RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17126
(240 letters)
>gnl|CDD|234708 PRK00274, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Reviewed.
Length = 272
Score = 124 bits (313), Expect = 2e-34
Identities = 45/142 (31%), Positives = 72/142 (50%), Gaps = 16/142 (11%)
Query: 11 MPSIRDIIKLYKLRALKQLSQNFLFEPRLTDKIVRNAGTITGNEVCEVGPGPGSITRSIL 70
P R++++ Y RA K L QNFL + + DKIV AG G+ V E+GPG G++T +L
Sbjct: 2 PPRTRELLERYGHRAKKSLGQNFLIDENILDKIVDAAGPQPGDNVLEIGPGLGALTEPLL 61
Query: 71 NRRPARLVLIEKDPRFTPCLDMLAQASPCPVHFHLGDVMSFTMQNMFSEDRRRDWSEGLP 130
R A++ +E D P L + + GD + D SE L
Sbjct: 62 -ERAAKVTAVEIDRDLAPILA--ETFAEDNLTIIEGDALKV------------DLSE-LQ 105
Query: 131 GIRIIGNLPFNVSTPLIIKWIQ 152
++++ NLP+N++TPL+ ++
Sbjct: 106 PLKVVANLPYNITTPLLFHLLE 127
Score = 27.0 bits (61), Expect = 7.8
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 171 LLERACVKPILRPYQLSVQEFGQICLAYRDM 201
LE A + P R LSV+EF ++ A +
Sbjct: 241 ALEAAGIDPNRRAETLSVEEFVRLANALAAL 271
>gnl|CDD|223109 COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation)
[Translation, ribosomal structure and biogenesis].
Length = 259
Score = 99 bits (250), Expect = 2e-25
Identities = 40/131 (30%), Positives = 62/131 (47%), Gaps = 14/131 (10%)
Query: 22 KLRALKQLSQNFLFEPRLTDKIVRNAGTITGNEVCEVGPGPGSITRSILNRRPARLVLIE 81
R K+L QNFL + + DKIV A G+ V E+GPG G++T +L R AR+ IE
Sbjct: 1 MFRPNKRLGQNFLIDKNVIDKIVEAANISPGDNVLEIGPGLGALTEPLL-ERAARVTAIE 59
Query: 82 KDPRFTPCLDMLAQASPCPVHFHLGDVMSFTMQNMFSEDRRRDWSEGLPGIRIIGNLPFN 141
D R L + GD + F D+ +++ NLP+N
Sbjct: 60 IDRRLAEVLKERFAPYD-NLTVINGDALKF------------DFPSLAQPYKVVANLPYN 106
Query: 142 VSTPLIIKWIQ 152
+S+P++ K ++
Sbjct: 107 ISSPILFKLLE 117
>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 = 83.1 bits (206), Expect = 4e-19
Identities = 56/184 (30%), Positives = 85/184 (46%), Gaps = 39/184 (21%)
Query: 23 LRALKQLSQNFLFEPRLTDKIVRNAGTITGNEVCEVGPGPGSITRSILNRRPARLVLIEK 82
R K L QNFL + + KIV A + G+ V E+GPG G++T +L +R ++ IE
Sbjct: 1 FRPRKSLGQNFLIDESVIQKIVEAANVLEGDVVLEIGPGLGALTEPLL-KRAKKVTAIEI 59
Query: 83 DPRFTPCLDMLAQASPCPVHFHL----GDVMSFTMQNMFSEDRRRDWSEGLPGIRIIGNL 138
D R L L ++ +L GD + D +E ++++ NL
Sbjct: 60 DRRLAERLRKLL-----SLYENLEIIEGDALKV------------DLNEFPKQLKVVSNL 102
Query: 139 PFNVSTPLIIKWIQAISENLLFPKHKRQLVVSLL-----ERACVKPILRPY-QLSV--QE 190
P+N+S+PLI K L K K +L V ++ ER KP + Y +LSV Q
Sbjct: 103 PYNISSPLIFK---------LLEKDKFRLAVLMVQKEVAERLTAKPGSKDYGRLSVLVQY 153
Query: 191 FGQI 194
F +
Sbjct: 154 FANV 157
>gnl|CDD|128898 smart00650, rADc, Ribosomal RNA adenine dimethylases.
Length = 169
Score = 79.5 bits (197), Expect = 2e-18
Identities = 39/115 (33%), Positives = 59/115 (51%), Gaps = 15/115 (13%)
Query: 39 LTDKIVRNAGTITGNEVCEVGPGPGSITRSILNRRPARLVLIEKDPRFTPCLDMLAQASP 98
+ DKIVR A G+ V E+GPG G++T +L R R+ IE DPR P L A+
Sbjct: 1 VIDKIVRAANLRPGDTVLEIGPGKGALTEELL-ERAKRVTAIEIDPRLAPRLREKFAAAD 59
Query: 99 CPVHFHLGDVMSFTMQNMFSEDRRRDWSEGLPGIRIIGNLPFNVSTPLIIKWIQA 153
+ GD + F D + P +++GNLP+N+STP++ K ++
Sbjct: 60 -NLTVIHGDALKF------------DLPKLQP-YKVVGNLPYNISTPILFKLLEE 100
>gnl|CDD|215900 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase.
Length = 254
Score = 69.6 bits (171), Expect = 3e-14
Identities = 38/128 (29%), Positives = 64/128 (50%), Gaps = 17/128 (13%)
Query: 27 KQLSQNFLFEPRLTDKIVRNAGTITGNEVCEVGPGPGSITRSILNRRPARLVLIEKDPRF 86
++ QNFL P++ ++IV A + V E+GPG G++T L +R ++V IE DPR
Sbjct: 5 RKYGQNFLTNPKVINRIVDKANLQESDTVLEIGPGKGALTT-ELAKRAKQVVAIEIDPRL 63
Query: 87 TPCL-DMLAQASPCPVHFHLGDVMSFTMQNMFSEDRRRDWSEGLPGIRIIGNLPFNVSTP 145
L + LA V D + F+ F +D ++GN+P+N++TP
Sbjct: 64 AKRLQEKLALHP--NVEVVHQDFLKFS----FPKDDP---------FLVVGNIPYNITTP 108
Query: 146 LIIKWIQA 153
++ K +
Sbjct: 109 IVKKLLFE 116
>gnl|CDD|237852 PRK14896, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Provisional.
Length = 258
Score = 51.4 bits (124), Expect = 7e-08
Identities = 27/69 (39%), Positives = 40/69 (57%), Gaps = 1/69 (1%)
Query: 23 LRALKQLSQNFLFEPRLTDKIVRNAGTITGNEVCEVGPGPGSITRSILNRRPARLVLIEK 82
+R K+L Q+FL + R+ D+IV A G+ V E+GPG G++T L +R ++ IE
Sbjct: 1 IRMNKKLGQHFLIDDRVVDRIVEYAEDTDGDPVLEIGPGKGALTDE-LAKRAKKVYAIEL 59
Query: 83 DPRFTPCLD 91
DPR L
Sbjct: 60 DPRLAEFLR 68
>gnl|CDD|240367 PTZ00338, PTZ00338, dimethyladenosine transferase-like protein;
Provisional.
Length = 294
Score = 40.8 bits (96), Expect = 3e-04
Identities = 37/127 (29%), Positives = 56/127 (44%), Gaps = 22/127 (17%)
Query: 27 KQLSQNFLFEPRLTDKIVRNAGTITGNEVCEVGPGPGSITRSILNRRPARLVL-IEKDPR 85
K+ Q+ L P + DKIV A + V E+GPG G++T +L A+ V+ IE DPR
Sbjct: 12 KKFGQHILKNPLVLDKIVEKAAIKPTDTVLEIGPGTGNLTEKLLQL--AKKVIAIEIDPR 69
Query: 86 FTPCLDMLAQASPCPVHFHL--GDVMSFTMQNMFSEDRRRDWSEGLPGIRI-IGNLPFNV 142
L Q SP + GD + P + + N+P+ +
Sbjct: 70 MVAELKKRFQNSPLASKLEVIEGDALKTE----------------FPYFDVCVANVPYQI 113
Query: 143 STPLIIK 149
S+PL+ K
Sbjct: 114 SSPLVFK 120
>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 = 37.4 bits (87), Expect = 0.001
Identities = 22/120 (18%), Positives = 42/120 (35%), Gaps = 16/120 (13%)
Query: 55 VCEVGPGPGSITRSILNRRPARLVLIEKDPRFTPCLDMLAQASPCP-VHFHLGDVMSFTM 113
V ++G G G++ ++ + AR+ ++ P A A V GD
Sbjct: 2 VLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELP- 60
Query: 114 QNMFSEDRRRDWSEGLPGIRIIGNLPFNVSTPLIIKWIQAISENLLFPKHKRQLVVSLLE 173
D D II + P + + ++++ L K LV++L+
Sbjct: 61 ---PEADESFD--------VIISDPPLHHLVEDLARFLEEARRLL---KPGGVLVLTLVL 106
>gnl|CDD|226472 COG3963, COG3963, Phospholipid N-methyltransferase [Lipid
metabolism].
Length = 194
Score = 38.5 bits (90), Expect = 0.001
Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 6/60 (10%)
Query: 51 TGNEVCEVGPGPGSITRSILNR--RPARLVLIEKDPRFTPCLDMLAQASPCPVHFHLGDV 108
+G V E+GPG G IT++IL+R RP L IE P F L+ L V+ GD
Sbjct: 48 SGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPG----VNIINGDA 103
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 32.8 bits (75), Expect = 0.047
Identities = 19/97 (19%), Positives = 30/97 (30%), Gaps = 21/97 (21%)
Query: 55 VCEVGPGPGSITRSILNRRP-ARLVLIEKDPRFTPCLDMLAQASP-----CPVHFHLGDV 108
V + G G G+ + P AR+V +E DP + + V +GD
Sbjct: 4 VLDPGAGSGAFLLAAARAGPDARVVGVELDPE---AAALARRRLALAGLAPRVRVVVGDA 60
Query: 109 MSFTMQNMFSEDRRRDWSEGLPGIRIIGNLPFNVSTP 145
D D ++GN P+
Sbjct: 61 RELL----ELPDGSFD--------LVLGNPPYGPRAG 85
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 97
Score = 30.0 bits (68), Expect = 0.33
Identities = 10/63 (15%), Positives = 22/63 (34%), Gaps = 12/63 (19%)
Query: 55 VCEVGPGPGSITRSILNRRPARLVLIEKDPRFTPCLDMLAQA------SPCPVHFHLGDV 108
+ ++G G G + R++ P+ + ++ + L A V F + D
Sbjct: 1 ILDLGCGTGRVLRALARAGPSSVTGVDISK------EALELAKERLRDKGPKVRFVVADA 54
Query: 109 MSF 111
Sbjct: 55 RDL 57
>gnl|CDD|212582 cd11687, PpPFK_gamma, Pichia pastoris 6-phosphofructokinase, gamma
subunit. Pichia pastoris 6-phosphofructokinase (PpPfk)
is the most complex and probably largest (1 MDa)
eukaryotic Pfk. It forms a dodecamer of four
alpha-beta-gamma trimers. The gamma unit is unique, in
contrast to other eukaryotic ATP-dependent
6-phosphofructokinases, and participates in
oligomerization of the alpha and beta chains. It is not
essential for enzymatic activity, but it modulates the
allosteric behavior of the enzyme.
Length = 346
Score = 31.1 bits (70), Expect = 0.50
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 35 FEPRLTDKIVRNAGTITGNEVCEVGPGPGSITRSILNRRPARLVLIEKD 83
+E ++ + N G I GN VG G IT +L ++ AR++L+ D
Sbjct: 162 WEDKVKGPALANRGPIRGN----VGAGDRKITFHLLCKKTARMILVGDD 206
>gnl|CDD|219759 pfam08241, Methyltransf_11, Methyltransferase domain. Members of
this family are SAM dependent methyltransferases.
Length = 92
Score = 29.2 bits (66), Expect = 0.52
Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 57 EVGPGPGSITRSILNRRPARLVLIEKDPRFTPCLDMLAQASPCP-VHFHLGDVMS 110
+VG G G + ++ R AR+ ++ P MLA A F +GD
Sbjct: 2 DVGCGTGLLAEALARRGGARVTGVDLSPE------MLALARKRAPRKFVVGDAED 50
>gnl|CDD|223224 COG0146, HyuB, N-methylhydantoinase B/acetone carboxylase, alpha
subunit [Amino acid transport and metabolism / Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 563
Score = 31.1 bits (71), Expect = 0.62
Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 11/64 (17%)
Query: 86 FTPCLDMLAQASPCPVHFHLGDVMSFTMQNMFSEDRRRDWSEGL---PGIRIIGNLPFNV 142
F +++AQA PVH MS +++ M R+ E PG I N P+
Sbjct: 45 FDAEGNLVAQAPHIPVHLG---SMSVSVKAMI-----RNNKENPDLEPGDVFITNDPYIG 96
Query: 143 STPL 146
T L
Sbjct: 97 GTHL 100
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and
Retinoblastoma. A helical domain present in cyclins and
TFIIB (twice) and Retinoblastoma (once). A protein
recognition domain functioning in cell-cycle and
transcription control.
Length = 83
Score = 27.6 bits (62), Expect = 1.5
Identities = 8/39 (20%), Positives = 15/39 (38%)
Query: 149 KWIQAISENLLFPKHKRQLVVSLLERACVKPILRPYQLS 187
+++ + + L L V+LL+R Y S
Sbjct: 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPS 39
>gnl|CDD|184509 PRK14103, PRK14103, trans-aconitate 2-methyltransferase;
Provisional.
Length = 255
Score = 28.9 bits (65), Expect = 2.0
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 7/66 (10%)
Query: 48 GTITGNEVCEVGPGPGSITRSILNRRP-ARLVLIEKDPRFTPCLDMLAQASPCPVHFHLG 106
G V ++G GPG++TR + R P A + ++ P M+A A V G
Sbjct: 26 GAERARRVVDLGCGPGNLTRYLARRWPGAVIEALDSSPE------MVAAARERGVDARTG 79
Query: 107 DVMSFT 112
DV +
Sbjct: 80 DVRDWK 85
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 27.7 bits (62), Expect = 2.4
Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 16/64 (25%)
Query: 55 VCEVGPGPGSITRSILNRRP-ARLVLIEKDPRFTPCLDMLAQA--------SPCPVHFHL 105
V ++G G GS+ + P AR+ ++ P +ML A P + F
Sbjct: 5 VLDIGCGTGSLAIELARLFPGARVTGVDLSP------EMLELARENAKLALGP-RITFVQ 57
Query: 106 GDVM 109
GD
Sbjct: 58 GDAP 61
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold. Protein binding domain
functioning in cell-cycle and transcription control.
Present in cyclins, TFIIB and Retinoblastoma (RB).The
cyclins consist of 8 classes of cell cycle regulators
that regulate cyclin dependent kinases (CDKs). TFIIB is
a transcription factor that binds the TATA box. Cyclins,
TFIIB and RB contain 2 copies of the domain.
Length = 88
Score = 26.8 bits (60), Expect = 3.6
Identities = 8/43 (18%), Positives = 19/43 (44%)
Query: 145 PLIIKWIQAISENLLFPKHKRQLVVSLLERACVKPILRPYQLS 187
P + +++ +++ L L V+LL+R + + S
Sbjct: 3 PTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPS 45
>gnl|CDD|149967 pfam09098, Dehyd-heme_bind, Quinohemoprotein amine dehydrogenase A,
alpha subunit, haem binding. Members of this family are
predominantly found in the prokaryotic protein
Quinohemoprotein amine dehydrogenase, and assume a
secondary structure consisting of two alpha helices.
They contain two cysteine residues that are involved in
thioether linkages to haem.
Length = 68
Score = 26.2 bits (58), Expect = 4.0
Identities = 11/25 (44%), Positives = 13/25 (52%), Gaps = 3/25 (12%)
Query: 101 VHFHLGDVMSFTMQNMFSEDRRRDW 125
VHFHLG + Q + R RDW
Sbjct: 27 VHFHLGQFPTLEYQAL---ARDRDW 48
>gnl|CDD|198188 cd09934, SH2_Tec_family, Src homology 2 (SH2) domain found in
Tec-like proteins. The Tec protein tyrosine kinase is
the founding member of a family that includes Btk, Itk,
Bmx, and Txk. The members have a PH domain, a
zinc-binding motif, a SH3 domain, a SH2 domain, and a
protein kinase catalytic domain. Btk is involved in
B-cell receptor signaling with mutations in Btk
responsible for X-linked agammaglobulinemia (XLA) in
humans and X-linked immunodeficiency (xid) in mice. Itk
is involved in T-cell receptor signaling. Tec is
expressed in both T and B cells, and is thought to
function in activated and effector T lymphocytes to
induce the expression of genes regulated by NFAT
transcription factors. In general SH2 domains are
involved in signal transduction. They typically bind
pTyr-containing ligands via two surface pockets, a pTyr
and hydrophobic binding pocket, allowing proteins with
SH2 domains to localize to tyrosine phosphorylated
sites.
Length = 104
Score = 27.0 bits (60), Expect = 4.2
Identities = 12/50 (24%), Positives = 19/50 (38%)
Query: 162 KHKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEY 211
K VSL + P ++ Y + + LA + E +P L Y
Sbjct: 37 STKGLYTVSLFTKVPGSPHVKHYHIKQNARSEFYLAEKHCFETIPELINY 86
>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 = 27.3 bits (61), Expect = 4.3
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 52 GNEVCEVGPGPGSITRSILNRRP-ARLVLIEKDP 84
G+ + ++G G GS+T P R+ IE++P
Sbjct: 20 GDVLWDIGAGTGSVTIEAARLVPNGRVYAIERNP 53
>gnl|CDD|87993 pfam09448, MmlI, Methylmuconolactone methyl-isomerase. MmlI is a
short, approx 115 residue, protein of two alpha helices
and four beta strands. It is involved in the catabolism
of methyl-substituted aromatics via a modified
oxo-adipate pathway in bacteria. The enzyme appears to
be monomeric in some species and tetrameric in others.
The known structure shows two copies of the protein form
a dimeric alpha beta barrel.
Length = 112
Score = 27.0 bits (59), Expect = 5.2
Identities = 10/39 (25%), Positives = 22/39 (56%)
Query: 180 ILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTLEDTPG 218
+++P +S + F CL + +M ++PGL++Y +
Sbjct: 7 LVKPAGMSDETFRAECLRHYEMSHDVPGLHKYEVRLVAE 45
>gnl|CDD|234970 PRK01683, PRK01683, trans-aconitate 2-methyltransferase;
Provisional.
Length = 258
Score = 27.2 bits (61), Expect = 6.4
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 7/43 (16%)
Query: 55 VCEVGPGPGSITRSILNRRP-ARLVLIEKDPRFTPCLDMLAQA 96
V ++G GPG+ T ++ R P AR+ I+ P MLA+A
Sbjct: 35 VVDLGCGPGNSTELLVERWPAARITGIDSSP------AMLAEA 71
>gnl|CDD|216530 pfam01494, FAD_binding_3, FAD binding domain. This domain is
involved in FAD binding in a number of enzymes.
Length = 349
Score = 27.3 bits (61), Expect = 7.1
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 54 EVCEVGPGP-GSITRSILNRRPARLVLIEKDPRFTP 88
+V VG GP G + +L R R+VL+E+ +
Sbjct: 3 DVLIVGGGPAGLMLALLLARAGVRVVLVERHATTSV 38
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 27.6 bits (62), Expect = 7.7
Identities = 25/114 (21%), Positives = 45/114 (39%), Gaps = 28/114 (24%)
Query: 11 MPSIRDI---------IKLYKLRALKQLSQNF-LFEPRLTDKIVRNAGTITGNEVCEVGP 60
+P + D+ I++ L ++ + L LT K V +TG
Sbjct: 210 LPQLTDLKDLNGQLREIEIEDLLGRPPVALDTELIGAMLTGKTV----LVTG-------- 257
Query: 61 GPGSI----TRSILNRRPARLVLIEKDPR--FTPCLDMLAQASPCPVHFHLGDV 108
G GSI R IL P ++L +D + +++ + + F++GDV
Sbjct: 258 GGGSIGSELCRQILKFNPKEIILFSRDEYKLYLIDMELREKFPELKLRFYIGDV 311
>gnl|CDD|223911 COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms].
Length = 1009
Score = 27.6 bits (62), Expect = 7.9
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 121 RRRDWSEGLPGIRIIGNLPFNVSTPLIIKWIQAISENLLFP 161
R + GLP + I GNL VS+ + ++ ++ L P
Sbjct: 793 VRYN---GLPSVTISGNLAPGVSSGDAMAAMEKLAAELPLP 830
>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 = 26.9 bits (60), Expect = 8.4
Identities = 20/73 (27%), Positives = 28/73 (38%), Gaps = 14/73 (19%)
Query: 42 KIVRNAGTITGNEVCEVGPGPGSITRSILNRRPARLVLIEKDPRFTP---CLDMLAQA-- 96
+++ G V ++G G G +TR++L R P F MLAQA
Sbjct: 25 ALLKEKGIFIPASVLDIGCGTGYLTRALLKRFPQA--------EFIANDISAGMLAQAKT 76
Query: 97 -SPCPVHFHLGDV 108
V F GD
Sbjct: 77 KLSENVQFICGDA 89
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
0.322 0.140 0.425
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: 12,683,500
Number of extensions: 1204886
Number of successful extensions: 952
Number of sequences better than 10.0: 1
Number of HSP's gapped: 940
Number of HSP's successfully gapped: 40
Length of query: 240
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 146
Effective length of database: 6,768,326
Effective search space: 988175596
Effective search space used: 988175596
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.5 bits)