIGAALLGA-SRVLAVDIDPEAL-EIARA-NAEELLGDVEFVVADVSD 104
Query: 117 TDLPYFDICVANIPY 131
FD + N P+
Sbjct: 105 FRGK-FDTVIMNPPF 118
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 29.2 bits (66), Expect = 3.2
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 70 LTKKLLEAGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGDV 114
L K +LEAG +VIA ++D + EL S +L +++ D+
Sbjct: 20 LVKAILEAGGIVIAADIDKEALNELLESLGKEFKSKKLSLVELDI 64
>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 332
Score = 29.3 bits (66), Expect = 3.2
Identities = 16/53 (30%), Positives = 20/53 (37%), Gaps = 2/53 (3%)
Query: 262 QSSQNSSLGNTEIGTDTPSLGDSNGDQSMGVDDGSDDEMDVEDDDGDSDVEGE 314
Q S I D GD S DD +D ++ + DD D DV E
Sbjct: 229 PKKQAKSSKRRTIAQIDGIDSDDEGDGS--DDDDDEDAIESDLDDSDDDVSDE 279
>gnl|CDD|218506 pfam05219, DREV, DREV methyltransferase. This family contains DREV
protein homologues from several eukaryotes. The function
of this protein is unknown. However, these proteins
appear to be related to other methyltransferases
(Bateman A pers obs).
Length = 265
Score = 29.1 bits (65), Expect = 3.5
Identities = 16/55 (29%), Positives = 27/55 (49%)
Query: 43 LLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRR 97
LLV Q A + +L++G G G +T ++ + V A EL M L+++
Sbjct: 81 LLVIGGFQPASGQEPVTLLDLGAGDGEITLRMAPTFEEVYATELSWTMRDRLKKK 135
>gnl|CDD|179854 PRK04457, PRK04457, spermidine synthase; Provisional.
Length = 262
Score = 28.9 bits (65), Expect = 3.8
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 60 ILEIGPGTGNLTKKLLE--AGKMVIAVELDSRMVLELQRRFQSTPYSNRLKVIQGD 113
IL+IG G G+L K + AVE++ +++ + F+ R +VI+ D
Sbjct: 70 ILQIGLGGGSLAKFIYTYLPDTRQTAVEINPQVIAVARNHFELPENGERFEVIEAD 125
>gnl|CDD|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid).
Members of this family are bacterial proteins with a
conserved motif [KR]FYDLN, sometimes flanked by a pair
of CXXC motifs, followed by a long region of low
complexity sequence in which roughly half the residues
are Asp and Glu, including multiple runs of five or more
acidic residues. The function of members of this family
is unknown.
Length = 104
Score = 27.7 bits (62), Expect = 3.9
Identities = 14/42 (33%), Positives = 16/42 (38%), Gaps = 2/42 (4%)
Query: 273 EIGTDTPSLGDSNGDQSMGVDDGSDDEMDVEDDDGDSDVEGE 314
E D L D + D DD D + D D D D D E
Sbjct: 60 EEDEDDVVLDDDDDDDD--DDDLPDLDDDDVDLDDDDDDFLE 99
>gnl|CDD|225173 COG2264, PrmA, Ribosomal protein L11 methylase [Translation,
ribosomal structure and biogenesis].
Length = 300
Score = 28.8 bits (65), Expect = 4.4
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 6/74 (8%)
Query: 60 ILEIGPGTGNLT--KKLLEAGKMVIAVELDSRMVLE--LQRRFQSTPYSNRLKVIQGDVL 115
+L++G G+G L L A K V+ V++D + V R + K +
Sbjct: 166 VLDVGCGSGILAIAAAKLGAKK-VVGVDIDPQAVEAARENARLNGVELLVQAKGFLLLEV 224
Query: 116 KTDLPYFDICVANI 129
+ P FD+ VANI
Sbjct: 225 PENGP-FDVIVANI 237
>gnl|CDD|215319 PLN02585, PLN02585, magnesium protoporphyrin IX methyltransferase.
Length = 315
Score = 28.7 bits (64), Expect = 5.0
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 64 GPGTGNLTKKLLEAGKMVIAVELDSRMVLELQRRFQ 99
G GTG+L L G +V A ++ + MV E +RR +
Sbjct: 152 GCGTGSLAIPLALEGAIVSASDISAAMVAEAERRAK 187
>gnl|CDD|131353 TIGR02300, FYDLN_acid, TIGR02300 family protein. Members of this
family are bacterial proteins with a conserved motif
[KR]FYDLN, sometimes flanked by a pair of CXXC motifs,
followed by a long region of low complexity sequence in
which roughly half the residues are Asp and Glu,
including multiple runs of five or more acidic residues.
The function of members of this family is unknown.
Length = 129
Score = 27.6 bits (61), Expect = 5.1
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 5/43 (11%)
Query: 275 GTDTPSLGDSNGDQSMGVDDGSDD----EMDVEDDDGDSDVEG 313
G TP+ GD + + D DD E + +DD D D+ G
Sbjct: 84 GAPTPAGGDDL-AEDEDIADDDDDVTFLEDEEDDDIDDEDIIG 125
>gnl|CDD|185219 PRK15319, PRK15319, AIDA autotransporter-like protein ShdA;
Provisional.
Length = 2039
Score = 28.9 bits (64), Expect = 5.3
Identities = 20/77 (25%), Positives = 32/77 (41%), Gaps = 5/77 (6%)
Query: 231 FIRKNKTLSSIFRLKNVLSMLEKNYRTLQALQSSQNSSLGNTEIGTDTPSLGDSNGDQSM 290
F KN+ + ++ + + + ++ QS + S G+ DTPS G +G
Sbjct: 1637 FELKNEVNAGLYTYRLYWNESDNDWYLASKAQSDDDDSGGD-----DTPSDGGDDGGNVT 1691
Query: 291 GVDDGSDDEMDVEDDDG 307
DDG D DDG
Sbjct: 1692 PPDDGGDGGNVTPPDDG 1708
>gnl|CDD|221333 pfam11942, Spt5_N, Spt5 transcription elongation factor, acidic
N-terminal. This is the very acidic N-terminal region
of the early transcription elongation factor Spt5. The
Spt5-Spt4 complex regulates early transcription
elongation by RNA polymerase II and has an imputed role
in pre-mRNA processing via its physical association with
mRNA capping enzymes. The actual function of this
N-terminal domain is not known although it is
dispensable for binding to Spt4.
Length = 92
Score = 27.0 bits (60), Expect = 5.4
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 287 DQSMGVDDGSDDEMDVEDDDGDSDVEGEVSE 317
D VDD ++E + EDD D E E +
Sbjct: 3 DTEAEVDDEEEEEEEEEDDLEDLSDEDEFID 33
>gnl|CDD|221603 pfam12496, BNIP2, Bcl2-/adenovirus E1B nineteen kDa-interacting
protein 2. This domain family is found in eukaryotes,
and is typically between 119 and 133 amino acids in
length. There is a conserved HGGY sequence motif. This
family is Bcl2-/adenovirus E1B nineteen kDa-interacting
protein 2. It interacts with pro- and anti- apoptotic
molecules in the cell.
Length = 126
Score = 27.4 bits (61), Expect = 5.4
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 275 GTDTPSLGDSNGDQSMGVDDGSDDEMDVEDDDGDSDVEGEVSEFKD 320
++ L D + +D + D++D DD D G E++D
Sbjct: 18 QSEGSLLSDDLLETPDDLDI-NVDDLDTPDDSDSLDFPGNELEWED 62
>gnl|CDD|237215 PRK12815, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1068
Score = 28.8 bits (65), Expect = 5.8
Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 42 PLLVESI---VQKAGIKSTDVILEIGPGTG-NLTKKLLEAGKMVIAVELDSRMVLELQRR 97
PL +E + + IK VI++ G T NL K L EAG ++ D+ LE + R
Sbjct: 616 PLTLEDVLNVAEAENIK--GVIVQFGGQTAINLAKGLEEAGLTILGTSPDTIDRLEDRDR 673
Query: 98 FQ 99
F
Sbjct: 674 FY 675
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 28.2 bits (63), Expect = 6.8
Identities = 15/75 (20%), Positives = 18/75 (24%), Gaps = 2/75 (2%)
Query: 242 FRLKNVLSMLE--KNYRTLQALQSSQNSSLGNTEIGTDTPSLGDSNGDQSMGVDDGSDDE 299
K +E L A EI N D D
Sbjct: 71 KSKKENKLAIEDADKSTNLDASNEGDEDDDEEDEIKRKRIEEDARNSDADDSDSSSDSDS 130
Query: 300 MDVEDDDGDSDVEGE 314
D + DD DS+ E
Sbjct: 131 SDDDSDDDDSEDETA 145
>gnl|CDD|218747 pfam05786, Cnd2, Condensin complex subunit 2. This family consists
of several Barren protein homologues from several
eukaryotic organisms. In Drosophila Barren (barr) is
required for sister-chromatid segregation in mitosis.
barr encodes a novel protein that is present in
proliferating cells and has homologues in yeast and
human. Mitotic defects in barr embryos become apparent
during cycle 16, resulting in a loss of PNS and CNS
neurons. Centromeres move apart at the
metaphase-anaphase transition and Cyclin B is degraded,
but sister chromatids remain connected, resulting in
chromatin bridging. Barren protein localises to
chromatin throughout mitosis. Colocalisation and
biochemical experiments indicate that Barren associates
with Topoisomerase II throughout mitosis and alters the
activity of Topoisomerase II. It has been suggested that
this association is required for proper chromosomal
segregation by facilitating the decatenation of
chromatids at anaphase. This family forms one of the
three non-structural maintenance of chromosomes (SMC)
subunits of the mitotic condensation complex along with
Cnd1 and Cnd3.
Length = 719
Score = 28.6 bits (64), Expect = 6.9
Identities = 17/79 (21%), Positives = 30/79 (37%), Gaps = 12/79 (15%)
Query: 280 SLGDSNGDQSMGVDDGSDDEMDVEDDDGDSDVEGEVSEFK------DKVLAVLREG-QFE 332
D++ +G D ++ E D ++D D G+ EF+ KV V R+ +
Sbjct: 330 DFDDNDKKGDVGFDINAEVEDDPDEDAEDGGDGGDAEEFEAEKEPMLKVCRVDRQVTEII 389
Query: 333 E-----KRASKLTQQEFLY 346
+ L+ E Y
Sbjct: 390 DGDEPVDYCISLSYNELSY 408
>gnl|CDD|234556 TIGR04345, ovoA_Cterm, putative 4-mercaptohistidine
N1-methyltranferase. Ovothiol A is
N1-methyl-4-mercaptohistidine. In the absence of
S-adenosylmethione, a methyl donor, the intermediate
produced is 4-mercaptohistidine. In both Erwinia
tasmaniensis and Trypanosoma cruzi, a protein occurs
with 5-histidylcysteine sulfoxide synthase activity, but
these two enzymes and most homologs share an additional
C-terminal methyltransferase domain. Thus OvoA may be a
bifunctional enzyme with 5-histidylcysteine sulfoxide
synthase and 4-mercaptohistidine N1-methyltranferase
activity. This model describes C-terminal putative
4-mercaptohistidine N1-methyltranferase domain
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Glutathione and analogs].
Length = 242
Score = 28.0 bits (63), Expect = 6.9
Identities = 28/126 (22%), Positives = 45/126 (35%), Gaps = 31/126 (24%)
Query: 44 LVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMV---LELQRRFQS 100
L E + + KS L+IG G + +L V ++ +R + + L+ R S
Sbjct: 29 LAELALAQFRNKSRKRALDIGCAVGRASFELARYFDEVDGIDFSARFIRPAVALKER-GS 87
Query: 101 TPYS----------------------NRLKV--IQGDV--LKTDLPYFD-ICVANIPYQI 133
Y+ R +V QGD LK +D I AN+ ++
Sbjct: 88 LRYALKEEGELVSFKEVTLSDLGLDEVRDRVSFFQGDACNLKPHFTGYDLILAANLLDRL 147
Query: 134 SSPLTF 139
P F
Sbjct: 148 YDPAAF 153
>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein. This family includes proteins
related to Mpp10 (M phase phosphoprotein 10). The U3
small nucleolar ribonucleoprotein (snoRNP) is required
for three cleavage events that generate the mature 18S
rRNA from the pre-rRNA. In Saccharomyces cerevisiae,
depletion of Mpp10, a U3 snoRNP-specific protein, halts
18S rRNA production and impairs cleavage at the three U3
snoRNP-dependent sites.
Length = 613
Score = 28.0 bits (62), Expect = 8.4
Identities = 14/82 (17%), Positives = 23/82 (28%), Gaps = 4/82 (4%)
Query: 259 QALQSSQNSSLGNTEIGTDTPSLGDSNGDQSMGVDDGSD--DEMDVEDDDGDSDVEGEVS 316
L + L S +DGSD D + D + + E + S
Sbjct: 69 PILDDLNQKYVEFLINKEHIRVLAKLQ--DSESHEDGSDGSDMDSEDSADDEEEEEEDES 126
Query: 317 EFKDKVLAVLREGQFEEKRASK 338
+ + F E +S
Sbjct: 127 LEDEMIDDEDEADLFNESESSL 148
>gnl|CDD|227310 COG4976, COG4976, Predicted methyltransferase (contains TPR repeat)
[General function prediction only].
Length = 287
Score = 27.8 bits (62), Expect = 8.8
Identities = 12/50 (24%), Positives = 25/50 (50%)
Query: 42 PLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLLEAGKMVIAVELDSRMV 91
P L+ ++ KA + +L++G GTG + L + + V++ M+
Sbjct: 111 PELLAEMIGKADLGPFRRMLDLGCGTGLTGEALRDMADRLTGVDISENML 160
>gnl|CDD|204372 pfam09999, DUF2240, Uncharacterized protein conserved in archaea
(DUF2240). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 144
Score = 26.9 bits (60), Expect = 9.5
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 331 FEEKRASKLTQQEFLYLLSLFNK 353
F+ + A LT+ +F++ LSL K
Sbjct: 10 FKHRGADSLTESDFIFALSLDRK 32
>gnl|CDD|218798 pfam05891, Methyltransf_PK, AdoMet dependent proline
di-methyltransferase. This protein is expressed in the
tail neuron PVT and in uterine cells in C. elegans
[worm-base]. In Saccharomyces cerevisiae this is AdoMet
dependent proline di-methyltransferase. This enzyme
catalyzes the di-methylation of ribosomal proteins
Rpl12 and Rps25 at N-terminal proline residues. The
methyltransferases described here specifically
recognise the N-terminal X-Pro-Lys sequence motif, and
they may account for nearly all previously described
eukaryotic protein N-terminal methylation reactions. A
number of other yeast and human proteins also share the
recognition motif and may be similarly modified. As
with other methyltransferases, this family carries the
characteristic GxGxG motif.
Length = 217
Score = 27.3 bits (61), Expect = 9.6
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 41 NPLLVESIVQKAGIKSTDVILEIGPGTGNLTKKLL 75
LL E + K V L+ G G G +TK LL
Sbjct: 43 RRLLRERLPGKRR---HLVALDCGAGIGRVTKNLL 74
>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit
Rpc31. RNA polymerase III contains seventeen subunits
in yeasts and in human cells. Twelve of these are akin
to RNA polymerase I or II and the other five are RNA pol
III-specific, and form the functionally distinct groups
(i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31,
Rpc34 and Rpc82 form a cluster of enzyme-specific
subunits that contribute to transcription initiation in
S.cerevisiae and H.sapiens. There is evidence that these
subunits are anchored at or near the N-terminal Zn-fold
of Rpc1, itself prolonged by a highly conserved but RNA
polymerase III-specific domain.
Length = 221
Score = 27.4 bits (61), Expect = 9.9
Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 21/77 (27%)
Query: 248 LSMLEKNYRTLQALQSSQNSSLGNTEIGTDTPSLGDSNGDQSMGVDDGSDDEMDVEDD-- 305
LSMLEK + L+A ++ + + ++ +D DD+ D +DD
Sbjct: 153 LSMLEKKLKELEAE-----------DVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDDDYN 201
Query: 306 --------DGDSDVEGE 314
+ D + E
Sbjct: 202 AENYFDNGEDDDYDDDE 218
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 0.136 0.387
Gapped
Lambda K H
0.267 0.0829 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,930,778
Number of extensions: 1724418
Number of successful extensions: 2199
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2076
Number of HSP's successfully gapped: 107
Length of query: 359
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 261
Effective length of database: 6,590,910
Effective search space: 1720227510
Effective search space used: 1720227510
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: 60 (26.7 bits)