RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13086
(169 letters)
>gnl|CDD|217012 pfam02390, Methyltransf_4, Putative methyltransferase. This is a
family of putative methyltransferases. The aligned
region contains the GXGXG S-AdoMet binding site
suggesting a putative methyltransferase activity.
Length = 198
Score = 133 bits (336), Expect = 7e-40
Identities = 58/194 (29%), Positives = 86/194 (44%), Gaps = 38/194 (19%)
Query: 2 DWSPLYPELKDPTCEKKVEFVDVGCGKLYL-----PMFPSTLILGLEIRVKVSDYVID-- 54
DW L+ E+ + F+++GCG P L +G+EIRV D +
Sbjct: 12 DWQALFGN------EQPL-FLEIGCGMGDFLVAMAKKNPDKLFIGIEIRVPGVDKALKKI 64
Query: 55 ----------------EWSL-------YLKKMFFLYPDPHFKRCKYKWRIINQNLLSEYA 91
L L+K+F +PDP K+ +K R++ L EYA
Sbjct: 65 IALRGLQNLRILCGDAMKLLPNLFPDGSLQKIFINFPDPWPKKRHHKRRLLQPEFLKEYA 124
Query: 92 YVLSEGGIVYTITDVKDLHDWIVSHFTEHPLFVECDLEELKRTDPVVDKLYQSTEEGQKV 151
VL GG+++ TDV++ +W++ H +EHPLF DP+ D L STE QKV
Sbjct: 125 RVLKPGGVLHLATDVEEYFEWMLEHLSEHPLFERILESTDLNEDPITD-LRISTEYEQKV 183
Query: 152 TRNKGEKFCAVFRR 165
R G F +F +
Sbjct: 184 QRLGGPIFELIFIK 197
>gnl|CDD|161703 TIGR00091, TIGR00091, tRNA (guanine-N(7)-)-methyltransferase. This
predicted S-adenosylmethionine-dependent
methyltransferase is found in a single copy in most
Bacteria. It is also found, with a short amino-terminal
extension in eukaryotes. Its function is unknown. In E.
coli, this protein flanks the DNA repair protein MutY,
also called micA [Protein synthesis, tRNA and rRNA base
modification].
Length = 194
Score = 92.8 bits (231), Expect = 3e-24
Identities = 50/198 (25%), Positives = 75/198 (37%), Gaps = 40/198 (20%)
Query: 2 DWSPLYPELKDPTCEKKVEFVDVGCGKLYLPM-----FPSTLILGLEIR----------- 45
D+S P+ K +++GCGK + P LG+EI
Sbjct: 1 DYSLDKPDFATVFGNKAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKA 60
Query: 46 ---------------VKVSDYVIDEWSLYLKKMFFLYPDPHFKRCKYKWRIINQNLLSEY 90
++ D + SL K+F +PDP K+ K RI + L EY
Sbjct: 61 NKLGLKNLHVLCGDANELLDKFFPDGSL--SKVFLNFPDPWPKKRHNKRRITQPHFLKEY 118
Query: 91 AYVLSEGGIVYTITDVKDLHDWIVSHFTEHPLFVECDLEELKRTDPVVDKLY---QSTEE 147
A VL +GG+++ TD + L + ++ +E+ LF K TD L TE
Sbjct: 119 ANVLKKGGVIHFKTDNEPLFEDMLKVLSENDLFENTS----KSTDLNNSPLSRPRNMTEY 174
Query: 148 GQKVTRNKGEKFCAVFRR 165
Q+ R F F R
Sbjct: 175 EQRFERLGHPVFDLCFER 192
>gnl|CDD|223298 COG0220, COG0220, Predicted S-adenosylmethionine-dependent
methyltransferase [General function prediction only].
Length = 227
Score = 84.7 bits (210), Expect = 1e-20
Identities = 48/196 (24%), Positives = 80/196 (40%), Gaps = 42/196 (21%)
Query: 2 DWSPLYPELKDPTCEKKVEFVDVGCGK----LYL-PMFPSTLILGLEIR----------- 45
DWS L+ P +++G G + + P LG+EIR
Sbjct: 39 DWSALFGNNNAPI------VLEIGFGMGEFLVEMAKKNPEKNFLGIEIRVPGVAKALKKI 92
Query: 46 ---------------VKVSDYVIDEWSLYLKKMFFLYPDPHFKRCKYKWRIINQNLLSEY 90
V+V DY+I + SL K++ +PDP K+ +K R+ L Y
Sbjct: 93 KELGLKNLRLLCGDAVEVLDYLIPDGSL--DKIYINFPDPWPKKRHHKRRLTQPEFLKLY 150
Query: 91 AYVLSEGGIVYTITDVKDLHDWIVSHFTEHPLFVECDLEELKRTDPVVDKLYQSTEEGQK 150
A L GG+++ TD ++ +W++ EHP F++ + E+L P D E ++
Sbjct: 151 ARKLKPGGVLHFATDNEEYFEWMMLEVLEHPPFLKFESEDLHYNLPPPD--NNPVTEYEQ 208
Query: 151 VTRNKGEK-FCAVFRR 165
R G + F +
Sbjct: 209 KFRRLGHPVYDLEFIK 224
>gnl|CDD|234649 PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed.
Length = 202
Score = 58.6 bits (143), Expect = 3e-11
Identities = 25/135 (18%), Positives = 55/135 (40%), Gaps = 33/135 (24%)
Query: 22 VDVGCGK----LYL-PMFPSTLILGLEIRV--------KVSDY--------------VID 54
+++G GK + + P +G+E+ K+ + V+
Sbjct: 45 LEIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDAVEVLL 104
Query: 55 EW----SLYLKKMFFLYPDPHFKRCKYKWRIINQNLLSEYAYVLSEGGIVYTITDVKDLH 110
+ SL +++ +PDP K+ +K R++ L+ YA L GG ++ TD +
Sbjct: 105 DMFPDGSL--DRIYLNFPDPWPKKRHHKRRLVQPEFLALYARKLKPGGEIHFATDWEGYA 162
Query: 111 DWIVSHFTEHPLFVE 125
++++ + F+
Sbjct: 163 EYMLEVLSAEGGFLV 177
>gnl|CDD|235498 PRK05541, PRK05541, adenylylsulfate kinase; Provisional.
Length = 176
Score = 31.2 bits (71), Expect = 0.15
Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 80 RIINQNLLSEYAYVLSEGG---IVYTITDVKDLHDWIVSHFTEH-PLFVECDLEELKRTD 135
RI ++ A L++ G IV TI+ +++ + H + ++++CD+EEL R D
Sbjct: 60 RIEMALKRAKLAKFLADQGMIVIVTTISMFDEIYAYNRKHLPNYFEVYLKCDMEELIRRD 119
Query: 136 P 136
Sbjct: 120 Q 120
>gnl|CDD|226199 COG3673, COG3673, Uncharacterized conserved protein [Function
unknown].
Length = 423
Score = 30.7 bits (69), Expect = 0.30
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 140 KLYQSTEEGQKVTRNKGEKFCAVFRRGRHV 169
+L EGQKVTR + E F + V
Sbjct: 167 RLSGLDPEGQKVTRFRAEYFRNICVDDYEV 196
>gnl|CDD|234340 TIGR03744, traC_PFL_4706, conjugative transfer ATPase, PFL_4706
family. Members of this protein family are predicted
ATP-binding proteins apparently associated with DNA
conjugal transfer. Members are found both in plasmids
and in bacterial chromosomal regions that appear to
derive from integrative elements such as conjugative
transposons. More distant homologs, outside the scope of
this family, include type IV secretion/conjugal transfer
proteins such as TraC, VirB4 and TrsE. The granularity
of this protein family definition is chosen so as to
represent one distinctive clade and act as a marker
through which to define and recognize the class of
mobile element it serves [Mobile and extrachromosomal
element functions, Plasmid functions].
Length = 893
Score = 30.4 bits (69), Expect = 0.45
Identities = 9/41 (21%), Positives = 19/41 (46%)
Query: 94 LSEGGIVYTITDVKDLHDWIVSHFTEHPLFVECDLEELKRT 134
L+ G+ + + +++W++ F +P D EL R
Sbjct: 187 LANAGVTARRQNGRQIYEWLLRWFNPNPELAGGDPGELYRL 227
>gnl|CDD|215627 PLN03195, PLN03195, fatty acid omega-hydroxylase; Provisional.
Length = 516
Score = 30.1 bits (68), Expect = 0.49
Identities = 8/48 (16%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 77 YKWRIINQNLLSEYAYVLSEGGIVYTITDVKDLHDWIVSHFTEHPLFV 124
++W N+ + + G + + + +HDW+V + ++ V
Sbjct: 25 HRWSQRNRKGPKSWPII---GAALEQLKNYDRMHDWLVEYLSKDRTVV 69
>gnl|CDD|178018 PLN02396, PLN02396, hexaprenyldihydroxybenzoate methyltransferase.
Length = 322
Score = 28.5 bits (63), Expect = 1.5
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 3/20 (15%)
Query: 11 KDPTCEKKVE---FVDVGCG 27
KDP+ K E F+D+GCG
Sbjct: 122 KDPSSAKPFEGLKFIDIGCG 141
>gnl|CDD|140236 PTZ00209, PTZ00209, retrotransposon hot spot protein; Provisional.
Length = 693
Score = 28.5 bits (63), Expect = 1.9
Identities = 13/42 (30%), Positives = 22/42 (52%)
Query: 31 LPMFPSTLILGLEIRVKVSDYVIDEWSLYLKKMFFLYPDPHF 72
L +FP+ L R KV + + DEW L +++ + P P +
Sbjct: 317 LSLFPNYTTLDENARAKVKEELEDEWRLVERRVDVVGPLPRY 358
>gnl|CDD|235799 PRK06419, rpl15p, 50S ribosomal protein L15P; Reviewed.
Length = 148
Score = 27.1 bits (61), Expect = 2.9
Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 11/54 (20%)
Query: 55 EWSLYLKKMFFLYPDPH----FKR---CKYKWRIINQNLLSEYAYVLSEGGIVY 101
+W+ +K PD + FKR + IN L E A +L G
Sbjct: 43 KWTWVVKYG----PDWYGKHGFKRPPKLIKEVSTINVGELDELADLLKAEGKAE 92
>gnl|CDD|176919 cd08910, START_STARD2-like, Lipid-binding START domain of mammalian
STARD2 and related proteins. This subgroup includes the
steroidogenic acute regulatory protein (StAR)-related
lipid transfer (START) domains of STARD2 (also known as
phosphatidylcholine transfer protein/PC-TP) and related
proteins. It belongs to the START domain family, and in
turn to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. STARD2 is a cytosolic phosphatidycholine
(PtdCho) transfer protein, which traffics PtdCho, the
most common class of phospholipids in eukaryotes,
between membranes. It represents a minimal START domain
structure. STARD2 plays roles in hepatic cholesterol
metabolism, in the development of atherosclerosis, and
may have a mitochondrial function.
Length = 207
Score = 27.5 bits (61), Expect = 3.0
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 127 DLEELKRTDPVVDKLYQSTEEGQKVT 152
DLE K+ D V +LY+ +G+ V
Sbjct: 71 DLEYRKQWDQYVKELYEKECDGETVI 96
>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional.
Length = 1486
Score = 28.0 bits (63), Expect = 3.3
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 111 DWIVSHFTEHPLF----VECDLEELKRT-DPVVDKLYQSTEEGQKVTRN 154
W S F E PLF E +E+L+ + + ++ + + QK+ R
Sbjct: 767 QWRYSRFPEVPLFGRAAREKRIEQLRAEREELAERYATLSFDVQKLQRL 815
>gnl|CDD|215692 pfam00071, Ras, Ras family. Includes sub-families Ras, Rab, Rac,
Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with
GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025,
pfam00063. As regards Rab GTPases, these are important
regulators of vesicle formation, motility and fusion.
They share a fold in common with all Ras GTPases: this
is a six-stranded beta-sheet surrounded by five
alpha-helices.
Length = 162
Score = 27.1 bits (61), Expect = 3.9
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 19/71 (26%)
Query: 99 IVYTITD------VKDLHDWIVSHFTEHPLFV----ECDLEELKRTDPVVDKLYQSTEEG 148
+VY IT VK + I+ H E+ V +CDLE+ + VV STEEG
Sbjct: 77 LVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQR----VV-----STEEG 127
Query: 149 QKVTRNKGEKF 159
+ + + G F
Sbjct: 128 EALAKELGLPF 138
>gnl|CDD|222313 pfam13679, Methyltransf_32, Methyltransferase domain. This
family appears to be a methyltransferase domain.
Length = 143
Score = 26.8 bits (60), Expect = 4.6
Identities = 15/42 (35%), Positives = 17/42 (40%), Gaps = 7/42 (16%)
Query: 4 SPLYPELKDPTCEKKVEFVDVGCGKLYLPMFPSTLILGLEIR 45
PL E+ D T V VD G GK YL IL +
Sbjct: 14 EPLIKEVLDKTGCITV--VDHGAGKGYL-----GFILYYLLF 48
>gnl|CDD|107025 PHA01159, PHA01159, hypothetical protein.
Length = 114
Score = 25.9 bits (57), Expect = 6.3
Identities = 8/36 (22%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 37 TLILGLEIRVKVSDYVIDEWSLY--LKKMFFLYPDP 70
LI ++I K++ +++E+ +Y ++ F P
Sbjct: 47 ILIASIQIAYKIAQLLLEEYGVYTMVESRFNALPSD 82
>gnl|CDD|235211 PRK04042, rpl4lp, 50S ribosomal protein L4P; Provisional.
Length = 254
Score = 26.7 bits (60), Expect = 6.6
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 14/55 (25%)
Query: 121 PLFVECDLEELKRTDPVVD-----KLYQSTE---EGQKVTRNKGEKFCAVFRRGR 167
PL V D E LK+T V + LY E EG+K+ KG+ RGR
Sbjct: 140 PLVVVDDFESLKKTKEVRELLEKLGLYDDVERAKEGKKIRAGKGK------MRGR 188
>gnl|CDD|146279 pfam03557, Bunya_G1, Bunyavirus glycoprotein G1. Bunyavirus has
three genomic segments: small (S), middle-sized (M),
and large (L). The S segment encodes the nucleocapsid
and a non-structural protein. The M segment codes for
two glycoproteins, G1 and G2, and another
non-structural protein (NSm). The L segment codes for
an RNA polymerase. This family contains the G1
glycoprotein which is the viral attachment protein.
Length = 871
Score = 27.0 bits (60), Expect = 6.8
Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 49 SDYVIDEWSLYLKKMFF----LYPDPHFKRC 75
S Y +W LYL+ F LYP+ HF RC
Sbjct: 67 SGYSQTKWRLYLRSHDFDICILYPNQHFCRC 97
>gnl|CDD|132843 cd07204, Pat_PNPLA_like, Patatin-like phospholipase domain
containing protein family. Members of this family share
a patain domain, initially discovered in potato tubers.
PNPLA protein members show non-specific hydrolase
activity with a variety of substrates such as
triacylglycerol, phospholipids, and retinylesters. It
contains the lipase consensus sequence
(Gly-X-Ser-X-Gly). Nomenclature of PNPLA family could be
misleading as some of the mammalian members of this
family show hydrolase, but no phospholipase activity.
Length = 243
Score = 26.5 bits (59), Expect = 6.8
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 84 QNLLSEYAYVLSEGGIVYTITDVKDLHDWIVSHFT 118
+ +L + A+ L+ G + ++T V D + +VS F
Sbjct: 91 EKILPDDAHELASGRLHISLTRVSDGENVLVSEFD 125
>gnl|CDD|206642 cd00876, Ras, Rat sarcoma (Ras) family of small guanosine
triphosphatases (GTPases). The Ras family of the Ras
superfamily includes classical N-Ras, H-Ras, and K-Ras,
as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG,
Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins.
Ras proteins regulate cell growth, proliferation and
differentiation. Ras is activated by guanine nucleotide
exchange factors (GEFs) that release GDP and allow GTP
binding. Many RasGEFs have been identified. These are
sequestered in the cytosol until activation by growth
factors triggers recruitment to the plasma membrane or
Golgi, where the GEF colocalizes with Ras. Active
GTP-bound Ras interacts with several effector proteins:
among the best characterized are the Raf kinases,
phosphatidylinositol 3-kinase (PI3K), RalGEFs and
NORE/MST1. Most Ras proteins contain a lipid
modification site at the C-terminus, with a typical
sequence motif CaaX, where a = an aliphatic amino acid
and X = any amino acid. Lipid binding is essential for
membrane attachment, a key feature of most Ras proteins.
Due to the presence of truncated sequences in this CD,
the lipid modification site is not available for
annotation.
Length = 160
Score = 26.3 bits (59), Expect = 7.0
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 20/72 (27%)
Query: 99 IVYTITD------VKDLHDWIVS-HFTEHPLFV----ECDLEELKRTDPVVDKLYQSTEE 147
+VY+IT +K++ + I+ E V +CDLE + V STEE
Sbjct: 76 LVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENER----QV-----STEE 126
Query: 148 GQKVTRNKGEKF 159
G+ + G F
Sbjct: 127 GEALAEEWGCPF 138
>gnl|CDD|235977 PRK07233, PRK07233, hypothetical protein; Provisional.
Length = 434
Score = 26.8 bits (60), Expect = 7.1
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 5/30 (16%)
Query: 50 DYVIDEWSLYLKKMFFLYPDPHFKRCKYKW 79
+ ++D + YL+KMF P F R +
Sbjct: 343 EELLDRFLSYLRKMF-----PDFDRDDVRA 367
>gnl|CDD|234958 PRK01544, PRK01544, bifunctional N5-glutamine
S-adenosyl-L-methionine-dependent methyltransferase/tRNA
(m7G46) methyltransferase; Reviewed.
Length = 506
Score = 26.4 bits (58), Expect = 8.7
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 60 LKKMFFLYPDPHFKRCKYKWRIINQNLL 87
L ++ L+PDP K + K RI N+ L
Sbjct: 418 LDGIYILFPDPWIKNKQKKKRIFNKERL 445
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.323 0.142 0.456
Gapped
Lambda K H
0.267 0.0792 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,975,854
Number of extensions: 830666
Number of successful extensions: 743
Number of sequences better than 10.0: 1
Number of HSP's gapped: 739
Number of HSP's successfully gapped: 28
Length of query: 169
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 79
Effective length of database: 6,945,742
Effective search space: 548713618
Effective search space used: 548713618
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (24.8 bits)