RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780570|ref|YP_003064983.1| phosphoribosylglycinamide
formyltransferase [Candidatus Liberibacter asiaticus str. psy62]
(205 letters)
>gnl|CDD|30647 COG0299, PurN, Folate-dependent phosphoribosylglycinamide
formyltransferase PurN [Nucleotide transport and
metabolism].
Length = 200
Score = 247 bits (633), Expect = 1e-66
Identities = 90/188 (47%), Positives = 124/188 (65%)
Query: 4 KNIVIFISGEGTNMLSLIQATKKNDYPAEIVGVFSDNSNAQGLVKARKEKVPTFPIPYKD 63
K I + SG G+N+ ++I A K AEIV V SD ++A L +A K +PT + K+
Sbjct: 1 KKIAVLASGNGSNLQAIIDAIKGGKLDAEIVAVISDKADAYALERAAKAGIPTVVLDRKE 60
Query: 64 YISRREHEKAILMQLSSIQPDLICLAGYMRLLSRDFVESYKNKILNIHPSLLPLFPGLHT 123
+ SR ++A++ L PDL+ LAGYMR+L +F+ ++ +ILNIHPSLLP FPGLH
Sbjct: 61 FPSREAFDRALVEALDEYGPDLVVLAGYMRILGPEFLSRFEGRILNIHPSLLPAFPGLHA 120
Query: 124 HRRVLQSGIKITGCTVHMVTANMDEGPIIAQAAVPVSSQDTESSLSQKVLSAEHLLYPLA 183
H + L++G+K++GCTVH VT +D GPIIAQAAVPV DT +L +VL EH LYPLA
Sbjct: 121 HEQALEAGVKVSGCTVHFVTEGVDTGPIIAQAAVPVLPGDTAETLEARVLEQEHRLYPLA 180
Query: 184 LKYTILGK 191
+K G+
Sbjct: 181 VKLLAEGR 188
>gnl|CDD|144222 pfam00551, Formyl_trans_N, Formyl transferase. This family
includes the following members. Glycinamide
ribonucleotide transformylase catalyses the third step
in de novo purine biosynthesis, the transfer of a formyl
group to 5'-phosphoribosylglycinamide.
Formyltetrahydrofolate deformylase produces formate from
formyl- tetrahydrofolate. Methionyl-tRNA
formyltransferase transfers a formyl group onto the
amino terminus of the acyl moiety of the methionyl
aminoacyl-tRNA. Inclusion of the following members is
supported by PSI-blast. HOXX_BRAJA (P31907) contains a
related domain of unknown function. PRTH_PORGI (P46071)
contains a related domain of unknown function.
Y09P_MYCTU (Q50721) contains a related domain of unknown
function.
Length = 181
Score = 193 bits (493), Expect = 2e-50
Identities = 74/181 (40%), Positives = 109/181 (60%)
Query: 4 KNIVIFISGEGTNMLSLIQATKKNDYPAEIVGVFSDNSNAQGLVKARKEKVPTFPIPYKD 63
I + ISG G+N+ +L+ A +K + EIV V ++ A GL +A + +P +K+
Sbjct: 1 MKIAVLISGTGSNLQALLDALRKGGHEVEIVAVVTNKDKAAGLERAEQAGIPVEVFEHKN 60
Query: 64 YISRREHEKAILMQLSSIQPDLICLAGYMRLLSRDFVESYKNKILNIHPSLLPLFPGLHT 123
+ R + + + L+++ PDLI LAGYMR+L +F++++ KILNIHPSLLP F G
Sbjct: 61 FTPRSQFDSELADSLAALAPDLIVLAGYMRILPPEFLQAFPGKILNIHPSLLPRFRGAAP 120
Query: 124 HRRVLQSGIKITGCTVHMVTANMDEGPIIAQAAVPVSSQDTESSLSQKVLSAEHLLYPLA 183
+R L++G K TG TVH V +D GPI+AQ AVP+ DT +L +V EH P A
Sbjct: 121 IQRALEAGDKETGVTVHQVDEELDTGPILAQKAVPILPDDTSETLYNRVAELEHKALPEA 180
Query: 184 L 184
L
Sbjct: 181 L 181
>gnl|CDD|38286 KOG3076, KOG3076, KOG3076, 5'-phosphoribosylglycinamide
formyltransferase [Carbohydrate transport and
metabolism].
Length = 206
Score = 188 bits (479), Expect = 9e-49
Identities = 80/185 (43%), Positives = 116/185 (62%), Gaps = 2/185 (1%)
Query: 3 RKNIVIFISGEGTNMLSLIQATKKN--DYPAEIVGVFSDNSNAQGLVKARKEKVPTFPIP 60
R + + ISG G+N+ +LI AT+ A++V V S+ GL +A +PT IP
Sbjct: 6 RARVAVLISGTGSNLQALIDATRDGSLGPNADVVLVISNKKGVYGLERAADAGIPTLVIP 65
Query: 61 YKDYISRREHEKAILMQLSSIQPDLICLAGYMRLLSRDFVESYKNKILNIHPSLLPLFPG 120
+K + SR +++ + L + DL+CLAGYMR+LS +F+ +I+NIHP+LLP F G
Sbjct: 66 HKRFASREKYDNELAEVLLELGTDLVCLAGYMRILSGEFLSQLPKRIINIHPALLPAFKG 125
Query: 121 LHTHRRVLQSGIKITGCTVHMVTANMDEGPIIAQAAVPVSSQDTESSLSQKVLSAEHLLY 180
LH ++ L++G+K++GCTVH V +D GPIIAQ AVPV DT SL Q+V AEH +
Sbjct: 126 LHAIKQALEAGVKLSGCTVHFVIEEVDTGPIIAQMAVPVIPGDTLESLEQRVHDAEHKAF 185
Query: 181 PLALK 185
A+K
Sbjct: 186 VEAIK 190
>gnl|CDD|31131 COG0788, PurU, Formyltetrahydrofolate hydrolase [Nucleotide
transport and metabolism].
Length = 287
Score = 139 bits (352), Expect = 5e-34
Identities = 66/186 (35%), Positives = 99/186 (53%), Gaps = 3/186 (1%)
Query: 3 RKNIVIFISGEGTNMLSLIQATKKNDYPAEIVGVFSDNSNAQGLVKARKEKVPTFPIPYK 62
RK I I +S E + L+ + + PAEIV V S++ + + LV + +P IP
Sbjct: 90 RKRIAILVSKEDHCLGDLLYRWRIGELPAEIVAVISNHDDLRPLV--ERFDIPFHHIP-V 146
Query: 63 DYISRREHEKAILMQLSSIQPDLICLAGYMRLLSRDFVESYKNKILNIHPSLLPLFPGLH 122
++ E E +L L DL+ LA YM++LS DFVE + KI+NIH S LP F G +
Sbjct: 147 TKENKAEAEARLLELLEEYGADLVVLARYMQILSPDFVERFPGKIINIHHSFLPAFIGAN 206
Query: 123 THRRVLQSGIKITGCTVHMVTANMDEGPIIAQAAVPVSSQDTESSLSQKVLSAEHLLYPL 182
+ + + G+K+ G T H VTA++DEGPII Q + V + L + E L+
Sbjct: 207 PYHQAYERGVKLIGATAHYVTADLDEGPIIEQDVIRVDHAYSVEDLVRAGRDVEKLVLAR 266
Query: 183 ALKYTI 188
A+K +
Sbjct: 267 AVKAHL 272
>gnl|CDD|30572 COG0223, Fmt, Methionyl-tRNA formyltransferase [Translation,
ribosomal structure and biogenesis].
Length = 307
Score = 80.6 bits (199), Expect = 3e-16
Identities = 50/184 (27%), Positives = 83/184 (45%), Gaps = 20/184 (10%)
Query: 7 VIFISGEGTNMLSLIQATKKNDYPAEIVGVFSDNSNAQGLVKARKEKVPTFPIPYKDYIS 66
++F GT ++ + EIV V + G R +K+ P P K
Sbjct: 4 IVFF---GTPEFAVPSLEALIEAGHEIVAVVTQPDKPAG----RGKKL--TPSPVKRLAL 54
Query: 67 RRE---------HEKAILMQLSSIQPDLICLAGYMRLLSRDFVESYKNKILNIHPSLLPL 117
++ L +L+++ PDLI + Y ++L ++ ++ +N+HPSLLP
Sbjct: 55 ELGIPVFQPEKLNDPEFLEELAALDPDLIVVVAYGQILPKEILDLPPYGCINLHPSLLPR 114
Query: 118 FPGLHTHRRVLQSGIKITGCTVHMVTANMDEGPIIAQAAVPVSSQDTESSLSQKV--LSA 175
+ G + + +G TG T+ + +D G I+AQ VP+ DT SL K+ L A
Sbjct: 115 YRGAAPIQWAILNGDTETGVTIMQMDEGLDAGDILAQREVPIEPDDTAGSLHDKLAELGA 174
Query: 176 EHLL 179
E LL
Sbjct: 175 ELLL 178
>gnl|CDD|38292 KOG3082, KOG3082, KOG3082, Methionyl-tRNA formyltransferase
[Translation, ribosomal structure and biogenesis].
Length = 338
Score = 60.8 bits (147), Expect = 2e-10
Identities = 34/112 (30%), Positives = 52/112 (46%), Gaps = 7/112 (6%)
Query: 78 LSSIQPDLICLAGYMRLLSRDFVESYKNKILNIHPSLLPLFPGLHTHRRVLQSGIKITGC 137
L L A + RLL + +N+HPSLLP + G +R L +G +TG
Sbjct: 77 LMRPDDQLAITASFGRLLPFKLLNQLPYGGINVHPSLLPKYRGAAPVQRALLNGDTLTGV 136
Query: 138 TVH-MVTANMDEGPIIAQAAVPV----SSQDTESSLSQKVLSAEHLLYPLAL 184
T+ + D+GPI+AQ + V ++ + +SLS L A L+ L
Sbjct: 137 TIQTIDPKRFDKGPILAQEYLAVNPKETAPELTASLSS--LGANLLIRSLYN 186
>gnl|CDD|37663 KOG2452, KOG2452, KOG2452, Formyltetrahydrofolate dehydrogenase
[Nucleotide transport and metabolism].
Length = 881
Score = 46.2 bits (109), Expect = 6e-06
Identities = 37/158 (23%), Positives = 70/158 (44%), Gaps = 12/158 (7%)
Query: 32 EIVGVFS---DNSNAQGL-VKARKEKVPTFPIPYKDYISRREHEKAILMQLSSIQPDLIC 87
E+VGVF+ + A L ++A K+ VP F Y + ++ + ++ + ++ +L
Sbjct: 25 EVVGVFTVPDKDGKADPLGLEAEKDGVPVFK--YSRWRAKAQALPDVVAKYQALGAELNV 82
Query: 88 LAGYMRLLSRDFVESYKNKILNIHPSLLPLFPGLHTHRRVLQSGIKITGCTVHMVTANMD 147
L + + + + + ++ + HPSLLP G L G K G ++ +D
Sbjct: 83 LPFCSQFIPMEIISAPRHGSIIYHPSLLPRHRGASAINWTLIHGDKKGGFSIFWADDGLD 142
Query: 148 EGPIIAQAAVPVSSQDTESSLSQKVLSAEHLLYPLALK 185
G ++ Q V DT S+L + L+P +K
Sbjct: 143 TGDLLLQKECEVLPDDTVSTLYNR------FLFPEGIK 174
>gnl|CDD|39014 KOG3810, KOG3810, KOG3810, Micronutrient transporters (folate
transporter family) [Coenzyme transport and metabolism].
Length = 433
Score = 28.8 bits (64), Expect = 1.2
Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 2/53 (3%)
Query: 58 PIPYKDYISRREHEKAI--LMQLSSIQPDLICLAGYMRLLSRDFVESYKNKIL 108
+ Y R E + ++ L +++ + L G LL RD E Y N L
Sbjct: 184 RVKRSLYFHRLEDKISVGDLEEMNPQASYMSYLRGAFVLLWRDLQECYSNPRL 236
>gnl|CDD|163650 cd07407, MPP_YHR202W_N, Saccharomyces cerevisiae YHR202W and
related proteins, N-terminal metallophosphatase domain.
YHR202W is an uncharacterized Saccharomyces cerevisiae
UshA-like protein with two domains, an N-terminal
metallophosphatase domain and a C-terminal nucleotidase
domain. The N-terminal metallophosphatase domain
belongs to a large superfamily of distantly related
metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 282
Score = 28.4 bits (64), Expect = 1.4
Identities = 13/50 (26%), Positives = 22/50 (44%)
Query: 77 QLSSIQPDLICLAGYMRLLSRDFVESYKNKILNIHPSLLPLFPGLHTHRR 126
+++ DLI + G+M + + + I I P F G H+H R
Sbjct: 182 AINNEDVDLILVLGHMPVRDDAEFKVLHDAIRKIFPDTPIQFLGGHSHVR 231
>gnl|CDD|36486 KOG1272, KOG1272, KOG1272, WD40-repeat-containing subunit of the
18S rRNA processing complex [RNA processing and
modification].
Length = 545
Score = 26.8 bits (59), Expect = 4.8
Identities = 17/71 (23%), Positives = 26/71 (36%), Gaps = 6/71 (8%)
Query: 60 PYKDYISRREHEKAILMQLSSIQPDLICL----AGYMRLLSRDFVESYKNKILNIHPSLL 115
P++ R+E E L L I P+LI L G + S + + ++ P
Sbjct: 422 PFETRKQRQEKEVRSL--LEKIPPELISLDPRVIGIVDEPSLEEKKDEIERLFEEKPPEA 479
Query: 116 PLFPGLHTHRR 126
P T R
Sbjct: 480 GALPRHKTKGR 490
>gnl|CDD|31075 COG0731, COG0731, Fe-S oxidoreductases [Energy production and
conversion].
Length = 296
Score = 26.4 bits (58), Expect = 5.1
Identities = 11/41 (26%), Positives = 16/41 (39%)
Query: 69 EHEKAILMQLSSIQPDLICLAGYMRLLSRDFVESYKNKILN 109
E + L I PD + L YMR + + N L+
Sbjct: 190 EELEEYAELLERINPDFVELKTYMRPGASRYRLPRSNMPLH 230
>gnl|CDD|37712 KOG2501, KOG2501, KOG2501, Thioredoxin, nucleoredoxin and related
proteins [General function prediction only].
Length = 157
Score = 26.4 bits (58), Expect = 5.2
Identities = 18/77 (23%), Positives = 30/77 (38%), Gaps = 3/77 (3%)
Query: 22 QATKKNDYPAEIVGVFSDNSNAQGLVKARKEKVPTFPIPYKDYISR---REHEKAILMQL 78
+ K N P E+V V SD + IP+ D + + ++E + L
Sbjct: 60 EELKDNAAPFEVVFVSSDRDEESLDEYMLEHHGDWLAIPFGDDLIQKLSEKYEVKGIPAL 119
Query: 79 SSIQPDLICLAGYMRLL 95
++PD + RLL
Sbjct: 120 VILKPDGTVVTEDARLL 136
>gnl|CDD|163628 cd07385, MPP_YkuE_C, Bacillus subtilis YkuE and related proteins,
C-terminal metallophosphatase domain. YkuE is an
uncharacterized Bacillus subtilis protein with a
C-terminal metallophosphatase domain and an N-terminal
twin-arginine (RR) motif. An RR-signal peptide derived
from the Bacillus subtilis YkuE protein can direct
Tat-dependent secretion of agarase in Streptomyces
lividans. This is an indication that YkuE is transported
by the Bacillus subtilis Tat (Twin-arginine
translocation) pathway machinery. YkuE belongs to the
metallophosphatase (MPP) superfamily. MPPs are
functionally diverse, but all share a conserved domain
with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 223
Score = 26.5 bits (59), Expect = 5.5
Identities = 12/57 (21%), Positives = 26/57 (45%), Gaps = 8/57 (14%)
Query: 61 YKDYISRREHEKAILMQLSSIQPDLICLAGYMRLLSRDFVESYKNKILNIHPSLLPL 117
++SR E+ + +++++PDL+ L G D V+ + + + L L
Sbjct: 12 LGPFVSRERLERLVEK-INALKPDLVVLTG-------DLVDGSVDVLELLLELLKKL 60
>gnl|CDD|99778 cd00322, FNR_like, Ferredoxin reductase (FNR), an FAD and NAD(P)
binding protein, was intially identified as a
chloroplast reductase activity, catalyzing the electron
transfer from reduced iron-sulfur protein ferredoxin to
NADP+ as the final step in the electron transport
mechanism of photosystem I. FNR transfers electrons from
reduced ferredoxin to FAD (forming FADH2 via a
semiquinone intermediate) and then transfers a hydride
ion to convert NADP+ to NADPH. FNR has since been shown
to utilize a variety of electron acceptors and donors
and has a variety of physiological functions including
nitrogen assimilation, dinitrogen fixation, steroid
hydroxylation, fatty acid metabolism, oxygenase
activity, and methane assimilation in many organisms.
FNR has an NAD(P)-binding sub-domain of the alpha/beta
class and a discrete (usually N-terminal) flavin
sub-domain which vary in orientation with respect to the
NAD(P) binding domain. The N-terminal moeity may contain
a flavin prosthetic group (as in flavoenzymes) or use
flavin as a substrate. Because flavins such as FAD can
exist in oxidized, semiquinone (one- electron reduced),
or fully reduced hydroquinone forms, FNR can interact
with one and 2 electron carriers. FNR has a strong
preference for NADP(H) vs NAD(H)..
Length = 223
Score = 25.9 bits (57), Expect = 7.7
Identities = 8/38 (21%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 7 VIFISGEG---TNMLSLIQATKKNDYPAEIVGVFSDNS 41
V+ I+G G T S+++ + EI ++ +
Sbjct: 100 VVLIAG-GIGITPFRSMLRHLAADKPGGEITLLYGART 136
>gnl|CDD|145103 pfam01770, Folate_carrier, Reduced folate carrier. The reduced
folate carrier (a transmembrane glycoprotein) transports
reduced folate into mammalian cells via the carrier
mediated mechanism (as opposed to the receptor mediated
mechanism) it also transports cytotoxic folate analogues
used in chemotherapy, such as methotrexate (MTX).
Mammalian cells have an absolute requirement for
exogenous folates which are needed for growth, and
biosynthesis of macromolecules.
Length = 410
Score = 26.1 bits (58), Expect = 7.8
Identities = 7/30 (23%), Positives = 10/30 (33%)
Query: 79 SSIQPDLICLAGYMRLLSRDFVESYKNKIL 108
S + +RLL Y N +L
Sbjct: 218 ESGGLEKFSRLSVLRLLWYHLKSCYSNPLL 247
>gnl|CDD|37394 KOG2183, KOG2183, KOG2183, Prolylcarboxypeptidase (angiotensinase
C) [Posttranslational modification, protein turnover,
chaperones, General function prediction only].
Length = 492
Score = 25.7 bits (56), Expect = 9.2
Identities = 8/31 (25%), Positives = 15/31 (48%)
Query: 83 PDLICLAGYMRLLSRDFVESYKNKILNIHPS 113
D + + R+++RDF ++ N I S
Sbjct: 206 EDTVPKDVFYRIVTRDFKDASPNCRNTIRKS 236
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.319 0.135 0.384
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,357,107
Number of extensions: 114744
Number of successful extensions: 261
Number of sequences better than 10.0: 1
Number of HSP's gapped: 257
Number of HSP's successfully gapped: 19
Length of query: 205
Length of database: 6,263,737
Length adjustment: 89
Effective length of query: 116
Effective length of database: 4,340,536
Effective search space: 503502176
Effective search space used: 503502176
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (24.9 bits)